sample	CHROM	POS	ID	REF	ALT	QUAL	FILTER	DP	AF	SB	DP4	isINDEL	Allele	Annotation	Annotation_Impact	Gene_Name	Gene_ID	Feature_Type	Feature_ID	Transcript_BioType	Rank	HGVS.c	HGVS.p	cDNA.pos / cDNA.length	CDS.pos / CDS.length	AA.pos / AA.length	AA.pos	AA.length	Distance	ERRORS / WARNINGS / INFO	AA_mutation	nuc_mut	AA_mutation2	mutation_old	poscorr	Gene_Name_corr	AA_mutation3	mutation_corr	Sample ID	Location	Sampling date	LIST Ct E gene	LNS average Ct	LNS sequenced	LNS batch	date
BEG1	NC_045512.2	241	.	C	T	49314	PASS	1637	1	2147483647	"0,0,1637,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	996	.	G	T	326	PASS	304	0.0625	0	"285,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.731G>T	p.Arg244Leu	731/21291	731/21291	244/7096	244	7096		",T"	R244L	G996T	R244L	ORF1AB:R244L	244	ORF1a	R244L	ORF1A:R244L	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	1844	.	A	G	192	PASS	773	0.020699	0	"757,0,16,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1579A>G	p.Lys527Glu	1579/21291	1579/21291	527/7096	527	7096		",G"	K527E	A1844G	K527E	ORF1AB:K527E	527	ORF1a	K527E	ORF1A:K527E	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	2023	.	C	T	5139	PASS	703	0.28734	0	"500,0,202,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1758C>T	p.Phe586Phe	1758/21291	1758/21291	586/7096	586	7096		",T"	F586F	C2023T	F586F	ORF1AB:F586F	586	ORF1a	F586F	ORF1A:F586F	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	2036	.	GCTA	G	5296	PASS	664	0.245482	0	"505,0,163,0"	TRUE	G	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1775_1777delCTA	p.Thr592del	1775/21291	1775/21291	592/7096	592	7096		"INFO_REALIGN_3_PRIME,G"	del592	GCTA2036G	del592	ORF1AB:DEL592	592	ORF1a	del592	ORF1A:DEL592	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	3404	.	GA	G	518	PASS	532	0.24812	0	"406,0,132,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3141delA	p.Glu1048fs	3141/21291	3141/21291	1047/7096	1047	7096		"INFO_REALIGN_3_PRIME,G"	del1048	GA3404G	del1048	ORF1AB:DEL1048	1048	ORF1a	del1048	ORF1A:DEL1048	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	3407	.	G	C	588	PASS	517	0.255319	0	"370,0,132,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3142G>C	p.Glu1048Gln	3142/21291	3142/21291	1048/7096	1048	7096		",C"	E1048Q	G3407C	E1048Q	ORF1AB:E1048Q	1048	ORF1a	E1048Q	ORF1A:E1048Q	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	3890	.	G	T	1110	PASS	643	0.093313	0	"582,0,60,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3625G>T	p.Glu1209*	3625/21291	3625/21291	1209/7096	1209	7096		",T"	E1209*	G3890T	E1209*	ORF1AB:E1209*	1209	ORF1a	E1209*	ORF1A:E1209*	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	4024	.	G	T	1119	PASS	735	0.078912	0	"677,0,58,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3759G>T	p.Leu1253Phe	3759/21291	3759/21291	1253/7096	1253	7096		",T"	L1253F	G4024T	L1253F	ORF1AB:L1253F	1253	ORF1a	L1253F	ORF1A:L1253F	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	4148	.	G	GT	1778	PASS	363	0.162534	0	"305,0,59,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3887dupT	p.Leu1296fs	3888/21291	3888/21291	1296/7096	1296	7096		"INFO_REALIGN_3_PRIME,GT"	del1296	G4148GT	del1296	ORF1AB:DEL1296	1296	ORF1a	del1296	ORF1A:DEL1296	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	4276	.	C	T	1320	PASS	283	0.19788	0	"227,0,56,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4011C>T	p.Tyr1337Tyr	4011/21291	4011/21291	1337/7096	1337	7096		",T"	Y1337Y	C4276T	Y1337Y	ORF1AB:Y1337Y	1337	ORF1a	Y1337Y	ORF1A:Y1337Y	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	4719	.	CG	C	2234	PASS	125	0.536	0	"58,0,67,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4455delG	p.Tyr1486fs	4455/21291	4455/21291	1485/7096	1485	7096		",C"	del1486	CG4719C	del1486	ORF1AB:DEL1486	1486	ORF1a	del1486	ORF1A:DEL1486	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	5301	.	C	T	110	PASS	44	0.113636	0	"39,0,5,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5036C>T	p.Ala1679Val	5036/21291	5036/21291	1679/7096	1679	7096		",T"	A1679V	C5301T	A1679V	ORF1AB:A1679V	1679	ORF1a	A1679V	ORF1A:A1679V	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	5506	.	C	T	302	PASS	26	0.461538	0	"14,0,12,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5241C>T	p.Val1747Val	5241/21291	5241/21291	1747/7096	1747	7096		",T"	V1747V	C5506T	V1747V	ORF1AB:V1747V	1747	ORF1a	V1747V	ORF1A:V1747V	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	6723	.	C	T	477	PASS	110	0.181818	0	"89,0,20,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6458C>T	p.Thr2153Ile	6458/21291	6458/21291	2153/7096	2153	7096		",T"	T2153I	C6723T	T2153I	ORF1AB:T2153I	2153	ORF1a	T2153I	ORF1A:T2153I	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	7016	.	G	A	162	PASS	108	0.083333	0	"99,0,9,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6751G>A	p.Gly2251Ser	6751/21291	6751/21291	2251/7096	2251	7096		",A"	G2251S	G7016A	G2251S	ORF1AB:G2251S	2251	ORF1a	G2251S	ORF1A:G2251S	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	7551	.	G	T	124	PASS	10	0.4	0	"6,0,4,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7286G>T	p.Gly2429Val	7286/21291	7286/21291	2429/7096	2429	7096		",T"	G2429V	G7551T	G2429V	ORF1AB:G2429V	2429	ORF1a	G2429V	ORF1A:G2429V	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	8017	.	G	T	1098	PASS	145	0.282759	0	"104,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7752G>T	p.Ala2584Ala	7752/21291	7752/21291	2584/7096	2584	7096		",T"	A2584A	G8017T	A2584A	ORF1AB:A2584A	2584	ORF1a	A2584A	ORF1A:A2584A	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	8025	.	CA	C	115	PASS	147	0.265306	0	"108,0,39,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7761delA	p.Val2588fs	7761/21291	7761/21291	2587/7096	2587	7096		",C"	del2588	CA8025C	del2588	ORF1AB:DEL2588	2588	ORF1a	del2588	ORF1A:DEL2588	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	8258	.	G	T	1323	PASS	211	0.255924	0	"157,0,54,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7993G>T	p.Val2665Phe	7993/21291	7993/21291	2665/7096	2665	7096		",T"	V2665F	G8258T	V2665F	ORF1AB:V2665F	2665	ORF1a	V2665F	ORF1A:V2665F	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	8520	.	ATG	A	1378	PASS	162	0.265432	0	"119,0,43,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8257_8258delGT	p.Val2753fs	8257/21291	8257/21291	2753/7096	2753	7096		"INFO_REALIGN_3_PRIME,A"	del2753	ATG8520A	del2753	ORF1AB:DEL2753	2753	ORF1a	del2753	ORF1A:DEL2753	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	8614	.	TG	T	46	PASS	152	0.013158	0	"150,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8350delG	p.Ala2784fs	8350/21291	8350/21291	2784/7096	2784	7096		",T"	del2784	TG8614T	del2784	ORF1AB:DEL2784	2784	ORF1a	del2784	ORF1A:DEL2784	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	8621	.	AT	A	1022	PASS	156	0.211538	0	"123,0,33,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8360delT	p.Phe2787fs	8360/21291	8360/21291	2787/7096	2787	7096		"INFO_REALIGN_3_PRIME,A"	del2787	AT8621A	del2787	ORF1AB:DEL2787	2787	ORF1a	del2787	ORF1A:DEL2787	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	9263	.	A	G	76	PASS	597	0.0134	0	"589,0,8,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8998A>G	p.Thr3000Ala	8998/21291	8998/21291	3000/7096	3000	7096		",G"	T3000A	A9263G	T3000A	ORF1AB:T3000A	3000	ORF1a	T3000A	ORF1A:T3000A	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	9300	.	G	T	2185	PASS	944	0.108051	0	"842,0,102,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9035G>T	p.Arg3012Ile	9035/21291	9035/21291	3012/7096	3012	7096		",T"	R3012I	G9300T	R3012I	ORF1AB:R3012I	3012	ORF1a	R3012I	ORF1A:R3012I	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	9314	.	G	T	2869	PASS	1033	0.129719	0	"899,0,134,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9049G>T	p.Val3017Phe	9049/21291	9049/21291	3017/7096	3017	7096		",T"	V3017F	G9314T	V3017F	ORF1AB:V3017F	3017	ORF1a	V3017F	ORF1A:V3017F	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	10056	.	G	T	1687	PASS	1010	0.087129	0	"922,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9791G>T	p.Ser3264Ile	9791/21291	9791/21291	3264/7096	3264	7096		",T"	S3264I	G10056T	S3264I	ORF1AB:S3264I	3264	ORF1a	S3264I	ORF1A:S3264I	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	10578	.	CAG	C	281	PASS	610	0.022951	0	"614,0,14,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10315_10316delGA	p.Asp3439fs	10315/21291	10315/21291	3439/7096	3439	7096		"INFO_REALIGN_3_PRIME,C"	del3439	CAG10578C	del3439	ORF1AB:DEL3439	3439	ORF1a	del3439	ORF1A:DEL3439	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	11095	.	CT	C	5546	PASS	645	0.27907	0	"467,0,180,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835delT	p.Leu3612fs	10835/21291	10835/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,C"	del3612	CT11095C	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	11442	.	CT	C	46	PASS	167	0.011976	0	"165,0,2,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11180delT	p.Leu3727fs	11180/21291	11180/21291	3727/7096	3727	7096		"INFO_REALIGN_3_PRIME,C"	del3727	CT11442C	del3727	ORF1AB:DEL3727	3727	ORF1a	del3727	ORF1A:DEL3727	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	11539	.	TG	T	442	PASS	115	0.13913	0	"99,0,16,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11275delG	p.Val3759fs	11275/21291	11275/21291	3759/7096	3759	7096		",T"	del3759	TG11539T	del3759	ORF1AB:DEL3759	3759	ORF1a	del3759	ORF1A:DEL3759	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	11828	.	GTAGCCAC	G	49	PASS	116	0.017241	0	"114,0,2,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11565_11571delAGCCACT	p.Ala3856fs	11565/21291	11565/21291	3855/7096	3855	7096		"INFO_REALIGN_3_PRIME,G"	del3856	GTAGCCAC11828G	del3856	ORF1AB:DEL3856	3856	ORF1a	del3856	ORF1A:DEL3856	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	11859	.	TAA	T	75	PASS	87	0.218391	0	"68,0,19,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11596_11597delAA	p.Lys3866fs	11596/21291	11596/21291	3866/7096	3866	7096		"INFO_REALIGN_3_PRIME,T"	del3866	TAA11859T	del3866	ORF1AB:DEL3866	3866	ORF1a	del3866	ORF1A:DEL3866	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	11863	.	G	T	89	PASS	82	0.231707	0	"59,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11598G>T	p.Lys3866Asn	11598/21291	11598/21291	3866/7096	3866	7096		",T"	K3866N	G11863T	K3866N	ORF1AB:K3866N	3866	ORF1a	K3866N	ORF1A:K3866N	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	11865	.	GCA	G	846	PASS	83	0.301205	0	"58,0,25,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11603_11604delCA	p.Thr3868fs	11603/21291	11603/21291	3868/7096	3868	7096		"INFO_REALIGN_3_PRIME,G"	del3868	GCA11865G	del3868	ORF1AB:DEL3868	3868	ORF1a	del3868	ORF1A:DEL3868	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	12136	.	TG	T	252	PASS	39	0.230769	0	"30,0,9,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11872delG	p.Ala3958fs	11872/21291	11872/21291	3958/7096	3958	7096		",T"	del3958	TG12136T	del3958	ORF1AB:DEL3958	3958	ORF1a	del3958	ORF1A:DEL3958	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	13667	.	CTT	C	121	PASS	35	0.114286	0	"31,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13405_13406delTT	p.Phe4469fs	13405/21291	13405/21291	4469/7096	4469	7096		"INFO_REALIGN_3_PRIME,C"	del4469	CTT13667C	del4469	ORF1AB:DEL4469	68	ORF1b	del68	ORF1B:DEL68	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	13713	.	G	T	161	PASS	31	0.193548	0	"25,0,6,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13449G>T	p.Lys4483Asn	13449/21291	13449/21291	4483/7096	4483	7096		",T"	K4483N	G13713T	K4483N	ORF1AB:K4483N	82	ORF1b	K82N	ORF1B:K82N	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	14279	.	T	TA	2966	PASS	597	0.167504	0	"498,0,100,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14019dupA	p.Leu4674fs	14020/21291	14020/21291	4674/7096	4674	7096		"INFO_REALIGN_3_PRIME,TA"	del4674	T14279TA	del4674	ORF1AB:DEL4674	273	ORF1b	del273	ORF1B:DEL273	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	14408	.	C	T	17886	PASS	507	0.996055	0	"2,0,505,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	14583	.	CG	C	80	PASS	488	0.008197	0	"508,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14320delG	p.Ala4774fs	14320/21291	14320/21291	4774/7096	4774	7096		",C"	del4774	CG14583C	del4774	ORF1AB:DEL4774	373	ORF1b	del373	ORF1B:DEL373	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	15324	.	C	T	4312	PASS	532	0.302632	0	"371,0,161,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	15788	.	AG	A	5546	PASS	615	0.304065	0	"432,0,187,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15525delG	p.Lys5175fs	15525/21291	15525/21291	5175/7096	5175	7096		",A"	del5175	AG15788A	del5175	ORF1AB:DEL5175	774	ORF1b	del774	ORF1B:DEL774	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	16501	.	G	GT	1463	PASS	516	0.102713	0	"463,0,53,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16242dupT	p.Gly5415fs	16243/21291	16243/21291	5415/7096	5415	7096		"INFO_REALIGN_3_PRIME,GT"	del5415	G16501GT	del5415	ORF1AB:DEL5415	1014	ORF1b	del1014	ORF1B:DEL1014	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	16612	.	T	G	1626	PASS	823	0.097205	0	"742,0,80,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16348T>G	p.Cys5450Gly	16348/21291	16348/21291	5450/7096	5450	7096		",G"	C5450G	T16612G	C5450G	ORF1AB:C5450G	1049	ORF1b	C1049G	ORF1B:C1049G	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	16787	.	G	T	2500	PASS	786	0.147583	0	"669,0,116,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16523G>T	p.Gly5508Val	16523/21291	16523/21291	5508/7096	5508	7096		",T"	G5508V	G16787T	G5508V	ORF1AB:G5508V	1107	ORF1b	G1107V	ORF1B:G1107V	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	16974	.	TG	T	2841	PASS	828	0.121981	0	"733,0,101,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16711delG	p.Val5571fs	16711/21291	16711/21291	5571/7096	5571	7096		",T"	del5571	TG16974T	del5571	ORF1AB:DEL5571	1170	ORF1b	del1170	ORF1B:DEL1170	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	16975	.	G	T	141	PASS	832	0.02524	0	"710,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16711G>T	p.Val5571Phe	16711/21291	16711/21291	5571/7096	5571	7096		",T"	V5571F	G16975T	V5571F	ORF1AB:V5571F	1170	ORF1b	V1170F	ORF1B:V1170F	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	17138	.	CTG	C	441	PASS	808	0.023515	0	"795,0,19,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16875_16876delTG	p.Ala5626fs	16875/21291	16875/21291	5625/7096	5625	7096		",C"	del5626	CTG17138C	del5626	ORF1AB:DEL5626	1225	ORF1b	del1225	ORF1B:DEL1225	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	17225	.	G	C	1566	PASS	1027	0.084713	0	"938,0,87,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16961G>C	p.Cys5654Ser	16961/21291	16961/21291	5654/7096	5654	7096		",C"	C5654S	G17225C	C5654S	ORF1AB:C5654S	1253	ORF1b	C1253S	ORF1B:C1253S	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	18939	.	T	C	107	PASS	604	0.019868	0	"592,0,12,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18675T>C	p.Gly6225Gly	18675/21291	18675/21291	6225/7096	6225	7096		",C"	G6225G	T18939C	G6225G	ORF1AB:G6225G	1824	ORF1b	G1824G	ORF1B:G1824G	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	18952	.	ATT	A	221	PASS	641	0.015601	0	"631,0,10,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18689_18690delTT	p.Ile6230fs	18689/21291	18689/21291	6230/7096	6230	7096		",A"	del6230	ATT18952A	del6230	ORF1AB:DEL6230	1829	ORF1b	del1829	ORF1B:DEL1829	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	19230	.	TG	T	1267	PASS	440	0.106818	0	"393,0,47,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18967delG	p.Val6323fs	18967/21291	18967/21291	6323/7096	6323	7096		",T"	del6323	TG19230T	del6323	ORF1AB:DEL6323	1922	ORF1b	del1922	ORF1B:DEL1922	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	19590	.	T	C	3579	PASS	276	0.456522	0	"150,0,126,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19326T>C	p.Tyr6442Tyr	19326/21291	19326/21291	6442/7096	6442	7096		",C"	Y6442Y	T19590C	Y6442Y	ORF1AB:Y6442Y	2041	ORF1b	Y2041Y	ORF1B:Y2041Y	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	19651	.	AAT	A	309	PASS	243	0.078189	0	"226,0,19,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19389_19390delTA	p.Asn6463fs	19389/21291	19389/21291	6463/7096	6463	7096		"INFO_REALIGN_3_PRIME,A"	del6463	AAT19651A	del6463	ORF1AB:DEL6463	2062	ORF1b	del2062	ORF1B:DEL2062	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	19656	.	G	T	255	PASS	235	0.080851	0	"216,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19392G>T	p.Lys6464Asn	19392/21291	19392/21291	6464/7096	6464	7096		",T"	K6464N	G19656T	K6464N	ORF1AB:K6464N	2063	ORF1b	K2063N	ORF1B:K2063N	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	20223	.	AG	A	845	PASS	230	0.130435	0	"200,0,30,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19960delG	p.Glu6654fs	19960/21291	19960/21291	6654/7096	6654	7096		",A"	del6654	AG20223A	del6654	ORF1AB:DEL6654	2253	ORF1b	del2253	ORF1B:DEL2253	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	20852	.	TG	T	1600	PASS	688	0.085756	0	"660,0,59,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20589delG	p.Met6863fs	20589/21291	20589/21291	6863/7096	6863	7096		",T"	del6863	TG20852T	del6863	ORF1AB:DEL6863	2462	ORF1b	del2462	ORF1B:DEL2462	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	20951	.	CA	C	2411	PASS	722	0.116343	0	"652,0,84,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20688delA	p.Asp6897fs	20688/21291	20688/21291	6896/7096	6896	7096		",C"	del6897	CA20951C	del6897	ORF1AB:DEL6897	2496	ORF1b	del2496	ORF1B:DEL2496	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	21022	.	AAT	A	1522	PASS	650	0.084615	0	"595,0,55,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20760_20761delTA	p.Asn6920fs	20760/21291	20760/21291	6920/7096	6920	7096		"INFO_REALIGN_3_PRIME,A"	del6920	AAT21022A	del6920	ORF1AB:DEL6920	2519	ORF1b	del2519	ORF1B:DEL2519	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	21432	.	TG	T	980	PASS	140	0.242857	0	"106,0,34,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21169delG	p.Val7057fs	21169/21291	21169/21291	7057/7096	7057	7096		",T"	del7057	TG21432T	del7057	ORF1AB:DEL7057	2656	ORF1b	del2656	ORF1B:DEL2656	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	21624	.	GAACTCAATTACCCCCTGCAT	G	1204	PASS	268	0.141791	0	"230,0,38,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.64_83delACTCAATTACCCCCTGCATA	p.Thr22fs	64/3822	64/3822	22/1273	22	1273		"INFO_REALIGN_3_PRIME,G"	del22	GAACTCAATTACCCCCTGCAT21624G	del22	S:DEL22	22	S	del22	S:DEL22	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	21641	.	G	T	1901	PASS	270	0.266667	0	"160,0,72,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.79G>T	p.Ala27Ser	79/3822	79/3822	27/1273	27	1273		",T"	A27S	G21641T	A27S	S:A27S	27	S	A27S	S:A27S	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	21701	.	G	GT	2120	PASS	264	0.253788	0	"197,0,67,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.143dupT	p.Leu48fs	144/3822	144/3822	48/1273	48	1273		"INFO_REALIGN_3_PRIME,GT"	del48	G21701GT	del48	S:DEL48	48	S	del48	S:DEL48	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	22026	.	G	C	1311	PASS	273	0.197802	0	"219,0,54,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.464G>C	p.Ser155Thr	464/3822	464/3822	155/1273	155	1273		",C"	S155T	G22026C	S155T	S:S155T	155	S	S155T	S:S155T	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	22360	.	T	C	274	PASS	37	0.27027	0	"27,0,10,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.798T>C	p.Tyr266Tyr	798/3822	798/3822	266/1273	266	1273		",C"	Y266Y	T22360C	Y266Y	S:Y266Y	266	S	Y266Y	S:Y266Y	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	22409	.	G	T	128	PASS	31	0.16129	0	"26,0,5,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.847G>T	p.Gly283*	847/3822	847/3822	283/1273	283	1273		",T"	G283*	G22409T	G283*	S:G283*	283	S	G283*	S:G283*	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	22659	.	CTG	C	2526	PASS	393	0.21374	0	"311,0,84,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1099_1100delGT	p.Val367fs	1099/3822	1099/3822	367/1273	367	1273		"INFO_REALIGN_3_PRIME,C"	del367	CTG22659C	del367	S:DEL367	367	S	del367	S:DEL367	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	23330	.	TG	T	1720	PASS	650	0.1	0	"587,0,65,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1769delG	p.Cys590fs	1769/3822	1769/3822	590/1273	590	1273		",T"	del590	TG23330T	del590	S:DEL590	590	S	del590	S:DEL590	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	23403	.	A	G	21253	PASS	596	1	2147483647	"0,0,596,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	23411	.	TG	T	1905	PASS	578	0.119377	0	"513,0,69,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1850delG	p.Cys617fs	1850/3822	1850/3822	617/1273	617	1273		",T"	del617	TG23411T	del617	S:DEL617	617	S	del617	S:DEL617	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	23607	.	GGC	G	2452	PASS	268	0.283582	0	"192,0,76,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2047_2048delCG	p.Arg683fs	2047/3822	2047/3822	683/1273	683	1273		"INFO_REALIGN_3_PRIME,G"	del683	GGC23607G	del683	S:DEL683	683	S	del683	S:DEL683	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	24056	.	G	C	91	PASS	198	0.040404	0	"190,0,8,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2494G>C	p.Gly832Arg	2494/3822	2494/3822	832/1273	832	1273		",C"	G832R	G24056C	G832R	S:G832R	832	S	G832R	S:G832R	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	24085	.	TG	T	74	PASS	134	0.022388	0	"131,0,3,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2525delG	p.Gly842fs	2525/3822	2525/3822	842/1273	842	1273		"INFO_REALIGN_3_PRIME,T"	del842	TG24085T	del842	S:DEL842	842	S	del842	S:DEL842	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	24095	.	G	C	270	PASS	125	0.12	0	"110,0,15,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2533G>C	p.Ala845Pro	2533/3822	2533/3822	845/1273	845	1273		",C"	A845P	G24095C	A845P	S:A845P	845	S	A845P	S:A845P	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	24826	.	C	CCTTCACGAGGAAAGTGTGCT	145	PASS	1390	0.005755	0	"1393,0,8,0"	TRUE	CCTTCACGAGGAAAGTGTGCT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3264_3265insCTTCACGAGGAAAGTGTGCT	p.Phe1089fs	3265/3822	3265/3822	1089/1273	1089	1273		",CCTTCACGAGGAAAGTGTGCT"	del1089	C24826CCTTCACGAGGAAAGTGTGCT	del1089	S:DEL1089	1089	S	del1089	S:DEL1089	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	24831	.	C	CA	143	PASS	1483	0.005394	0	"1475,0,8,0"	TRUE	CA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3269_3270insA	p.Arg1091fs	3270/3822	3270/3822	1090/1273	1090	1273		",CA"	del1091	C24831CA	del1091	S:DEL1091	1091	S	del1091	S:DEL1091	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	24837	.	AAGGTGTCTTTGTTT	A	143	PASS	1505	0.005316	0	"1497,0,8,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3276_3289delAGGTGTCTTTGTTT	p.Glu1092fs	3276/3822	3276/3822	1092/1273	1092	1273		",A"	del1092	AAGGTGTCTTTGTTT24837A	del1092	S:DEL1092	1092	S	del1092	S:DEL1092	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	25563	.	G	T	9446	PASS	607	0.527183	0	"287,0,320,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	25947	.	G	T	465	PASS	593	0.048904	0	"562,0,29,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.555G>T	p.Gln185His	555/828	555/828	185/275	185	275		",T"	Q185H	G25947T	Q185H	ORF3A:Q185H	185	ORF3a	Q185H	ORF3A:Q185H	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	26308	.	G	T	268	PASS	1269	0.021277	0	"1242,0,27,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.64G>T	p.Ala22Ser	64/228	64/228	22/75	22	75		",T"	A22S	G26308T	A22S	E:A22S	22	E	A22S	E:A22S	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	26470	.	TA	T	844	PASS	1469	0.024506	0	"1436,0,36,0"	TRUE	T	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.217delA	p.Leu73fs	217/228	217/228	73/75	73	75		"INFO_REALIGN_3_PRIME,T"	del73	TA26470T	del73	E:DEL73	73	E	del73	E:DEL73	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	26645	.	C	T	3332	PASS	1190	0.134454	0	"1028,0,160,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.123C>T	p.Asn41Asn	123/669	123/669	41/222	41	222		",T"	N41N	C26645T	N41N	M:N41N	41	M	N41N	M:N41N	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	26848	.	TG	T	4705	PASS	588	0.263605	0	"436,0,155,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.327delG	p.Met109fs	327/669	327/669	109/222	109	222		",T"	del109	TG26848T	del109	M:DEL109	109	M	del109	M:DEL109	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28000	.	C	T	4297	PASS	1365	0.145788	0	"1164,0,199,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.107C>T	p.Pro36Leu	107/366	107/366	36/121	36	121		",T"	P36L	C28000T	P36L	ORF8:P36L	36	ORF8	P36L	ORF8:P36L	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28024	.	AAT	A	246	PASS	1166	0.108919	0	"1060,0,127,0"	TRUE	A	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.132_133delAT	p.Trp45fs	132/366	132/366	44/121	44	121		",A"	del45	AAT28024A	del45	ORF8:DEL45	45	ORF8	del45	ORF8:DEL45	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28090	.	GT	G	3045	PASS	724	0.140884	0	"622,0,102,0"	TRUE	G	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.199delT	p.Ser67fs	199/366	199/366	67/121	67	121		"INFO_REALIGN_3_PRIME,G"	del67	GT28090G	del67	ORF8:DEL67	67	ORF8	del67	ORF8:DEL67	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28357	.	GAA	G	517	PASS	394	0.050761	0	"386,0,20,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.85_86delAA	p.Asn29fs	85/1260	85/1260	29/419	29	419		",G"	del29	GAA28357G	del29	N:DEL29	29	N	del29	N:DEL29	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28603	.	C	T	2134	PASS	391	0.222506	0	"303,0,87,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.330C>T	p.Phe110Phe	330/1260	330/1260	110/419	110	419		",T"	F110F	C28603T	F110F	N:F110F	110	N	F110F	N:F110F	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28854	.	C	T	1516	PASS	431	0.167053	0	"358,0,72,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.581C>T	p.Ser194Leu	581/1260	581/1260	194/419	194	419		",T"	S194L	C28854T	S194L	N:S194L	194	N	S194L	N:S194L	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28881	.	G	A	3795	PASS	397	0.347607	0	"257,0,138,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28882	.	G	A	3774	PASS	402	0.340796	0	"263,0,137,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28883	.	G	C	3843	PASS	405	0.345679	0	"264,0,140,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	28957	.	CCAG	C	197	PASS	295	0.027119	0	"287,0,8,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.686_688delAGC	p.Gln229del	686/1260	686/1260	229/419	229	419		"INFO_REALIGN_3_PRIME,C"	del229	CCAG28957C	del229	N:DEL229	229	N	del229	N:DEL229	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG1	NC_045512.2	29701	.	GGGA	G	161	PASS	131	0.045802	0	"125,0,6,0"	TRUE	G	downstream_gene_variant	MODIFIER	S	GU280_gp02	transcript	GU280_gp02	protein_coding		c.*4318_*4320delGGA						NA	4318	",G"	del	GGGA29701G	del	S:DEL	NA	S	del	S:DEL	BEG01	BEGGEN	2020-03-30T00:00:00Z	31.89	33	x	16/07/2020	2020-03-30
BEG2	NC_045512.2	187	.	A	G	7860	PASS	1017	0.307768	5	4.71233E+11	FALSE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-79A>G						NA	79	",G"		A187G		NA	NA	NA		NA	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	241	.	C	T	36277	PASS	1034	0.992263	8	"7,1,583,443"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	514	.	TG	T	9725	PASS	1054	0.315939	10	4.05347E+11	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.250delG	p.Val84fs	250/21291	250/21291	84/7096	84	7096		",T"	del84	TG514T	del84	ORF1AB:DEL84	84	ORF1a	del84	ORF1A:DEL84	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	515	.	G	T	107	PASS	1061	0.014138	21	"365,348,13,2"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.250G>T	p.Val84Phe	250/21291	250/21291	84/7096	84	7096		",T"	V84F	G515T	V84F	ORF1AB:V84F	84	ORF1a	V84F	ORF1A:V84F	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	692	.	T	C	10144	PASS	1049	0.358437	17	3.22351E+11	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.427T>C	p.Phe143Leu	427/21291	427/21291	143/7096	143	7096		",C"	F143L	T692C	F143L	ORF1AB:F143L	143	ORF1a	F143L	ORF1A:F143L	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	1280	.	G	A	2800	PASS	227	0.440529	6	"77,49,70,30"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1015G>A	p.Ala339Thr	1015/21291	1015/21291	339/7096	339	7096		",A"	A339T	G1280A	A339T	ORF1AB:A339T	339	ORF1a	A339T	ORF1A:A339T	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	4174	.	TA	T	93	PASS	45	0.088889	0	"25,16,3,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3914delA	p.Lys1305fs	3914/21291	3914/21291	1305/7096	1305	7096		"INFO_REALIGN_3_PRIME,T"	del1305	TA4174T	del1305	ORF1AB:DEL1305	1305	ORF1a	del1305	ORF1A:DEL1305	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	4344	.	T	C	1330	PASS	62	0.677419	0	"11,9,22,20"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4079T>C	p.Ile1360Thr	4079/21291	4079/21291	1360/7096	1360	7096		",C"	I1360T	T4344C	I1360T	ORF1AB:I1360T	1360	ORF1a	I1360T	ORF1A:I1360T	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	11812	.	C	A	6782	PASS	444	0.506757	0	"80,139,80,145"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11547C>A	p.Gly3849Gly	11547/21291	11547/21291	3849/7096	3849	7096		",A"	G3849G	C11812A	G3849G	ORF1AB:G3849G	3849	ORF1a	G3849G	ORF1A:G3849G	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	14408	.	C	T	17790	PASS	503	1	0	"0,0,270,233"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	15932	.	AC	A	62	PASS	1486	0.002692	0	"699,785,2,2"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15671delC	p.Pro5224fs	15671/21291	15671/21291	5224/7096	5224	7096		"INFO_REALIGN_3_PRIME,A"	del5224	AC15932A	del5224	ORF1AB:DEL5224	823	ORF1b	del823	ORF1B:DEL823	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	16089	.	G	A	11018	PASS	1106	0.362568	2	2.33471E+11	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15825G>A	p.Leu5275Leu	15825/21291	15825/21291	5275/7096	5275	7096		",A"	L5275L	G16089A	L5275L	ORF1AB:L5275L	874	ORF1b	L874L	ORF1B:L874L	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	18712	.	G	GC	42	PASS	248	0.008065	3	"131,116,2,0"	TRUE	GC	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18450dupC	p.Cys6151fs	18451/21291	18451/21291	6151/7096	6151	7096		"INFO_REALIGN_3_PRIME,GC"	del6151	G18712GC	del6151	ORF1AB:DEL6151	1750	ORF1b	del1750	ORF1B:DEL1750	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	19151	.	C	G	373	PASS	138	0.137681	7	"36,83,9,10"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18887C>G	p.Ala6296Gly	18887/21291	18887/21291	6296/7096	6296	7096		",G"	A6296G	C19151G	A6296G	ORF1AB:A6296G	1895	ORF1b	A1895G	ORF1B:A1895G	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	19792	.	TG	T	1204	PASS	33	0.969697	4	"1,0,12,20"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19531delG	p.Ala6511fs	19531/21291	19531/21291	6511/7096	6511	7096		"INFO_REALIGN_3_PRIME,T"	del6511	TG19792T	del6511	ORF1AB:DEL6511	2110	ORF1b	del2110	ORF1B:DEL2110	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	19856	.	TTGC	T	1216	PASS	31	0.967742	4	"1,0,10,20"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19597_19599delGCT	p.Ala6533del	19597/21291	19597/21291	6533/7096	6533	7096		"INFO_REALIGN_3_PRIME,T"	del6533	TTGC19856T	del6533	ORF1AB:DEL6533	2132	ORF1b	del2132	ORF1B:DEL2132	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	22314	.	CT	C	44	PASS	186	0.010753	0	"67,118,1,1"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.753delT	p.Gly252fs	753/3822	753/3822	251/1273	251	1273		",C"	del252	CT22314C	del252	S:DEL252	252	S	del252	S:DEL252	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	22453	.	AG	A	397	PASS	16	0.75	0	"3,1,8,4"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.892delG	p.Glu298fs	892/3822	892/3822	298/1273	298	1273		",A"	del298	AG22453A	del298	S:DEL298	298	S	del298	S:DEL298	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	22868	.	TG	T	5531	PASS	423	0.406619	0	"115,136,79,93"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1308delG	p.Trp436fs	1308/3822	1308/3822	436/1273	436	1273		"INFO_REALIGN_3_PRIME,T"	del436	TG22868T	del436	S:DEL436	436	S	del436	S:DEL436	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	23403	.	A	G	12785	PASS	362	1	0	"0,0,126,236"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	28086	.	G	C	17880	PASS	1262	0.489699	0	2.45399E+11	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.193G>C	p.Ala65Pro	193/366	193/366	65/121	65	121		",C"	A65P	G28086C	A65P	ORF8:A65P	65	ORF8	A65P	ORF8:A65P	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	28798	.	G	C	518	PASS	105	0.2	0	"44,40,12,9"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>C	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",C"	G175G	G28798C	G175G	N:G175G	175	N	G175G	N:G175G	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	28881	.	G	A	890	PASS	68	0.441176	8	"20,18,10,20"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	28882	.	G	A	880	PASS	68	0.441176	8	"20,18,10,20"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	28883	.	G	C	883	PASS	68	0.441176	8	"20,18,10,20"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	29559	.	TGG	T	84	PASS	51	0.058824	0	"24,24,2,1"	TRUE	T	frameshift_variant	HIGH	ORF10	GU280_gp11	transcript	GU280_gp11	protein_coding	1/1	c.4_5delGG	p.Gly2fs	4/117	4/117	2/38	2	38		"INFO_REALIGN_3_PRIME,T"	del2	TGG29559T	del2	ORF10:DEL2	2	ORF10	del2	ORF10:DEL2	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG2	NC_045512.2	29736	.	G	C	134	PASS	29	0.172414	0	"10,14,2,3"	FALSE	C	downstream_gene_variant	MODIFIER	S	GU280_gp02	transcript	GU280_gp02	protein_coding		c.*4352G>C						NA	4352	",C"		G29736C		NA	NA	S		NA	BEG02	BEGGEN	2020-04-05T00:00:00Z	33.67	35	x	16/07/2020	2020-04-05
BEG20	NC_045512.2	241	.	C	T	49314	PASS	1530	0.998693	2147483647	"0,0,1528,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	505	.	T	C	43928	PASS	1753	0.782088	0	"378,0,1371,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.240T>C	p.Pro80Pro	240/21291	240/21291	80/7096	80	7096		",C"	P80P	T505C	P80P	ORF1AB:P80P	80	ORF1a	P80P	ORF1A:P80P	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	872	.	G	T	27623	PASS	1021	0.830558	0	"173,0,848,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.607G>T	p.Asp203Tyr	607/21291	607/21291	203/7096	203	7096		",T"	D203Y	G872T	D203Y	ORF1AB:D203Y	203	ORF1a	D203Y	ORF1A:D203Y	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	3037	.	C	T	34942	PASS	1000	0.997	2147483647	"0,0,997,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	3261	.	C	T	2924	PASS	81	1	2147483647	"0,0,81,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2996C>T	p.Thr999Ile	2996/21291	2996/21291	999/7096	999	7096		",T"	T999I	C3261T	T999I	ORF1AB:T999I	999	ORF1a	T999I	ORF1A:T999I	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	3666	.	CT	C	50	PASS	96	0.020833	0	"94,0,2,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3403delT	p.Tyr1135fs	3403/21291	3403/21291	1135/7096	1135	7096		"INFO_REALIGN_3_PRIME,C"	del1135	CT3666C	del1135	ORF1AB:DEL1135	1135	ORF1a	del1135	ORF1A:DEL1135	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	3890	.	G	A	111	PASS	18	0.222222	0	"14,0,4,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3625G>A	p.Glu1209Lys	3625/21291	3625/21291	1209/7096	1209	7096		",A"	E1209K	G3890A	E1209K	ORF1AB:E1209K	1209	ORF1a	E1209K	ORF1A:E1209K	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	4072	.	T	G	335	PASS	27	0.407407	0	"16,0,11,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3807T>G	p.Thr1269Thr	3807/21291	3807/21291	1269/7096	1269	7096		",G"	T1269T	T4072G	T1269T	ORF1AB:T1269T	1269	ORF1a	T1269T	ORF1A:T1269T	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	6027	.	CA	C	1627	PASS	267	0.198502	0	"214,0,53,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5765delA	p.Asn1922fs	5765/21291	5765/21291	1922/7096	1922	7096		"INFO_REALIGN_3_PRIME,C"	del1922	CA6027C	del1922	ORF1AB:DEL1922	1922	ORF1a	del1922	ORF1A:DEL1922	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	6330	.	C	CA	3241	PASS	386	0.253886	0	"288,0,98,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6068dupA	p.Asn2023fs	6069/21291	6069/21291	2023/7096	2023	7096		"INFO_REALIGN_3_PRIME,CA"	del2023	C6330CA	del2023	ORF1AB:DEL2023	2023	ORF1a	del2023	ORF1A:DEL2023	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	6589	.	G	A	489	PASS	373	0.067024	0	"348,0,25,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6324G>A	p.Lys2108Lys	6324/21291	6324/21291	2108/7096	2108	7096		",A"	K2108K	G6589A	K2108K	ORF1AB:K2108K	2108	ORF1a	K2108K	ORF1A:K2108K	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	6696	.	C	CT	118	PASS	214	0.023364	0	"209,0,5,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	6696	.	C	T	212	PASS	214	0.056075	0	"202,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	6807	.	CT	C	1420	PASS	279	0.164875	0	"233,0,46,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6546delT	p.Phe2182fs	6546/21291	6546/21291	2182/7096	2182	7096		"INFO_REALIGN_3_PRIME,C"	del2182	CT6807C	del2182	ORF1AB:DEL2182	2182	ORF1a	del2182	ORF1A:DEL2182	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	7057	.	TG	T	249	PASS	257	0.038911	0	"247,0,10,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6794delG	p.Gly2265fs	6794/21291	6794/21291	2265/7096	2265	7096		"INFO_REALIGN_3_PRIME,T"	del2265	TG7057T	del2265	ORF1AB:DEL2265	2265	ORF1a	del2265	ORF1A:DEL2265	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	7693	.	G	GT	558	PASS	227	0.088106	0	"212,0,20,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7431dupT	p.Lys2478fs	7432/21291	7432/21291	2478/7096	2478	7096		"INFO_REALIGN_3_PRIME,GT"	del2478	G7693GT	del2478	ORF1AB:DEL2478	2478	ORF1a	del2478	ORF1A:DEL2478	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	7723	.	G	T	423	PASS	202	0.10396	0	"181,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7458G>T	p.Gln2486His	7458/21291	7458/21291	2486/7096	2486	7096		",T"	Q2486H	G7723T	Q2486H	ORF1AB:Q2486H	2486	ORF1a	Q2486H	ORF1A:Q2486H	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	8209	.	TA	T	45	PASS	190	0.010526	0	"188,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7947delA	p.Asp2650fs	7947/21291	7947/21291	2649/7096	2649	7096		"INFO_REALIGN_3_PRIME,T"	del2650	TA8209T	del2650	ORF1AB:DEL2650	2650	ORF1a	del2650	ORF1A:DEL2650	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	8376	.	CA	C	167	PASS	68	0.088235	0	"62,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	9037	.	TG	T	98	PASS	63	0.063492	0	"59,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8773delG	p.Ala2925fs	8773/21291	8773/21291	2925/7096	2925	7096		",T"	del2925	TG9037T	del2925	ORF1AB:DEL2925	2925	ORF1a	del2925	ORF1A:DEL2925	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	11082	.	TG	T	61	PASS	346	0.008671	0	"346,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	11083	.	G	T	1262	PASS	346	0.193642	0	"276,0,67,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	12720	.	TG	T	3947	PASS	589	0.222411	0	"460,0,131,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12456delG	p.Met4152fs	12456/21291	12456/21291	4152/7096	4152	7096		",T"	del4152	TG12720T	del4152	ORF1AB:DEL4152	4152	ORF1a	del4152	ORF1A:DEL4152	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	13078	.	T	C	5785	PASS	2529	0.111902	0	"2245,0,283,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12813T>C	p.Ala4271Ala	12813/21291	12813/21291	4271/7096	4271	7096		",C"	A4271A	T13078C	A4271A	ORF1AB:A4271A	4271	ORF1a	A4271A	ORF1A:A4271A	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	13427	.	G	A	188	PASS	1838	0.010337	0	"1819,0,19,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13162G>A	p.Glu4388Lys	13162/21291	13162/21291	4388/7096	4388	7096		",A"	E4388K	G13427A	E4388K	ORF1AB:E4388K	4388	ORF1a	E4388K	ORF1A:E4388K	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	13939	.	G	GA	1624	PASS	694	0.087896	0	"633,0,61,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13679dupA	p.Asn4560fs	13680/21291	13680/21291	4560/7096	4560	7096		"INFO_REALIGN_3_PRIME,GA"	del4560	G13939GA	del4560	ORF1AB:DEL4560	159	ORF1b	del159	ORF1B:DEL159	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	14372	.	CA	C	177	PASS	65	0.092308	0	"59,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14111delA	p.Asn4704fs	14111/21291	14111/21291	4704/7096	4704	7096		"INFO_REALIGN_3_PRIME,C"	del4704	CA14372C	del4704	ORF1AB:DEL4704	303	ORF1b	del303	ORF1B:DEL303	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	14408	.	C	T	2213	PASS	60	1	2147483647	"0,0,60,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	14657	.	CT	C	806	PASS	721	0.044383	0	"689,0,32,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14397delT	p.Gln4800fs	14397/21291	14397/21291	4799/7096	4799	7096		"INFO_REALIGN_3_PRIME,C"	del4800	CT14657C	del4800	ORF1AB:DEL4800	399	ORF1b	del399	ORF1B:DEL399	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	15907	.	G	T	440	PASS	227	0.096916	0	"205,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15643G>T	p.Gly5215Cys	15643/21291	15643/21291	5215/7096	5215	7096		",T"	G5215C	G15907T	G5215C	ORF1AB:G5215C	814	ORF1b	G814C	ORF1B:G814C	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	16443	.	CTAT	C	3927	PASS	924	0.13961	0	"795,0,129,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16184_16186delATT	p.Tyr5395del	16184/21291	16184/21291	5395/7096	5395	7096		"INFO_REALIGN_3_PRIME,C"	del5395	CTAT16443C	del5395	ORF1AB:DEL5395	994	ORF1b	del994	ORF1B:DEL994	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	16536	.	CG	C	6240	PASS	1263	0.168646	0	"1052,0,213,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16273delG	p.Asp5425fs	16273/21291	16273/21291	5425/7096	5425	7096		",C"	del5425	CG16536C	del5425	ORF1AB:DEL5425	1024	ORF1b	del1024	ORF1B:DEL1024	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	16537	.	G	C	109	PASS	1277	0.010963	0	"1050,0,14,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16273G>C	p.Asp5425His	16273/21291	16273/21291	5425/7096	5425	7096		",C"	D5425H	G16537C	D5425H	ORF1AB:D5425H	1024	ORF1b	D1024H	ORF1B:D1024H	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	17588	.	CTG	C	3759	PASS	945	0.13545	0	"817,0,128,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17327_17328delTG	p.Val5776fs	17327/21291	17327/21291	5776/7096	5776	7096		"INFO_REALIGN_3_PRIME,C"	del5776	CTG17588C	del5776	ORF1AB:DEL5776	1375	ORF1b	del1375	ORF1B:DEL1375	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	17634	.	C	T	3524	PASS	1034	0.148936	0	"878,0,154,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17370C>T	p.Asp5790Asp	17370/21291	17370/21291	5790/7096	5790	7096		",T"	D5790D	C17634T	D5790D	ORF1AB:D5790D	1389	ORF1b	D1389D	ORF1B:D1389D	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	18176	.	C	A	1286	PASS	1003	0.072782	0	"930,0,73,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17912C>A	p.Pro5971His	17912/21291	17912/21291	5971/7096	5971	7096		",A"	P5971H	C18176A	P5971H	ORF1AB:P5971H	1570	ORF1b	P1570H	ORF1B:P1570H	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	18368	.	G	GT	1592	PASS	425	0.134118	0	"368,0,57,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18109dupT	p.Ser6037fs	18110/21291	18110/21291	6037/7096	6037	7096		"INFO_REALIGN_3_PRIME,GT"	del6037	G18368GT	del6037	ORF1AB:DEL6037	1636	ORF1b	del1636	ORF1B:DEL1636	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	18706	.	A	G	1659	PASS	1183	0.081995	0	"1086,0,97,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18442A>G	p.Thr6148Ala	18442/21291	18442/21291	6148/7096	6148	7096		",G"	T6148A	A18706G	T6148A	ORF1AB:T6148A	1747	ORF1b	T1747A	ORF1B:T1747A	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	18779	.	G	A	124	PASS	1316	0.012918	0	"1298,0,17,0"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18515G>A	p.Trp6172*	18515/21291	18515/21291	6172/7096	6172	7096		",A"	W6172*	G18779A	W6172*	ORF1AB:W6172*	1771	ORF1b	W1771*	ORF1B:W1771*	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	19280	.	G	T	3179	PASS	1428	0.105742	0	"1277,0,151,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19016G>T	p.Cys6339Phe	19016/21291	19016/21291	6339/7096	6339	7096		",T"	C6339F	G19280T	C6339F	ORF1AB:C6339F	1938	ORF1b	C1938F	ORF1B:C1938F	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	19305	.	T	TA	528	PASS	1427	0.016819	0	"1405,0,24,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19044dupA	p.His6349fs	19045/21291	19045/21291	6349/7096	6349	7096		"INFO_REALIGN_3_PRIME,TA"	del6349	T19305TA	del6349	ORF1AB:DEL6349	1948	ORF1b	del1948	ORF1B:DEL1948	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	19399	.	T	C	108	PASS	875	0.016	0	"861,0,14,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19135T>C	p.Ser6379Pro	19135/21291	19135/21291	6379/7096	6379	7096		",C"	S6379P	T19399C	S6379P	ORF1AB:S6379P	1978	ORF1b	S1978P	ORF1B:S1978P	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	19983	.	C	CT	244	PASS	122	0.090164	0	"111,0,11,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19725dupT	p.Asp6576fs	19726/21291	19726/21291	6576/7096	6576	7096		"INFO_REALIGN_3_PRIME,CT"	del6576	C19983CT	del6576	ORF1AB:DEL6576	2175	ORF1b	del2175	ORF1B:DEL2175	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	20415	.	AG	A	518	PASS	844	0.026066	0	"822,0,22,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20152delG	p.Glu6718fs	20152/21291	20152/21291	6718/7096	6718	7096		",A"	del6718	AG20415A	del6718	ORF1AB:DEL6718	2317	ORF1b	del2317	ORF1B:DEL2317	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	20613	.	TTGG	T	951	PASS	2094	0.020057	0	"2052,0,42,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20352_20354delGTG	p.Trp6784del	20352/21291	20352/21291	6784/7096	6784	7096		"INFO_REALIGN_3_PRIME,T"	del6784	TTGG20613T	del6784	ORF1AB:DEL6784	2383	ORF1b	del2383	ORF1B:DEL2383	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	20742	.	A	C	3302	PASS	2729	0.06779	0	"2539,0,185,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	20756	.	GT	G	4022	PASS	2773	0.056617	0	"2629,0,157,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20493delT	p.Ser6831fs	20493/21291	20493/21291	6831/7096	6831	7096		",G"	del6831	GT20756G	del6831	ORF1AB:DEL6831	2430	ORF1b	del2430	ORF1B:DEL2430	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	20856	.	A	G	2704	PASS	2424	0.060644	0	"2277,0,147,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20592A>G	p.Arg6864Arg	20592/21291	20592/21291	6864/7096	6864	7096		",G"	R6864R	A20856G	R6864R	ORF1AB:R6864R	2463	ORF1b	R2463R	ORF1B:R2463R	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	20946	.	C	T	49314	PASS	2252	0.708259	0	"651,0,1595,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20682C>T	p.Val6894Val	20682/21291	20682/21291	6894/7096	6894	7096		",T"	V6894V	C20946T	V6894V	ORF1AB:V6894V	2493	ORF1b	V2493V	ORF1B:V2493V	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	21058	.	C	T	1264	PASS	1889	0.049232	0	"1794,0,93,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20794C>T	p.Pro6932Ser	20794/21291	20794/21291	6932/7096	6932	7096		",T"	P6932S	C21058T	P6932S	ORF1AB:P6932S	2531	ORF1b	P2531S	ORF1B:P2531S	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	21133	.	CA	C	808	PASS	1284	0.027259	0	"1249,0,35,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20873delA	p.Lys6958fs	20873/21291	20873/21291	6958/7096	6958	7096		"INFO_REALIGN_3_PRIME,C"	del6958	CA21133C	del6958	ORF1AB:DEL6958	2557	ORF1b	del2557	ORF1B:DEL2557	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	21455	.	A	G	65	PASS	822	0.009732	0	"813,0,8,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21191A>G	p.Gln7064Arg	21191/21291	21191/21291	7064/7096	7064	7096		",G"	Q7064R	A21455G	Q7064R	ORF1AB:Q7064R	2663	ORF1b	Q2663R	ORF1B:Q2663R	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	21585	.	T	C	3132	PASS	803	0.16812	0	"667,0,135,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.23T>C	p.Leu8Ser	23/3822	23/3822	8/1273	8	1273		",C"	L8S	T21585C	L8S	S:L8S	8	S	L8S	S:L8S	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	22009	.	CA	C	310	PASS	264	0.045455	0	"252,0,12,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.451delA	p.Ser151fs	451/3822	451/3822	151/1273	151	1273		"INFO_REALIGN_3_PRIME,C"	del151	CA22009C	del151	S:DEL151	151	S	del151	S:DEL151	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	22075	.	C	T	3394	PASS	266	0.462406	0	"143,0,123,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.513C>T	p.Val171Val	513/3822	513/3822	171/1273	171	1273		",T"	V171V	C22075T	V171V	S:V171V	171	S	V171V	S:V171V	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	22951	.	T	C	185	PASS	90	0.1	0	"81,0,9,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1389T>C	p.Pro463Pro	1389/3822	1389/3822	463/1273	463	1273		",C"	P463P	T22951C	P463P	S:P463P	463	S	P463P	S:P463P	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	23143	.	TA	T	102	PASS	66	0.060606	0	"62,0,4,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1586delA	p.Lys529fs	1586/3822	1586/3822	529/1273	529	1273		"INFO_REALIGN_3_PRIME,T"	del529	TA23143T	del529	S:DEL529	529	S	del529	S:DEL529	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	23284	.	TG	T	524	PASS	168	0.113095	0	"149,0,19,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1723delG	p.Ala575fs	1723/3822	1723/3822	575/1273	575	1273		",T"	del575	TG23284T	del575	S:DEL575	575	S	del575	S:DEL575	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	23403	.	A	G	5460	PASS	153	1	2147483647	"0,0,153,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	23537	.	T	C	66	PASS	178	0.033708	0	"169,0,6,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1975T>C	p.Ser659Pro	1975/3822	1975/3822	659/1273	659	1273		",C"	S659P	T23537C	S659P	S:S659P	659	S	S659P	S:S659P	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	23958	.	G	GT	272	PASS	306	0.035948	0	"299,0,11,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25183	.	G	T	269	PASS	1096	0.021898	0	"1072,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3621G>T	p.Glu1207Asp	3621/3822	3621/3822	1207/1273	1207	1273		",T"	E1207D	G25183T	E1207D	S:E1207D	1207	S	E1207D	S:E1207D	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25207	.	C	T	238	PASS	960	0.033333	0	"924,0,32,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3645C>T	p.Tyr1215Tyr	3645/3822	3645/3822	1215/1273	1215	1273		",T"	Y1215Y	C25207T	Y1215Y	S:Y1215Y	1215	S	Y1215Y	S:Y1215Y	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25216	.	A	T	133	PASS	1006	0.028827	0	"974,0,29,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25240	.	C	A	129	PASS	1028	0.032101	0	"995,0,33,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25244	.	G	T	126	PASS	1071	0.027077	0	"1042,0,29,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25247	.	A	T	143	PASS	1084	0.03321	0	"1045,0,36,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25254	.	C	A	152	PASS	1170	0.032479	0	"1129,0,38,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25259	.	A	T	81	PASS	1179	0.023749	0	"1150,0,28,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25269	.	G	T	80	PASS	1114	0.023339	0	"1087,0,26,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3707G>T	p.Cys1236Phe	3707/3822	3707/3822	1236/1273	1236	1273		",T"	C1236F	G25269T	C1236F	S:C1236F	1236	S	C1236F	S:C1236F	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25277	.	A	T	323	PASS	1097	0.058341	0	"1024,0,64,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25286	.	A	T	456	PASS	1159	0.069888	0	"1066,0,81,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25296	.	A	C	750	PASS	1170	0.097436	0	"996,0,114,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25296	.	A	T	194	PASS	1170	0.047009	0	"996,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25312	.	T	G	67	PASS	1181	0.027096	0	"1149,0,32,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25314	.	G	T	117	PASS	1174	0.037479	0	"1122,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25323	.	G	C	146	PASS	1172	0.045222	0	"1099,0,53,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25324	.	C	A	2053	PASS	1182	0.176819	0	"973,0,209,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25327	.	A	T	265	PASS	1169	0.05988	0	"1099,0,70,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25331	.	G	T	212	PASS	1159	0.056083	0	"1085,0,65,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25334	.	G	C	289	PASS	1143	0.068241	0	"1026,0,78,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25336	.	A	C	1206	PASS	1166	0.14494	0	"994,0,169,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25337	.	G	C	306	PASS	1118	0.070662	0	"1039,0,79,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25672	.	CT	C	754	PASS	1275	0.025882	0	"1242,0,33,0"	TRUE	C	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.284delT	p.Leu95fs	284/828	284/828	95/275	95	275		"INFO_REALIGN_3_PRIME,C"	del95	CT25672C	del95	ORF3A:DEL95	95	ORF3a	del95	ORF3A:DEL95	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	25855	.	G	T	1288	PASS	1092	0.06685	0	"1019,0,73,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.463G>T	p.Asp155Tyr	463/828	463/828	155/275	155	275		",T"	D155Y	G25855T	D155Y	ORF3A:D155Y	155	ORF3a	D155Y	ORF3A:D155Y	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	26262	.	G	T	5227	PASS	1871	0.127739	0	"1631,0,239,0"	FALSE	T	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.18G>T	p.Ser6Ser	18/228	18/228	6/75	6	75		",T"	S6S	G26262T	S6S	E:S6S	6	E	S6S	E:S6S	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	26286	.	T	C	1644	PASS	1954	0.049642	0	"1857,0,97,0"	FALSE	C	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.42T>C	p.Val14Val	42/228	42/228	14/75	14	75		",C"	V14V	T26286C	V14V	E:V14V	14	E	V14V	E:V14V	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	26763	.	G	T	1331	PASS	2038	0.042198	0	"1952,0,86,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.241G>T	p.Ala81Ser	241/669	241/669	81/222	81	222		",T"	A81S	G26763T	A81S	M:A81S	81	M	A81S	M:A81S	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	26895	.	C	T	1932	PASS	819	0.111111	0	"728,0,91,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.373C>T	p.His125Tyr	373/669	373/669	125/222	125	222		",T"	H125Y	C26895T	H125Y	M:H125Y	125	M	H125Y	M:H125Y	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	27312	.	T	TA	413	PASS	1012	0.019763	0	"995,0,20,0"	TRUE	TA	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.116dupA	p.Asn39fs	117/186	117/186	39/61	39	61		"INFO_REALIGN_3_PRIME,TA"	del39	T27312TA	del39	ORF6:DEL39	39	ORF6	del39	ORF6:DEL39	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	27352	.	C	CA	307	PASS	1200	0.0125	0	"1185,0,15,0"	TRUE	CA	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.153dupA	p.Leu52fs	154/186	154/186	52/61	52	61		"INFO_REALIGN_3_PRIME,CA"	del52	C27352CA	del52	ORF6:DEL52	52	ORF6	del52	ORF6:DEL52	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	27384	.	T	C	183	PASS	1060	0.018868	0	"1040,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.183T>C	p.Asp61Asp	183/186	183/186	61/61	61	61		",C"	D61D	T27384C	D61D	ORF6:D61D	61	ORF6	D61D	ORF6:D61D	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	27791	.	C	CT	1854	PASS	1009	0.070367	0	"938,0,71,0"	TRUE	CT	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.41dupT	p.Leu14fs	42/132	42/132	14/43	14	43		"INFO_REALIGN_3_PRIME,CT"	del14	C27791CT	del14	ORF7B:DEL14	14	ORF7b	del14	ORF7B:DEL14	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	27906	.	G	GT	1786	PASS	1331	0.051841	0	"1263,0,69,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.17dupT	p.Gly8fs	18/366	18/366	6/121	6	121		"INFO_REALIGN_3_PRIME,GT"	del8	G27906GT	del8	ORF8:DEL8	8	ORF8	del8	ORF8:DEL8	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	27945	.	C	T	31425	PASS	1333	0.723181	0	"368,0,964,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.52C>T	p.Gln18*	52/366	52/366	18/121	18	121		",T"	Q18*	C27945T	Q18*	ORF8:Q18*	18	ORF8	Q18*	ORF8:Q18*	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	27970	.	C	T	519	PASS	1201	0.030808	0	"1164,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>T	p.Thr26Ile	77/366	77/366	26/121	26	121		",T"	T26I	C27970T	T26I	ORF8:T26I	26	ORF8	T26I	ORF8:T26I	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28003	.	G	T	831	PASS	1188	0.047138	0	"1131,0,56,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.110G>T	p.Cys37Phe	110/366	110/366	37/121	37	121		",T"	C37F	G28003T	C37F	ORF8:C37F	37	ORF8	C37F	ORF8:C37F	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28254	.	A	C	90	PASS	1395	0.010753	0	"1378,0,15,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28405	.	T	G	550	PASS	1915	0.034465	0	"1847,0,66,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.132T>G	p.Gly44Gly	132/1260	132/1260	44/419	44	419		",G"	G44G	T28405G	G44G	N:G44G	44	N	G44G	N:G44G	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28445	.	C	CA	678	PASS	2333	0.013716	0	"2300,0,32,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.174dupA	p.His59fs	175/1260	175/1260	59/419	59	419		"INFO_REALIGN_3_PRIME,CA"	del59	C28445CA	del59	N:DEL59	59	N	del59	N:DEL59	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28540	.	AG	A	2366	PASS	2946	0.034623	0	"2845,0,102,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.268delG	p.Ala90fs	268/1260	268/1260	90/419	90	419		",A"	del90	AG28540A	del90	N:DEL90	90	N	del90	N:DEL90	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28541	.	G	T	574	PASS	2962	0.020594	0	"2799,0,61,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.268G>T	p.Ala90Ser	268/1260	268/1260	90/419	90	419		",T"	A90S	G28541T	A90S	N:A90S	90	N	A90S	N:A90S	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28698	.	CA	C	998	PASS	2993	0.016372	0	"2944,0,49,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.429delA	p.Asp144fs	429/1260	429/1260	143/419	143	419		"INFO_REALIGN_3_PRIME,C"	del144	CA28698C	del144	N:DEL144	144	N	del144	N:DEL144	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28881	.	G	A	49314	PASS	2958	0.998986	2147483647	"0,0,2955,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28882	.	G	A	49314	PASS	2954	0.998984	2147483647	"0,0,2951,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28883	.	G	C	49314	PASS	2980	0.999329	2147483647	"0,0,2978,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	28987	.	CCAA	C	593	PASS	2974	0.010087	0	"2959,0,30,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	29051	.	C	CA	3134	PASS	2549	0.050608	0	"2420,0,129,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	29051	.	CA	C	45	PASS	2549	0.001569	0	"2545,0,4,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783delA	p.Lys261fs	783/1260	783/1260	261/419	261	419		"INFO_REALIGN_3_PRIME,C"	del261	CA29051C	del261	N:DEL261	261	N	del261	N:DEL261	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	29120	.	CA	C	154	PASS	1552	0.035438	0	"1497,0,55,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.849delA	p.Gly284fs	849/1260	849/1260	283/419	283	419		"INFO_REALIGN_3_PRIME,C"	del284	CA29120C	del284	N:DEL284	284	N	del284	N:DEL284	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG20	NC_045512.2	29750	.	C	T	500	PASS	16	0.9375	0	"1,0,15,0"	FALSE	T	downstream_gene_variant	MODIFIER	S	GU280_gp02	transcript	GU280_gp02	protein_coding		c.*4366C>T						NA	4366	",T"		C29750T		NA	NA	S		NA	BEG20	BEGGEN	2020-08-12T00:00:00Z	32.49075	37	NA	19/09/2021	2020-08-12
BEG30	NC_045512.2	240	.	TC	T	12883	PASS	3653	0.129756	0	"3217,0,474,0"	TRUE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25delC						NA	25	",T"	del	TC240T	del	ORF1AB:DEL	NA	NA	del	NA:DEL	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	241	.	C	T	49314	PASS	3653	0.868054	0	"1,0,3171,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	335	.	C	T	3287	PASS	3636	0.056106	0	"3428,0,204,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	445	.	T	C	26227	PASS	4244	0.257776	0	"3146,0,1094,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	555	.	A	G	334	PASS	3944	0.011917	0	"3888,0,47,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.290A>G	p.Tyr97Cys	290/21291	290/21291	97/7096	97	7096		",G"	Y97C	A555G	Y97C	ORF1AB:Y97C	97	ORF1a	Y97C	ORF1A:Y97C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	626	.	G	T	9181	PASS	3889	0.122911	0	"3411,0,478,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.361G>T	p.Val121Phe	361/21291	361/21291	121/7096	121	7096		",T"	V121F	G626T	V121F	ORF1AB:V121F	121	ORF1a	V121F	ORF1A:V121F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	694	.	T	C	612	PASS	4078	0.016184	0	"4006,0,66,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.429T>C	p.Phe143Phe	429/21291	429/21291	143/7096	143	7096		",C"	F143F	T694C	F143F	ORF1AB:F143F	143	ORF1a	F143F	ORF1A:F143F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	875	.	C	A	4254	PASS	2691	0.088071	0	"2453,0,237,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	908	.	T	C	84	PASS	2540	0.007087	0	"2519,0,18,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.643T>C	p.Leu215Leu	643/21291	643/21291	215/7096	215	7096		",C"	L215L	T908C	L215L	ORF1AB:L215L	215	ORF1a	L215L	ORF1A:L215L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	925	.	C	CT	8870	PASS	2689	0.111566	0	"2389,0,300,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.663dupT	p.Ile222fs	664/21291	664/21291	222/7096	222	7096		"INFO_REALIGN_3_PRIME,CT"	del222	C925CT	del222	ORF1AB:DEL222	222	ORF1a	del222	ORF1A:DEL222	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	1469	.	C	T	1252	PASS	1966	0.045778	0	"1871,0,90,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1204C>T	p.Arg402Cys	1204/21291	1204/21291	402/7096	402	7096		",T"	R402C	C1469T	R402C	ORF1AB:R402C	402	ORF1a	R402C	ORF1A:R402C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	1714	.	C	T	10662	PASS	2492	0.1874	0	"2021,0,467,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1449C>T	p.Ser483Ser	1449/21291	1449/21291	483/7096	483	7096		",T"	S483S	C1714T	S483S	ORF1AB:S483S	483	ORF1a	S483S	ORF1A:S483S	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	1911	.	C	T	7949	PASS	1758	0.190557	0	"1422,0,335,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1646C>T	p.Ser549Phe	1646/21291	1646/21291	549/7096	549	7096		",T"	S549F	C1911T	S549F	ORF1AB:S549F	549	ORF1a	S549F	ORF1A:S549F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	1987	.	A	G	5251	PASS	1271	0.1786	0	"1042,0,227,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1722A>G	p.Ser574Ser	1722/21291	1722/21291	574/7096	574	7096		",G"	S574S	A1987G	S574S	ORF1AB:S574S	574	ORF1a	S574S	ORF1A:S574S	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	2453	.	C	T	1829	PASS	755	0.109934	0	"672,0,83,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2188C>T	p.Leu730Phe	2188/21291	2188/21291	730/7096	730	7096		",T"	L730F	C2453T	L730F	ORF1AB:L730F	730	ORF1a	L730F	ORF1A:L730F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	2995	.	G	T	4195	PASS	1954	0.10696	0	"1745,0,209,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2730G>T	p.Glu910Asp	2730/21291	2730/21291	910/7096	910	7096		",T"	E910D	G2995T	E910D	ORF1AB:E910D	910	ORF1a	E910D	ORF1A:E910D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	3037	.	C	T	49314	PASS	1765	0.9983	2147483647	"0,0,1762,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	3049	.	T	C	2743	PASS	1780	0.1	0	"1600,0,178,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2784T>C	p.Asp928Asp	2784/21291	2784/21291	928/7096	928	7096		",C"	D928D	T3049C	D928D	ORF1AB:D928D	928	ORF1a	D928D	ORF1A:D928D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	3540	.	C	T	337	PASS	202	0.084158	0	"185,0,17,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3275C>T	p.Ala1092Val	3275/21291	3275/21291	1092/7096	1092	7096		",T"	A1092V	C3540T	A1092V	ORF1AB:A1092V	1092	ORF1a	A1092V	ORF1A:A1092V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	3602	.	C	T	1192	PASS	206	0.247573	0	"153,0,51,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	3781	.	T	C	467	PASS	197	0.111675	0	"175,0,22,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3516T>C	p.Asn1172Asn	3516/21291	3516/21291	1172/7096	1172	7096		",C"	N1172N	T3781C	N1172N	ORF1AB:N1172N	1172	ORF1a	N1172N	ORF1A:N1172N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	3955	.	G	GA	800	PASS	142	0.183099	0	"117,0,26,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3694dupA	p.Ile1232fs	3695/21291	3695/21291	1232/7096	1232	7096		"INFO_REALIGN_3_PRIME,GA"	del1232	G3955GA	del1232	ORF1AB:DEL1232	1232	ORF1a	del1232	ORF1A:DEL1232	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	4040	.	A	G	465	PASS	171	0.122807	0	"150,0,21,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	4177	.	A	G	107	PASS	226	0.035398	0	"218,0,8,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3912A>G	p.Lys1304Lys	3912/21291	3912/21291	1304/7096	1304	7096		",G"	K1304K	A4177G	K1304K	ORF1AB:K1304K	1304	ORF1a	K1304K	ORF1A:K1304K	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	4543	.	C	T	3990	PASS	313	0.444089	0	"174,0,139,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	5224	.	TA	T	2666	PASS	623	0.147673	0	"531,0,92,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4964delA	p.Lys1655fs	4964/21291	4964/21291	1655/7096	1655	7096		"INFO_REALIGN_3_PRIME,T"	del1655	TA5224T	del1655	ORF1AB:DEL1655	1655	ORF1a	del1655	ORF1A:DEL1655	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	5629	.	G	T	4777	PASS	599	0.297162	0	"420,0,178,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	5861	.	G	GT	1737	PASS	426	0.13615	0	"374,0,58,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5600dupT	p.Tyr1868fs	5601/21291	5601/21291	1867/7096	1867	7096		"INFO_REALIGN_3_PRIME,GT"	del1868	G5861GT	del1868	ORF1AB:DEL1868	1868	ORF1a	del1868	ORF1A:DEL1868	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	5884	.	C	T	1337	PASS	591	0.104907	0	"529,0,62,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	5917	.	G	A	1177	PASS	627	0.095694	0	"567,0,60,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5652G>A	p.Leu1884Leu	5652/21291	5652/21291	1884/7096	1884	7096		",A"	L1884L	G5917A	L1884L	ORF1AB:L1884L	1884	ORF1a	L1884L	ORF1A:L1884L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6286	.	C	T	8449	PASS	996	0.318273	0	"678,0,317,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6366	.	A	T	2025	PASS	918	0.107843	0	"818,0,99,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6101A>T	p.Gln2034Leu	6101/21291	6101/21291	2034/7096	2034	7096		",T"	Q2034L	A6366T	Q2034L	ORF1AB:Q2034L	2034	ORF1a	Q2034L	ORF1A:Q2034L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6396	.	TA	T	3016	PASS	931	0.113856	0	"825,0,106,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6135delA	p.Lys2045fs	6135/21291	6135/21291	2045/7096	2045	7096		"INFO_REALIGN_3_PRIME,T"	del2045	TA6396T	del2045	ORF1AB:DEL2045	2045	ORF1a	del2045	ORF1A:DEL2045	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6630	.	T	C	150	PASS	741	0.017544	0	"728,0,13,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6365T>C	p.Leu2122Pro	6365/21291	6365/21291	2122/7096	2122	7096		",C"	L2122P	T6630C	L2122P	ORF1AB:L2122P	2122	ORF1a	L2122P	ORF1A:L2122P	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6631	.	T	C	132	PASS	743	0.017497	0	"729,0,13,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6366T>C	p.Leu2122Leu	6366/21291	6366/21291	2122/7096	2122	7096		",C"	L2122L	T6631C	L2122L	ORF1AB:L2122L	2122	ORF1a	L2122L	ORF1A:L2122L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6632	.	G	C	128	PASS	742	0.01752	0	"728,0,13,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6367G>C	p.Ala2123Pro	6367/21291	6367/21291	2123/7096	2123	7096		",C"	A2123P	G6632C	A2123P	ORF1AB:A2123P	2123	ORF1a	A2123P	ORF1A:A2123P	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6696	.	C	CT	148	PASS	492	0.014228	0	"471,0,7,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6696	.	C	CTT	316	PASS	492	0.028455	0	"471,0,14,0"	TRUE	CTT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6434_6435dupTT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CTT"	del2146	C6696CTT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6701	.	C	T	100	PASS	498	0.03012	0	"483,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6865	.	G	T	1906	PASS	674	0.12908	0	"587,0,87,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6600G>T	p.Lys2200Asn	6600/21291	6600/21291	2200/7096	2200	7096		",T"	K2200N	G6865T	K2200N	ORF1AB:K2200N	2200	ORF1a	K2200N	ORF1A:K2200N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	6941	.	C	T	4920	PASS	707	0.27157	0	"515,0,192,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	7834	.	C	T	1696	PASS	847	0.102715	0	"759,0,87,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7569C>T	p.Asn2523Asn	7569/21291	7569/21291	2523/7096	2523	7096		",T"	N2523N	C7834T	N2523N	ORF1AB:N2523N	2523	ORF1a	N2523N	ORF1A:N2523N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	7948	.	C	T	4024	PASS	1018	0.17387	0	"841,0,177,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7683C>T	p.Tyr2561Tyr	7683/21291	7683/21291	2561/7096	2561	7096		",T"	Y2561Y	C7948T	Y2561Y	ORF1AB:Y2561Y	2561	ORF1a	Y2561Y	ORF1A:Y2561Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	9120	.	C	T	1198	PASS	565	0.109735	0	"503,0,62,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8855C>T	p.Thr2952Ile	8855/21291	8855/21291	2952/7096	2952	7096		",T"	T2952I	C9120T	T2952I	ORF1AB:T2952I	2952	ORF1a	T2952I	ORF1A:T2952I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	9204	.	A	C	1378	PASS	603	0.116086	0	"533,0,70,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8939A>C	p.Asp2980Ala	8939/21291	8939/21291	2980/7096	2980	7096		",C"	D2980A	A9204C	D2980A	ORF1AB:D2980A	2980	ORF1a	D2980A	ORF1A:D2980A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	9430	.	C	T	586	PASS	2765	0.019168	0	"2711,0,53,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9165C>T	p.Ile3055Ile	9165/21291	9165/21291	3055/7096	3055	7096		",T"	I3055I	C9430T	I3055I	ORF1AB:I3055I	3055	ORF1a	I3055I	ORF1A:I3055I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	9440	.	T	G	3484	PASS	2867	0.067667	0	"2671,0,194,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9175T>G	p.Cys3059Gly	9175/21291	9175/21291	3059/7096	3059	7096		",G"	C3059G	T9440G	C3059G	ORF1AB:C3059G	3059	ORF1a	C3059G	ORF1A:C3059G	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	9526	.	G	T	49314	PASS	3453	0.545902	0	"1568,0,1885,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	9554	.	G	GT	8655	PASS	3521	0.086623	0	"3253,0,305,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9292dupT	p.Tyr3098fs	9293/21291	9293/21291	3098/7096	3098	7096		"INFO_REALIGN_3_PRIME,GT"	del3098	G9554GT	del3098	ORF1AB:DEL3098	3098	ORF1a	del3098	ORF1A:DEL3098	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	9604	.	A	T	8033	PASS	4118	0.092521	0	"3735,0,381,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9339A>T	p.Thr3113Thr	9339/21291	9339/21291	3113/7096	3113	7096		",T"	T3113T	A9604T	T3113T	ORF1AB:T3113T	3113	ORF1a	T3113T	ORF1A:T3113T	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	10282	.	GGT	G	7280	PASS	1038	0.240848	0	"802,0,250,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10018_10019delGT	p.Val3340fs	10018/21291	10018/21291	3340/7096	3340	7096		",G"	del3340	GGT10282G	del3340	ORF1AB:DEL3340	3340	ORF1a	del3340	ORF1A:DEL3340	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	10284	.	T	G	170	PASS	1123	0.031167	0	"838,0,35,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10019T>G	p.Val3340Gly	10019/21291	10019/21291	3340/7096	3340	7096		",G"	V3340G	T10284G	V3340G	ORF1AB:V3340G	3340	ORF1a	V3340G	ORF1A:V3340G	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	10426	.	TG	T	3341	PASS	1137	0.113456	0	"1025,0,129,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10162delG	p.Val3388fs	10162/21291	10162/21291	3388/7096	3388	7096		",T"	del3388	TG10426T	del3388	ORF1AB:DEL3388	3388	ORF1a	del3388	ORF1A:DEL3388	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	11082	.	TG	T	119	PASS	1514	0.004624	0	"1509,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	11083	.	G	T	3689	PASS	1515	0.122772	0	"1322,0,186,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	11146	.	G	GT	2053	PASS	1260	0.060317	0	"1211,0,76,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10884dupT	p.Val3629fs	10885/21291	10885/21291	3629/7096	3629	7096		"INFO_REALIGN_3_PRIME,GT"	del3629	G11146GT	del3629	ORF1AB:DEL3629	3629	ORF1a	del3629	ORF1A:DEL3629	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	11393	.	A	G	206	PASS	964	0.022822	0	"942,0,22,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11128A>G	p.Thr3710Ala	11128/21291	11128/21291	3710/7096	3710	7096		",G"	T3710A	A11393G	T3710A	ORF1AB:T3710A	3710	ORF1a	T3710A	ORF1A:T3710A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	11497	.	C	T	7273	PASS	947	0.292503	0	"670,0,277,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	11557	.	G	T	2246	PASS	808	0.125	0	"706,0,101,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11292G>T	p.Glu3764Asp	11292/21291	11292/21291	3764/7096	3764	7096		",T"	E3764D	G11557T	E3764D	ORF1AB:E3764D	3764	ORF1a	E3764D	ORF1A:E3764D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	12409	.	T	C	3259	PASS	1388	0.119597	0	"1221,0,166,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12144T>C	p.Ile4048Ile	12144/21291	12144/21291	4048/7096	4048	7096		",C"	I4048I	T12409C	I4048I	ORF1AB:I4048I	4048	ORF1a	I4048I	ORF1A:I4048I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	12664	.	C	A	4643	PASS	1838	0.123504	0	"1609,0,227,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12399C>A	p.Ala4133Ala	12399/21291	12399/21291	4133/7096	4133	7096		",A"	A4133A	C12664A	A4133A	ORF1AB:A4133A	4133	ORF1a	A4133A	ORF1A:A4133A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	13123	.	TG	T	71	PASS	5091	0.001375	0	"5159,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	13754	.	G	T	6394	PASS	1762	0.157775	0	"1484,0,278,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13490G>T	p.Arg4497Ile	13490/21291	13490/21291	4497/7096	4497	7096		",T"	R4497I	G13754T	R4497I	ORF1AB:R4497I	96	ORF1b	R96I	ORF1B:R96I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	13851	.	T	C	144	PASS	1822	0.009879	0	"1804,0,18,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13587T>C	p.Gly4529Gly	13587/21291	13587/21291	4529/7096	4529	7096		",C"	G4529G	T13851C	G4529G	ORF1AB:G4529G	128	ORF1b	G128G	ORF1B:G128G	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	13993	.	G	T	15292	PASS	1375	0.398545	0	"827,0,548,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	14318	.	C	T	135	PASS	48	0.145833	0	"41,0,7,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14054C>T	p.Thr4685Ile	14054/21291	14054/21291	4685/7096	4685	7096		",T"	T4685I	C14318T	T4685I	ORF1AB:T4685I	284	ORF1b	T284I	ORF1B:T284I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	14408	.	C	T	1315	PASS	37	1	2147483647	"0,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	14625	.	C	CT	1592	PASS	1547	0.04137	0	"1483,0,64,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14365dupT	p.Ser4789fs	14366/21291	14366/21291	4789/7096	4789	7096		"INFO_REALIGN_3_PRIME,CT"	del4789	C14625CT	del4789	ORF1AB:DEL4789	388	ORF1b	del388	ORF1B:DEL388	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	14976	.	TAG	T	8737	PASS	2642	0.113929	0	"2341,0,301,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14714_14715delGA	p.Arg4905fs	14714/21291	14714/21291	4905/7096	4905	7096		"INFO_REALIGN_3_PRIME,T"	del4905	TAG14976T	del4905	ORF1AB:DEL4905	504	ORF1b	del504	ORF1B:DEL504	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	15324	.	C	T	5511	PASS	1183	0.193576	0	"954,0,229,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	15579	.	C	T	1715	PASS	967	0.086867	0	"882,0,84,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	15747	.	T	C	1244	PASS	840	0.07381	0	"778,0,62,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15483T>C	p.Thr5161Thr	15483/21291	15483/21291	5161/7096	5161	7096		",C"	T5161T	T15747C	T5161T	ORF1AB:T5161T	760	ORF1b	T760T	ORF1B:T760T	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	15766	.	G	T	6021	PASS	793	0.290038	0	"563,0,230,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	15803	.	A	G	1272	PASS	666	0.091592	0	"604,0,61,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15539A>G	p.Tyr5180Cys	15539/21291	15539/21291	5180/7096	5180	7096		",G"	Y5180C	A15803G	Y5180C	ORF1AB:Y5180C	779	ORF1b	Y779C	ORF1B:Y779C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	16501	.	GT	G	301	PASS	4820	0.004357	0	"4825,0,21,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16242delT	p.Phe5414fs	16242/21291	16242/21291	5414/7096	5414	7096		"INFO_REALIGN_3_PRIME,G"	del5414	GT16501G	del5414	ORF1AB:DEL5414	1013	ORF1b	del1013	ORF1B:DEL1013	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	16528	.	G	T	7025	PASS	5353	0.074351	0	"4952,0,398,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16264G>T	p.Val5422Phe	16264/21291	16264/21291	5422/7096	5422	7096		",T"	V5422F	G16528T	V5422F	ORF1AB:V5422F	1021	ORF1b	V1021F	ORF1B:V1021F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	16719	.	AG	A	13284	PASS	6281	0.080242	0	"5793,0,504,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16456delG	p.Glu5486fs	16456/21291	16456/21291	5486/7096	5486	7096		",A"	del5486	AG16719A	del5486	ORF1AB:DEL5486	1085	ORF1b	del1085	ORF1B:DEL1085	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	16837	.	GA	G	70	PASS	5367	0.001304	0	"5369,0,7,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	16889	.	A	G	38171	PASS	4664	0.30253	0	"3248,0,1411,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	16941	.	A	G	4342	PASS	4096	0.060059	0	"3844,0,246,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16677A>G	p.Leu5559Leu	16677/21291	16677/21291	5559/7096	5559	7096		",G"	L5559L	A16941G	L5559L	ORF1AB:L5559L	1158	ORF1b	L1158L	ORF1B:L1158L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	16959	.	G	A	11127	PASS	3951	0.128069	0	"3441,0,506,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16695G>A	p.Val5565Val	16695/21291	16695/21291	5565/7096	5565	7096		",A"	V5565V	G16959A	V5565V	ORF1AB:V5565V	1164	ORF1b	V1164V	ORF1B:V1164V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	17019	.	G	T	15383	PASS	2232	0.263441	0	"1644,0,588,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	17468	.	T	C	666	PASS	954	0.046122	0	"910,0,44,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17204T>C	p.Leu5735Ser	17204/21291	17204/21291	5735/7096	5735	7096		",C"	L5735S	T17468C	L5735S	ORF1AB:L5735S	1334	ORF1b	L1334S	ORF1B:L1334S	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	18012	.	T	C	10007	PASS	2493	0.171681	0	"2064,0,428,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17748T>C	p.Ile5916Ile	17748/21291	17748/21291	5916/7096	5916	7096		",C"	I5916I	T18012C	I5916I	ORF1AB:I5916I	1515	ORF1b	I1515I	ORF1B:I1515I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	18017	.	G	T	8062	PASS	2412	0.147181	0	"2057,0,355,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17753G>T	p.Arg5918Leu	17753/21291	17753/21291	5918/7096	5918	7096		",T"	R5918L	G18017T	R5918L	ORF1AB:R5918L	1517	ORF1b	R1517L	ORF1B:R1517L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	18027	.	G	A	792	PASS	2330	0.027468	0	"2264,0,64,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17763G>A	p.Val5921Val	17763/21291	17763/21291	5921/7096	5921	7096		",A"	V5921V	G18027A	V5921V	ORF1AB:V5921V	1520	ORF1b	V1520V	ORF1B:V1520V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	18138	.	CA	C	659	PASS	1763	0.017584	0	"1733,0,31,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17878delA	p.Thr5960fs	17878/21291	17878/21291	5960/7096	5960	7096		"INFO_REALIGN_3_PRIME,C"	del5960	CA18138C	del5960	ORF1AB:DEL5960	1559	ORF1b	del1559	ORF1B:DEL1559	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	18662	.	G	T	4061	PASS	1091	0.164986	0	"910,0,180,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18398G>T	p.Cys6133Phe	18398/21291	18398/21291	6133/7096	6133	7096		",T"	C6133F	G18662T	C6133F	ORF1AB:C6133F	1732	ORF1b	C1732F	ORF1B:C1732F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	18877	.	C	T	41873	PASS	2619	0.529973	0	"1226,0,1388,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	19398	.	G	T	1974	PASS	2422	0.049546	0	"2302,0,120,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19134G>T	p.Glu6378Asp	19134/21291	19134/21291	6378/7096	6378	7096		",T"	E6378D	G19398T	E6378D	ORF1AB:E6378D	1977	ORF1b	E1977D	ORF1B:E1977D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	19524	.	C	T	4994	PASS	2092	0.111377	0	"1856,0,233,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	19735	.	G	T	1675	PASS	1868	0.052998	0	"1769,0,99,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19471G>T	p.Asp6491Tyr	19471/21291	19471/21291	6491/7096	6491	7096		",T"	D6491Y	G19735T	D6491Y	ORF1AB:D6491Y	2090	ORF1b	D2090Y	ORF1B:D2090Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	20062	.	G	T	334	PASS	71	0.183099	0	"58,0,13,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19798G>T	p.Val6600Phe	19798/21291	19798/21291	6600/7096	6600	7096		",T"	V6600F	G20062T	V6600F	ORF1AB:V6600F	2199	ORF1b	V2199F	ORF1B:V2199F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	20530	.	G	A	2477	PASS	1675	0.077612	0	"1545,0,130,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20266G>A	p.Glu6756Lys	20266/21291	20266/21291	6756/7096	6756	7096		",A"	E6756K	G20530A	E6756K	ORF1AB:E6756K	2355	ORF1b	E2355K	ORF1B:E2355K	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	20676	.	A	G	2448	PASS	2551	0.083105	0	"2335,0,212,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20412A>G	p.Gln6804Gln	20412/21291	20412/21291	6804/7096	6804	7096		",G"	Q6804Q	A20676G	Q6804Q	ORF1AB:Q6804Q	2403	ORF1b	Q2403Q	ORF1B:Q2403Q	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	20742	.	A	C	9694	PASS	2721	0.158765	0	"2289,0,432,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	20761	.	A	G	248	PASS	2878	0.012509	0	"2841,0,36,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20497A>G	p.Thr6833Ala	20497/21291	20497/21291	6833/7096	6833	7096		",G"	T6833A	A20761G	T6833A	ORF1AB:T6833A	2432	ORF1b	T2432A	ORF1B:T2432A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	20792	.	C	CA	5343	PASS	2751	0.071974	0	"2553,0,198,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20532dupA	p.Tyr6845fs	20533/21291	20533/21291	6845/7096	6845	7096		"INFO_REALIGN_3_PRIME,CA"	del6845	C20792CA	del6845	ORF1AB:DEL6845	2444	ORF1b	del2444	ORF1B:DEL2444	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	20823	.	C	T	4673	PASS	2609	0.090839	0	"2370,0,237,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20559C>T	p.Asn6853Asn	20559/21291	20559/21291	6853/7096	6853	7096		",T"	N6853N	C20823T	N6853N	ORF1AB:N6853N	2452	ORF1b	N2452N	ORF1B:N2452N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	21255	.	G	C	33539	PASS	2311	0.491562	0	"1170,0,1136,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	21270	.	AT	A	79	PASS	2280	0.002632	0	"2283,0,6,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21011delT	p.Leu7004fs	21011/21291	21011/21291	7004/7096	7004	7096		"INFO_REALIGN_3_PRIME,A"	del7004	AT21270A	del7004	ORF1AB:DEL7004	2603	ORF1b	del2603	ORF1B:DEL2603	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	21568	.	T	A	191	PASS	1866	0.010718	0	"1843,0,20,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.6T>A	p.Phe2Leu	6/3822	6/3822	2/1273	2	1273		",A"	F2L	T21568A	F2L	S:F2L	2	S	F2L	S:F2L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	21661	.	A	G	99	PASS	1301	0.012298	0	"1284,0,16,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.99A>G	p.Thr33Thr	99/3822	99/3822	33/1273	33	1273		",G"	T33T	A21661G	T33T	S:T33T	33	S	T33T	S:T33T	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	21812	.	C	T	634	PASS	530	0.071698	0	"491,0,38,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.250C>T	p.Leu84Leu	250/3822	250/3822	84/1273	84	1273		",T"	L84L	C21812T	L84L	S:L84L	84	S	L84L	S:L84L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	21855	.	C	T	869	PASS	559	0.080501	0	"513,0,45,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22020	.	T	C	1449	PASS	473	0.139535	0	"407,0,66,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.458T>C	p.Met153Thr	458/3822	458/3822	153/1273	153	1273		",C"	M153T	T22020C	M153T	S:M153T	153	S	M153T	S:M153T	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22227	.	C	T	1373	PASS	280	0.214286	0	"219,0,60,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22300	.	A	G	187	PASS	99	0.090909	0	"90,0,9,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.738A>G	p.Arg246Arg	738/3822	738/3822	246/1273	246	1273		",G"	R246R	A22300G	R246R	S:R246R	246	S	R246R	S:R246R	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22346	.	G	T	83	PASS	49	0.102041	0	"44,0,5,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.784G>T	p.Ala262Ser	784/3822	784/3822	262/1273	262	1273		",T"	A262S	G22346T	A262S	S:A262S	262	S	A262S	S:A262S	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22377	.	C	T	186	PASS	54	0.148148	0	"46,0,8,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.815C>T	p.Pro272Leu	815/3822	815/3822	272/1273	272	1273		",T"	P272L	C22377T	P272L	S:P272L	272	S	P272L	S:P272L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22444	.	C	T	214	PASS	55	0.2	0	"44,0,11,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.882C>T	p.Asp294Asp	882/3822	882/3822	294/1273	294	1273		",T"	D294D	C22444T	D294D	S:D294D	294	S	D294D	S:D294D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22585	.	TTTTA	T	165	PASS	80	0.075	0	"75,0,6,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1024_1027delTTTA	p.Phe342fs	1024/3822	1024/3822	342/1273	342	1273		",T"	del342	TTTTA22585T	del342	S:DEL342	342	S	del342	S:DEL342	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22858	.	C	T	583	PASS	582	0.060137	0	"546,0,35,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1296C>T	p.Cys432Cys	1296/3822	1296/3822	432/1273	432	1273		",T"	C432C	C22858T	C432C	S:C432C	432	S	C432C	S:C432C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	22992	.	G	A	8619	PASS	755	0.418543	0	"439,0,316,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	23403	.	A	G	19977	PASS	580	0.998276	2147483647	"0,0,579,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	23486	.	GT	G	2105	PASS	419	0.176611	0	"345,0,74,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1929delT	p.Gln644fs	1929/3822	1929/3822	643/1273	643	1273		"INFO_REALIGN_3_PRIME,G"	del644	GT23486G	del644	S:DEL644	644	S	del644	S:DEL644	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	23948	.	G	T	298	PASS	305	0.04918	0	"290,0,15,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	23953	.	T	C	610	PASS	286	0.101399	0	"257,0,29,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2391T>C	p.Phe797Phe	2391/3822	2391/3822	797/1273	797	1273		",C"	F797F	T23953C	F797F	S:F797F	797	S	F797F	S:F797F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	23958	.	G	GT	722	PASS	288	0.09375	0	"265,0,27,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	24119	.	CA	C	147	PASS	201	0.029851	0	"195,0,6,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2561delA	p.Lys854fs	2561/3822	2561/3822	854/1273	854	1273		"INFO_REALIGN_3_PRIME,C"	del854	CA24119C	del854	S:DEL854	854	S	del854	S:DEL854	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	24358	.	C	CA	212	PASS	347	0.025937	0	"338,0,9,0"	TRUE	CA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2800dupA	p.Ile934fs	2801/3822	2801/3822	934/1273	934	1273		"INFO_REALIGN_3_PRIME,CA"	del934	C24358CA	del934	S:DEL934	934	S	del934	S:DEL934	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	24368	.	G	T	1469	PASS	426	0.147887	0	"363,0,63,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2806G>T	p.Asp936Tyr	2806/3822	2806/3822	936/1273	936	1273		",T"	D936Y	G24368T	D936Y	S:D936Y	936	S	D936Y	S:D936Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	24436	.	T	C	2950	PASS	939	0.142705	0	"805,0,134,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2874T>C	p.Ala958Ala	2874/3822	2874/3822	958/1273	958	1273		",C"	A958A	T24436C	A958A	S:A958A	958	S	A958A	S:A958A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	24933	.	G	T	1693	PASS	1620	0.060494	0	"1522,0,98,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3371G>T	p.Gly1124Val	3371/3822	3371/3822	1124/1273	1124	1273		",T"	G1124V	G24933T	G1124V	S:G1124V	1124	S	G1124V	S:G1124V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25033	.	G	T	2402	PASS	1897	0.068002	0	"1768,0,129,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3471G>T	p.Lys1157Asn	3471/3822	3471/3822	1157/1273	1157	1273		",T"	K1157N	G25033T	K1157N	S:K1157N	1157	S	K1157N	S:K1157N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25047	.	C	G	2386	PASS	2229	0.068641	0	"2076,0,153,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3485C>G	p.Pro1162Arg	3485/3822	3485/3822	1162/1273	1162	1273		",G"	P1162R	C25047G	P1162R	S:P1162R	1162	S	P1162R	S:P1162R	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25124	.	G	A	6223	PASS	1743	0.156627	0	"1468,0,273,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3562G>A	p.Glu1188Lys	3562/3822	3562/3822	1188/1273	1188	1273		",A"	E1188K	G25124A	E1188K	S:E1188K	1188	S	E1188K	S:E1188K	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25135	.	G	T	757	PASS	1638	0.032967	0	"1584,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3573G>T	p.Lys1191Asn	3573/3822	3573/3822	1191/1273	1191	1273		",T"	K1191N	G25135T	K1191N	S:K1191N	1191	S	K1191N	S:K1191N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25216	.	A	T	161	PASS	1433	0.023029	0	"1393,0,33,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25225	.	A	C	166	PASS	1492	0.022788	0	"1454,0,34,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25228	.	T	G	100	PASS	1484	0.018194	0	"1455,0,27,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25234	.	G	T	132	PASS	1514	0.022457	0	"1478,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3672G>T	p.Leu1224Phe	3672/3822	3672/3822	1224/1273	1224	1273		",T"	L1224F	G25234T	L1224F	S:L1224F	1224	S	L1224F	S:L1224F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25240	.	C	A	276	PASS	1545	0.038188	0	"1485,0,59,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25244	.	G	T	128	PASS	1600	0.0225	0	"1564,0,36,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25247	.	A	T	388	PASS	1601	0.044972	0	"1526,0,72,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25252	.	G	C	94	PASS	1628	0.022113	0	"1558,0,36,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>C	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",C"	V1230V	G25252C	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25252	.	G	T	77	PASS	1628	0.02027	0	"1558,0,33,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>T	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",T"	V1230V	G25252T	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25254	.	C	A	308	PASS	1686	0.038553	0	"1621,0,65,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25256	.	A	T	84	PASS	1704	0.019366	0	"1671,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3694A>T	p.Ile1232Phe	3694/3822	3694/3822	1232/1273	1232	1273		",T"	I1232F	A25256T	I1232F	S:I1232F	1232	S	I1232F	S:I1232F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25269	.	G	T	101	PASS	1576	0.023477	0	"1539,0,37,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3707G>T	p.Cys1236Phe	3707/3822	3707/3822	1236/1273	1236	1273		",T"	C1236F	G25269T	C1236F	S:C1236F	1236	S	C1236F	S:C1236F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25273	.	G	C	255	PASS	1589	0.040906	0	"1517,0,65,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25274	.	A	C	93	PASS	1592	0.024497	0	"1552,0,39,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3712A>C	p.Thr1238Pro	3712/3822	3712/3822	1238/1273	1238	1273		",C"	T1238P	A25274C	T1238P	S:T1238P	1238	S	T1238P	S:T1238P	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25277	.	A	T	658	PASS	1571	0.071929	0	"1443,0,113,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25280	.	T	G	95	PASS	1598	0.025657	0	"1554,0,41,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25284	.	G	T	80	PASS	1607	0.02178	0	"1572,0,35,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3722G>T	p.Cys1241Phe	3722/3822	3722/3822	1241/1273	1241	1273		",T"	C1241F	G25284T	C1241F	S:C1241F	1241	S	C1241F	S:C1241F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25286	.	A	T	401	PASS	1623	0.055453	0	"1507,0,90,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25289	.	T	G	74	PASS	1597	0.023795	0	"1558,0,38,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25296	.	A	C	1048	PASS	1620	0.098765	0	"1375,0,160,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25296	.	A	T	267	PASS	1620	0.047531	0	"1375,0,77,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25312	.	T	G	155	PASS	1670	0.034731	0	"1610,0,58,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25314	.	G	T	235	PASS	1671	0.04608	0	"1578,0,77,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25316	.	T	C	82	PASS	1697	0.030053	0	"1608,0,51,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3754T>C	p.Ser1252Pro	3754/3822	3754/3822	1252/1273	1252	1273		",C"	S1252P	T25316C	S1252P	S:S1252P	1252	S	S1252P	S:S1252P	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25323	.	G	C	598	PASS	1649	0.07641	0	"1496,0,126,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25324	.	C	A	3888	PASS	1659	0.214587	0	"1303,0,356,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25327	.	A	T	449	PASS	1659	0.066305	0	"1548,0,110,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25331	.	G	T	348	PASS	1628	0.062039	0	"1504,0,101,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25334	.	G	C	333	PASS	1614	0.062577	0	"1475,0,101,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25336	.	A	C	1853	PASS	1637	0.152718	0	"1383,0,250,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25337	.	G	C	708	PASS	1582	0.093552	0	"1434,0,148,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25383	.	A	G	6449	PASS	1995	0.14787	0	"1700,0,295,0"	FALSE	G	splice_region_variant&stop_retained_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3821A>G	p.Ter1274Ter	3821/3822	3821/3822	1274/1273	1274	1273		",G"	Ter1274Ter	A25383G	Ter1274Ter	S:TER1274TER	1274	S	Ter1274Ter	S:TER1274TER	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25505	.	A	G	632	PASS	1676	0.03043	0	"1624,0,51,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25563	.	G	T	48515	PASS	1482	0.939271	0	"89,0,1392,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25589	.	A	G	1646	PASS	1572	0.063613	0	"1470,0,100,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.197A>G	p.Lys66Arg	197/828	197/828	66/275	66	275		",G"	K66R	A25589G	K66R	ORF3A:K66R	66	ORF3a	K66R	ORF3A:K66R	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25641	.	G	C	1969	PASS	1403	0.079829	0	"1289,0,112,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.249G>C	p.Leu83Phe	249/828	249/828	83/275	83	275		",C"	L83F	G25641C	L83F	ORF3A:L83F	83	ORF3a	L83F	ORF3A:L83F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25710	.	C	T	22897	PASS	866	0.795612	0	"175,0,689,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25906	.	G	C	2581	PASS	302	0.321192	0	"204,0,97,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	25996	.	G	T	2472	PASS	333	0.285285	0	"238,0,95,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	26038	.	T	C	727	PASS	290	0.124138	0	"254,0,36,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	26062	.	G	T	670	PASS	290	0.110345	0	"258,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	26094	.	TA	T	776	PASS	531	0.05838	0	"501,0,31,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.706delA	p.Ile236fs	706/828	706/828	236/275	236	275		"INFO_REALIGN_3_PRIME,T"	del236	TA26094T	del236	ORF3A:DEL236	236	ORF3a	del236	ORF3A:DEL236	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	26735	.	C	T	34978	PASS	1754	0.633979	0	"641,0,1112,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	26801	.	C	G	963	PASS	1587	0.037177	0	"1528,0,59,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	26876	.	T	C	13306	PASS	940	0.496808	0	"473,0,467,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	27434	.	C	T	5552	PASS	1729	0.146906	0	"1473,0,254,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	27600	.	C	T	5452	PASS	2453	0.109662	0	"2182,0,269,0"	FALSE	T	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.207C>T	p.Asp69Asp	207/366	207/366	69/121	69	121		",T"	D69D	C27600T	D69D	ORF7A:D69D	69	ORF7a	D69D	ORF7A:D69D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	27712	.	A	G	5849	PASS	2482	0.109992	0	"2207,0,273,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.319A>G	p.Ile107Val	319/366	319/366	107/121	107	121		",G"	I107V	A27712G	I107V	ORF7A:I107V	107	ORF7a	I107V	ORF7A:I107V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	27944	.	C	T	381	PASS	2297	0.016108	0	"2260,0,37,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28086	.	G	T	1690	PASS	1493	0.069658	0	"1387,0,104,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.193G>T	p.Ala65Ser	193/366	193/366	65/121	65	121		",T"	A65S	G28086T	A65S	ORF8:A65S	65	ORF8	A65S	ORF8:A65S	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28209	.	G	T	1804	PASS	1549	0.069722	0	"1440,0,108,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.316G>T	p.Glu106*	316/366	316/366	106/121	106	121		",T"	E106*	G28209T	E106*	ORF8:E106*	106	ORF8	E106*	ORF8:E106*	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28254	.	A	C	66	PASS	1552	0.008376	0	"1538,0,13,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28346	.	G	T	1289	PASS	1913	0.051751	0	"1813,0,99,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.73G>T	p.Gly25Cys	73/1260	73/1260	25/419	25	419		",T"	G25C	G28346T	G25C	N:G25C	25	N	G25C	N:G25C	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28588	.	T	C	7308	PASS	3154	0.123335	0	"2759,0,389,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.315T>C	p.Ser105Ser	315/1260	315/1260	105/419	105	419		",C"	S105S	T28588C	S105S	N:S105S	105	N	S105S	N:S105S	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28649	.	A	G	260	PASS	3259	0.010126	0	"3223,0,33,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.376A>G	p.Asn126Asp	376/1260	376/1260	126/419	126	419		",G"	N126D	A28649G	N126D	N:N126D	126	N	N126D	N:N126D	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28651	.	C	T	26837	PASS	3216	0.316542	0	"2194,0,1018,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28690	.	G	A	6607	PASS	3888	0.087706	0	"3545,0,341,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.417G>A	p.Leu139Leu	417/1260	417/1260	139/419	139	419		",A"	L139L	G28690A	L139L	N:L139L	139	N	L139L	N:L139L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28698	.	CAA	C	695	PASS	3986	0.062218	0	"3738,0,248,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.428_429delAA	p.Lys143fs	428/1260	428/1260	143/419	143	419		"INFO_REALIGN_3_PRIME,C"	del143	CAA28698C	del143	N:DEL143	143	N	del143	N:DEL143	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28703	.	G	T	819	PASS	4102	0.061921	0	"3832,0,254,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.430G>T	p.Asp144Tyr	430/1260	430/1260	144/419	144	419		",T"	D144Y	G28703T	D144Y	N:D144Y	144	N	D144Y	N:D144Y	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28798	.	G	T	7373	PASS	4826	0.082677	0	"4425,0,399,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>T	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",T"	G175G	G28798T	G175G	N:G175G	175	N	G175G	N:G175G	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28869	.	C	T	37062	PASS	4161	0.329728	0	"2788,0,1372,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28881	.	G	A	5191	PASS	3958	0.075543	0	"3652,0,299,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28882	.	G	A	4737	PASS	4006	0.074139	0	"3703,0,297,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28883	.	G	C	5074	PASS	4003	0.075194	0	"3698,0,301,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28899	.	G	T	6175	PASS	4116	0.077502	0	"3797,0,319,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.626G>T	p.Arg209Ile	626/1260	626/1260	209/419	209	419		",T"	R209I	G28899T	R209I	N:R209I	209	N	R209I	N:R209I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28932	.	C	T	16377	PASS	4050	0.181235	0	"3313,0,734,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28975	.	G	C	44544	PASS	3894	0.403698	0	"2319,0,1572,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	28987	.	CCAA	C	246	PASS	3562	0.004211	0	"3565,0,15,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	29035	.	T	C	4593	PASS	3261	0.084637	0	"2983,0,276,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.762T>C	p.Ala254Ala	762/1260	762/1260	254/419	254	419		",C"	A254A	T29035C	A254A	N:A254A	254	N	A254A	N:A254A	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	29051	.	C	CAA	9366	PASS	3054	0.110347	0	"2717,0,337,0"	TRUE	CAA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.782_783dupAA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CAA"	del262	C29051CAA	del262	N:DEL262	262	N	del262	N:DEL262	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG30	NC_045512.2	29095	.	C	T	4279	PASS	2539	0.087436	0	"2314,0,222,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.822C>T	p.Phe274Phe	822/1260	822/1260	274/419	274	419		",T"	F274F	C29095T	F274F	N:F274F	274	N	F274F	N:F274F	BEG30	BEGGEN	2020-10-20T00:00:00Z	30.11025	34.31333333	x	14122020	2020-10-20
BEG31	NC_045512.2	210	.	G	T	3925	PASS	3533	0.064534	0	"3303,0,228,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-56G>T						NA	56	",T"		G210T		NA	NA	NA		NA	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	222	.	C	T	3200	PASS	3827	0.051215	0	"3628,0,196,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-44C>T						NA	44	",T"		C222T		NA	NA	NA		NA	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	241	.	C	T	49314	PASS	4108	0.998296	0	"5,0,4101,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	294	.	A	G	3656	PASS	3957	0.057619	0	"3728,0,228,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.29A>G	p.Glu10Gly	29/21291	29/21291	10/7096	10	7096		",G"	E10G	A294G	E10G	ORF1AB:E10G	10	ORF1a	E10G	ORF1A:E10G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	332	.	G	T	4146	PASS	4274	0.061301	0	"4011,0,262,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.67G>T	p.Val23Phe	67/21291	67/21291	23/7096	23	7096		",T"	V23F	G332T	V23F	ORF1AB:V23F	23	ORF1a	V23F	ORF1A:V23F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	335	.	C	T	13762	PASS	4245	0.142992	0	"3637,0,607,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	387	.	A	C	9026	PASS	4422	0.104251	0	"3959,0,461,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.122A>C	p.Glu41Ala	122/21291	122/21291	41/7096	41	7096		",C"	E41A	A387C	E41A	ORF1AB:E41A	41	ORF1a	E41A	ORF1A:E41A	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	445	.	T	C	4007	PASS	4783	0.063977	0	"4475,0,306,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	593	.	C	T	12315	PASS	4019	0.138841	0	"3460,0,558,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	606	.	T	C	387	PASS	3929	0.012217	0	"3879,0,48,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.341T>C	p.Ile114Thr	341/21291	341/21291	114/7096	114	7096		",C"	I114T	T606C	I114T	ORF1AB:I114T	114	ORF1a	I114T	ORF1A:I114T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	1026	.	C	CT	6740	PASS	3220	0.07795	0	"2969,0,251,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.765dupT	p.Glu256fs	766/21291	766/21291	256/7096	256	7096		"INFO_REALIGN_3_PRIME,CT"	del256	C1026CT	del256	ORF1AB:DEL256	256	ORF1a	del256	ORF1A:DEL256	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	1045	.	AAAG	A	7394	PASS	3386	0.078854	0	"3129,0,267,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.783_785delGAA	p.Lys262del	783/21291	783/21291	261/7096	261	7096		"INFO_REALIGN_3_PRIME,A"	del262	AAAG1045A	del262	ORF1AB:DEL262	262	ORF1a	del262	ORF1A:DEL262	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	1059	.	C	T	3648	PASS	3467	0.064032	0	"3241,0,222,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.794C>T	p.Thr265Ile	794/21291	794/21291	265/7096	265	7096		",T"	T265I	C1059T	T265I	ORF1AB:T265I	265	ORF1a	T265I	ORF1A:T265I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	1371	.	A	G	1529	PASS	2945	0.035314	0	"2838,0,104,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1106A>G	p.Tyr369Cys	1106/21291	1106/21291	369/7096	369	7096		",G"	Y369C	A1371G	Y369C	ORF1AB:Y369C	369	ORF1a	Y369C	ORF1A:Y369C	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	1438	.	TGG	T	6609	PASS	2473	0.095835	0	"2238,0,237,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1174_1175delGG	p.Gly392fs	1174/21291	1174/21291	392/7096	392	7096		",T"	del392	TGG1438T	del392	ORF1AB:DEL392	392	ORF1a	del392	ORF1A:DEL392	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	1813	.	TA	T	66	PASS	2361	0.003388	0	"2353,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1554delA	p.Gly519fs	1554/21291	1554/21291	518/7096	518	7096		"INFO_REALIGN_3_PRIME,T"	del519	TA1813T	del519	ORF1AB:DEL519	519	ORF1a	del519	ORF1A:DEL519	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	1845	.	A	T	5045	PASS	2386	0.106454	0	"2132,0,254,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1580A>T	p.Lys527Ile	1580/21291	1580/21291	527/7096	527	7096		",T"	K527I	A1845T	K527I	ORF1AB:K527I	527	ORF1a	K527I	ORF1A:K527I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	2061	.	C	T	1216	PASS	313	0.175719	0	"257,0,55,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1796C>T	p.Ala599Val	1796/21291	1796/21291	599/7096	599	7096		",T"	A599V	C2061T	A599V	ORF1AB:A599V	599	ORF1a	A599V	ORF1A:A599V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	2550	.	AT	A	48	PASS	975	0.003077	0	"974,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2288delT	p.Leu763fs	2288/21291	2288/21291	763/7096	763	7096		"INFO_REALIGN_3_PRIME,A"	del763	AT2550A	del763	ORF1AB:DEL763	763	ORF1a	del763	ORF1A:DEL763	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	3036	.	TC	T	63	PASS	1410	0.002837	0	"1408,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	3037	.	C	T	49314	PASS	1429	0.997201	2147483647	"0,0,1425,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	3076	.	A	G	1828	PASS	1455	0.08866	0	"1323,0,129,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2811A>G	p.Glu937Glu	2811/21291	2811/21291	937/7096	937	7096		",G"	E937E	A3076G	E937E	ORF1AB:E937E	937	ORF1a	E937E	ORF1A:E937E	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	3488	.	T	C	252	PASS	68	0.147059	0	"58,0,10,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3223T>C	p.Leu1075Leu	3223/21291	3223/21291	1075/7096	1075	7096		",C"	L1075L	T3488C	L1075L	ORF1AB:L1075L	1075	ORF1a	L1075L	ORF1A:L1075L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	3602	.	C	T	626	PASS	115	0.226087	0	"89,0,26,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	3653	.	C	T	613	PASS	172	0.156977	0	"144,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3388C>T	p.Leu1130Phe	3388/21291	3388/21291	1130/7096	1130	7096		",T"	L1130F	C3653T	L1130F	ORF1AB:L1130F	1130	ORF1a	L1130F	ORF1A:L1130F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	3802	.	TA	T	545	PASS	209	0.095694	0	"190,0,20,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3542delA	p.Asn1181fs	3542/21291	3542/21291	1181/7096	1181	7096		"INFO_REALIGN_3_PRIME,T"	del1181	TA3802T	del1181	ORF1AB:DEL1181	1181	ORF1a	del1181	ORF1A:DEL1181	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	4040	.	A	G	627	PASS	314	0.098726	0	"283,0,31,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	4543	.	C	T	6776	PASS	330	0.651515	0	"115,0,215,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	4642	.	G	A	630	PASS	320	0.109375	0	"283,0,35,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4377G>A	p.Leu1459Leu	4377/21291	4377/21291	1459/7096	1459	7096		",A"	L1459L	G4642A	L1459L	ORF1AB:L1459L	1459	ORF1a	L1459L	ORF1A:L1459L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	4886	.	C	T	1900	PASS	941	0.097768	0	"849,0,92,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4621C>T	p.Pro1541Ser	4621/21291	4621/21291	1541/7096	1541	7096		",T"	P1541S	C4886T	P1541S	ORF1AB:P1541S	1541	ORF1a	P1541S	ORF1A:P1541S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	5051	.	C	T	2399	PASS	1406	0.089616	0	"1277,0,126,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4786C>T	p.Pro1596Ser	4786/21291	4786/21291	1596/7096	1596	7096		",T"	P1596S	C5051T	P1596S	ORF1AB:P1596S	1596	ORF1a	P1596S	ORF1A:P1596S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	5249	.	A	T	961	PASS	1447	0.045612	0	"1381,0,66,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4984A>T	p.Asn1662Tyr	4984/21291	4984/21291	1662/7096	1662	7096		",T"	N1662Y	A5249T	N1662Y	ORF1AB:N1662Y	1662	ORF1a	N1662Y	ORF1A:N1662Y	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	5259	.	C	T	2411	PASS	1386	0.088023	0	"1263,0,122,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4994C>T	p.Thr1665Ile	4994/21291	4994/21291	1665/7096	1665	7096		",T"	T1665I	C5259T	T1665I	ORF1AB:T1665I	1665	ORF1a	T1665I	ORF1A:T1665I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	5629	.	G	T	6996	PASS	338	0.650888	0	"118,0,220,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6139	.	A	AT	455	PASS	464	0.040948	0	"446,0,19,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5879dupT	p.Asp1962fs	5880/21291	5880/21291	1960/7096	1960	7096		"INFO_REALIGN_3_PRIME,AT"	del1962	A6139AT	del1962	ORF1AB:DEL1962	1962	ORF1a	del1962	ORF1A:DEL1962	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6139	.	A	T	349	PASS	465	0.049462	0	"442,0,23,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5874A>T	p.Thr1958Thr	5874/21291	5874/21291	1958/7096	1958	7096		",T"	T1958T	A6139T	T1958T	ORF1AB:T1958T	1958	ORF1a	T1958T	ORF1A:T1958T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6280	.	A	G	1028	PASS	709	0.083216	0	"648,0,59,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6015A>G	p.Pro2005Pro	6015/21291	6015/21291	2005/7096	2005	7096		",G"	P2005P	A6280G	P2005P	ORF1AB:P2005P	2005	ORF1a	P2005P	ORF1A:P2005P	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6286	.	C	T	2509	PASS	692	0.166185	0	"574,0,115,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6366	.	A	T	748	PASS	640	0.064062	0	"598,0,41,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6101A>T	p.Gln2034Leu	6101/21291	6101/21291	2034/7096	2034	7096		",T"	Q2034L	A6366T	Q2034L	ORF1AB:Q2034L	2034	ORF1a	Q2034L	ORF1A:Q2034L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6464	.	A	G	68	PASS	671	0.010432	0	"664,0,7,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6199A>G	p.Lys2067Glu	6199/21291	6199/21291	2067/7096	2067	7096		",G"	K2067E	A6464G	K2067E	ORF1AB:K2067E	2067	ORF1a	K2067E	ORF1A:K2067E	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6589	.	G	GA	1036	PASS	620	0.06129	0	"583,0,38,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6327dupA	p.Pro2110fs	6328/21291	6328/21291	2110/7096	2110	7096		"INFO_REALIGN_3_PRIME,GA"	del2110	G6589GA	del2110	ORF1AB:DEL2110	2110	ORF1a	del2110	ORF1A:DEL2110	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6730	.	C	T	1590	PASS	354	0.189266	0	"286,0,67,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6465C>T	p.Asn2155Asn	6465/21291	6465/21291	2155/7096	2155	7096		",T"	N2155N	C6730T	N2155N	ORF1AB:N2155N	2155	ORF1a	N2155N	ORF1A:N2155N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	6941	.	C	T	2576	PASS	431	0.238979	0	"328,0,103,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	7393	.	G	T	217	PASS	147	0.07483	0	"136,0,11,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7128G>T	p.Pro2376Pro	7128/21291	7128/21291	2376/7096	2376	7096		",T"	P2376P	G7393T	P2376P	ORF1AB:P2376P	2376	ORF1a	P2376P	ORF1A:P2376P	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	8151	.	T	C	258	PASS	795	0.028931	0	"771,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7886T>C	p.Val2629Ala	7886/21291	7886/21291	2629/7096	2629	7096		",C"	V2629A	T8151C	V2629A	ORF1AB:V2629A	2629	ORF1a	V2629A	ORF1A:V2629A	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	8376	.	CA	C	229	PASS	1009	0.011893	0	"997,0,12,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	8498	.	G	T	1596	PASS	1068	0.083333	0	"978,0,89,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8233G>T	p.Ala2745Ser	8233/21291	8233/21291	2745/7096	2745	7096		",T"	A2745S	G8498T	A2745S	ORF1AB:A2745S	2745	ORF1a	A2745S	ORF1A:A2745S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	8765	.	T	G	82	PASS	1044	0.012452	0	"1031,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8500T>G	p.Phe2834Val	8500/21291	8500/21291	2834/7096	2834	7096		",G"	F2834V	T8765G	F2834V	ORF1AB:F2834V	2834	ORF1a	F2834V	ORF1A:F2834V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	8859	.	T	A	696	PASS	1063	0.06397	0	"993,0,68,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8594T>A	p.Val2865Asp	8594/21291	8594/21291	2865/7096	2865	7096		",A"	V2865D	T8859A	V2865D	ORF1AB:V2865D	2865	ORF1a	V2865D	ORF1A:V2865D	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	8950	.	C	T	928	PASS	719	0.06815	0	"669,0,49,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8685C>T	p.Ile2895Ile	8685/21291	8685/21291	2895/7096	2895	7096		",T"	I2895I	C8950T	I2895I	ORF1AB:I2895I	2895	ORF1a	I2895I	ORF1A:I2895I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	8983	.	T	G	1527	PASS	535	0.134579	0	"463,0,72,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	9440	.	T	G	290	PASS	3048	0.010499	0	"3013,0,32,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9175T>G	p.Cys3059Gly	9175/21291	9175/21291	3059/7096	3059	7096		",G"	C3059G	T9440G	C3059G	ORF1AB:C3059G	3059	ORF1a	C3059G	ORF1A:C3059G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	9526	.	G	T	49314	PASS	3766	0.681891	0	"1196,0,2568,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	9979	.	C	T	2547	PASS	3221	0.050605	0	"3056,0,163,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9714C>T	p.Leu3238Leu	9714/21291	9714/21291	3238/7096	3238	7096		",T"	L3238L	C9979T	L3238L	ORF1AB:L3238L	3238	ORF1a	L3238L	ORF1A:L3238L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	10087	.	TA	T	2443	PASS	1676	0.056086	0	"1600,0,94,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9825delA	p.Val3276fs	9825/21291	9825/21291	3275/7096	3275	7096		"INFO_REALIGN_3_PRIME,T"	del3276	TA10087T	del3276	ORF1AB:DEL3276	3276	ORF1a	del3276	ORF1A:DEL3276	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	10594	.	C	T	741	PASS	1027	0.048685	0	"974,0,50,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10329C>T	p.Asn3443Asn	10329/21291	10329/21291	3443/7096	3443	7096		",T"	N3443N	C10594T	N3443N	ORF1AB:N3443N	3443	ORF1a	N3443N	ORF1A:N3443N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	10619	.	C	A	1142	PASS	958	0.064718	0	"896,0,62,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10354C>A	p.Gln3452Lys	10354/21291	10354/21291	3452/7096	3452	7096		",A"	Q3452K	C10619A	Q3452K	ORF1AB:Q3452K	3452	ORF1a	Q3452K	ORF1A:Q3452K	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	10754	.	G	A	1191	PASS	840	0.080952	0	"772,0,68,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10489G>A	p.Ala3497Thr	10489/21291	10489/21291	3497/7096	3497	7096		",A"	A3497T	G10754A	A3497T	ORF1AB:A3497T	3497	ORF1a	A3497T	ORF1A:A3497T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	10761	.	A	G	1473	PASS	858	0.092075	0	"779,0,79,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10496A>G	p.Lys3499Arg	10496/21291	10496/21291	3499/7096	3499	7096		",G"	K3499R	A10761G	K3499R	ORF1AB:K3499R	3499	ORF1a	K3499R	ORF1A:K3499R	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	10847	.	T	C	853	PASS	835	0.065868	0	"779,0,55,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10582T>C	p.Cys3528Arg	10582/21291	10582/21291	3528/7096	3528	7096		",C"	C3528R	T10847C	C3528R	ORF1AB:C3528R	3528	ORF1a	C3528R	ORF1A:C3528R	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	11003	.	C	T	600	PASS	912	0.042763	0	"873,0,39,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10738C>T	p.His3580Tyr	10738/21291	10738/21291	3580/7096	3580	7096		",T"	H3580Y	C11003T	H3580Y	ORF1AB:H3580Y	3580	ORF1a	H3580Y	ORF1A:H3580Y	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	11082	.	TG	T	546	PASS	1157	0.021608	0	"1134,0,25,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	11095	.	C	T	1090	PASS	1195	0.065272	0	"1115,0,78,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10830C>T	p.Ala3610Ala	10830/21291	10830/21291	3610/7096	3610	7096		",T"	A3610A	C11095T	A3610A	ORF1AB:A3610A	3610	ORF1a	A3610A	ORF1A:A3610A	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	11167	.	A	T	632	PASS	886	0.044018	0	"846,0,39,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10902A>T	p.Ala3634Ala	10902/21291	10902/21291	3634/7096	3634	7096		",T"	A3634A	A11167T	A3634A	ORF1AB:A3634A	3634	ORF1a	A3634A	ORF1A:A3634A	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	11497	.	C	T	18570	PASS	960	0.623958	0	"360,0,599,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	12436	.	T	C	5206	PASS	912	0.22807	0	"704,0,208,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	12830	.	C	A	87	PASS	2012	0.008449	0	"1994,0,17,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12565C>A	p.Gln4189Lys	12565/21291	12565/21291	4189/7096	4189	7096		",A"	Q4189K	C12830A	Q4189K	ORF1AB:Q4189K	4189	ORF1a	Q4189K	ORF1A:Q4189K	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	13354	.	T	C	479	PASS	2921	0.014036	0	"2880,0,41,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13089T>C	p.Phe4363Phe	13089/21291	13089/21291	4363/7096	4363	7096		",C"	F4363F	T13354C	F4363F	ORF1AB:F4363F	4363	ORF1a	F4363F	ORF1A:F4363F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	13414	.	T	C	427	PASS	2917	0.021598	0	"2851,0,63,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13149T>C	p.Cys4383Cys	13149/21291	13149/21291	4383/7096	4383	7096		",C"	C4383C	T13414C	C4383C	ORF1AB:C4383C	4383	ORF1a	C4383C	ORF1A:C4383C	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	13512	.	A	G	146	PASS	2200	0.009545	0	"2177,0,21,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13248A>G	p.Thr4416Thr	13248/21291	13248/21291	4416/7096	4416	7096		",G"	T4416T	A13512G	T4416T	ORF1AB:T4416T	15	ORF1b	T15T	ORF1B:T15T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	13618	.	G	A	2724	PASS	1794	0.085284	0	"1640,0,153,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13354G>A	p.Asp4452Asn	13354/21291	13354/21291	4452/7096	4452	7096		",A"	D4452N	G13618A	D4452N	ORF1AB:D4452N	51	ORF1b	D51N	ORF1B:D51N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	13993	.	G	T	30853	PASS	1666	0.606843	0	"655,0,1011,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	14751	.	A	G	743	PASS	1526	0.03211	0	"1476,0,49,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14487A>G	p.Leu4829Leu	14487/21291	14487/21291	4829/7096	4829	7096		",G"	L4829L	A14751G	L4829L	ORF1AB:L4829L	428	ORF1b	L428L	ORF1B:L428L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	15324	.	C	T	7433	PASS	710	0.376056	0	"443,0,267,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	15766	.	G	T	5780	PASS	425	0.465882	0	"227,0,198,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	15936	.	A	C	285	PASS	86	0.139535	0	"74,0,12,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15672A>C	p.Pro5224Pro	15672/21291	15672/21291	5224/7096	5224	7096		",C"	P5224P	A15936C	P5224P	ORF1AB:P5224P	823	ORF1b	P823P	ORF1B:P823P	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	16008	.	TG	T	304	PASS	103	0.106796	0	"94,0,11,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15745delG	p.Glu5249fs	15745/21291	15745/21291	5249/7096	5249	7096		",T"	del5249	TG16008T	del5249	ORF1AB:DEL5249	848	ORF1b	del848	ORF1B:DEL848	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	16338	.	C	T	196	PASS	2174	0.01058	0	"2148,0,23,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16074C>T	p.Val5358Val	16074/21291	16074/21291	5358/7096	5358	7096		",T"	V5358V	C16338T	V5358V	ORF1AB:V5358V	957	ORF1b	V957V	ORF1B:V957V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	16746	.	TA	T	10836	PASS	4360	0.088991	0	"4020,0,388,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16485delA	p.Lys5495fs	16485/21291	16485/21291	5495/7096	5495	7096		"INFO_REALIGN_3_PRIME,T"	del5495	TA16746T	del5495	ORF1AB:DEL5495	1094	ORF1b	del1094	ORF1B:DEL1094	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	16837	.	GA	G	8324	PASS	3633	0.086155	0	"3330,0,313,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	16838	.	A	G	4679	PASS	3647	0.076227	0	"3051,0,278,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16574A>G	p.Glu5525Gly	16574/21291	16574/21291	5525/7096	5525	7096		",G"	E5525G	A16838G	E5525G	ORF1AB:E5525G	1124	ORF1b	E1124G	ORF1B:E1124G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	16889	.	A	G	49314	PASS	3215	0.586003	0	"1330,0,1884,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	17019	.	G	T	24450	PASS	1521	0.533859	0	"707,0,812,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	17635	.	A	G	200	PASS	1788	0.010626	0	"1769,0,19,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17371A>G	p.Lys5791Glu	17371/21291	17371/21291	5791/7096	5791	7096		",G"	K5791E	A17635G	K5791E	ORF1AB:K5791E	1390	ORF1b	K1390E	ORF1B:K1390E	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	17654	.	A	G	3698	PASS	2001	0.091454	0	"1818,0,183,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17390A>G	p.Lys5797Arg	17390/21291	17390/21291	5797/7096	5797	7096		",G"	K5797R	A17654G	K5797R	ORF1AB:K5797R	1396	ORF1b	K1396R	ORF1B:K1396R	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	17984	.	A	T	4570	PASS	2701	0.085154	0	"2467,0,230,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17720A>T	p.Asp5907Val	17720/21291	17720/21291	5907/7096	5907	7096		",T"	D5907V	A17984T	D5907V	ORF1AB:D5907V	1506	ORF1b	D1506V	ORF1B:D1506V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	18368	.	GT	G	351	PASS	146	0.089041	0	"133,0,13,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18109delT	p.Ser6037fs	18109/21291	18109/21291	6037/7096	6037	7096		"INFO_REALIGN_3_PRIME,G"	del6037	GT18368G	del6037	ORF1AB:DEL6037	1636	ORF1b	del1636	ORF1B:DEL1636	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	18677	.	G	T	2738	PASS	1226	0.108483	0	"1093,0,133,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18413G>T	p.Arg6138Leu	18413/21291	18413/21291	6138/7096	6138	7096		",T"	R6138L	G18677T	R6138L	ORF1AB:R6138L	1737	ORF1b	R1737L	ORF1B:R1737L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	18732	.	TG	T	7871	PASS	2131	0.131863	0	"1850,0,281,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18470delG	p.Gly6157fs	18470/21291	18470/21291	6157/7096	6157	7096		"INFO_REALIGN_3_PRIME,T"	del6157	TG18732T	del6157	ORF1AB:DEL6157	1756	ORF1b	del1756	ORF1B:DEL1756	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	18877	.	C	T	30440	PASS	2847	0.381454	0	"1760,0,1086,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	18990	.	T	TA	12355	PASS	3968	0.106855	0	"3545,0,424,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18729dupA	p.Ala6244fs	18730/21291	18730/21291	6244/7096	6244	7096		"INFO_REALIGN_3_PRIME,TA"	del6244	T18990TA	del6244	ORF1AB:DEL6244	1843	ORF1b	del1843	ORF1B:DEL1843	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	20742	.	A	C	3111	PASS	1888	0.085275	0	"1727,0,161,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	21220	.	G	T	2648	PASS	1897	0.078018	0	"1744,0,148,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20956G>T	p.Ala6986Ser	20956/21291	20956/21291	6986/7096	6986	7096		",T"	A6986S	G21220T	A6986S	ORF1AB:A6986S	2585	ORF1b	A2585S	ORF1B:A2585S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	21255	.	G	C	34075	PASS	2323	0.494189	0	"1174,0,1148,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	21444	.	A	T	6463	PASS	1730	0.162428	0	"1449,0,281,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21180A>T	p.Leu7060Phe	21180/21291	21180/21291	7060/7096	7060	7096		",T"	L7060F	A21444T	L7060F	ORF1AB:L7060F	2659	ORF1b	L2659F	ORF1B:L2659F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	21549	.	C	T	3182	PASS	1654	0.098549	0	"1490,0,163,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21285C>T	p.Asn7095Asn	21285/21291	21285/21291	7095/7096	7095	7096		",T"	N7095N	C21549T	N7095N	ORF1AB:N7095N	2694	ORF1b	N2694N	ORF1B:N2694N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	21668	.	GT	G	65	PASS	913	0.004381	0	"928,0,4,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.109delT	p.Tyr37fs	109/3822	109/3822	37/1273	37	1273		"INFO_REALIGN_3_PRIME,G"	del37	GT21668G	del37	S:DEL37	37	S	del37	S:DEL37	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	21855	.	C	T	1655	PASS	79	0.670886	0	"26,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	22009	.	CA	C	66	PASS	47	0.06383	0	"44,0,3,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.451delA	p.Ser151fs	451/3822	451/3822	151/1273	151	1273		"INFO_REALIGN_3_PRIME,C"	del151	CA22009C	del151	S:DEL151	151	S	del151	S:DEL151	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	22227	.	C	T	82	PASS	30	0.133333	0	"26,0,4,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	22992	.	G	A	5170	PASS	331	0.531722	0	"154,0,176,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	23236	.	G	T	322	PASS	461	0.043384	0	"441,0,20,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1674G>T	p.Lys558Asn	1674/3822	1674/3822	558/1273	558	1273		",T"	K558N	G23236T	K558N	S:K558N	558	S	K558N	S:K558N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	23403	.	A	G	21472	PASS	619	1	2147483647	"0,0,619,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	23568	.	GTA	G	525	PASS	612	0.034314	0	"592,0,21,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2010_2011delAT	p.Ile670fs	2010/3822	2010/3822	670/1273	670	1273		"INFO_REALIGN_3_PRIME,G"	del670	GTA23568G	del670	S:DEL670	670	S	del670	S:DEL670	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	23848	.	A	G	370	PASS	511	0.046967	0	"486,0,24,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2286A>G	p.Gln762Gln	2286/3822	2286/3822	762/1273	762	1273		",G"	Q762Q	A23848G	Q762Q	S:Q762Q	762	S	Q762Q	S:Q762Q	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	23958	.	G	GT	372	PASS	278	0.053957	0	"271,0,15,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	24214	.	TG	T	127	PASS	81	0.061728	0	"76,0,5,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2654delG	p.Gly885fs	2654/3822	2654/3822	885/1273	885	1273		"INFO_REALIGN_3_PRIME,T"	del885	TG24214T	del885	S:DEL885	885	S	del885	S:DEL885	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	24236	.	G	T	315	PASS	83	0.168675	0	"69,0,14,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2674G>T	p.Ala892Ser	2674/3822	2674/3822	892/1273	892	1273		",T"	A892S	G24236T	A892S	S:A892S	892	S	A892S	S:A892S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	24536	.	CA	C	122	PASS	646	0.009288	0	"640,0,6,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2977delA	p.Ile993fs	2977/3822	2977/3822	993/1273	993	1273		"INFO_REALIGN_3_PRIME,C"	del993	CA24536C	del993	S:DEL993	993	S	del993	S:DEL993	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	24589	.	T	C	1799	PASS	725	0.121379	0	"637,0,88,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3027T>C	p.Thr1009Thr	3027/3822	3027/3822	1009/1273	1009	1273		",C"	T1009T	T24589C	T1009T	S:T1009T	1009	S	T1009T	S:T1009T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	24878	.	CA	C	3872	PASS	1028	0.131323	0	"893,0,135,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3319delA	p.Arg1107fs	3319/3822	3319/3822	1107/1273	1107	1273		"INFO_REALIGN_3_PRIME,C"	del1107	CA24878C	del1107	S:DEL1107	1107	S	del1107	S:DEL1107	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25124	.	G	T	495	PASS	1476	0.0271	0	"1436,0,40,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3562G>T	p.Glu1188*	3562/3822	3562/3822	1188/1273	1188	1273		",T"	E1188*	G25124T	E1188*	S:E1188*	1188	S	E1188*	S:E1188*	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25161	.	T	C	170	PASS	1442	0.011789	0	"1425,0,17,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3599T>C	p.Leu1200Pro	3599/3822	3599/3822	1200/1273	1200	1273		",C"	L1200P	T25161C	L1200P	S:L1200P	1200	S	L1200P	S:L1200P	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25216	.	A	T	174	PASS	1459	0.023989	0	"1411,0,35,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25225	.	A	C	201	PASS	1484	0.02628	0	"1436,0,39,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25234	.	G	T	108	PASS	1506	0.020584	0	"1473,0,31,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3672G>T	p.Leu1224Phe	3672/3822	3672/3822	1224/1273	1224	1273		",T"	L1224F	G25234T	L1224F	S:L1224F	1224	S	L1224F	S:L1224F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25240	.	C	A	152	PASS	1526	0.028834	0	"1480,0,44,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25244	.	G	T	190	PASS	1576	0.027919	0	"1532,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25247	.	A	T	251	PASS	1588	0.035264	0	"1528,0,56,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25252	.	G	C	189	PASS	1625	0.030154	0	"1549,0,49,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>C	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",C"	V1230V	G25252C	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25254	.	C	A	390	PASS	1689	0.044997	0	"1613,0,76,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25259	.	A	T	74	PASS	1721	0.019175	0	"1686,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25273	.	G	C	178	PASS	1638	0.032967	0	"1576,0,54,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25274	.	A	C	78	PASS	1645	0.021277	0	"1609,0,35,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3712A>C	p.Thr1238Pro	3712/3822	3712/3822	1238/1273	1238	1273		",C"	T1238P	A25274C	T1238P	S:T1238P	1238	S	T1238P	S:T1238P	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25277	.	A	T	529	PASS	1636	0.060513	0	"1523,0,99,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25280	.	T	G	97	PASS	1674	0.02509	0	"1626,0,42,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25286	.	A	T	481	PASS	1694	0.057851	0	"1567,0,98,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25289	.	T	G	66	PASS	1658	0.021713	0	"1622,0,36,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25296	.	A	C	1362	PASS	1682	0.111177	0	"1418,0,187,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25296	.	A	T	198	PASS	1682	0.039834	0	"1418,0,67,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25300	.	C	G	75	PASS	1651	0.026651	0	"1601,0,44,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3738C>G	p.Gly1246Gly	3738/3822	3738/3822	1246/1273	1246	1273		",G"	G1246G	C25300G	G1246G	S:G1246G	1246	S	G1246G	S:G1246G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25312	.	T	G	220	PASS	1693	0.041937	0	"1620,0,71,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25314	.	G	T	158	PASS	1725	0.037681	0	"1646,0,65,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25316	.	T	C	71	PASS	1747	0.026903	0	"1671,0,47,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3754T>C	p.Ser1252Pro	3754/3822	3754/3822	1252/1273	1252	1273		",C"	S1252P	T25316C	S1252P	S:S1252P	1252	S	S1252P	S:S1252P	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25317	.	C	T	3640	PASS	1709	0.131071	0	"1480,0,224,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25323	.	G	C	603	PASS	1660	0.077711	0	"1505,0,129,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25324	.	C	A	3719	PASS	1661	0.204094	0	"1321,0,339,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25327	.	A	T	356	PASS	1648	0.058859	0	"1551,0,97,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25331	.	G	T	234	PASS	1637	0.050703	0	"1536,0,83,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25334	.	G	C	645	PASS	1623	0.085644	0	"1436,0,139,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25336	.	A	C	1820	PASS	1644	0.149635	0	"1392,0,246,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25337	.	G	C	853	PASS	1584	0.101641	0	"1423,0,161,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25489	.	G	T	1752	PASS	1779	0.057336	0	"1674,0,102,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.97G>T	p.Ala33Ser	97/828	97/828	33/275	33	275		",T"	A33S	G25489T	A33S	ORF3A:A33S	33	ORF3a	A33S	ORF3A:A33S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25505	.	A	G	19491	PASS	1412	0.467422	0	"751,0,660,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25555	.	G	GT	150	PASS	1391	0.00647	0	"1382,0,9,0"	TRUE	GT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.168dupT	p.Gln57fs	169/828	169/828	57/275	57	275		"INFO_REALIGN_3_PRIME,GT"	del57	G25555GT	del57	ORF3A:DEL57	57	ORF3a	del57	ORF3A:DEL57	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25563	.	G	T	14593	PASS	1460	0.358219	0	"936,0,523,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25710	.	C	T	13500	PASS	1291	0.377227	0	"803,0,487,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25883	.	C	CT	2332	PASS	1061	0.078228	0	"978,0,83,0"	TRUE	CT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.493dupT	p.Ser165fs	494/828	494/828	165/275	165	275		"INFO_REALIGN_3_PRIME,CT"	del165	C25883CT	del165	ORF3A:DEL165	165	ORF3a	del165	ORF3A:DEL165	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25889	.	C	T	1138	PASS	1110	0.061261	0	"1042,0,68,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.497C>T	p.Ser166Leu	497/828	497/828	166/275	166	275		",T"	S166L	C25889T	S166L	ORF3A:S166L	166	ORF3a	S166L	ORF3A:S166L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25906	.	G	C	1645	PASS	1110	0.075676	0	"1025,0,84,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	25996	.	G	T	1686	PASS	1277	0.069695	0	"1188,0,89,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	26290	.	A	G	1930	PASS	2143	0.05133	0	"2030,0,110,0"	FALSE	G	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.46A>G	p.Ser16Gly	46/228	46/228	16/75	16	75		",G"	S16G	A26290G	S16G	E:S16G	16	E	S16G	E:S16G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	26544	.	A	AC	7822	PASS	2915	0.098113	0	"2652,0,286,0"	TRUE	AC	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.22_23insC	p.Ile8fs	23/669	23/669	8/222	8	222		",AC"	del8	A26544AC	del8	M:DEL8	8	M	del8	M:DEL8	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	26735	.	C	T	31255	PASS	2218	0.480162	0	"1153,0,1065,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	26801	.	C	G	7004	PASS	1916	0.156054	0	"1617,0,299,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	26876	.	T	C	12542	PASS	1014	0.45069	0	"555,0,457,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	27219	.	C	CT	204	PASS	533	0.016886	0	"524,0,9,0"	TRUE	CT	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.21dupT	p.Gln8fs	22/186	22/186	8/61	8	61		"INFO_REALIGN_3_PRIME,CT"	del8	C27219CT	del8	ORF6:DEL8	8	ORF6	del8	ORF6:DEL8	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	27324	.	TA	T	58	PASS	1893	0.002113	0	"1889,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.125delA	p.Lys42fs	125/186	125/186	42/61	42	61		"INFO_REALIGN_3_PRIME,T"	del42	TA27324T	del42	ORF6:DEL42	42	ORF6	del42	ORF6:DEL42	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	27434	.	C	T	3533	PASS	2359	0.080967	0	"2168,0,191,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	27816	.	G	GT	4398	PASS	2878	0.059416	0	"2711,0,171,0"	TRUE	GT	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.65dupT	p.Leu22fs	66/132	66/132	22/43	22	43		"INFO_REALIGN_3_PRIME,GT"	del22	G27816GT	del22	ORF7B:DEL22	22	ORF7b	del22	ORF7B:DEL22	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	27859	.	A	T	2416	PASS	3207	0.046461	0	"3057,0,149,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.104A>T	p.Gln35Leu	104/132	104/132	35/43	35	43		",T"	Q35L	A27859T	Q35L	ORF7B:Q35L	35	ORF7b	Q35L	ORF7B:Q35L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	27922	.	T	C	248	PASS	3158	0.0095	0	"3126,0,30,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	27944	.	C	T	8208	PASS	2765	0.137794	0	"2380,0,381,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28044	.	G	T	681	PASS	1342	0.038748	0	"1289,0,52,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.151G>T	p.Ala51Ser	151/366	151/366	51/121	51	121		",T"	A51S	G28044T	A51S	ORF8:A51S	51	ORF8	A51S	ORF8:A51S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28086	.	G	T	789	PASS	1347	0.042316	0	"1289,0,57,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.193G>T	p.Ala65Ser	193/366	193/366	65/121	65	121		",T"	A65S	G28086T	A65S	ORF8:A65S	65	ORF8	A65S	ORF8:A65S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28133	.	A	T	458	PASS	1452	0.023416	0	"1418,0,34,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28164	.	C	T	669	PASS	1338	0.043348	0	"1276,0,58,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.271C>T	p.Gln91*	271/366	271/366	91/121	91	121		",T"	Q91*	C28164T	Q91*	ORF8:Q91*	91	ORF8	Q91*	ORF8:Q91*	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28169	.	A	G	527	PASS	1333	0.050263	0	"1263,0,67,0"	FALSE	G	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.276A>G	p.Glu92Glu	276/366	276/366	92/121	92	121		",G"	E92E	A28169G	E92E	ORF8:E92E	92	ORF8	E92E	ORF8:E92E	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28214	.	C	CT	1956	PASS	1388	0.056196	0	"1310,0,78,0"	TRUE	CT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.326dupT	p.Leu109fs	327/366	327/366	109/121	109	121		"INFO_REALIGN_3_PRIME,CT"	del109	C28214CT	del109	ORF8:DEL109	109	ORF8	del109	ORF8:DEL109	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28249	.	A	G	724	PASS	1400	0.037143	0	"1347,0,52,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.356A>G	p.Asp119Gly	356/366	356/366	119/121	119	121		",G"	D119G	A28249G	D119G	ORF8:D119G	119	ORF8	D119G	ORF8:D119G	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28253	.	C	T	909	PASS	1341	0.04698	0	"1277,0,63,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.360C>T	p.Phe120Phe	360/366	360/366	120/121	120	121		",T"	F120F	C28253T	F120F	ORF8:F120F	120	ORF8	F120F	ORF8:F120F	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28409	.	C	T	151	PASS	1853	0.011333	0	"1828,0,21,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.136C>T	p.Pro46Ser	136/1260	136/1260	46/419	46	419		",T"	P46S	C28409T	P46S	N:P46S	46	N	P46S	N:P46S	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28514	.	G	T	3093	PASS	3977	0.054312	0	"3760,0,216,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.241G>T	p.Asp81Tyr	241/1260	241/1260	81/419	81	419		",T"	D81Y	G28514T	D81Y	N:D81Y	81	N	D81Y	N:D81Y	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28651	.	C	T	25901	PASS	4157	0.247534	0	"3128,0,1029,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28869	.	C	T	37550	PASS	5523	0.266522	0	"4042,0,1472,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28881	.	G	A	2866	PASS	5315	0.039323	0	"5099,0,209,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28882	.	G	A	2481	PASS	5370	0.03892	0	"5154,0,209,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28883	.	G	C	2750	PASS	5350	0.040561	0	"5126,0,217,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28899	.	G	T	2515	PASS	5401	0.031661	0	"5227,0,171,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.626G>T	p.Arg209Ile	626/1260	626/1260	209/419	209	419		",T"	R209I	G28899T	R209I	N:R209I	209	N	R209I	N:R209I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28932	.	C	T	16085	PASS	5289	0.145018	0	"4515,0,767,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28975	.	G	C	49314	PASS	5025	0.476418	0	"2628,0,2394,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG31	NC_045512.2	28987	.	CCAA	C	308	PASS	4595	0.004135	0	"4603,0,19,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG31-1	BEGGEN	2020-10-26T00:00:00Z	29.62475	33.5	x	14122020	2020-10-26
BEG33-3	NC_045512.2	239	.	T	C	3290	PASS	2792	0.084169	0	"2553,0,235,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-27T>C						NA	27	",C"		T239C		NA	NA	NA		NA	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	241	.	C	T	49314	PASS	2781	0.998202	0	"4,0,2776,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	335	.	C	T	14699	PASS	2822	0.212615	0	"2221,0,600,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	445	.	T	C	6568	PASS	3345	0.115695	0	"2954,0,387,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	524	.	G	T	6381	PASS	3158	0.10228	0	"2833,0,323,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.259G>T	p.Glu87*	259/21291	259/21291	87/7096	87	7096		",T"	E87*	G524T	E87*	ORF1AB:E87*	87	ORF1a	E87*	ORF1A:E87*	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	561	.	G	T	6476	PASS	3033	0.102539	0	"2722,0,311,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.296G>T	p.Arg99Leu	296/21291	296/21291	99/7096	99	7096		",T"	R99L	G561T	R99L	ORF1AB:R99L	99	ORF1a	R99L	ORF1A:R99L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	571	.	G	A	5544	PASS	2919	0.092497	0	"2649,0,270,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	593	.	C	T	4786	PASS	2635	0.092979	0	"2388,0,245,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	843	.	C	T	2107	PASS	2271	0.055482	0	"2142,0,126,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.578C>T	p.Pro193Leu	578/21291	578/21291	193/7096	193	7096		",T"	P193L	C843T	P193L	ORF1AB:P193L	193	ORF1a	P193L	ORF1A:P193L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	963	.	A	G	113	PASS	2080	0.010096	0	"2058,0,21,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.698A>G	p.Glu233Gly	698/21291	698/21291	233/7096	233	7096		",G"	E233G	A963G	E233G	ORF1AB:E233G	233	ORF1a	E233G	ORF1A:E233G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	1185	.	C	T	5069	PASS	1765	0.135411	0	"1521,0,239,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.920C>T	p.Ala307Val	920/21291	920/21291	307/7096	307	7096		",T"	A307V	C1185T	A307V	ORF1AB:A307V	307	ORF1a	A307V	ORF1A:A307V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	1577	.	G	T	7484	PASS	2188	0.156307	0	"1843,0,342,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1312G>T	p.Val438Phe	1312/21291	1312/21291	438/7096	438	7096		",T"	V438F	G1577T	V438F	ORF1AB:V438F	438	ORF1a	V438F	ORF1A:V438F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	1823	.	G	T	5672	PASS	1753	0.144324	0	"1499,0,253,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1558G>T	p.Ala520Ser	1558/21291	1558/21291	520/7096	520	7096		",T"	A520S	G1823T	A520S	ORF1AB:A520S	520	ORF1a	A520S	ORF1A:A520S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	2628	.	TTATG	T	4141	PASS	771	0.175097	0	"636,0,135,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2365_2368delATGT	p.Met789fs	2365/21291	2365/21291	789/7096	789	7096		"INFO_REALIGN_3_PRIME,T"	del789	TTATG2628T	del789	ORF1AB:DEL789	789	ORF1a	del789	ORF1A:DEL789	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	3037	.	C	T	26995	PASS	782	0.996164	2147483647	"0,0,779,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	4399	.	G	T	556	PASS	136	0.176471	0	"112,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4134G>T	p.Met1378Ile	4134/21291	4134/21291	1378/7096	1378	7096		",T"	M1378I	G4399T	M1378I	ORF1AB:M1378I	1378	ORF1a	M1378I	ORF1A:M1378I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	4543	.	C	T	4087	PASS	136	0.889706	0	"15,0,121,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	4587	.	TA	T	48	PASS	134	0.014925	0	"132,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4325delA	p.Asn1442fs	4325/21291	4325/21291	1442/7096	1442	7096		"INFO_REALIGN_3_PRIME,T"	del1442	TA4587T	del1442	ORF1AB:DEL1442	1442	ORF1a	del1442	ORF1A:DEL1442	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	5137	.	TG	T	4269	PASS	953	0.178384	0	"788,0,170,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4873delG	p.Asp1625fs	4873/21291	4873/21291	1625/7096	1625	7096		",T"	del1625	TG5137T	del1625	ORF1AB:DEL1625	1625	ORF1a	del1625	ORF1A:DEL1625	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	5229	.	A	T	2731	PASS	921	0.143322	0	"789,0,132,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4964A>T	p.Lys1655Met	4964/21291	4964/21291	1655/7096	1655	7096		",T"	K1655M	A5229T	K1655M	ORF1AB:K1655M	1655	ORF1a	K1655M	ORF1A:K1655M	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	5386	.	TG	T	476	PASS	744	0.030914	0	"721,0,23,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5122delG	p.Ala1708fs	5122/21291	5122/21291	1708/7096	1708	7096		",T"	del1708	TG5386T	del1708	ORF1AB:DEL1708	1708	ORF1a	del1708	ORF1A:DEL1708	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	5422	.	TAA	T	929	PASS	861	0.042973	0	"825,0,37,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5158_5159delAA	p.Lys1720fs	5158/21291	5158/21291	1720/7096	1720	7096		",T"	del1720	TAA5422T	del1720	ORF1AB:DEL1720	1720	ORF1a	del1720	ORF1A:DEL1720	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	5554	.	G	T	613	PASS	516	0.067829	0	"481,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5289G>T	p.Lys1763Asn	5289/21291	5289/21291	1763/7096	1763	7096		",T"	K1763N	G5554T	K1763N	ORF1AB:K1763N	1763	ORF1a	K1763N	ORF1A:K1763N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	5629	.	G	T	12289	PASS	537	0.711359	0	"155,0,382,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	5657	.	G	T	801	PASS	525	0.081905	0	"482,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5392G>T	p.Val1798Leu	5392/21291	5392/21291	1798/7096	1798	7096		",T"	V1798L	G5657T	V1798L	ORF1AB:V1798L	1798	ORF1a	V1798L	ORF1A:V1798L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	6178	.	TTA	T	356	PASS	189	0.068783	0	"176,0,13,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5916_5917delTA	p.Tyr1972fs	5916/21291	5916/21291	1972/7096	1972	7096		"INFO_REALIGN_3_PRIME,T"	del1972	TTA6178T	del1972	ORF1AB:DEL1972	1972	ORF1a	del1972	ORF1A:DEL1972	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	6286	.	C	T	2138	PASS	265	0.30566	0	"184,0,81,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	6317	.	C	T	1307	PASS	261	0.203065	0	"207,0,53,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6052C>T	p.Pro2018Ser	6052/21291	6052/21291	2018/7096	2018	7096		",T"	P2018S	C6317T	P2018S	ORF1AB:P2018S	2018	ORF1a	P2018S	ORF1A:P2018S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	6555	.	C	T	82	PASS	519	0.019268	0	"508,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	6941	.	C	T	480	PASS	671	0.04769	0	"638,0,32,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	6960	.	G	T	735	PASS	657	0.068493	0	"612,0,45,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6695G>T	p.Trp2232Leu	6695/21291	6695/21291	2232/7096	2232	7096		",T"	W2232L	G6960T	W2232L	ORF1AB:W2232L	2232	ORF1a	W2232L	ORF1A:W2232L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	6989	.	TC	T	1676	PASS	700	0.092857	0	"680,0,65,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6725delC	p.Ser2242fs	6725/21291	6725/21291	2242/7096	2242	7096		",T"	del2242	TC6989T	del2242	ORF1AB:DEL2242	2242	ORF1a	del2242	ORF1A:DEL2242	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	7123	.	A	G	188	PASS	393	0.033079	0	"380,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6858A>G	p.Ile2286Met	6858/21291	6858/21291	2286/7096	2286	7096		",G"	I2286M	A7123G	I2286M	ORF1AB:I2286M	2286	ORF1a	I2286M	ORF1A:I2286M	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	7638	.	T	C	322	PASS	478	0.041841	0	"458,0,20,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7373T>C	p.Phe2458Ser	7373/21291	7373/21291	2458/7096	2458	7096		",C"	F2458S	T7638C	F2458S	ORF1AB:F2458S	2458	ORF1a	F2458S	ORF1A:F2458S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	7873	.	G	T	1771	PASS	715	0.12028	0	"629,0,86,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7608G>T	p.Leu2536Phe	7608/21291	7608/21291	2536/7096	2536	7096		",T"	L2536F	G7873T	L2536F	ORF1AB:L2536F	2536	ORF1a	L2536F	ORF1A:L2536F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	8090	.	C	T	1997	PASS	705	0.130496	0	"612,0,92,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7825C>T	p.Leu2609Phe	7825/21291	7825/21291	2609/7096	2609	7096		",T"	L2609F	C8090T	L2609F	ORF1AB:L2609F	2609	ORF1a	L2609F	ORF1A:L2609F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	8179	.	G	T	223	PASS	666	0.028529	0	"647,0,19,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7914G>T	p.Arg2638Arg	7914/21291	7914/21291	2638/7096	2638	7096		",T"	R2638R	G8179T	R2638R	ORF1AB:R2638R	2638	ORF1a	R2638R	ORF1A:R2638R	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	8345	.	TG	T	1701	PASS	441	0.138322	0	"380,0,61,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8081delG	p.Cys2694fs	8081/21291	8081/21291	2694/7096	2694	7096		",T"	del2694	TG8345T	del2694	ORF1AB:DEL2694	2694	ORF1a	del2694	ORF1A:DEL2694	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	8392	.	T	A	410	PASS	306	0.071895	0	"284,0,22,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8127T>A	p.Ile2709Ile	8127/21291	8127/21291	2709/7096	2709	7096		",A"	I2709I	T8392A	I2709I	ORF1AB:I2709I	2709	ORF1a	I2709I	ORF1A:I2709I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	8638	.	A	G	484	PASS	255	0.105882	0	"228,0,27,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8373A>G	p.Thr2791Thr	8373/21291	8373/21291	2791/7096	2791	7096		",G"	T2791T	A8638G	T2791T	ORF1AB:T2791T	2791	ORF1a	T2791T	ORF1A:T2791T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	8712	.	T	C	211	PASS	219	0.09589	0	"197,0,21,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8447T>C	p.Val2816Ala	8447/21291	8447/21291	2816/7096	2816	7096		",C"	V2816A	T8712C	V2816A	ORF1AB:V2816A	2816	ORF1a	V2816A	ORF1A:V2816A	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	8833	.	A	G	389	PASS	341	0.061584	0	"320,0,21,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8568A>G	p.Ala2856Ala	8568/21291	8568/21291	2856/7096	2856	7096		",G"	A2856A	A8833G	A2856A	ORF1AB:A2856A	2856	ORF1a	A2856A	ORF1A:A2856A	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	8950	.	C	T	504	PASS	367	0.073569	0	"339,0,27,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8685C>T	p.Ile2895Ile	8685/21291	8685/21291	2895/7096	2895	7096		",T"	I2895I	C8950T	I2895I	ORF1AB:I2895I	2895	ORF1a	I2895I	ORF1A:I2895I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	9526	.	G	T	9869	PASS	1807	0.227449	0	"1396,0,411,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	9928	.	G	A	1863	PASS	1891	0.061872	0	"1773,0,117,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9663G>A	p.Met3221Ile	9663/21291	9663/21291	3221/7096	3221	7096		",A"	M3221I	G9928A	M3221I	ORF1AB:M3221I	3221	ORF1a	M3221I	ORF1A:M3221I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	10330	.	T	C	1302	PASS	1734	0.04729	0	"1651,0,82,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10065T>C	p.Asp3355Asp	10065/21291	10065/21291	3355/7096	3355	7096		",C"	D3355D	T10330C	D3355D	ORF1AB:D3355D	3355	ORF1a	D3355D	ORF1A:D3355D	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	10342	.	T	C	555	PASS	1667	0.024595	0	"1625,0,41,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10077T>C	p.Pro3359Pro	10077/21291	10077/21291	3359/7096	3359	7096		",C"	P3359P	T10342C	P3359P	ORF1AB:P3359P	3359	ORF1a	P3359P	ORF1A:P3359P	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	10357	.	TA	T	60	PASS	1632	0.002451	0	"1668,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10094delA	p.Lys3365fs	10094/21291	10094/21291	3365/7096	3365	7096		"INFO_REALIGN_3_PRIME,T"	del3365	TA10357T	del3365	ORF1AB:DEL3365	3365	ORF1a	del3365	ORF1A:DEL3365	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	10446	.	G	T	2533	PASS	1459	0.094585	0	"1320,0,138,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10181G>T	p.Arg3394Met	10181/21291	10181/21291	3394/7096	3394	7096		",T"	R3394M	G10446T	R3394M	ORF1AB:R3394M	3394	ORF1a	R3394M	ORF1A:R3394M	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	10543	.	C	T	343	PASS	1472	0.024457	0	"1432,0,36,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10278C>T	p.His3426His	10278/21291	10278/21291	3426/7096	3426	7096		",T"	H3426H	C10543T	H3426H	ORF1AB:H3426H	3426	ORF1a	H3426H	ORF1A:H3426H	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	10861	.	A	G	832	PASS	503	0.091451	0	"456,0,46,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10596A>G	p.Lys3532Lys	10596/21291	10596/21291	3532/7096	3532	7096		",G"	K3532K	A10861G	K3532K	ORF1AB:K3532K	3532	ORF1a	K3532K	ORF1A:K3532K	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	11074	.	C	CT	618	PASS	754	0.057029	0	"711,0,43,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817dupT	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,CT"	del3606	C11074CT	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	11082	.	TG	T	50	PASS	857	0.003501	0	"854,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	11083	.	G	T	1054	PASS	860	0.077907	0	"790,0,67,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	11095	.	C	CT	730	PASS	898	0.035635	0	"866,0,32,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835dupT	p.Leu3612fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,CT"	del3612	C11095CT	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	11145	.	TG	T	1986	PASS	733	0.105048	0	"687,0,77,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10881delG	p.Met3627fs	10881/21291	10881/21291	3627/7096	3627	7096		",T"	del3627	TG11145T	del3627	ORF1AB:DEL3627	3627	ORF1a	del3627	ORF1A:DEL3627	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	11496	.	ACTCAGGTGTAGTT	A	2977	PASS	624	0.168269	0	"537,0,105,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232_11244delCTCAGGTGTAGTT	p.Tyr3744fs	11232/21291	11232/21291	3744/7096	3744	7096		",A"	del3744	ACTCAGGTGTAGTT11496A	del3744	ORF1AB:DEL3744	3744	ORF1a	del3744	ORF1A:DEL3744	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	11497	.	C	T	7728	PASS	624	0.421474	0	"254,0,263,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	11747	.	C	T	1135	PASS	256	0.191406	0	"207,0,49,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11482C>T	p.Leu3828Leu	11482/21291	11482/21291	3828/7096	3828	7096		",T"	L3828L	C11747T	L3828L	ORF1AB:L3828L	3828	ORF1a	L3828L	ORF1A:L3828L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	12269	.	GA	G	2814	PASS	962	0.10499	0	"864,0,101,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12008delA	p.Lys4003fs	12008/21291	12008/21291	4003/7096	4003	7096		"INFO_REALIGN_3_PRIME,G"	del4003	GA12269G	del4003	ORF1AB:DEL4003	4003	ORF1a	del4003	ORF1A:DEL4003	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	12360	.	T	C	784	PASS	1011	0.048467	0	"960,0,49,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12095T>C	p.Met4032Thr	12095/21291	12095/21291	4032/7096	4032	7096		",C"	M4032T	T12360C	M4032T	ORF1AB:M4032T	4032	ORF1a	M4032T	ORF1A:M4032T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	13325	.	A	G	516	PASS	1961	0.023967	0	"1913,0,47,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13060A>G	p.Thr4354Ala	13060/21291	13060/21291	4354/7096	4354	7096		",G"	T4354A	A13325G	T4354A	ORF1AB:T4354A	4354	ORF1a	T4354A	ORF1A:T4354A	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	13570	.	G	T	2709	PASS	1718	0.084983	0	"1572,0,146,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13306G>T	p.Gly4436Cys	13306/21291	13306/21291	4436/7096	4436	7096		",T"	G4436C	G13570T	G4436C	ORF1AB:G4436C	35	ORF1b	G35C	ORF1B:G35C	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	13945	.	C	T	2074	PASS	1872	0.072115	0	"1733,0,135,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13681C>T	p.Pro4561Ser	13681/21291	13681/21291	4561/7096	4561	7096		",T"	P4561S	C13945T	P4561S	ORF1AB:P4561S	160	ORF1b	P160S	ORF1B:P160S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	13993	.	G	T	20120	PASS	1572	0.451018	0	"863,0,709,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	14117	.	C	T	2035	PASS	694	0.134006	0	"601,0,93,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13853C>T	p.Thr4618Met	13853/21291	13853/21291	4618/7096	4618	7096		",T"	T4618M	C14117T	T4618M	ORF1AB:T4618M	217	ORF1b	T217M	ORF1B:T217M	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	14408	.	C	T	513	PASS	14	1	2147483647	"0,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15008	.	A	G	283	PASS	2503	0.012785	0	"2470,0,32,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14744A>G	p.Asp4915Gly	14744/21291	14744/21291	4915/7096	4915	7096		",G"	D4915G	A15008G	D4915G	ORF1AB:D4915G	514	ORF1b	D514G	ORF1B:D514G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15157	.	CA	C	2517	PASS	1861	0.055884	0	"1757,0,104,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14898delA	p.Lys4966fs	14898/21291	14898/21291	4966/7096	4966	7096		"INFO_REALIGN_3_PRIME,C"	del4966	CA15157C	del4966	ORF1AB:DEL4966	565	ORF1b	del565	ORF1B:DEL565	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15324	.	C	T	2282	PASS	749	0.140187	0	"643,0,105,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15325	.	ATG	A	552	PASS	697	0.032999	0	"726,0,23,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15062_15063delTG	p.Met5021fs	15062/21291	15062/21291	5021/7096	5021	7096		",A"	del5021	ATG15325A	del5021	ORF1AB:DEL5021	620	ORF1b	del620	ORF1B:DEL620	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15372	.	G	A	508	PASS	400	0.08	0	"366,0,32,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15108G>A	p.Thr5036Thr	15108/21291	15108/21291	5036/7096	5036	7096		",A"	T5036T	G15372A	T5036T	ORF1AB:T5036T	635	ORF1b	T635T	ORF1B:T635T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15738	.	C	T	1664	PASS	414	0.171498	0	"343,0,71,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15474C>T	p.Phe5158Phe	15474/21291	15474/21291	5158/7096	5158	7096		",T"	F5158F	C15738T	F5158F	ORF1AB:F5158F	757	ORF1b	F757F	ORF1B:F757F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15750	.	T	C	653	PASS	415	0.074699	0	"384,0,31,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15486T>C	p.Tyr5162Tyr	15486/21291	15486/21291	5162/7096	5162	7096		",C"	Y5162Y	T15750C	Y5162Y	ORF1AB:Y5162Y	761	ORF1b	Y761Y	ORF1B:Y761Y	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15766	.	G	T	3650	PASS	399	0.343358	0	"262,0,137,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15784	.	T	C	395	PASS	340	0.064706	0	"318,0,22,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15520T>C	p.Phe5174Leu	15520/21291	15520/21291	5174/7096	5174	7096		",C"	F5174L	T15784C	F5174L	ORF1AB:F5174L	773	ORF1b	F773L	ORF1B:F773L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15830	.	CA	C	107	PASS	299	0.016722	0	"294,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15570delA	p.Lys5190fs	15570/21291	15570/21291	5190/7096	5190	7096		"INFO_REALIGN_3_PRIME,C"	del5190	CA15830C	del5190	ORF1AB:DEL5190	789	ORF1b	del789	ORF1B:DEL789	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	15840	.	G	T	312	PASS	297	0.060606	0	"279,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15576G>T	p.Trp5192Cys	15576/21291	15576/21291	5192/7096	5192	7096		",T"	W5192C	G15840T	W5192C	ORF1AB:W5192C	791	ORF1b	W791C	ORF1B:W791C	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	16323	.	C	T	2034	PASS	1615	0.070588	0	"1500,0,114,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16059C>T	p.Cys5353Cys	16059/21291	16059/21291	5353/7096	5353	7096		",T"	C5353C	C16323T	C5353C	ORF1AB:C5353C	952	ORF1b	C952C	ORF1B:C952C	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	16889	.	A	G	10529	PASS	2733	0.165386	0	"2280,0,452,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	16943	.	G	T	3281	PASS	2429	0.07781	0	"2239,0,189,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16679G>T	p.Ser5560Ile	16679/21291	16679/21291	5560/7096	5560	7096		",T"	S5560I	G16943T	S5560I	ORF1AB:S5560I	1159	ORF1b	S1159I	ORF1B:S1159I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	17019	.	G	T	4839	PASS	1306	0.156968	0	"1101,0,205,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	17178	.	T	G	131	PASS	29	0.172414	0	"24,0,5,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16914T>G	p.Val5638Val	16914/21291	16914/21291	5638/7096	5638	7096		",G"	V5638V	T17178G	V5638V	ORF1AB:V5638V	1237	ORF1b	V1237V	ORF1B:V1237V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	17261	.	G	T	83	PASS	39	0.102564	0	"35,0,4,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16997G>T	p.Cys5666Phe	16997/21291	16997/21291	5666/7096	5666	7096		",T"	C5666F	G17261T	C5666F	ORF1AB:C5666F	1265	ORF1b	C1265F	ORF1B:C1265F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	17780	.	A	G	101	PASS	2047	0.007328	0	"2032,0,15,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17516A>G	p.Tyr5839Cys	17516/21291	17516/21291	5839/7096	5839	7096		",G"	Y5839C	A17780G	Y5839C	ORF1AB:Y5839C	1438	ORF1b	Y1438C	ORF1B:Y1438C	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	18588	.	T	C	92	PASS	203	0.034483	0	"196,0,7,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18324T>C	p.Phe6108Phe	18324/21291	18324/21291	6108/7096	6108	7096		",C"	F6108F	T18588C	F6108F	ORF1AB:F6108F	1707	ORF1b	F1707F	ORF1B:F1707F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	18877	.	C	T	19575	PASS	2406	0.302577	0	"1676,0,728,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	19312	.	G	T	925	PASS	2959	0.027036	0	"2879,0,80,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19048G>T	p.Ala6350Ser	19048/21291	19048/21291	6350/7096	6350	7096		",T"	A6350S	G19312T	A6350S	ORF1AB:A6350S	1949	ORF1b	A1949S	ORF1B:A1949S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	19359	.	A	G	752	PASS	2485	0.026157	0	"2415,0,65,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19095A>G	p.Lys6365Lys	19095/21291	19095/21291	6365/7096	6365	7096		",G"	K6365K	A19359G	K6365K	ORF1AB:K6365K	1964	ORF1b	K1964K	ORF1B:K1964K	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	19368	.	AT	A	1597	PASS	2401	0.029988	0	"2355,0,72,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19109delT	p.Phe6370fs	19109/21291	19109/21291	6370/7096	6370	7096		"INFO_REALIGN_3_PRIME,A"	del6370	AT19368A	del6370	ORF1AB:DEL6370	1969	ORF1b	del1969	ORF1B:DEL1969	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	19524	.	C	T	11678	PASS	1558	0.284981	0	"1112,0,444,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	19645	.	G	T	3417	PASS	1550	0.109032	0	"1381,0,169,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19381G>T	p.Val6461Phe	19381/21291	19381/21291	6461/7096	6461	7096		",T"	V6461F	G19645T	V6461F	ORF1AB:V6461F	2060	ORF1b	V2060F	ORF1B:V2060F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	19690	.	G	GT	4133	PASS	1376	0.103924	0	"1245,0,143,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19429dupT	p.Ser6477fs	19430/21291	19430/21291	6477/7096	6477	7096		"INFO_REALIGN_3_PRIME,GT"	del6477	G19690GT	del6477	ORF1AB:DEL6477	2076	ORF1b	del2076	ORF1B:DEL2076	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	20326	.	G	GT	56	PASS	50	0.04	0	"50,0,2,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20065dupT	p.Tyr6689fs	20066/21291	20066/21291	6689/7096	6689	7096		"INFO_REALIGN_3_PRIME,GT"	del6689	G20326GT	del6689	ORF1AB:DEL6689	2288	ORF1b	del2288	ORF1B:DEL2288	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	20451	.	C	T	1052	PASS	1049	0.058151	0	"988,0,61,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20187C>T	p.Asn6729Asn	20187/21291	20187/21291	6729/7096	6729	7096		",T"	N6729N	C20451T	N6729N	ORF1AB:N6729N	2328	ORF1b	N2328N	ORF1B:N2328N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	20685	.	T	C	101	PASS	1919	0.010422	0	"1897,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20421T>C	p.Val6807Val	20421/21291	20421/21291	6807/7096	6807	7096		",C"	V6807V	T20685C	V6807V	ORF1AB:V6807V	2406	ORF1b	V2406V	ORF1B:V2406V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	20742	.	A	C	2928	PASS	1956	0.079243	0	"1799,0,155,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	20762	.	C	T	2785	PASS	2112	0.072917	0	"1957,0,154,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20498C>T	p.Thr6833Ile	20498/21291	20498/21291	6833/7096	6833	7096		",T"	T6833I	C20762T	T6833I	ORF1AB:T6833I	2432	ORF1b	T2432I	ORF1B:T2432I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	21066	.	TA	T	4437	PASS	1484	0.108491	0	"1323,0,161,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20807delA	p.Asn6936fs	20807/21291	20807/21291	6936/7096	6936	7096		"INFO_REALIGN_3_PRIME,T"	del6936	TA21066T	del6936	ORF1AB:DEL6936	2535	ORF1b	del2535	ORF1B:DEL2535	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	21255	.	G	C	12216	PASS	852	0.483568	0	"439,0,412,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	21575	.	C	T	264	PASS	655	0.029008	0	"636,0,19,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	21624	.	G	T	3732	PASS	664	0.225904	0	"514,0,150,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.62G>T	p.Arg21Ile	62/3822	62/3822	21/1273	21	1273		",T"	R21I	G21624T	R21I	S:R21I	21	S	R21I	S:R21I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	21855	.	C	T	458	PASS	130	0.146154	0	"111,0,19,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	21957	.	A	G	143	PASS	113	0.070796	0	"105,0,8,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.395A>G	p.Glu132Gly	395/3822	395/3822	132/1273	132	1273		",G"	E132G	A21957G	E132G	S:E132G	132	S	E132G	S:E132G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	22062	.	C	CT	419	PASS	115	0.121739	0	"101,0,14,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.504dupT	p.Glu169fs	505/3822	505/3822	169/1273	169	1273		"INFO_REALIGN_3_PRIME,CT"	del169	C22062CT	del169	S:DEL169	169	S	del169	S:DEL169	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	22099	.	TGAAG	T	322	PASS	109	0.100917	0	"98,0,11,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.541_544delGGAA	p.Gly181fs	541/3822	541/3822	181/1273	181	1273		"INFO_REALIGN_3_PRIME,T"	del181	TGAAG22099T	del181	S:DEL181	181	S	del181	S:DEL181	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	22227	.	C	T	306	PASS	75	0.2	0	"60,0,15,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	22893	.	A	G	141	PASS	175	0.045714	0	"167,0,8,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1331A>G	p.Lys444Arg	1331/3822	1331/3822	444/1273	444	1273		",G"	K444R	A22893G	K444R	S:K444R	444	S	K444R	S:K444R	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	22992	.	G	A	2533	PASS	241	0.39834	0	"145,0,96,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	23403	.	A	G	14500	PASS	416	0.997596	2147483647	"0,0,415,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	24012	.	TTATTGAAGATC	T	48	PASS	120	0.016667	0	"119,0,2,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2453_2463delTTGAAGATCTA	p.Ile818fs	2453/3822	2453/3822	818/1273	818	1273		"INFO_REALIGN_3_PRIME,T"	del818	TTATTGAAGATC24012T	del818	S:DEL818	818	S	del818	S:DEL818	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	24910	.	T	C	2143	PASS	718	0.140669	0	"617,0,101,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3348T>C	p.Thr1116Thr	3348/3822	3348/3822	1116/1273	1116	1273		",C"	T1116T	T24910C	T1116T	S:T1116T	1116	S	T1116T	S:T1116T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25000	.	C	T	2552	PASS	1292	0.102167	0	"1159,0,132,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3438C>T	p.Asp1146Asp	3438/3822	3438/3822	1146/1273	1146	1273		",T"	D1146D	C25000T	D1146D	S:D1146D	1146	S	D1146D	S:D1146D	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25216	.	A	T	198	PASS	1665	0.024625	0	"1615,0,41,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25225	.	A	C	158	PASS	1715	0.021574	0	"1672,0,37,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25228	.	T	G	99	PASS	1705	0.017595	0	"1675,0,30,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25234	.	G	T	86	PASS	1743	0.017212	0	"1708,0,30,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3672G>T	p.Leu1224Phe	3672/3822	3672/3822	1224/1273	1224	1273		",T"	L1224F	G25234T	L1224F	S:L1224F	1224	S	L1224F	S:L1224F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25240	.	C	A	201	PASS	1741	0.029868	0	"1687,0,52,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25244	.	G	T	145	PASS	1805	0.022161	0	"1764,0,40,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25247	.	A	T	273	PASS	1816	0.035242	0	"1747,0,64,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25252	.	G	C	136	PASS	1852	0.023758	0	"1784,0,44,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>C	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",C"	V1230V	G25252C	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25254	.	C	A	302	PASS	1912	0.033996	0	"1846,0,65,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25259	.	A	T	116	PASS	1938	0.021156	0	"1894,0,41,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25269	.	G	T	76	PASS	1831	0.018023	0	"1797,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3707G>T	p.Cys1236Phe	3707/3822	3707/3822	1236/1273	1236	1273		",T"	C1236F	G25269T	C1236F	S:C1236F	1236	S	C1236F	S:C1236F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25273	.	G	C	210	PASS	1844	0.033623	0	"1779,0,62,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25274	.	A	C	105	PASS	1853	0.022666	0	"1810,0,42,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3712A>C	p.Thr1238Pro	3712/3822	3712/3822	1238/1273	1238	1273		",C"	T1238P	A25274C	T1238P	S:T1238P	1238	S	T1238P	S:T1238P	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25277	.	A	T	618	PASS	1835	0.062125	0	"1704,0,114,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25280	.	T	G	134	PASS	1872	0.027778	0	"1817,0,52,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25286	.	A	T	580	PASS	1891	0.060286	0	"1746,0,114,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25289	.	T	G	103	PASS	1860	0.024731	0	"1811,0,46,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25296	.	A	C	1153	PASS	1891	0.094659	0	"1595,0,179,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25296	.	A	T	402	PASS	1891	0.053411	0	"1595,0,101,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25301	.	T	G	107	PASS	1888	0.026483	0	"1837,0,50,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25312	.	T	G	114	PASS	1915	0.029243	0	"1858,0,56,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25314	.	G	T	155	PASS	1923	0.035361	0	"1833,0,68,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25316	.	T	C	126	PASS	1958	0.032686	0	"1853,0,64,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3754T>C	p.Ser1252Pro	3754/3822	3754/3822	1252/1273	1252	1273		",C"	S1252P	T25316C	S1252P	S:S1252P	1252	S	S1252P	S:S1252P	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25317	.	C	T	1267	PASS	1917	0.063641	0	"1794,0,122,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25323	.	G	C	691	PASS	1880	0.077128	0	"1709,0,145,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25324	.	C	A	3939	PASS	1891	0.197779	0	"1516,0,374,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25327	.	A	T	351	PASS	1878	0.055911	0	"1773,0,105,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25331	.	G	T	290	PASS	1856	0.053341	0	"1734,0,99,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25334	.	G	C	679	PASS	1841	0.083107	0	"1629,0,153,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25334	.	G	T	76	PASS	1841	0.032048	0	"1629,0,59,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25336	.	A	C	2153	PASS	1864	0.155579	0	"1570,0,290,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25337	.	G	C	983	PASS	1796	0.105234	0	"1607,0,189,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25440	.	G	T	3052	PASS	2042	0.079824	0	"1879,0,163,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.48G>T	p.Lys16Asn	48/828	48/828	16/275	16	275		",T"	K16N	G25440T	K16N	ORF3A:K16N	16	ORF3a	K16N	ORF3A:K16N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25505	.	A	G	1763	PASS	1649	0.063675	0	"1542,0,105,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25563	.	G	T	13456	PASS	1508	0.326923	0	"1013,0,493,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25593	.	G	T	949	PASS	1605	0.039252	0	"1541,0,63,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25649	.	T	C	8215	PASS	1401	0.233405	0	"1072,0,327,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.257T>C	p.Leu86Ser	257/828	257/828	86/275	86	275		",C"	L86S	T25649C	L86S	ORF3A:L86S	86	ORF3a	L86S	ORF3A:L86S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25677	.	G	T	6151	PASS	1108	0.225632	0	"858,0,250,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.285G>T	p.Leu95Phe	285/828	285/828	95/275	95	275		",T"	L95F	G25677T	L95F	ORF3A:L95F	95	ORF3a	L95F	ORF3A:L95F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25710	.	C	T	9018	PASS	840	0.383333	0	"517,0,322,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25907	.	G	A	582	PASS	237	0.122363	0	"208,0,29,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.515G>A	p.Gly172Asp	515/828	515/828	172/275	172	275		",A"	G172D	G25907A	G172D	ORF3A:G172D	172	ORF3a	G172D	ORF3A:G172D	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	25996	.	G	T	68	PASS	232	0.025862	0	"226,0,6,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26062	.	G	T	351	PASS	203	0.08867	0	"185,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26257	.	G	GT	4264	PASS	1855	0.081402	0	"1730,0,151,0"	TRUE	GT	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.16dupT	p.Ser6fs	17/228	17/228	6/75	6	75		"INFO_REALIGN_3_PRIME,GT"	del6	G26257GT	del6	E:DEL6	6	E	del6	E:DEL6	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26609	.	TA	T	398	PASS	2425	0.009072	0	"2417,0,22,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.88delA	p.Thr30fs	88/669	88/669	30/222	30	222		",T"	del30	TA26609T	del30	M:DEL30	30	M	del30	M:DEL30	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26646	.	A	G	152	PASS	2297	0.008272	0	"2278,0,19,0"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.124A>G	p.Arg42Gly	124/669	124/669	42/222	42	222		",G"	R42G	A26646G	R42G	M:R42G	42	M	R42G	M:R42G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26735	.	C	T	16501	PASS	2175	0.289655	0	"1544,0,630,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26801	.	C	G	46460	PASS	1929	0.735096	0	"510,0,1418,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26876	.	T	C	5028	PASS	928	0.227371	0	"717,0,211,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26894	.	C	T	141	PASS	609	0.019704	0	"597,0,12,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.372C>T	p.Leu124Leu	372/669	372/669	124/222	124	222		",T"	L124L	C26894T	L124L	M:L124L	124	M	L124L	M:L124L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26951	.	G	T	115	PASS	101	0.069307	0	"94,0,7,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26960	.	T	C	136	PASS	110	0.081818	0	"101,0,9,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.438T>C	p.Arg146Arg	438/669	438/669	146/222	146	222		",C"	R146R	T26960C	R146R	M:R146R	146	M	R146R	M:R146R	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	26972	.	T	C	151	PASS	115	0.069565	0	"106,0,8,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27058	.	AC	A	158	PASS	127	0.047244	0	"123,0,6,0"	TRUE	A	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.537delC	p.Tyr179fs	537/669	537/669	179/222	179	222		",A"	del179	AC27058A	del179	M:DEL179	179	M	del179	M:DEL179	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27143	.	C	T	115	PASS	115	0.069565	0	"107,0,8,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.621C>T	p.Asn207Asn	621/669	621/669	207/222	207	222		",T"	N207N	C27143T	N207N	M:N207N	207	M	N207N	M:N207N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27245	.	T	C	182	PASS	868	0.018433	0	"851,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.44T>C	p.Leu15Ser	44/186	44/186	15/61	15	61		",C"	L15S	T27245C	L15S	ORF6:L15S	15	ORF6	L15S	ORF6:L15S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27312	.	TA	T	1222	PASS	1735	0.0317	0	"1680,0,55,0"	TRUE	T	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.116delA	p.Asn39fs	116/186	116/186	39/61	39	61		"INFO_REALIGN_3_PRIME,T"	del39	TA27312T	del39	ORF6:DEL39	39	ORF6	del39	ORF6:DEL39	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27364	.	G	T	1745	PASS	2418	0.044665	0	"2309,0,108,0"	FALSE	T	stop_gained	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.163G>T	p.Glu55*	163/186	163/186	55/61	55	61		",T"	E55*	G27364T	E55*	ORF6:E55*	55	ORF6	E55*	ORF6:E55*	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27532	.	C	A	2421	PASS	3168	0.049874	0	"3009,0,158,0"	FALSE	A	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.139C>A	p.His47Asn	139/366	139/366	47/121	47	121		",A"	H47N	C27532A	H47N	ORF7A:H47N	47	ORF7a	H47N	ORF7A:H47N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27626	.	G	A	2347	PASS	3419	0.044457	0	"3267,0,152,0"	FALSE	A	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.233G>A	p.Arg78His	233/366	233/366	78/121	78	121		",A"	R78H	G27626A	R78H	ORF7A:R78H	78	ORF7a	R78H	ORF7A:R78H	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27707	.	C	T	6250	PASS	3625	0.093241	0	"3282,0,338,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27727	.	C	T	2776	PASS	3470	0.049856	0	"3294,0,173,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.334C>T	p.Leu112Phe	334/366	334/366	112/121	112	121		",T"	L112F	C27727T	L112F	ORF7A:L112F	112	ORF7a	L112F	ORF7A:L112F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27752	.	C	T	2882	PASS	3325	0.052932	0	"3148,0,176,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.359C>T	p.Thr120Ile	359/366	359/366	120/121	120	121		",T"	T120I	C27752T	T120I	ORF7A:T120I	120	ORF7a	T120I	ORF7A:T120I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27800	.	C	A	7330	PASS	2854	0.124737	0	"2496,0,356,0"	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27810	.	T	C	1627	PASS	2841	0.038015	0	"2733,0,108,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.55T>C	p.Phe19Leu	55/132	55/132	19/43	19	43		",C"	F19L	T27810C	F19L	ORF7B:F19L	19	ORF7b	F19L	ORF7B:F19L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27837	.	T	C	2937	PASS	2978	0.054399	0	"2816,0,162,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.82T>C	p.Phe28Leu	82/132	82/132	28/43	28	43		",C"	F28L	T27837C	F28L	ORF7B:F28L	28	ORF7b	F28L	ORF7B:F28L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27942	.	C	T	526	PASS	2767	0.01807	0	"2717,0,50,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.49C>T	p.His17Tyr	49/366	49/366	17/121	17	121		",T"	H17Y	C27942T	H17Y	ORF8:H17Y	17	ORF8	H17Y	ORF8:H17Y	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27944	.	C	T	16614	PASS	2747	0.238806	0	"2091,0,656,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	27982	.	C	T	1379	PASS	2011	0.048732	0	"1912,0,98,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.89C>T	p.Pro30Leu	89/366	89/366	30/121	30	121		",T"	P30L	C27982T	P30L	ORF8:P30L	30	ORF8	P30L	ORF8:P30L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28045	.	C	T	1009	PASS	917	0.06434	0	"857,0,59,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28133	.	A	T	1061	PASS	806	0.069479	0	"750,0,56,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28239	.	G	T	6329	PASS	781	0.317542	0	"533,0,248,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.346G>T	p.Val116Phe	346/366	346/366	116/121	116	121		",T"	V116F	G28239T	V116F	ORF8:V116F	116	ORF8	V116F	ORF8:V116F	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28254	.	A	C	170	PASS	759	0.023715	0	"741,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28270	.	TA	T	7189	PASS	1199	0.201001	0	"958,0,241,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28295	.	A	G	554	PASS	1292	0.033282	0	"1246,0,43,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.22A>G	p.Asn8Asp	22/1260	22/1260	8/419	8	419		",G"	N8D	A28295G	N8D	N:N8D	8	N	N8D	N:N8D	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28307	.	G	T	4610	PASS	1428	0.148459	0	"1216,0,212,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.34G>T	p.Ala12Ser	34/1260	34/1260	12/419	12	419		",T"	A12S	G28307T	A12S	N:A12S	12	N	A12S	N:A12S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28378	.	G	T	197	PASS	1850	0.013514	0	"1824,0,25,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28514	.	G	T	3133	PASS	4064	0.052904	0	"3848,0,215,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.241G>T	p.Asp81Tyr	241/1260	241/1260	81/419	81	419		",T"	D81Y	G28514T	D81Y	N:D81Y	81	N	D81Y	N:D81Y	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28573	.	A	T	1108	PASS	3701	0.025399	0	"3607,0,94,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.300A>T	p.Lys100Asn	300/1260	300/1260	100/419	100	419		",T"	K100N	A28573T	K100N	N:K100N	100	N	K100N	N:K100N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28588	.	T	C	3188	PASS	3746	0.060865	0	"3513,0,228,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.315T>C	p.Ser105Ser	315/1260	315/1260	105/419	105	419		",C"	S105S	T28588C	S105S	N:S105S	105	N	S105S	N:S105S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28605	.	A	C	2185	PASS	3797	0.042402	0	"3633,0,161,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.332A>C	p.Tyr111Ser	332/1260	332/1260	111/419	111	419		",C"	Y111S	A28605C	Y111S	N:Y111S	111	N	Y111S	N:Y111S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28606	.	C	T	1631	PASS	3734	0.033476	0	"3609,0,125,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.333C>T	p.Tyr111Tyr	333/1260	333/1260	111/419	111	419		",T"	Y111Y	C28606T	Y111Y	N:Y111Y	111	N	Y111Y	N:Y111Y	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28649	.	A	G	68	PASS	4027	0.003973	0	"4006,0,16,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.376A>G	p.Asn126Asp	376/1260	376/1260	126/419	126	419		",G"	N126D	A28649G	N126D	N:N126D	126	N	N126D	N:N126D	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28651	.	C	T	9506	PASS	3988	0.114343	0	"3529,0,456,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28775	.	C	T	2379	PASS	5649	0.034873	0	"5444,0,197,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.502C>T	p.Pro168Ser	502/1260	502/1260	168/419	168	419		",T"	P168S	C28775T	P168S	N:P168S	168	N	P168S	N:P168S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28798	.	G	A	8762	PASS	5861	0.082239	0	"5371,0,482,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28855	.	A	C	5184	PASS	5489	0.056841	0	"5172,0,312,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28869	.	C	T	10097	PASS	5424	0.096423	0	"4898,0,523,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28887	.	C	T	3527	PASS	5282	0.046195	0	"5036,0,244,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28932	.	C	T	49314	PASS	5294	0.391198	0	"3210,0,2071,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28975	.	G	C	49314	PASS	4853	0.401195	0	"2902,0,1947,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	28987	.	CCAA	C	292	PASS	4427	0.004066	0	"4431,0,18,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG33-3	NC_045512.2	29000	.	G	A	1333	PASS	4311	0.035259	0	"4154,0,152,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.727G>A	p.Gly243Ser	727/1260	727/1260	243/419	243	419		",A"	G243S	G29000A	G243S	N:G243S	243	N	G243S	N:G243S	BEG33-3	BEGGEN	2020-11-12T00:00:00Z	29.793	35.01333333	x	14122020	2020-11-12
BEG34-2	NC_045512.2	204	.	G	T	4043	PASS	708	0.245763	0	"531,0,174,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	241	.	C	T	28889	PASS	839	0.996424	2147483647	"0,0,836,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	445	.	T	C	12685	PASS	922	0.518438	0	"441,0,478,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	810	.	A	G	1347	PASS	1006	0.09841	0	"905,0,99,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.545A>G	p.Tyr182Cys	545/21291	545/21291	182/7096	182	7096		",G"	Y182C	A810G	Y182C	ORF1AB:Y182C	182	ORF1a	Y182C	ORF1A:Y182C	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	903	.	G	T	5393	PASS	782	0.29156	0	"552,0,228,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.638G>T	p.Cys213Phe	638/21291	638/21291	213/7096	213	7096		",T"	C213F	G903T	C213F	ORF1AB:C213F	213	ORF1a	C213F	ORF1A:C213F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	1245	.	G	A	494	PASS	975	0.053333	0	"919,0,52,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.980G>A	p.Gly327Asp	980/21291	980/21291	327/7096	327	7096		",A"	G327D	G1245A	G327D	ORF1AB:G327D	327	ORF1a	G327D	ORF1A:G327D	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	1363	.	TA	T	4172	PASS	837	0.174433	0	"699,0,146,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1102delA	p.Ile368fs	1102/21291	1102/21291	368/7096	368	7096		"INFO_REALIGN_3_PRIME,T"	del368	TA1363T	del368	ORF1AB:DEL368	368	ORF1a	del368	ORF1A:DEL368	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	1628	.	CA	C	3636	PASS	717	0.178522	0	"589,0,128,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1368delA	p.Glu457fs	1368/21291	1368/21291	456/7096	456	7096		"INFO_REALIGN_3_PRIME,C"	del457	CA1628C	del457	ORF1AB:DEL457	457	ORF1a	del457	ORF1A:DEL457	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	1722	.	CT	C	3133	PASS	688	0.156977	0	"580,0,108,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1461delT	p.Phe487fs	1461/21291	1461/21291	487/7096	487	7096		"INFO_REALIGN_3_PRIME,C"	del487	CT1722C	del487	ORF1AB:DEL487	487	ORF1a	del487	ORF1A:DEL487	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	3001	.	TG	T	61	PASS	378	0.007937	0	"375,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2737delG	p.Glu913fs	2737/21291	2737/21291	913/7096	913	7096		",T"	del913	TG3001T	del913	ORF1AB:DEL913	913	ORF1a	del913	ORF1A:DEL913	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	3037	.	C	T	10768	PASS	316	0.993671	2147483647	"0,0,314,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	4543	.	C	T	1846	PASS	187	0.417112	0	"109,0,78,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	4893	.	C	T	593	PASS	235	0.13617	0	"203,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4628C>T	p.Thr1543Ile	4628/21291	4628/21291	1543/7096	1543	7096		",T"	T1543I	C4893T	T1543I	ORF1AB:T1543I	1543	ORF1a	T1543I	ORF1A:T1543I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	5023	.	G	T	326	PASS	283	0.088339	0	"258,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4758G>T	p.Met1586Ile	4758/21291	4758/21291	1586/7096	1586	7096		",T"	M1586I	G5023T	M1586I	ORF1AB:M1586I	1586	ORF1a	M1586I	ORF1A:M1586I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	5629	.	G	T	621	PASS	121	0.22314	0	"94,0,27,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	6286	.	C	T	100	PASS	14	0.285714	0	"10,0,4,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	6941	.	C	T	1009	PASS	124	0.33871	0	"81,0,42,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	7856	.	A	G	920	PASS	707	0.089109	0	"644,0,63,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7591A>G	p.Asn2531Asp	7591/21291	7591/21291	2531/7096	2531	7096		",G"	N2531D	A7856G	N2531D	ORF1AB:N2531D	2531	ORF1a	N2531D	ORF1A:N2531D	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	7880	.	A	G	925	PASS	773	0.108668	0	"689,0,84,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7615A>G	p.Asn2539Asp	7615/21291	7615/21291	2539/7096	2539	7096		",G"	N2539D	A7880G	N2539D	ORF1AB:N2539D	2539	ORF1a	N2539D	ORF1A:N2539D	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	8618	.	G	A	703	PASS	263	0.159696	0	"221,0,42,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	8638	.	A	G	614	PASS	281	0.156584	0	"235,0,44,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8373A>G	p.Thr2791Thr	8373/21291	8373/21291	2791/7096	2791	7096		",G"	T2791T	A8638G	T2791T	ORF1AB:T2791T	2791	ORF1a	T2791T	ORF1A:T2791T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	8752	.	CA	C	544	PASS	403	0.052109	0	"382,0,21,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8490delA	p.Lys2830fs	8490/21291	8490/21291	2830/7096	2830	7096		"INFO_REALIGN_3_PRIME,C"	del2830	CA8752C	del2830	ORF1AB:DEL2830	2830	ORF1a	del2830	ORF1A:DEL2830	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	8983	.	T	G	1404	PASS	676	0.12426	0	"591,0,84,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	9157	.	T	C	994	PASS	691	0.105644	0	"618,0,73,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8892T>C	p.Phe2964Phe	8892/21291	8892/21291	2964/7096	2964	7096		",C"	F2964F	T9157C	F2964F	ORF1AB:F2964F	2964	ORF1a	F2964F	ORF1A:F2964F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	9314	.	G	GT	273	PASS	740	0.017568	0	"733,0,13,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9053dupT	p.Cys3019fs	9054/21291	9054/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,GT"	del3019	G9314GT	del3019	ORF1AB:DEL3019	3019	ORF1a	del3019	ORF1A:DEL3019	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	9526	.	G	T	7022	PASS	590	0.445763	0	"327,0,263,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	10201	.	G	T	4439	PASS	1846	0.134345	0	"1597,0,248,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9936G>T	p.Met3312Ile	9936/21291	9936/21291	3312/7096	3312	7096		",T"	M3312I	G10201T	M3312I	ORF1AB:M3312I	3312	ORF1a	M3312I	ORF1A:M3312I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	10368	.	G	C	3153	PASS	1674	0.120072	0	"1461,0,201,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10103G>C	p.Arg3368Pro	10103/21291	10103/21291	3368/7096	3368	7096		",C"	R3368P	G10368C	R3368P	ORF1AB:R3368P	3368	ORF1a	R3368P	ORF1A:R3368P	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	10386	.	C	CT	6357	PASS	1623	0.1374	0	"1400,0,223,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10126dupT	p.Ser3376fs	10127/21291	10127/21291	3376/7096	3376	7096		"INFO_REALIGN_3_PRIME,CT"	del3376	C10386CT	del3376	ORF1AB:DEL3376	3376	ORF1a	del3376	ORF1A:DEL3376	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	10423	.	TG	T	60	PASS	1595	0.002508	0	"1591,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10160delG	p.Gly3387fs	10160/21291	10160/21291	3387/7096	3387	7096		"INFO_REALIGN_3_PRIME,T"	del3387	TG10423T	del3387	ORF1AB:DEL3387	3387	ORF1a	del3387	ORF1A:DEL3387	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	10427	.	GT	G	61	PASS	1568	0.002551	0	"1585,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10165delT	p.Tyr3389fs	10165/21291	10165/21291	3389/7096	3389	7096		"INFO_REALIGN_3_PRIME,G"	del3389	GT10427G	del3389	ORF1AB:DEL3389	3389	ORF1a	del3389	ORF1A:DEL3389	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	10980	.	TGAAAA	T	189	PASS	214	0.037383	0	"206,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10719_10723delAAGAA	p.Lys3573fs	10719/21291	10719/21291	3573/7096	3573	7096		"INFO_REALIGN_3_PRIME,T"	del3573	TGAAAA10980T	del3573	ORF1AB:DEL3573	3573	ORF1a	del3573	ORF1A:DEL3573	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	11031	.	C	CT	123	PASS	639	0.00939	0	"634,0,6,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10768dupT	p.Ser3590fs	10769/21291	10769/21291	3590/7096	3590	7096		"INFO_REALIGN_3_PRIME,CT"	del3590	C11031CT	del3590	ORF1AB:DEL3590	3590	ORF1a	del3590	ORF1A:DEL3590	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	11042	.	G	GT	1113	PASS	724	0.059392	0	"682,0,43,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10781dupT	p.Leu3594fs	10782/21291	10782/21291	3594/7096	3594	7096		"INFO_REALIGN_3_PRIME,GT"	del3594	G11042GT	del3594	ORF1AB:DEL3594	3594	ORF1a	del3594	ORF1A:DEL3594	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	11082	.	TG	T	49	PASS	1089	0.003673	0	"1085,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	11083	.	G	T	1965	PASS	1092	0.117216	0	"958,0,128,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	11095	.	CT	C	130	PASS	1147	0.006975	0	"1139,0,8,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835delT	p.Leu3612fs	10835/21291	10835/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,C"	del3612	CT11095C	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	11178	.	T	C	1138	PASS	1025	0.079024	0	"944,0,81,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10913T>C	p.Leu3638Ser	10913/21291	10913/21291	3638/7096	3638	7096		",C"	L3638S	T11178C	L3638S	ORF1AB:L3638S	3638	ORF1a	L3638S	ORF1A:L3638S	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	11287	.	GTCTGGTTTT	G	1976	PASS	1379	0.058738	0	"1301,0,81,0"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	11497	.	C	T	9393	PASS	1490	0.273154	0	"1082,0,407,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	12397	.	A	G	404	PASS	845	0.065089	0	"784,0,55,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12132A>G	p.Ala4044Ala	12132/21291	12132/21291	4044/7096	4044	7096		",G"	A4044A	A12397G	A4044A	ORF1AB:A4044A	4044	ORF1a	A4044A	ORF1A:A4044A	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13004	.	G	C	3131	PASS	1727	0.110017	0	"1537,0,190,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12739G>C	p.Ala4247Pro	12739/21291	12739/21291	4247/7096	4247	7096		",C"	A4247P	G13004C	A4247P	ORF1AB:A4247P	4247	ORF1a	A4247P	ORF1A:A4247P	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13207	.	C	A	2952	PASS	2303	0.093791	0	"2086,0,216,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12942C>A	p.Ala4314Ala	12942/21291	12942/21291	4314/7096	4314	7096		",A"	A4314A	C13207A	A4314A	ORF1AB:A4314A	4314	ORF1a	A4314A	ORF1A:A4314A	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13280	.	C	A	3092	PASS	2305	0.088069	0	"2101,0,203,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13015C>A	p.Pro4339Thr	13015/21291	13015/21291	4339/7096	4339	7096		",A"	P4339T	C13280A	P4339T	ORF1AB:P4339T	4339	ORF1a	P4339T	ORF1A:P4339T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13393	.	GA	G	54	PASS	2334	0.001714	0	"2336,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13131delA	p.Gly4378fs	13131/21291	13131/21291	4377/7096	4377	7096		"INFO_REALIGN_3_PRIME,G"	del4378	GA13393G	del4378	ORF1AB:DEL4378	4378	ORF1a	del4378	ORF1A:DEL4378	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13394	.	A	G	329	PASS	2336	0.019692	0	"2279,0,46,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13129A>G	p.Lys4377Glu	13129/21291	13129/21291	4377/7096	4377	7096		",G"	K4377E	A13394G	K4377E	ORF1AB:K4377E	4377	ORF1a	K4377E	ORF1A:K4377E	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13459	.	GTT	G	3471	PASS	1980	0.068687	0	"1869,0,136,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13198_13199delTT	p.Leu4400fs	13198/21291	13198/21291	4400/7096	4400	7096		"INFO_REALIGN_3_PRIME,G"	del4400	GTT13459G	del4400	ORF1AB:DEL4400	4400	ORF1a	del4400	ORF1A:DEL4400	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13469	.	G	A	1538	PASS	1950	0.064103	0	"1816,0,125,0"	FALSE	A	missense_variant&splice_region_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13205G>A	p.Arg4402Gln	13205/21291	13205/21291	4402/7096	4402	7096		",A"	R4402Q	G13469A	R4402Q	ORF1AB:R4402Q	1	ORF1b	R1Q	ORF1B:R1Q	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13517	.	C	T	5260	PASS	1710	0.161988	0	"1431,0,277,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13541	.	C	CT	599	PASS	1331	0.021037	0	"1303,0,28,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13281dupT	p.Asp4428fs	13282/21291	13282/21291	4428/7096	4428	7096		"INFO_REALIGN_3_PRIME,CT"	del4428	C13541CT	del4428	ORF1AB:DEL4428	27	ORF1b	del27	ORF1B:DEL27	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	13993	.	G	T	1568	PASS	1097	0.085688	0	"1001,0,94,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	14032	.	A	G	2266	PASS	1040	0.130769	0	"899,0,136,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13768A>G	p.Asn4590Asp	13768/21291	13768/21291	4590/7096	4590	7096		",G"	N4590D	A14032G	N4590D	ORF1AB:N4590D	189	ORF1b	N189D	ORF1B:N189D	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	14061	.	A	T	1371	PASS	801	0.109863	0	"712,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13797A>T	p.Leu4599Phe	13797/21291	13797/21291	4599/7096	4599	7096		",T"	L4599F	A14061T	L4599F	ORF1AB:L4599F	198	ORF1b	L198F	ORF1B:L198F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	14561	.	A	G	1020	PASS	471	0.110403	0	"419,0,52,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14297A>G	p.Tyr4766Cys	14297/21291	14297/21291	4766/7096	4766	7096		",G"	Y4766C	A14561G	Y4766C	ORF1AB:Y4766C	365	ORF1b	Y365C	ORF1B:Y365C	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	14770	.	CAGG	C	3950	PASS	1325	0.107925	0	"1182,0,143,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14508_14510delGGA	p.Gln4836_Asp4837delinsHis	14508/21291	14508/21291	4836/7096	4836	7096		"INFO_REALIGN_3_PRIME,C"	indel	CAGG14770C	NA	NA	NA	ORF1b	NA	NA	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	15324	.	C	T	5784	PASS	334	0.586826	0	"137,0,196,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	15579	.	CA	C	134	PASS	59	0.084746	0	"54,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15319delA	p.Ile5107fs	15319/21291	15319/21291	5107/7096	5107	7096		"INFO_REALIGN_3_PRIME,C"	del5107	CA15579C	del5107	ORF1AB:DEL5107	706	ORF1b	del706	ORF1B:DEL706	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	15579	.	C	T	203	PASS	59	0.152542	0	"49,0,9,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	15725	.	CTG	C	81	PASS	133	0.030075	0	"129,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15463_15464delGT	p.Val5155fs	15463/21291	15463/21291	5155/7096	5155	7096		"INFO_REALIGN_3_PRIME,C"	del5155	CTG15725C	del5155	ORF1AB:DEL5155	754	ORF1b	del754	ORF1B:DEL754	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	15766	.	G	T	1397	PASS	154	0.357143	0	"99,0,55,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	16176	.	T	C	129	PASS	55	0.127273	0	"48,0,7,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15912T>C	p.Thr5304Thr	15912/21291	15912/21291	5304/7096	5304	7096		",C"	T5304T	T16176C	T5304T	ORF1AB:T5304T	903	ORF1b	T903T	ORF1B:T903T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	16396	.	GGTTGTGATGTCACA	G	1659	PASS	898	0.070156	0	"835,0,63,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16134_16147delTTGTGATGTCACAG	p.Val5381fs	16134/21291	16134/21291	5378/7096	5378	7096		"INFO_REALIGN_3_PRIME,G"	del5381	GGTTGTGATGTCACA16396G	del5381	ORF1AB:DEL5381	980	ORF1b	del980	ORF1B:DEL980	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	16838	.	A	G	1703	PASS	1232	0.086851	0	"1124,0,107,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16574A>G	p.Glu5525Gly	16574/21291	16574/21291	5525/7096	5525	7096		",G"	E5525G	A16838G	E5525G	ORF1AB:E5525G	1124	ORF1b	E1124G	ORF1B:E1124G	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	16889	.	A	G	21412	PASS	1163	0.61221	0	"449,0,712,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	16912	.	G	T	1393	PASS	1038	0.085742	0	"947,0,89,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	17019	.	G	T	9701	PASS	606	0.561056	0	"266,0,340,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	17104	.	C	T	603	PASS	61	0.377049	0	"38,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	17575	.	GA	G	56	PASS	429	0.006993	0	"426,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17314delA	p.Ile5772fs	17314/21291	17314/21291	5772/7096	5772	7096		"INFO_REALIGN_3_PRIME,G"	del5772	GA17575G	del5772	ORF1AB:DEL5772	1371	ORF1b	del1371	ORF1B:DEL1371	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	17615	.	A	G	977	PASS	420	0.140476	0	"358,0,59,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	17848	.	G	T	813	PASS	686	0.093294	0	"620,0,64,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17584G>T	p.Gly5862Cys	17584/21291	17584/21291	5862/7096	5862	7096		",T"	G5862C	G17848T	G5862C	ORF1AB:G5862C	1461	ORF1b	G1461C	ORF1B:G1461C	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	18028	.	G	T	1667	PASS	630	0.157143	0	"531,0,99,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17764G>T	p.Ala5922Ser	17764/21291	17764/21291	5922/7096	5922	7096		",T"	A5922S	G18028T	A5922S	ORF1AB:A5922S	1521	ORF1b	A1521S	ORF1B:A1521S	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	18756	.	GT	G	68	PASS	951	0.004206	0	"947,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18495delT	p.Phe6165fs	18495/21291	18495/21291	6165/7096	6165	7096		"INFO_REALIGN_3_PRIME,G"	del6165	GT18756G	del6165	ORF1AB:DEL6165	1764	ORF1b	del1764	ORF1B:DEL1764	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	18877	.	C	T	2657	PASS	1025	0.13561	0	"885,0,139,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	19396	.	G	C	589	PASS	1512	0.036376	0	"1454,0,55,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19132G>C	p.Glu6378Gln	19132/21291	19132/21291	6378/7096	6378	7096		",C"	E6378Q	G19396C	E6378Q	ORF1AB:E6378Q	1977	ORF1b	E1977Q	ORF1B:E1977Q	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	19442	.	TA	T	673	PASS	1173	0.024723	0	"1144,0,29,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19181delA	p.Lys6394fs	19181/21291	19181/21291	6394/7096	6394	7096		"INFO_REALIGN_3_PRIME,T"	del6394	TA19442T	del6394	ORF1AB:DEL6394	1993	ORF1b	del1993	ORF1B:DEL1993	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	19524	.	C	T	13357	PASS	1584	0.334596	0	"1048,0,530,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	19755	.	TA	T	3673	PASS	1367	0.098756	0	"1233,0,135,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19495delA	p.Thr6499fs	19495/21291	19495/21291	6499/7096	6499	7096		"INFO_REALIGN_3_PRIME,T"	del6499	TA19755T	del6499	ORF1AB:DEL6499	2098	ORF1b	del2098	ORF1B:DEL2098	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	20568	.	G	T	2315	PASS	1017	0.130777	0	"882,0,133,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20304G>T	p.Lys6768Asn	20304/21291	20304/21291	6768/7096	6768	7096		",T"	K6768N	G20568T	K6768N	ORF1AB:K6768N	2367	ORF1b	K2367N	ORF1B:K2367N	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	21030	.	GGA	G	1946	PASS	758	0.102902	0	"687,0,78,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20767_20768delGA	p.Asp6923fs	20767/21291	20767/21291	6923/7096	6923	7096		",G"	del6923	GGA21030G	del6923	ORF1AB:DEL6923	2522	ORF1b	del2522	ORF1B:DEL2522	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	21711	.	C	T	166	PASS	261	0.061303	0	"245,0,16,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.149C>T	p.Ser50Leu	149/3822	149/3822	50/1273	50	1273		",T"	S50L	C21711T	S50L	S:S50L	50	S	S50L	S:S50L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	21764	.	ATACATG	A	95	PASS	207	0.019324	0	"203,0,4,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	21855	.	C	T	3278	PASS	288	0.427083	0	"165,0,123,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	21990	.	TTTA	T	294	PASS	263	0.045627	0	"252,0,12,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.432_434delTTA	p.Tyr145del	432/3822	432/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,T"	del145	TTTA21990T	del145	S:DEL145	145	S	del145	S:DEL145	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	22227	.	C	T	186	PASS	87	0.137931	0	"75,0,12,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	22992	.	G	A	205	PASS	34	0.294118	0	"24,0,10,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	23063	.	A	T	202	PASS	22	0.318182	0	"15,0,7,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	23403	.	A	G	1145	PASS	35	0.971429	2147483647	"0,0,34,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	24358	.	CA	C	108	PASS	49	0.081633	0	"45,0,4,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2800delA	p.Ile934fs	2800/3822	2800/3822	934/1273	934	1273		"INFO_REALIGN_3_PRIME,C"	del934	CA24358C	del934	S:DEL934	934	S	del934	S:DEL934	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	24506	.	T	G	132	PASS	91	0.076923	0	"84,0,7,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25247	.	A	T	93	PASS	1033	0.026137	0	"1004,0,27,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25280	.	T	G	78	PASS	1043	0.027804	0	"1011,0,29,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25296	.	A	C	102	PASS	1035	0.038647	0	"961,0,40,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25301	.	T	G	70	PASS	1052	0.030418	0	"1019,0,32,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25317	.	C	T	4429	PASS	1125	0.219556	0	"872,0,247,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25324	.	C	A	533	PASS	1116	0.076165	0	"1030,0,85,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25327	.	A	T	112	PASS	1103	0.031732	0	"1068,0,35,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25331	.	G	T	156	PASS	1093	0.04849	0	"1032,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25336	.	A	C	142	PASS	1089	0.04775	0	"1022,0,52,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25505	.	A	G	9133	PASS	871	0.405281	0	"517,0,353,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25563	.	G	T	2803	PASS	870	0.156322	0	"734,0,136,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25615	.	A	G	1097	PASS	1007	0.080437	0	"924,0,81,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.223A>G	p.Lys75Glu	223/828	223/828	75/275	75	275		",G"	K75E	A25615G	K75E	ORF3A:K75E	75	ORF3a	K75E	ORF3A:K75E	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25710	.	C	T	2544	PASS	587	0.195911	0	"470,0,115,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25819	.	GC	G	63	PASS	316	0.009494	0	"322,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.429delC	p.Asn144fs	429/828	429/828	143/275	143	275		"INFO_REALIGN_3_PRIME,G"	del144	GC25819G	del144	ORF3A:DEL144	144	ORF3a	del144	ORF3A:DEL144	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25886	.	C	T	1756	PASS	342	0.22807	0	"264,0,78,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25906	.	G	C	128	PASS	336	0.035714	0	"324,0,12,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25916	.	C	T	2046	PASS	366	0.240437	0	"278,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.524C>T	p.Thr175Ile	524/828	524/828	175/275	175	275		",T"	T175I	C25916T	T175I	ORF3A:T175I	175	ORF3a	T175I	ORF3A:T175I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25993	.	G	GT	775	PASS	326	0.088957	0	"296,0,29,0"	TRUE	GT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.603dupT	p.Val202fs	604/828	604/828	202/275	202	275		"INFO_REALIGN_3_PRIME,GT"	del202	G25993GT	del202	ORF3A:DEL202	202	ORF3a	del202	ORF3A:DEL202	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25996	.	G	A	1793	PASS	341	0.228739	0	"253,0,78,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>A	p.Val202Ile	604/828	604/828	202/275	202	275		",A"	V202I	G25996A	V202I	ORF3A:V202I	202	ORF3a	V202I	ORF3A:V202I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	25996	.	G	T	76	PASS	341	0.026393	0	"253,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	26110	.	C	T	1178	PASS	698	0.095989	0	"630,0,67,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.718C>T	p.Pro240Ser	718/828	718/828	240/275	240	275		",T"	P240S	C26110T	P240S	ORF3A:P240S	240	ORF3a	P240S	ORF3A:P240S	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	26244	.	T	C	384	PASS	1502	0.027963	0	"1457,0,42,0"	FALSE	C	upstream_gene_variant	MODIFIER	E	GU280_gp04	transcript	GU280_gp04	protein_coding		c.-1T>C						NA	1	",C"		T26244C		NA	NA	E		NA	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	26718	.	G	T	3351	PASS	1829	0.101148	0	"1643,0,185,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.196G>T	p.Val66Leu	196/669	196/669	66/222	66	222		",T"	V66L	G26718T	V66L	M:V66L	66	M	V66L	M:V66L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	26736	.	AG	A	5052	PASS	1624	0.115148	0	"1440,0,187,0"	TRUE	A	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.215delG	p.Arg72fs	215/669	215/669	72/222	72	222		",A"	del72	AG26736A	del72	M:DEL72	72	M	del72	M:DEL72	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	26801	.	C	G	25560	PASS	1406	0.605263	0	"554,0,851,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	27294	.	C	T	5314	PASS	1037	0.231437	0	"792,0,240,0"	FALSE	T	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.93C>T	p.Tyr31Tyr	93/186	93/186	31/61	31	61		",T"	Y31Y	C27294T	Y31Y	ORF6:Y31Y	31	ORF6	Y31Y	ORF6:Y31Y	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	27944	.	C	T	14856	PASS	1116	0.479391	0	"579,0,535,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	27970	.	C	A	78	PASS	898	0.014477	0	"883,0,13,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	27972	.	C	T	1997	PASS	877	0.128848	0	"761,0,113,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28001	.	G	A	350	PASS	626	0.046326	0	"597,0,29,0"	FALSE	A	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.108G>A	p.Pro36Pro	108/366	108/366	36/121	36	121		",A"	P36P	G28001A	P36P	ORF8:P36P	36	ORF8	P36P	ORF8:P36P	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28027	.	G	T	90	PASS	465	0.030108	0	"451,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.134G>T	p.Trp45Leu	134/366	134/366	45/121	45	121		",T"	W45L	G28027T	W45L	ORF8:W45L	45	ORF8	W45L	ORF8:W45L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28048	.	G	T	148	PASS	316	0.044304	0	"301,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28133	.	A	T	92	PASS	283	0.035336	0	"273,0,10,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28254	.	A	C	150	PASS	277	0.061372	0	"260,0,17,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28270	.	TA	T	1940	PASS	671	0.123696	0	"588,0,83,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28280	.	G	C	1336	PASS	741	0.112011	0	"657,0,83,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28281	.	A	T	1374	PASS	754	0.114058	0	"668,0,86,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28282	.	T	A	1405	PASS	766	0.117493	0	"676,0,90,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28288	.	A	C	1420	PASS	912	0.130482	0	"793,0,119,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.15A>C	p.Gly5Gly	15/1260	15/1260	5/419	5	419		",C"	G5G	A28288C	G5G	N:G5G	5	N	G5G	N:G5G	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28378	.	G	T	262	PASS	1720	0.021512	0	"1682,0,37,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28384	.	A	T	231	PASS	1706	0.022274	0	"1666,0,38,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28542	.	C	T	1191	PASS	3404	0.036134	0	"3270,0,123,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.269C>T	p.Ala90Val	269/1260	269/1260	90/419	90	419		",T"	A90V	C28542T	A90V	N:A90V	90	N	A90V	N:A90V	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28651	.	C	T	15178	PASS	3087	0.22287	0	"2397,0,688,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28656	.	A	G	945	PASS	3027	0.048893	0	"2850,0,148,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.383A>G	p.Asp128Gly	383/1260	383/1260	128/419	128	419		",G"	D128G	A28656G	D128G	N:D128G	128	N	D128G	N:D128G	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28869	.	C	T	20308	PASS	4473	0.215292	0	"3490,0,963,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28881	.	G	A	4361	PASS	4312	0.07885	0	"3951,0,340,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28882	.	G	A	3941	PASS	4358	0.078017	0	"3994,0,340,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28883	.	G	C	4375	PASS	4342	0.079917	0	"3982,0,347,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28887	.	C	T	1890	PASS	4248	0.047316	0	"4043,0,201,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28932	.	C	T	29952	PASS	4243	0.307094	0	"2931,0,1303,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28975	.	G	C	34466	PASS	4008	0.346307	0	"2611,0,1388,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28977	.	C	T	4217	PASS	3898	0.073114	0	"3604,0,285,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28978	.	T	A	983	PASS	3900	0.030769	0	"3769,0,120,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28987	.	CCAA	C	393	PASS	3643	0.006313	0	"3643,0,23,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	28990	.	AC	A	46	PASS	3597	0.001112	0	"3656,0,4,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.718delC	p.Gln240fs	718/1260	718/1260	240/419	240	419		",A"	del240	AC28990A	del240	N:DEL240	240	N	del240	N:DEL240	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	29001	.	G	A	1179	PASS	3667	0.044178	0	"3491,0,162,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.728G>A	p.Gly243Asp	728/1260	728/1260	243/419	243	419		",A"	G243D	G29001A	G243D	N:G243D	243	N	G243D	N:G243D	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	29051	.	C	CA	4730	PASS	3144	0.061387	0	"2951,0,193,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	29095	.	C	T	3899	PASS	2693	0.090977	0	"2443,0,245,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.822C>T	p.Phe274Phe	822/1260	822/1260	274/419	274	419		",T"	F274F	C29095T	F274F	N:F274F	274	N	F274F	N:F274F	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	29179	.	G	T	511	PASS	996	0.047189	0	"948,0,47,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.906G>T	p.Pro302Pro	906/1260	906/1260	302/419	302	419		",T"	P302P	G29179T	P302P	N:P302P	302	N	P302P	N:P302P	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG34-2	NC_045512.2	29180	.	CA	C	1262	PASS	969	0.0516	0	"919,0,50,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.910delA	p.Ile304fs	910/1260	910/1260	304/419	304	419		"INFO_REALIGN_3_PRIME,C"	del304	CA29180C	del304	N:DEL304	304	N	del304	N:DEL304	BEG34-2	BEGGEN	2020-11-18T00:00:00Z	30.03575	33.08333333	x	1022021	2020-11-18
BEG35-1	NC_045512.2	135	.	A	G	3212	PASS	1383	0.133044	0	"1196,0,184,0"	FALSE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-131A>G						NA	131	",G"		A135G		NA	NA	NA		NA	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	146	.	A	T	5312	PASS	1520	0.159211	0	"1278,0,242,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-120A>T						NA	120	",T"		A146T		NA	NA	NA		NA	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	222	.	C	T	5364	PASS	2413	0.126399	0	"2104,0,305,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-44C>T						NA	44	",T"		C222T		NA	NA	NA		NA	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	241	.	C	T	49314	PASS	2565	0.996881	0	"3,0,2557,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	335	.	C	T	5829	PASS	2518	0.131454	0	"2180,0,331,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	445	.	T	C	5182	PASS	2994	0.138611	0	"2563,0,415,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	487	.	G	T	8619	PASS	2989	0.149214	0	"2541,0,446,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.222G>T	p.Ser74Ser	222/21291	222/21291	74/7096	74	7096		",T"	S74S	G487T	S74S	ORF1AB:S74S	74	ORF1a	S74S	ORF1A:S74S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	518	.	ATG	A	10133	PASS	2818	0.138396	0	"2494,0,390,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.254_255delTG	p.Met85fs	254/21291	254/21291	85/7096	85	7096		",A"	del85	ATG518A	del85	ORF1AB:DEL85	85	ORF1a	del85	ORF1A:DEL85	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	539	.	C	T	6468	PASS	2701	0.134765	0	"2328,0,364,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.274C>T	p.Leu92Phe	274/21291	274/21291	92/7096	92	7096		",T"	L92F	C539T	L92F	ORF1AB:L92F	92	ORF1a	L92F	ORF1A:L92F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	802	.	A	C	89	PASS	2278	0.010097	0	"2242,0,23,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	811	.	C	T	2891	PASS	2362	0.084674	0	"2158,0,200,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.546C>T	p.Tyr182Tyr	546/21291	546/21291	182/7096	182	7096		",T"	Y182Y	C811T	Y182Y	ORF1AB:Y182Y	182	ORF1a	Y182Y	ORF1A:Y182Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	1073	.	TG	T	8806	PASS	2243	0.14222	0	"1929,0,319,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.809delG	p.Cys270fs	809/21291	809/21291	270/7096	270	7096		",T"	del270	TG1073T	del270	ORF1AB:DEL270	270	ORF1a	del270	ORF1A:DEL270	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	2416	.	C	T	792	PASS	209	0.172249	0	"172,0,36,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	2589	.	A	G	2563	PASS	616	0.225649	0	"474,0,139,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2324A>G	p.Glu775Gly	2324/21291	2324/21291	775/7096	775	7096		",G"	E775G	A2589G	E775G	ORF1AB:E775G	775	ORF1a	E775G	ORF1A:E775G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	2641	.	A	G	3815	PASS	807	0.214374	0	"632,0,173,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2376A>G	p.Glu792Glu	2376/21291	2376/21291	792/7096	792	7096		",G"	E792E	A2641G	E792E	ORF1AB:E792E	792	ORF1a	E792E	ORF1A:E792E	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	2903	.	A	G	349	PASS	989	0.034378	0	"951,0,34,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2638A>G	p.Ile880Val	2638/21291	2638/21291	880/7096	880	7096		",G"	I880V	A2903G	I880V	ORF1AB:I880V	880	ORF1a	I880V	ORF1A:I880V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	2905	.	A	T	3988	PASS	973	0.193217	0	"785,0,188,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2640A>T	p.Ile880Ile	2640/21291	2640/21291	880/7096	880	7096		",T"	I880I	A2905T	I880I	ORF1AB:I880I	880	ORF1a	I880I	ORF1A:I880I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	3037	.	C	T	25064	PASS	732	0.994536	2147483647	"0,0,728,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	3093	.	C	T	2443	PASS	716	0.175978	0	"590,0,126,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2828C>T	p.Pro943Leu	2828/21291	2828/21291	943/7096	943	7096		",T"	P943L	C3093T	P943L	ORF1AB:P943L	943	ORF1a	P943L	ORF1A:P943L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	3540	.	C	T	111	PASS	23	0.217391	0	"18,0,5,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3275C>T	p.Ala1092Val	3275/21291	3275/21291	1092/7096	1092	7096		",T"	A1092V	C3540T	A1092V	ORF1AB:A1092V	1092	ORF1a	A1092V	ORF1A:A1092V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	3602	.	C	T	547	PASS	36	0.527778	0	"17,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	3636	.	A	G	103	PASS	49	0.122449	0	"43,0,6,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3371A>G	p.Lys1124Arg	3371/21291	3371/21291	1124/7096	1124	7096		",G"	K1124R	A3636G	K1124R	ORF1AB:K1124R	1124	ORF1a	K1124R	ORF1A:K1124R	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	3802	.	TA	T	383	PASS	80	0.1625	0	"68,0,13,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3542delA	p.Asn1181fs	3542/21291	3542/21291	1181/7096	1181	7096		"INFO_REALIGN_3_PRIME,T"	del1181	TA3802T	del1181	ORF1AB:DEL1181	1181	ORF1a	del1181	ORF1A:DEL1181	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	4040	.	A	G	654	PASS	72	0.361111	0	"45,0,26,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	4312	.	TA	T	1301	PASS	408	0.115196	0	"400,0,47,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4051delA	p.Ser1351fs	4051/21291	4051/21291	1351/7096	1351	7096		"INFO_REALIGN_3_PRIME,T"	del1351	TA4312T	del1351	ORF1AB:DEL1351	1351	ORF1a	del1351	ORF1A:DEL1351	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	4543	.	C	T	2885	PASS	579	0.234888	0	"441,0,136,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	5384	.	G	T	751	PASS	577	0.088388	0	"526,0,51,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5119G>T	p.Ala1707Ser	5119/21291	5119/21291	1707/7096	1707	7096		",T"	A1707S	G5384T	A1707S	ORF1AB:A1707S	1707	ORF1a	A1707S	ORF1A:A1707S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	5629	.	G	T	10000	PASS	693	0.50505	0	"342,0,350,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	5884	.	C	T	1315	PASS	605	0.123967	0	"528,0,75,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	5927	.	G	GT	95	PASS	514	0.009728	0	"513,0,5,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5665dupT	p.Cys1889fs	5666/21291	5666/21291	1889/7096	1889	7096		"INFO_REALIGN_3_PRIME,GT"	del1889	G5927GT	del1889	ORF1AB:DEL1889	1889	ORF1a	del1889	ORF1A:DEL1889	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	6026	.	C	T	153	PASS	423	0.042553	0	"403,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5761C>T	p.Pro1921Ser	5761/21291	5761/21291	1921/7096	1921	7096		",T"	P1921S	C6026T	P1921S	ORF1AB:P1921S	1921	ORF1a	P1921S	ORF1A:P1921S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	6040	.	C	T	94	PASS	361	0.036011	0	"347,0,13,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5775C>T	p.Phe1925Phe	5775/21291	5775/21291	1925/7096	1925	7096		",T"	F1925F	C6040T	F1925F	ORF1AB:F1925F	1925	ORF1a	F1925F	ORF1A:F1925F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	6254	.	G	T	383	PASS	198	0.116162	0	"175,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5989G>T	p.Ala1997Ser	5989/21291	5989/21291	1997/7096	1997	7096		",T"	A1997S	G6254T	A1997S	ORF1AB:A1997S	1997	ORF1a	A1997S	ORF1A:A1997S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	6286	.	C	T	542	PASS	200	0.17	0	"165,0,34,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	6403	.	A	G	507	PASS	161	0.161491	0	"134,0,26,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6138A>G	p.Pro2046Pro	6138/21291	6138/21291	2046/7096	2046	7096		",G"	P2046P	A6403G	P2046P	ORF1AB:P2046P	2046	ORF1a	P2046P	ORF1A:P2046P	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	6631	.	TG	T	130	PASS	577	0.012132	0	"571,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6367delG	p.Ala2123fs	6367/21291	6367/21291	2123/7096	2123	7096		",T"	del2123	TG6631T	del2123	ORF1AB:DEL2123	2123	ORF1a	del2123	ORF1A:DEL2123	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	6696	.	C	CT	1244	PASS	714	0.065826	0	"668,0,47,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	6941	.	C	T	10101	PASS	1096	0.362226	0	"696,0,397,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	7125	.	C	A	737	PASS	485	0.107216	0	"432,0,52,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6860C>A	p.Pro2287His	6860/21291	6860/21291	2287/7096	2287	7096		",A"	P2287H	C7125A	P2287H	ORF1AB:P2287H	2287	ORF1a	P2287H	ORF1A:P2287H	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	7767	.	T	C	2888	PASS	1178	0.131579	0	"1022,0,155,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7502T>C	p.Ile2501Thr	7502/21291	7502/21291	2501/7096	2501	7096		",C"	I2501T	T7767C	I2501T	ORF1AB:I2501T	2501	ORF1a	I2501T	ORF1A:I2501T	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	7834	.	C	T	1436	PASS	1439	0.075747	0	"1322,0,109,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7569C>T	p.Asn2523Asn	7569/21291	7569/21291	2523/7096	2523	7096		",T"	N2523N	C7834T	N2523N	ORF1AB:N2523N	2523	ORF1a	N2523N	ORF1A:N2523N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8047	.	C	T	5736	PASS	1867	0.152651	0	"1581,0,285,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7782C>T	p.Tyr2594Tyr	7782/21291	7782/21291	2594/7096	2594	7096		",T"	Y2594Y	C8047T	Y2594Y	ORF1AB:Y2594Y	2594	ORF1a	Y2594Y	ORF1A:Y2594Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8080	.	A	G	178	PASS	1845	0.015718	0	"1813,0,29,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7815A>G	p.Pro2605Pro	7815/21291	7815/21291	2605/7096	2605	7096		",G"	P2605P	A8080G	P2605P	ORF1AB:P2605P	2605	ORF1a	P2605P	ORF1A:P2605P	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8178	.	G	A	131	PASS	1697	0.01591	0	"1662,0,27,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7913G>A	p.Arg2638Gln	7913/21291	7913/21291	2638/7096	2638	7096		",A"	R2638Q	G8178A	R2638Q	ORF1AB:R2638Q	2638	ORF1a	R2638Q	ORF1A:R2638Q	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8376	.	CA	C	886	PASS	986	0.03854	0	"948,0,38,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8554	.	T	C	593	PASS	860	0.068605	0	"799,0,59,0"	FALSE	C	splice_region_variant&synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	YP_009725299.1	protein_coding	1/1	c.5835T>C	p.Gly1945Gly	5835/5835	5835/5835	1945/1944	1945	1944		"WARNING_TRANSCRIPT_NO_START_CODON,C"	G1945G	T8554C	G1945G	ORF1AB:G1945G	1945	ORF1a	G1945G	ORF1A:G1945G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8853	.	G	T	347	PASS	1277	0.034456	0	"1232,0,44,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8588G>T	p.Gly2863Val	8588/21291	8588/21291	2863/7096	2863	7096		",T"	G2863V	G8853T	G2863V	ORF1AB:G2863V	2863	ORF1a	G2863V	ORF1A:G2863V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8905	.	C	CT	631	PASS	1127	0.025732	0	"1098,0,29,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8645dupT	p.Leu2882fs	8646/21291	8646/21291	2882/7096	2882	7096		"INFO_REALIGN_3_PRIME,CT"	del2882	C8905CT	del2882	ORF1AB:DEL2882	2882	ORF1a	del2882	ORF1A:DEL2882	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8960	.	C	T	865	PASS	1203	0.061513	0	"1125,0,74,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8695C>T	p.Pro2899Ser	8695/21291	8695/21291	2899/7096	2899	7096		",T"	P2899S	C8960T	P2899S	ORF1AB:P2899S	2899	ORF1a	P2899S	ORF1A:P2899S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	8964	.	C	T	1402	PASS	1208	0.077815	0	"1109,0,94,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8699C>T	p.Ser2900Leu	8699/21291	8699/21291	2900/7096	2900	7096		",T"	S2900L	C8964T	S2900L	ORF1AB:S2900L	2900	ORF1a	S2900L	ORF1A:S2900L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	9323	.	G	T	1147	PASS	1544	0.06671	0	"1440,0,103,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9058G>T	p.Gly3020Cys	9058/21291	9058/21291	3020/7096	3020	7096		",T"	G3020C	G9323T	G3020C	ORF1AB:G3020C	3020	ORF1a	G3020C	ORF1A:G3020C	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	9412	.	T	C	119	PASS	1925	0.017143	0	"1883,0,33,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9147T>C	p.Ala3049Ala	9147/21291	9147/21291	3049/7096	3049	7096		",C"	A3049A	T9412C	A3049A	ORF1AB:A3049A	3049	ORF1a	A3049A	ORF1A:A3049A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	9475	.	T	C	1963	PASS	1549	0.0949	0	"1395,0,147,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9210T>C	p.Ala3070Ala	9210/21291	9210/21291	3070/7096	3070	7096		",C"	A3070A	T9475C	A3070A	ORF1AB:A3070A	3070	ORF1a	A3070A	ORF1A:A3070A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	9526	.	G	T	6652	PASS	1771	0.192547	0	"1426,0,341,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	9628	.	T	C	4797	PASS	2017	0.132375	0	"1742,0,267,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9363T>C	p.Ser3121Ser	9363/21291	9363/21291	3121/7096	3121	7096		",C"	S3121S	T9628C	S3121S	ORF1AB:S3121S	3121	ORF1a	S3121S	ORF1A:S3121S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	9881	.	A	T	2404	PASS	1805	0.092521	0	"1638,0,167,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9616A>T	p.Arg3206*	9616/21291	9616/21291	3206/7096	3206	7096		",T"	R3206*	A9881T	R3206*	ORF1AB:R3206*	3206	ORF1a	R3206*	ORF1A:R3206*	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	10687	.	T	C	179	PASS	482	0.039419	0	"463,0,19,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10422T>C	p.Ala3474Ala	10422/21291	10422/21291	3474/7096	3474	7096		",C"	A3474A	T10687C	A3474A	ORF1AB:A3474A	3474	ORF1a	A3474A	ORF1A:A3474A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	10912	.	A	G	2272	PASS	405	0.25679	0	"301,0,104,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10647A>G	p.Leu3549Leu	10647/21291	10647/21291	3549/7096	3549	7096		",G"	L3549L	A10912G	L3549L	ORF1AB:L3549L	3549	ORF1a	L3549L	ORF1A:L3549L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	11042	.	G	T	290	PASS	1253	0.028731	0	"1215,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10777G>T	p.Val3593Phe	10777/21291	10777/21291	3593/7096	3593	7096		",T"	V3593F	G11042T	V3593F	ORF1AB:V3593F	3593	ORF1a	V3593F	ORF1A:V3593F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	11083	.	G	T	104	PASS	1706	0.014654	0	"1677,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	11134	.	T	C	2434	PASS	1808	0.094027	0	"1634,0,170,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10869T>C	p.Ala3623Ala	10869/21291	10869/21291	3623/7096	3623	7096		",C"	A3623A	T11134C	A3623A	ORF1AB:A3623A	3623	ORF1a	A3623A	ORF1A:A3623A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	11146	.	G	T	1527	PASS	1679	0.073853	0	"1552,0,124,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10881G>T	p.Met3627Ile	10881/21291	10881/21291	3627/7096	3627	7096		",T"	M3627I	G11146T	M3627I	ORF1AB:M3627I	3627	ORF1a	M3627I	ORF1A:M3627I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	11346	.	T	C	3339	PASS	2276	0.096661	0	"2050,0,220,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11081T>C	p.Leu3694Pro	11081/21291	11081/21291	3694/7096	3694	7096		",C"	L3694P	T11346C	L3694P	ORF1AB:L3694P	3694	ORF1a	L3694P	ORF1A:L3694P	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	11493	.	A	T	2714	PASS	2156	0.09833	0	"1941,0,212,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11228A>T	p.Asn3743Ile	11228/21291	11228/21291	3743/7096	3743	7096		",T"	N3743I	A11493T	N3743I	ORF1AB:N3743I	3743	ORF1a	N3743I	ORF1A:N3743I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	11497	.	C	T	19427	PASS	2135	0.362998	0	"1352,0,775,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	11689	.	TG	T	3126	PASS	1315	0.092015	0	"1195,0,121,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11426delG	p.Gly3809fs	11426/21291	11426/21291	3809/7096	3809	7096		"INFO_REALIGN_3_PRIME,T"	del3809	TG11689T	del3809	ORF1AB:DEL3809	3809	ORF1a	del3809	ORF1A:DEL3809	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	12384	.	TG	T	341	PASS	1473	0.059063	0	"1386,0,87,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12121delG	p.Asp4041fs	12121/21291	12121/21291	4041/7096	4041	7096		"INFO_REALIGN_3_PRIME,T"	del4041	TG12384T	del4041	ORF1AB:DEL4041	4041	ORF1a	del4041	ORF1A:DEL4041	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	12387	.	A	C	288	PASS	1543	0.057032	0	"1428,0,88,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12122A>C	p.Asp4041Ala	12122/21291	12122/21291	4041/7096	4041	7096		",C"	D4041A	A12387C	D4041A	ORF1AB:D4041A	4041	ORF1a	D4041A	ORF1A:D4041A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	12436	.	T	C	1862	PASS	2003	0.078882	0	"1841,0,158,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	12988	.	G	T	3611	PASS	3092	0.083765	0	"2826,0,259,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	13000	.	T	C	3472	PASS	3066	0.092955	0	"2766,0,285,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12735T>C	p.Ser4245Ser	12735/21291	12735/21291	4245/7096	4245	7096		",C"	S4245S	T13000C	S4245S	ORF1AB:S4245S	4245	ORF1a	S4245S	ORF1A:S4245S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	13356	.	C	T	3272	PASS	3211	0.077857	0	"2952,0,250,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13091C>T	p.Thr4364Ile	13091/21291	13091/21291	4364/7096	4364	7096		",T"	T4364I	C13356T	T4364I	ORF1AB:T4364I	4364	ORF1a	T4364I	ORF1A:T4364I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	13541	.	C	CT	735	PASS	2364	0.015228	0	"2328,0,36,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13281dupT	p.Asp4428fs	13282/21291	13282/21291	4428/7096	4428	7096		"INFO_REALIGN_3_PRIME,CT"	del4428	C13541CT	del4428	ORF1AB:DEL4428	27	ORF1b	del27	ORF1B:DEL27	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	13678	.	T	C	3197	PASS	2531	0.092849	0	"2295,0,235,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13414T>C	p.Tyr4472His	13414/21291	13414/21291	4472/7096	4472	7096		",C"	Y4472H	T13678C	Y4472H	ORF1AB:Y4472H	71	ORF1b	Y71H	ORF1B:Y71H	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	13993	.	G	T	34655	PASS	1959	0.614089	0	"756,0,1203,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	14641	.	C	CT	4201	PASS	1771	0.084698	0	"1621,0,150,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14379dupT	p.Thr4794fs	14380/21291	14380/21291	4794/7096	4794	7096		"INFO_REALIGN_3_PRIME,CT"	del4794	C14641CT	del4794	ORF1AB:DEL4794	393	ORF1b	del393	ORF1B:DEL393	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	14796	.	TTATGACTAC	T	5572	PASS	2454	0.082722	0	"2253,0,203,0"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14536_14544delGACTACTAT	p.Asp4846_Tyr4848del	14536/21291	14536/21291	4846/7096	4846	7096		"INFO_REALIGN_3_PRIME,T"	del4846/4848	TTATGACTAC14796T	del4846/4848	ORF1AB:DEL4846/4848	445/447	ORF1b	del445/447	ORF1B:DEL445/447	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15192	.	A	T	2866	PASS	2322	0.088717	0	"2111,0,206,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14928A>T	p.Gly4976Gly	14928/21291	14928/21291	4976/7096	4976	7096		",T"	G4976G	A15192T	G4976G	ORF1AB:G4976G	575	ORF1b	G575G	ORF1B:G575G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15237	.	C	T	1569	PASS	1841	0.070071	0	"1705,0,129,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14973C>T	p.His4991His	14973/21291	14973/21291	4991/7096	4991	7096		",T"	H4991H	C15237T	H4991H	ORF1AB:H4991H	590	ORF1b	H590H	ORF1B:H590H	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15324	.	C	T	5556	PASS	623	0.361156	0	"398,0,225,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15331	.	AG	A	545	PASS	430	0.051163	0	"408,0,22,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15068delG	p.Arg5023fs	15068/21291	15068/21291	5023/7096	5023	7096		",A"	del5023	AG15331A	del5023	ORF1AB:DEL5023	622	ORF1b	del622	ORF1B:DEL622	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15338	.	TG	T	165	PASS	335	0.020896	0	"332,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15076delG	p.Ala5026fs	15076/21291	15076/21291	5026/7096	5026	7096		"INFO_REALIGN_3_PRIME,T"	del5026	TG15338T	del5026	ORF1AB:DEL5026	625	ORF1b	del625	ORF1B:DEL625	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15598	.	G	A	1537	PASS	141	0.411348	0	"83,0,58,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15334G>A	p.Val5112Ile	15334/21291	15334/21291	5112/7096	5112	7096		",A"	V5112I	G15598A	V5112I	ORF1AB:V5112I	711	ORF1b	V711I	ORF1B:V711I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15766	.	G	T	2454	PASS	291	0.329897	0	"195,0,96,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15810	.	C	T	115	PASS	259	0.046332	0	"246,0,12,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15546C>T	p.Asn5182Asn	15546/21291	15546/21291	5182/7096	5182	7096		",T"	N5182N	C15810T	N5182N	ORF1AB:N5182N	781	ORF1b	N781N	ORF1B:N781N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	15925	.	C	CT	185	PASS	144	0.048611	0	"137,0,7,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15663dupT	p.Pro5222fs	15664/21291	15664/21291	5222/7096	5222	7096		"INFO_REALIGN_3_PRIME,CT"	del5222	C15925CT	del5222	ORF1AB:DEL5222	821	ORF1b	del821	ORF1B:DEL821	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	16117	.	G	T	265	PASS	211	0.090047	0	"192,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15853G>T	p.Asp5285Tyr	15853/21291	15853/21291	5285/7096	5285	7096		",T"	D5285Y	G16117T	D5285Y	ORF1AB:D5285Y	884	ORF1b	D884Y	ORF1B:D884Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	16597	.	AT	A	52	PASS	2068	0.001934	0	"2068,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16337delT	p.Leu5446fs	16337/21291	16337/21291	5446/7096	5446	7096		"INFO_REALIGN_3_PRIME,A"	del5446	AT16597A	del5446	ORF1AB:DEL5446	1045	ORF1b	del1045	ORF1B:DEL1045	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	16889	.	A	G	7781	PASS	1646	0.208384	0	"1300,0,343,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	16899	.	TG	T	5602	PASS	1513	0.135492	0	"1367,0,205,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16637delG	p.Gly5546fs	16637/21291	16637/21291	5546/7096	5546	7096		"INFO_REALIGN_3_PRIME,T"	del5546	TG16899T	del5546	ORF1AB:DEL5546	1145	ORF1b	del1145	ORF1B:DEL1145	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	17019	.	G	T	3719	PASS	863	0.19467	0	"695,0,168,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	17057	.	T	G	2290	PASS	686	0.164723	0	"572,0,113,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16793T>G	p.Met5598Arg	16793/21291	16793/21291	5598/7096	5598	7096		",G"	M5598R	T17057G	M5598R	ORF1AB:M5598R	1197	ORF1b	M1197R	ORF1B:M1197R	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	17104	.	C	T	1807	PASS	94	0.638298	0	"34,0,60,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	17615	.	A	G	6518	PASS	978	0.286299	0	"695,0,280,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	17756	.	G	GA	8861	PASS	1862	0.162728	0	"1562,0,303,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17496dupA	p.Ala5833fs	17497/21291	17497/21291	5833/7096	5833	7096		"INFO_REALIGN_3_PRIME,GA"	del5833	G17756GA	del5833	ORF1AB:DEL5833	1432	ORF1b	del1432	ORF1B:DEL1432	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	18028	.	G	T	1801	PASS	1402	0.089158	0	"1276,0,125,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17764G>T	p.Ala5922Ser	17764/21291	17764/21291	5922/7096	5922	7096		",T"	A5922S	G18028T	A5922S	ORF1AB:A5922S	1521	ORF1b	A1521S	ORF1B:A1521S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	18154	.	T	C	161	PASS	985	0.02132	0	"964,0,21,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17890T>C	p.Cys5964Arg	17890/21291	17890/21291	5964/7096	5964	7096		",C"	C5964R	T18154C	C5964R	ORF1AB:C5964R	1563	ORF1b	C1563R	ORF1B:C1563R	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	18687	.	CT	C	87	PASS	607	0.008237	0	"602,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18427delT	p.Ser6143fs	18427/21291	18427/21291	6143/7096	6143	7096		"INFO_REALIGN_3_PRIME,C"	del6143	CT18687C	del6143	ORF1AB:DEL6143	1742	ORF1b	del1742	ORF1B:DEL1742	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	18758	.	TTA	T	6300	PASS	1018	0.211198	0	"804,0,215,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18496_18497delAT	p.Met6166fs	18496/21291	18496/21291	6166/7096	6166	7096		"INFO_REALIGN_3_PRIME,T"	del6166	TTA18758T	del6166	ORF1AB:DEL6166	1765	ORF1b	del1765	ORF1B:DEL1765	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	18858	.	TG	T	47	PASS	1115	0.002691	0	"1115,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18595delG	p.Ala6199fs	18595/21291	18595/21291	6199/7096	6199	7096		",T"	del6199	TG18858T	del6199	ORF1AB:DEL6199	1798	ORF1b	del1798	ORF1B:DEL1798	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	18875	.	G	T	3576	PASS	1288	0.148292	0	"1096,0,191,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18611G>T	p.Cys6204Phe	18611/21291	18611/21291	6204/7096	6204	7096		",T"	C6204F	G18875T	C6204F	ORF1AB:C6204F	1803	ORF1b	C1803F	ORF1B:C1803F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	18877	.	C	T	14702	PASS	1258	0.434022	0	"708,0,546,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	19228	.	A	G	2202	PASS	1477	0.094787	0	"1331,0,140,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18964A>G	p.Ile6322Val	18964/21291	18964/21291	6322/7096	6322	7096		",G"	I6322V	A19228G	I6322V	ORF1AB:I6322V	1921	ORF1b	I1921V	ORF1B:I1921V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	19269	.	C	T	551	PASS	1733	0.032314	0	"1675,0,56,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19005C>T	p.Asn6335Asn	19005/21291	19005/21291	6335/7096	6335	7096		",T"	N6335N	C19269T	N6335N	ORF1AB:N6335N	1934	ORF1b	N1934N	ORF1B:N1934N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	19521	.	T	C	2791	PASS	2351	0.088048	0	"2136,0,207,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19257T>C	p.Tyr6419Tyr	19257/21291	19257/21291	6419/7096	6419	7096		",C"	Y6419Y	T19521C	Y6419Y	ORF1AB:Y6419Y	2018	ORF1b	Y2018Y	ORF1B:Y2018Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	19524	.	C	T	16224	PASS	2291	0.294195	0	"1603,0,674,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	20347	.	A	G	243	PASS	228	0.070175	0	"211,0,16,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20083A>G	p.Ser6695Gly	20083/21291	20083/21291	6695/7096	6695	7096		",G"	S6695G	A20347G	S6695G	ORF1AB:S6695G	2294	ORF1b	S2294G	ORF1B:S2294G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	20765	.	T	C	408	PASS	2390	0.024268	0	"2331,0,58,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20501T>C	p.Leu6834Ser	20501/21291	20501/21291	6834/7096	6834	7096		",C"	L6834S	T20765C	L6834S	ORF1AB:L6834S	2433	ORF1b	L2433S	ORF1B:L2433S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	20823	.	C	T	7738	PASS	2155	0.182831	0	"1757,0,394,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20559C>T	p.Asn6853Asn	20559/21291	20559/21291	6853/7096	6853	7096		",T"	N6853N	C20823T	N6853N	ORF1AB:N6853N	2452	ORF1b	N2452N	ORF1B:N2452N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	21082	.	GA	G	295	PASS	1317	0.01139	0	"1316,0,15,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20822delA	p.Asn6941fs	20822/21291	20822/21291	6941/7096	6941	7096		"INFO_REALIGN_3_PRIME,G"	del6941	GA21082G	del6941	ORF1AB:DEL6941	2540	ORF1b	del2540	ORF1B:DEL2540	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	21222	.	A	T	2882	PASS	555	0.234234	0	"425,0,130,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	21255	.	G	C	3700	PASS	662	0.247734	0	"498,0,164,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	21520	.	G	T	484	PASS	714	0.060224	0	"671,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21256G>T	p.Val7086Phe	21256/21291	21256/21291	7086/7096	7086	7096		",T"	V7086F	G21520T	V7086F	ORF1AB:V7086F	2685	ORF1b	V2685F	ORF1B:V2685F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	21682	.	CA	C	1165	PASS	653	0.06585	0	"610,0,43,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.123delA	p.Val42fs	123/3822	123/3822	41/1273	41	1273		"INFO_REALIGN_3_PRIME,C"	del42	CA21682C	del42	S:DEL42	42	S	del42	S:DEL42	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	21855	.	C	T	3131	PASS	559	0.250447	0	"416,0,140,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	21974	.	G	T	2314	PASS	443	0.225734	0	"343,0,100,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.412G>T	p.Asp138Tyr	412/3822	412/3822	138/1273	138	1273		",T"	D138Y	G21974T	D138Y	S:D138Y	138	S	D138Y	S:D138Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	21989	.	G	GT	1653	PASS	462	0.123377	0	"409,0,57,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.430dupT	p.Tyr144fs	431/3822	431/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,GT"	del144	G21989GT	del144	S:DEL144	144	S	del144	S:DEL144	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	22062	.	C	CT	1568	PASS	467	0.115632	0	"413,0,54,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.504dupT	p.Glu169fs	505/3822	505/3822	169/1273	169	1273		"INFO_REALIGN_3_PRIME,CT"	del169	C22062CT	del169	S:DEL169	169	S	del169	S:DEL169	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	22062	.	CT	C	56	PASS	467	0.006424	0	"464,0,3,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.504delT	p.Phe168fs	504/3822	504/3822	168/1273	168	1273		"INFO_REALIGN_3_PRIME,C"	del168	CT22062C	del168	S:DEL168	168	S	del168	S:DEL168	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	22135	.	A	T	665	PASS	568	0.09507	0	"511,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.573A>T	p.Glu191Asp	573/3822	573/3822	191/1273	191	1273		",T"	E191D	A22135T	E191D	S:E191D	191	S	E191D	S:E191D	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	22227	.	C	T	782	PASS	345	0.142029	0	"295,0,49,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	22698	.	G	T	82	PASS	109	0.06422	0	"102,0,7,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1136G>T	p.Cys379Phe	1136/3822	1136/3822	379/1273	379	1273		",T"	C379F	G22698T	C379F	S:C379F	379	S	C379F	S:C379F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	22951	.	T	C	240	PASS	219	0.086758	0	"200,0,19,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1389T>C	p.Pro463Pro	1389/3822	1389/3822	463/1273	463	1273		",C"	P463P	T22951C	P463P	S:P463P	463	S	P463P	S:P463P	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	22992	.	G	A	1428	PASS	234	0.282051	0	"167,0,66,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	23140	.	A	G	438	PASS	178	0.151685	0	"150,0,27,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1578A>G	p.Gly526Gly	1578/3822	1578/3822	526/1273	526	1273		",G"	G526G	A23140G	G526G	S:G526G	526	S	G526G	S:G526G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	23260	.	C	T	315	PASS	210	0.090476	0	"191,0,19,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1698C>T	p.Gly566Gly	1698/3822	1698/3822	566/1273	566	1273		",T"	G566G	C23260T	G566G	S:G566G	566	S	G566G	S:G566G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	23277	.	C	A	102	PASS	247	0.040486	0	"237,0,10,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1715C>A	p.Thr572Asn	1715/3822	1715/3822	572/1273	572	1273		",A"	T572N	C23277A	T572N	S:T572N	572	S	T572N	S:T572N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	23393	.	CTT	C	215	PASS	162	0.049383	0	"154,0,8,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1833_1834delTT	p.Tyr612fs	1833/3822	1833/3822	611/1273	611	1273		"INFO_REALIGN_3_PRIME,C"	del612	CTT23393C	del612	S:DEL612	612	S	del612	S:DEL612	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	23403	.	A	G	5228	PASS	153	0.993464	2147483647	"0,0,152,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	23604	.	C	A	445	PASS	109	0.192661	0	"88,0,21,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	23903	.	G	GT	383	PASS	127	0.110236	0	"120,0,14,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2346dupT	p.Ala783fs	2347/3822	2347/3822	783/1273	783	1273		"INFO_REALIGN_3_PRIME,GT"	del783	G23903GT	del783	S:DEL783	783	S	del783	S:DEL783	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	23948	.	G	T	423	PASS	94	0.212766	0	"74,0,20,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	24910	.	T	C	590	PASS	515	0.087379	0	"470,0,45,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3348T>C	p.Thr1116Thr	3348/3822	3348/3822	1116/1273	1116	1273		",C"	T1116T	T24910C	T1116T	S:T1116T	1116	S	T1116T	S:T1116T	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25023	.	A	G	957	PASS	1298	0.061633	0	"1215,0,80,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3461A>G	p.Lys1154Arg	3461/3822	3461/3822	1154/1273	1154	1273		",G"	K1154R	A25023G	K1154R	S:K1154R	1154	S	K1154R	S:K1154R	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25049	.	G	T	3195	PASS	1758	0.105802	0	"1569,0,186,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3487G>T	p.Asp1163Tyr	3487/3822	3487/3822	1163/1273	1163	1273		",T"	D1163Y	G25049T	D1163Y	S:D1163Y	1163	S	D1163Y	S:D1163Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25186	.	G	T	8628	PASS	1585	0.242271	0	"1197,0,384,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3624G>T	p.Gln1208His	3624/3822	3624/3822	1208/1273	1208	1273		",T"	Q1208H	G25186T	Q1208H	S:Q1208H	1208	S	Q1208H	S:Q1208H	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25207	.	C	T	3284	PASS	1504	0.135638	0	"1292,0,204,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3645C>T	p.Tyr1215Tyr	3645/3822	3645/3822	1215/1273	1215	1273		",T"	Y1215Y	C25207T	Y1215Y	S:Y1215Y	1215	S	Y1215Y	S:Y1215Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25225	.	A	C	89	PASS	1667	0.017397	0	"1632,0,29,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25240	.	C	A	100	PASS	1742	0.021814	0	"1701,0,38,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25254	.	C	A	87	PASS	1936	0.017562	0	"1901,0,34,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25271	.	A	G	2177	PASS	1940	0.105155	0	"1703,0,204,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3709A>G	p.Met1237Val	3709/3822	3709/3822	1237/1273	1237	1273		",G"	M1237V	A25271G	M1237V	S:M1237V	1237	S	M1237V	S:M1237V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25277	.	A	T	69	PASS	1906	0.021511	0	"1837,0,41,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25280	.	T	G	97	PASS	1961	0.022947	0	"1910,0,45,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25283	.	T	G	79	PASS	1939	0.021145	0	"1895,0,41,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3721T>G	p.Cys1241Gly	3721/3822	3721/3822	1241/1273	1241	1273		",G"	C1241G	T25283G	C1241G	S:C1241G	1241	S	C1241G	S:C1241G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25286	.	A	T	79	PASS	1982	0.023209	0	"1903,0,46,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25289	.	T	G	162	PASS	1957	0.030148	0	"1897,0,59,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25296	.	A	C	291	PASS	1994	0.045637	0	"1871,0,91,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25301	.	T	G	169	PASS	1979	0.031834	0	"1915,0,63,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25304	.	T	G	83	PASS	2015	0.022829	0	"1962,0,46,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3742T>G	p.Cys1248Gly	3742/3822	3742/3822	1248/1273	1248	1273		",G"	C1248G	T25304G	C1248G	S:C1248G	1248	S	C1248G	S:C1248G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25305	.	G	T	74	PASS	2032	0.015256	0	"1998,0,31,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3743G>T	p.Cys1248Phe	3743/3822	3743/3822	1248/1273	1248	1273		",T"	C1248F	G25305T	C1248F	S:C1248F	1248	S	C1248F	S:C1248F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25312	.	T	G	130	PASS	2045	0.027873	0	"1982,0,57,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25314	.	G	T	138	PASS	2068	0.029497	0	"1998,0,61,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25317	.	C	T	2118	PASS	2075	0.086265	0	"1885,0,179,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25324	.	C	A	801	PASS	2068	0.068182	0	"1926,0,141,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25327	.	A	T	170	PASS	2052	0.029727	0	"1989,0,61,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25331	.	G	T	137	PASS	2043	0.032795	0	"1960,0,67,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25336	.	A	C	277	PASS	1969	0.048756	0	"1846,0,96,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25369	.	A	AT	4763	PASS	2129	0.084547	0	"1951,0,180,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3809dupT	p.Leu1270fs	3810/3822	3810/3822	1270/1273	1270	1273		"INFO_REALIGN_3_PRIME,AT"	del1270	A25369AT	del1270	S:DEL1270	1270	S	del1270	S:DEL1270	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25401	.	GT	G	6664	PASS	2234	0.109221	0	"1999,0,244,0"	TRUE	G	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.12delT	p.Phe4fs	12/828	12/828	4/275	4	275		"INFO_REALIGN_3_PRIME,G"	del4	GT25401G	del4	ORF3A:DEL4	4	ORF3a	del4	ORF3A:DEL4	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25505	.	A	G	6468	PASS	1629	0.200123	0	"1295,0,326,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25563	.	G	T	23740	PASS	1426	0.571529	0	"608,0,815,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25710	.	C	T	13790	PASS	923	0.52546	0	"431,0,485,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25736	.	T	C	713	PASS	714	0.071429	0	"662,0,51,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.344T>C	p.Leu115Ser	344/828	344/828	115/275	115	275		",C"	L115S	T25736C	L115S	ORF3A:L115S	115	ORF3a	L115S	ORF3A:L115S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	25741	.	A	G	904	PASS	672	0.08631	0	"614,0,58,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.349A>G	p.Ser117Gly	349/828	349/828	117/275	117	275		",G"	S117G	A25741G	S117G	ORF3A:S117G	117	ORF3a	S117G	ORF3A:S117G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26028	.	C	T	110	PASS	320	0.034375	0	"308,0,11,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.636C>T	p.Tyr212Tyr	636/828	636/828	212/275	212	275		",T"	Y212Y	C26028T	Y212Y	ORF3A:Y212Y	212	ORF3a	Y212Y	ORF3A:Y212Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26038	.	T	C	1251	PASS	322	0.186335	0	"262,0,60,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26062	.	G	T	1928	PASS	302	0.268212	0	"221,0,81,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26270	.	C	T	2010	PASS	2560	0.058203	0	"2409,0,149,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.26C>T	p.Thr9Ile	26/228	26/228	9/75	9	75		",T"	T9I	C26270T	T9I	E:T9I	9	E	T9I	E:T9I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26600	.	C	T	6168	PASS	3870	0.099483	0	"3475,0,385,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26735	.	C	T	26525	PASS	2995	0.348247	0	"1949,0,1043,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26801	.	C	G	23869	PASS	2515	0.359443	0	"1447,0,904,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26801	.	C	T	49314	PASS	2515	0.064414	0	"1447,0,162,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>T	p.Leu93Leu	279/669	279/669	93/222	93	222		",T"	L93L	C26801T	L93L	M:L93L	93	M	L93L	M:L93L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26876	.	T	C	9295	PASS	1163	0.317283	0	"793,0,369,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	26894	.	C	T	583	PASS	727	0.060523	0	"683,0,44,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.372C>T	p.Leu124Leu	372/669	372/669	124/222	124	222		",T"	L124L	C26894T	L124L	M:L124L	124	M	L124L	M:L124L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27434	.	C	T	2104	PASS	1971	0.078133	0	"1810,0,154,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27546	.	TA	T	50	PASS	2924	0.001368	0	"2922,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.155delA	p.Asn52fs	155/366	155/366	52/121	52	121		"INFO_REALIGN_3_PRIME,T"	del52	TA27546T	del52	ORF7A:DEL52	52	ORF7a	del52	ORF7A:DEL52	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27567	.	CTTTAGCACTCAATTTGCTT	C	5080	PASS	3143	0.058861	0	"2958,0,185,0"	TRUE	C	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.177_195delTAGCACTCAATTTGCTTTT	p.Phe59fs	177/366	177/366	59/121	59	121		"INFO_REALIGN_3_PRIME,C"	del59	CTTTAGCACTCAATTTGCTT27567C	del59	ORF7A:DEL59	59	ORF7a	del59	ORF7A:DEL59	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27570	.	T	G	92	PASS	3077	0.009425	0	"2857,0,29,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.177T>G	p.Phe59Leu	177/366	177/366	59/121	59	121		",G"	F59L	T27570G	F59L	ORF7A:F59L	59	ORF7a	F59L	ORF7A:F59L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27585	.	T	C	1439	PASS	2997	0.048382	0	"2654,0,145,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.192T>C	p.Ala64Ala	192/366	192/366	64/121	64	121		",C"	A64A	T27585C	A64A	ORF7A:A64A	64	ORF7a	A64A	ORF7A:A64A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27707	.	C	T	2604	PASS	3139	0.070086	0	"2901,0,220,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27944	.	C	T	2953	PASS	2184	0.091117	0	"1978,0,199,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27970	.	C	A	9170	PASS	1801	0.220433	0	"1404,0,397,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	27987	.	G	T	215	PASS	1492	0.022788	0	"1458,0,34,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.94G>T	p.Val32Leu	94/366	94/366	32/121	32	121		",T"	V32L	G27987T	V32L	ORF8:V32L	32	ORF8	V32L	ORF8:V32L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28001	.	G	A	363	PASS	1175	0.033191	0	"1130,0,39,0"	FALSE	A	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.108G>A	p.Pro36Pro	108/366	108/366	36/121	36	121		",A"	P36P	G28001A	P36P	ORF8:P36P	36	ORF8	P36P	ORF8:P36P	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28045	.	C	T	257	PASS	509	0.049116	0	"483,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28089	.	GGTTCTA	G	559	PASS	385	0.062338	0	"362,0,24,0"	TRUE	G	disruptive_inframe_deletion	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.197_202delGTTCTA	p.Gly66_Lys68delinsGlu	197/366	197/366	66/121	66	121		",G"	indel	GGTTCTA28089G	NA	NA	NA	ORF8	NA	NA	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28134	.	G	GT	698	PASS	375	0.072	0	"354,0,27,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.244dupT	p.Ser82fs	245/366	245/366	82/121	82	121		"INFO_REALIGN_3_PRIME,GT"	del82	G28134GT	del82	ORF8:DEL82	82	ORF8	del82	ORF8:DEL82	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28254	.	A	C	190	PASS	378	0.063492	0	"352,0,24,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28290	.	C	T	404	PASS	894	0.050336	0	"841,0,45,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.17C>T	p.Pro6Leu	17/1260	17/1260	6/419	6	419		",T"	P6L	C28290T	P6L	N:P6L	6	N	P6L	N:P6L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28378	.	G	T	8227	PASS	1483	0.252192	0	"1108,0,374,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28409	.	C	T	87	PASS	1641	0.012797	0	"1616,0,21,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.136C>T	p.Pro46Ser	136/1260	136/1260	46/419	46	419		",T"	P46S	C28409T	P46S	N:P46S	46	N	P46S	N:P46S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28477	.	A	G	593	PASS	2716	0.028351	0	"2629,0,77,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.204A>G	p.Arg68Arg	204/1260	204/1260	68/419	68	419		",G"	R68R	A28477G	R68R	N:R68R	68	N	R68R	N:R68R	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28570	.	T	TA	245	PASS	3149	0.005081	0	"3149,0,16,0"	TRUE	TA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.301dupA	p.Met101fs	302/1260	302/1260	101/419	101	419		"INFO_REALIGN_3_PRIME,TA"	del101	T28570TA	del101	N:DEL101	101	N	del101	N:DEL101	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28651	.	C	T	6296	PASS	3492	0.108247	0	"3106,0,378,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28747	.	G	T	3573	PASS	5484	0.05671	0	"5162,0,311,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.474G>T	p.Val158Val	474/1260	474/1260	158/419	158	419		",T"	V158V	G28747T	V158V	N:V158V	158	N	V158V	N:V158V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28776	.	CA	C	8117	PASS	5507	0.059742	0	"5178,0,329,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28798	.	G	A	4432	PASS	5602	0.062835	0	"5236,0,352,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28855	.	A	C	13273	PASS	5280	0.14053	0	"4527,0,742,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28857	.	G	T	1378	PASS	5274	0.030148	0	"5110,0,159,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.584G>T	p.Arg195Ile	584/1260	584/1260	195/419	195	419		",T"	R195I	G28857T	R195I	N:R195I	195	N	R195I	N:R195I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28869	.	C	T	9055	PASS	5164	0.107862	0	"4597,0,557,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28887	.	C	T	35161	PASS	5054	0.298378	0	"3534,0,1508,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28917	.	G	T	2829	PASS	4920	0.054268	0	"4647,0,267,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.644G>T	p.Gly215Val	644/1260	644/1260	215/419	215	419		",T"	G215V	G28917T	G215V	N:G215V	215	N	G215V	N:G215V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28932	.	C	T	26500	PASS	4912	0.246946	0	"3686,0,1213,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28957	.	C	T	1095	PASS	4689	0.03007	0	"4529,0,141,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28975	.	G	C	26294	PASS	4675	0.248984	0	"3504,0,1164,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	28987	.	CCAA	C	177	PASS	4302	0.002789	0	"4311,0,12,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	29051	.	C	CA	5981	PASS	3693	0.065259	0	"3452,0,241,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	29095	.	CG	C	4614	PASS	3082	0.060026	0	"2897,0,185,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.824delG	p.Gly275fs	824/1260	824/1260	275/419	275	419		"INFO_REALIGN_3_PRIME,C"	del275	CG29095C	del275	N:DEL275	275	N	del275	N:DEL275	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	29124	.	GA	G	3085	PASS	2305	0.055531	0	"2187,0,128,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.854delA	p.Asn285fs	854/1260	854/1260	285/419	285	419		"INFO_REALIGN_3_PRIME,G"	del285	GA29124G	del285	N:DEL285	285	N	del285	N:DEL285	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-1	NC_045512.2	29127	.	AT	A	49	PASS	2270	0.001762	0	"2271,0,4,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.858delT	p.Phe286fs	858/1260	858/1260	286/419	286	419		"INFO_REALIGN_3_PRIME,A"	del286	AT29127A	del286	N:DEL286	286	N	del286	N:DEL286	BEG35-1	BEGGEN	2020-11-22T00:00:00Z	30.0505	32.84666667	x	1022021	2020-11-22
BEG35-2	NC_045512.2	208	.	G	C	4014	PASS	1466	0.139836	0	"1259,0,205,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-58G>C						NA	58	",C"		G208C		NA	NA	NA		NA	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	241	.	C	T	49314	PASS	1650	0.998788	2147483647	"0,0,1648,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	273	.	G	C	4411	PASS	1608	0.147388	0	"1368,0,237,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8G>C	p.Ser3Thr	8/21291	8/21291	3/7096	3	7096		",C"	S3T	G273C	S3T	ORF1AB:S3T	3	ORF1a	S3T	ORF1A:S3T	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	335	.	C	T	4377	PASS	1665	0.143544	0	"1420,0,239,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	445	.	T	C	3562	PASS	1918	0.145464	0	"1628,0,279,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	487	.	G	T	13561	PASS	1951	0.287032	0	"1390,0,560,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.222G>T	p.Ser74Ser	222/21291	222/21291	74/7096	74	7096		",T"	S74S	G487T	S74S	ORF1AB:S74S	74	ORF1a	S74S	ORF1A:S74S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	539	.	C	T	10973	PASS	1748	0.278032	0	"1253,0,486,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.274C>T	p.Leu92Phe	274/21291	274/21291	92/7096	92	7096		",T"	L92F	C539T	L92F	ORF1AB:L92F	92	ORF1a	L92F	ORF1A:L92F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	593	.	C	T	4311	PASS	1538	0.144993	0	"1312,0,223,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	680	.	G	T	1434	PASS	2019	0.057454	0	"1903,0,116,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.415G>T	p.Asp139Tyr	415/21291	415/21291	139/7096	139	7096		",T"	D139Y	G680T	D139Y	ORF1AB:D139Y	139	ORF1a	D139Y	ORF1A:D139Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	789	.	G	C	2195	PASS	1760	0.081818	0	"1610,0,144,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.524G>C	p.Arg175Pro	524/21291	524/21291	175/7096	175	7096		",C"	R175P	G789C	R175P	ORF1AB:R175P	175	ORF1a	R175P	ORF1A:R175P	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	802	.	A	C	103	PASS	1648	0.012743	0	"1623,0,21,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	811	.	C	T	4269	PASS	1771	0.141728	0	"1511,0,251,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.546C>T	p.Tyr182Tyr	546/21291	546/21291	182/7096	182	7096		",T"	Y182Y	C811T	Y182Y	ORF1AB:Y182Y	182	ORF1a	Y182Y	ORF1A:Y182Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	892	.	TA	T	4331	PASS	1365	0.113553	0	"1218,0,155,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.630delA	p.Ala211fs	630/21291	630/21291	210/7096	210	7096		"INFO_REALIGN_3_PRIME,T"	del211	TA892T	del211	ORF1AB:DEL211	211	ORF1a	del211	ORF1A:DEL211	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	1163	.	A	T	2269	PASS	1539	0.11371	0	"1364,0,175,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.898A>T	p.Ile300Phe	898/21291	898/21291	300/7096	300	7096		",T"	I300F	A1163T	I300F	ORF1AB:I300F	300	ORF1a	I300F	ORF1A:I300F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	1344	.	T	C	1800	PASS	1906	0.074502	0	"1760,0,142,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1079T>C	p.Leu360Ser	1079/21291	1079/21291	360/7096	360	7096		",C"	L360S	T1344C	L360S	ORF1AB:L360S	360	ORF1a	L360S	ORF1A:L360S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	1444	.	G	GA	938	PASS	1360	0.030147	0	"1334,0,41,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1183dupA	p.Thr395fs	1184/21291	1184/21291	395/7096	395	7096		"INFO_REALIGN_3_PRIME,GA"	del395	G1444GA	del395	ORF1AB:DEL395	395	ORF1a	del395	ORF1A:DEL395	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	2416	.	C	T	1429	PASS	454	0.15859	0	"380,0,72,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	2791	.	T	C	1557	PASS	1985	0.061965	0	"1856,0,123,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2526T>C	p.Thr842Thr	2526/21291	2526/21291	842/7096	842	7096		",C"	T842T	T2791C	T842T	ORF1AB:T842T	842	ORF1a	T842T	ORF1A:T842T	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	3037	.	C	T	48170	PASS	1412	0.995751	0	"2,0,1406,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	3602	.	C	T	226	PASS	47	0.212766	0	"37,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	3777	.	CA	C	327	PASS	121	0.099174	0	"109,0,12,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3515delA	p.Asn1172fs	3515/21291	3515/21291	1172/7096	1172	7096		"INFO_REALIGN_3_PRIME,C"	del1172	CA3777C	del1172	ORF1AB:DEL1172	1172	ORF1a	del1172	ORF1A:DEL1172	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	4040	.	A	G	1524	PASS	185	0.335135	0	"123,0,62,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	4213	.	T	C	69	PASS	196	0.040816	0	"186,0,8,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3948T>C	p.Ala1316Ala	3948/21291	3948/21291	1316/7096	1316	7096		",C"	A1316A	T4213C	A1316A	ORF1AB:A1316A	1316	ORF1a	A1316A	ORF1A:A1316A	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	4218	.	GA	G	419	PASS	194	0.07732	0	"180,0,15,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3957delA	p.Val1320fs	3957/21291	3957/21291	1319/7096	1319	7096		"INFO_REALIGN_3_PRIME,G"	del1320	GA4218G	del1320	ORF1AB:DEL1320	1320	ORF1a	del1320	ORF1A:DEL1320	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	4543	.	C	T	4353	PASS	161	0.863354	0	"22,0,139,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	5629	.	G	T	2782	PASS	115	0.765217	0	"27,0,88,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	5884	.	C	T	125	PASS	174	0.063218	0	"163,0,11,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	6422	.	GA	G	809	PASS	355	0.084507	0	"325,0,30,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6161delA	p.Asn2054fs	6161/21291	6161/21291	2054/7096	2054	7096		"INFO_REALIGN_3_PRIME,G"	del2054	GA6422G	del2054	ORF1AB:DEL2054	2054	ORF1a	del2054	ORF1A:DEL2054	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	6696	.	C	CT	1165	PASS	240	0.166667	0	"200,0,40,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	6941	.	C	T	1347	PASS	357	0.187675	0	"289,0,67,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	7175	.	T	C	676	PASS	187	0.187166	0	"150,0,35,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6910T>C	p.Leu2304Leu	6910/21291	6910/21291	2304/7096	2304	7096		",C"	L2304L	T7175C	L2304L	ORF1AB:L2304L	2304	ORF1a	L2304L	ORF1A:L2304L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	7196	.	A	AT	305	PASS	161	0.068323	0	"152,0,11,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6934dupT	p.Ser2312fs	6935/21291	6935/21291	2312/7096	2312	7096		"INFO_REALIGN_3_PRIME,AT"	del2312	A7196AT	del2312	ORF1AB:DEL2312	2312	ORF1a	del2312	ORF1A:DEL2312	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	7312	.	G	GT	128	PASS	84	0.059524	0	"82,0,5,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7052dupT	p.Ser2352fs	7053/21291	7053/21291	2351/7096	2351	7096		"INFO_REALIGN_3_PRIME,GT"	del2352	G7312GT	del2352	ORF1AB:DEL2352	2352	ORF1a	del2352	ORF1A:DEL2352	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	8618	.	G	A	656	PASS	232	0.172414	0	"190,0,40,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	8626	.	C	T	329	PASS	234	0.094017	0	"211,0,22,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8361C>T	p.Phe2787Phe	8361/21291	8361/21291	2787/7096	2787	7096		",T"	F2787F	C8626T	F2787F	ORF1AB:F2787F	2787	ORF1a	F2787F	ORF1A:F2787F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	8752	.	C	CA	286	PASS	279	0.039427	0	"268,0,11,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8490dupA	p.His2831fs	8491/21291	8491/21291	2831/7096	2831	7096		"INFO_REALIGN_3_PRIME,CA"	del2831	C8752CA	del2831	ORF1AB:DEL2831	2831	ORF1a	del2831	ORF1A:DEL2831	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	9297	.	A	T	709	PASS	548	0.085766	0	"500,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9032A>T	p.Tyr3011Phe	9032/21291	9032/21291	3011/7096	3011	7096		",T"	Y3011F	A9297T	Y3011F	ORF1AB:Y3011F	3011	ORF1a	Y3011F	ORF1A:Y3011F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	9526	.	G	T	16638	PASS	1104	0.553442	0	"492,0,611,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	9972	.	A	G	114	PASS	1650	0.015758	0	"1621,0,26,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9707A>G	p.Lys3236Arg	9707/21291	9707/21291	3236/7096	3236	7096		",G"	K3236R	A9972G	K3236R	ORF1AB:K3236R	3236	ORF1a	K3236R	ORF1A:K3236R	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	10427	.	G	GT	116	PASS	1560	0.004487	0	"1567,0,7,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10165dupT	p.Tyr3389fs	10166/21291	10166/21291	3389/7096	3389	7096		"INFO_REALIGN_3_PRIME,GT"	del3389	G10427GT	del3389	ORF1AB:DEL3389	3389	ORF1a	del3389	ORF1A:DEL3389	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	10456	.	C	T	4194	PASS	1488	0.153226	0	"1260,0,228,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10191C>T	p.Phe3397Phe	10191/21291	10191/21291	3397/7096	3397	7096		",T"	F3397F	C10456T	F3397F	ORF1AB:F3397F	3397	ORF1a	F3397F	ORF1A:F3397F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	10835	.	G	GT	169	PASS	320	0.053125	0	"308,0,17,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10574dupT	p.Leu3525fs	10575/21291	10575/21291	3525/7096	3525	7096		"INFO_REALIGN_3_PRIME,GT"	del3525	G10835GT	del3525	ORF1AB:DEL3525	3525	ORF1a	del3525	ORF1A:DEL3525	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	10835	.	G	T	181	PASS	325	0.129231	0	"283,0,42,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10570G>T	p.Val3524Phe	10570/21291	10570/21291	3524/7096	3524	7096		",T"	V3524F	G10835T	V3524F	ORF1AB:V3524F	3524	ORF1a	V3524F	ORF1A:V3524F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	11083	.	G	T	248	PASS	1006	0.035785	0	"967,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	11486	.	A	T	3600	PASS	1083	0.174515	0	"892,0,189,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11221A>T	p.Thr3741Ser	11221/21291	11221/21291	3741/7096	3741	7096		",T"	T3741S	A11486T	T3741S	ORF1AB:T3741S	3741	ORF1a	T3741S	ORF1A:T3741S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	11497	.	C	T	9677	PASS	1065	0.362441	0	"674,0,386,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	12436	.	T	C	2211	PASS	1120	0.132143	0	"967,0,148,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	12488	.	C	T	3124	PASS	1318	0.135053	0	"1137,0,178,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12223C>T	p.Pro4075Ser	12223/21291	12223/21291	4075/7096	4075	7096		",T"	P4075S	C12488T	P4075S	ORF1AB:P4075S	4075	ORF1a	P4075S	ORF1A:P4075S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	12682	.	A	C	3334	PASS	1321	0.140802	0	"1131,0,186,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12417A>C	p.Leu4139Phe	12417/21291	12417/21291	4139/7096	4139	7096		",C"	L4139F	A12682C	L4139F	ORF1AB:L4139F	4139	ORF1a	L4139F	ORF1A:L4139F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	12782	.	A	T	1815	PASS	1710	0.087719	0	"1557,0,150,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12517A>T	p.Asn4173Tyr	12517/21291	12517/21291	4173/7096	4173	7096		",T"	N4173Y	A12782T	N4173Y	ORF1AB:N4173Y	4173	ORF1a	N4173Y	ORF1A:N4173Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	13298	.	T	C	4602	PASS	2402	0.113239	0	"2121,0,272,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13033T>C	p.Leu4345Leu	13033/21291	13033/21291	4345/7096	4345	7096		",C"	L4345L	T13298C	L4345L	ORF1AB:L4345L	4345	ORF1a	L4345L	ORF1A:L4345L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	13300	.	A	T	4208	PASS	2403	0.114856	0	"2123,0,276,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13035A>T	p.Leu4345Phe	13035/21291	13035/21291	4345/7096	4345	7096		",T"	L4345F	A13300T	L4345F	ORF1AB:L4345F	4345	ORF1a	L4345F	ORF1A:L4345F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	13914	.	TA	T	6035	PASS	1293	0.173241	0	"1071,0,224,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13655delA	p.Lys4552fs	13655/21291	13655/21291	4552/7096	4552	7096		"INFO_REALIGN_3_PRIME,T"	del4552	TA13914T	del4552	ORF1AB:DEL4552	151	ORF1b	del151	ORF1B:DEL151	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	13993	.	G	T	5353	PASS	981	0.240571	0	"745,0,236,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	14017	.	T	C	2666	PASS	847	0.154664	0	"716,0,131,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13753T>C	p.Cys4585Arg	13753/21291	13753/21291	4585/7096	4585	7096		",C"	C4585R	T14017C	C4585R	ORF1AB:C4585R	184	ORF1b	C184R	ORF1B:C184R	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	14034	.	T	C	923	PASS	872	0.079128	0	"803,0,69,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13770T>C	p.Asn4590Asn	13770/21291	13770/21291	4590/7096	4590	7096		",C"	N4590N	T14034C	N4590N	ORF1AB:N4590N	189	ORF1b	N189N	ORF1B:N189N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	14129	.	G	C	571	PASS	373	0.099196	0	"333,0,37,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13865G>C	p.Gly4622Ala	13865/21291	13865/21291	4622/7096	4622	7096		",C"	G4622A	G14129C	G4622A	ORF1AB:G4622A	221	ORF1b	G221A	ORF1B:G221A	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	14134	.	C	T	1343	PASS	278	0.266187	0	"203,0,74,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13870C>T	p.Pro4624Ser	13870/21291	13870/21291	4624/7096	4624	7096		",T"	P4624S	C14134T	P4624S	ORF1AB:P4624S	223	ORF1b	P223S	ORF1B:P223S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	14408	.	C	T	407	PASS	12	1	2147483647	"0,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	15237	.	C	T	2149	PASS	1238	0.108239	0	"1100,0,134,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14973C>T	p.His4991His	14973/21291	14973/21291	4991/7096	4991	7096		",T"	H4991H	C15237T	H4991H	ORF1AB:H4991H	590	ORF1b	H590H	ORF1B:H590H	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	15324	.	C	T	6771	PASS	511	0.499022	0	"254,0,255,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	15579	.	C	T	578	PASS	287	0.108014	0	"255,0,31,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	15663	.	T	G	473	PASS	263	0.117871	0	"232,0,31,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15399T>G	p.Phe5133Leu	15399/21291	15399/21291	5133/7096	5133	7096		",G"	F5133L	T15663G	F5133L	ORF1AB:F5133L	732	ORF1b	F732L	ORF1B:F732L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	15766	.	G	T	3842	PASS	311	0.456592	0	"169,0,142,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	15906	.	G	T	82	PASS	117	0.059829	0	"110,0,7,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15642G>T	p.Gln5214His	15642/21291	15642/21291	5214/7096	5214	7096		",T"	Q5214H	G15906T	Q5214H	ORF1AB:Q5214H	813	ORF1b	Q813H	ORF1B:Q813H	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	16479	.	T	C	6338	PASS	1551	0.192134	0	"1251,0,298,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16215T>C	p.Phe5405Phe	16215/21291	16215/21291	5405/7096	5405	7096		",C"	F5405F	T16479C	F5405F	ORF1AB:F5405F	1004	ORF1b	F1004F	ORF1B:F1004F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	16889	.	A	G	15069	PASS	1797	0.328325	0	"1202,0,590,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	16907	.	A	AT	3919	PASS	1653	0.086509	0	"1509,0,143,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16647dupT	p.Val5550fs	16648/21291	16648/21291	5550/7096	5550	7096		"INFO_REALIGN_3_PRIME,AT"	del5550	A16907AT	del5550	ORF1AB:DEL5550	1149	ORF1b	del1149	ORF1B:DEL1149	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	16912	.	G	T	1944	PASS	1626	0.081181	0	"1493,0,132,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	16935	.	G	T	1876	PASS	1658	0.08082	0	"1521,0,134,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16671G>T	p.Met5557Ile	16671/21291	16671/21291	5557/7096	5557	7096		",T"	M5557I	G16935T	M5557I	ORF1AB:M5557I	1156	ORF1b	M1156I	ORF1B:M1156I	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	17019	.	G	T	7631	PASS	951	0.32387	0	"640,0,308,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	17810	.	T	A	3555	PASS	1831	0.129437	0	"1591,0,237,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17546T>A	p.Ile5849Asn	17546/21291	17546/21291	5849/7096	5849	7096		",A"	I5849N	T17810A	I5849N	ORF1AB:I5849N	1448	ORF1b	I1448N	ORF1B:I1448N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	17826	.	T	A	1284	PASS	1848	0.058983	0	"1738,0,109,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17562T>A	p.Thr5854Thr	17562/21291	17562/21291	5854/7096	5854	7096		",A"	T5854T	T17826A	T5854T	ORF1AB:T5854T	1453	ORF1b	T1453T	ORF1B:T1453T	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	17954	.	T	C	2906	PASS	1658	0.109771	0	"1471,0,182,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17690T>C	p.Leu5897Pro	17690/21291	17690/21291	5897/7096	5897	7096		",C"	L5897P	T17954C	L5897P	ORF1AB:L5897P	1496	ORF1b	L1496P	ORF1B:L1496P	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	17955	.	T	C	1557	PASS	1656	0.070652	0	"1534,0,117,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17691T>C	p.Leu5897Leu	17691/21291	17691/21291	5897/7096	5897	7096		",C"	L5897L	T17955C	L5897L	ORF1AB:L5897L	1496	ORF1b	L1496L	ORF1B:L1496L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	18215	.	G	T	126	PASS	599	0.028381	0	"582,0,17,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17951G>T	p.Gly5984Val	17951/21291	17951/21291	5984/7096	5984	7096		",T"	G5984V	G18215T	G5984V	ORF1AB:G5984V	1583	ORF1b	G1583V	ORF1B:G1583V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	18561	.	TA	T	668	PASS	178	0.134831	0	"156,0,24,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18302delA	p.Asn6101fs	18302/21291	18302/21291	6101/7096	6101	7096		"INFO_REALIGN_3_PRIME,T"	del6101	TA18561T	del6101	ORF1AB:DEL6101	1700	ORF1b	del1700	ORF1B:DEL1700	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	18585	.	A	G	220	PASS	171	0.105263	0	"152,0,18,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18321A>G	p.Val6107Val	18321/21291	18321/21291	6107/7096	6107	7096		",G"	V6107V	A18585G	V6107V	ORF1AB:V6107V	1706	ORF1b	V1706V	ORF1B:V1706V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	18877	.	C	T	19184	PASS	1580	0.45	0	"863,0,711,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	19472	.	AT	A	3436	PASS	1154	0.109185	0	"1042,0,126,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19211delT	p.Leu6404fs	19211/21291	19211/21291	6404/7096	6404	7096		"INFO_REALIGN_3_PRIME,A"	del6404	AT19472A	del6404	ORF1AB:DEL6404	2003	ORF1b	del2003	ORF1B:DEL2003	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	19524	.	C	T	8280	PASS	1588	0.236146	0	"1203,0,375,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	20405	.	CT	C	54	PASS	528	0.005682	0	"525,0,3,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20145delT	p.Phe6715fs	20145/21291	20145/21291	6715/7096	6715	7096		"INFO_REALIGN_3_PRIME,C"	del6715	CT20405C	del6715	ORF1AB:DEL6715	2314	ORF1b	del2314	ORF1B:DEL2314	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	20431	.	A	G	1102	PASS	691	0.095514	0	"624,0,66,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20167A>G	p.Met6723Val	20167/21291	20167/21291	6723/7096	6723	7096		",G"	M6723V	A20431G	M6723V	ORF1AB:M6723V	2322	ORF1b	M2322V	ORF1B:M2322V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	20482	.	T	C	2184	PASS	1061	0.121583	0	"928,0,129,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20218T>C	p.Ser6740Pro	20218/21291	20218/21291	6740/7096	6740	7096		",C"	S6740P	T20482C	S6740P	ORF1AB:S6740P	2339	ORF1b	S2339P	ORF1B:S2339P	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	20823	.	C	T	2521	PASS	1631	0.102391	0	"1461,0,167,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20559C>T	p.Asn6853Asn	20559/21291	20559/21291	6853/7096	6853	7096		",T"	N6853N	C20823T	N6853N	ORF1AB:N6853N	2452	ORF1b	N2452N	ORF1B:N2452N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	21145	.	C	T	577	PASS	1331	0.046582	0	"1266,0,62,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20881C>T	p.Leu6961Phe	20881/21291	20881/21291	6961/7096	6961	7096		",T"	L6961F	C21145T	L6961F	ORF1AB:L6961F	2560	ORF1b	L2560F	ORF1B:L2560F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	21255	.	G	C	2467	PASS	1404	0.108974	0	"1248,0,153,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	21444	.	A	G	1832	PASS	1047	0.118434	0	"921,0,124,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21180A>G	p.Leu7060Leu	21180/21291	21180/21291	7060/7096	7060	7096		",G"	L7060L	A21444G	L7060L	ORF1AB:L7060L	2659	ORF1b	L2659L	ORF1B:L2659L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	21469	.	A	AT	2912	PASS	1214	0.089786	0	"1108,0,109,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21209dupT	p.Leu7070fs	21210/21291	21210/21291	7070/7096	7070	7096		"INFO_REALIGN_3_PRIME,AT"	del7070	A21469AT	del7070	ORF1AB:DEL7070	2669	ORF1b	del2669	ORF1B:DEL2669	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	21520	.	G	T	236	PASS	1178	0.028014	0	"1144,0,33,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21256G>T	p.Val7086Phe	21256/21291	21256/21291	7086/7096	7086	7096		",T"	V7086F	G21520T	V7086F	ORF1AB:V7086F	2685	ORF1b	V2685F	ORF1B:V2685F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	21638	.	C	T	1029	PASS	910	0.09011	0	"820,0,82,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.76C>T	p.Pro26Ser	76/3822	76/3822	26/1273	26	1273		",T"	P26S	C21638T	P26S	S:P26S	26	S	P26S	S:P26S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	21829	.	TG	T	1422	PASS	387	0.149871	0	"329,0,58,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.268delG	p.Val90fs	268/3822	268/3822	90/1273	90	1273		",T"	del90	TG21829T	del90	S:DEL90	90	S	del90	S:DEL90	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	21855	.	C	T	1285	PASS	414	0.15942	0	"347,0,66,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	22080	.	A	G	626	PASS	384	0.119792	0	"337,0,46,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.518A>G	p.Gln173Arg	518/3822	518/3822	173/1273	173	1273		",G"	Q173R	A22080G	Q173R	S:Q173R	173	S	Q173R	S:Q173R	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	22227	.	C	T	366	PASS	185	0.140541	0	"157,0,26,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	22862	.	A	G	330	PASS	200	0.1	0	"179,0,20,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1300A>G	p.Ile434Val	1300/3822	1300/3822	434/1273	434	1273		",G"	I434V	A22862G	I434V	S:I434V	434	S	I434V	S:I434V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	22992	.	G	A	2228	PASS	261	0.356322	0	"167,0,93,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	23143	.	TA	T	272	PASS	206	0.053398	0	"195,0,11,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1586delA	p.Lys529fs	1586/3822	1586/3822	529/1273	529	1273		"INFO_REALIGN_3_PRIME,T"	del529	TA23143T	del529	S:DEL529	529	S	del529	S:DEL529	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	23403	.	A	G	9237	PASS	279	0.996416	2147483647	"0,0,278,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	23577	.	C	T	579	PASS	254	0.133858	0	"220,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2015C>T	p.Ala672Val	2015/3822	2015/3822	672/1273	672	1273		",T"	A672V	C23577T	A672V	S:A672V	672	S	A672V	S:A672V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	23948	.	G	T	73	PASS	211	0.037915	0	"203,0,8,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	24570	.	G	GT	1579	PASS	580	0.096552	0	"534,0,56,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3011dupT	p.Leu1004fs	3012/3822	3012/3822	1004/1273	1004	1273		"INFO_REALIGN_3_PRIME,GT"	del1004	G24570GT	del1004	S:DEL1004	1004	S	del1004	S:DEL1004	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	24912	.	C	G	4683	PASS	735	0.269388	0	"536,0,198,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3350C>G	p.Thr1117Arg	3350/3822	3350/3822	1117/1273	1117	1273		",G"	T1117R	C24912G	T1117R	S:T1117R	1117	S	T1117R	S:T1117R	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	24981	.	C	CT	2046	PASS	1156	0.065744	0	"1079,0,76,0"	TRUE	CT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3422dupT	p.Leu1141fs	3423/3822	3423/3822	1141/1273	1141	1273		"INFO_REALIGN_3_PRIME,CT"	del1141	C24981CT	del1141	S:DEL1141	1141	S	del1141	S:DEL1141	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25049	.	G	T	5134	PASS	1786	0.151736	0	"1513,0,271,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3487G>T	p.Asp1163Tyr	3487/3822	3487/3822	1163/1273	1163	1273		",T"	D1163Y	G25049T	D1163Y	S:D1163Y	1163	S	D1163Y	S:D1163Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25090	.	T	G	1125	PASS	1598	0.060075	0	"1497,0,96,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3528T>G	p.Val1176Val	3528/3822	3528/3822	1176/1273	1176	1273		",G"	V1176V	T25090G	V1176V	S:V1176V	1176	S	V1176V	S:V1176V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25186	.	G	T	1103	PASS	1553	0.058596	0	"1462,0,91,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3624G>T	p.Gln1208His	3624/3822	3624/3822	1208/1273	1208	1273		",T"	Q1208H	G25186T	Q1208H	S:Q1208H	1208	S	Q1208H	S:Q1208H	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25207	.	C	T	1032	PASS	1413	0.073602	0	"1298,0,104,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3645C>T	p.Tyr1215Tyr	3645/3822	3645/3822	1215/1273	1215	1273		",T"	Y1215Y	C25207T	Y1215Y	S:Y1215Y	1215	S	Y1215Y	S:Y1215Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25211	.	T	C	80	PASS	1446	0.014523	0	"1419,0,21,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3649T>C	p.Trp1217Arg	3649/3822	3649/3822	1217/1273	1217	1273		",C"	W1217R	T25211C	W1217R	S:W1217R	1217	S	W1217R	S:W1217R	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25240	.	C	A	68	PASS	1603	0.018715	0	"1571,0,30,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25256	.	A	T	85	PASS	1765	0.019263	0	"1728,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3694A>T	p.Ile1232Phe	3694/3822	3694/3822	1232/1273	1232	1273		",T"	I1232F	A25256T	I1232F	S:I1232F	1232	S	I1232F	S:I1232F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25277	.	A	T	157	PASS	1679	0.032162	0	"1597,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25286	.	A	T	75	PASS	1747	0.024614	0	"1678,0,43,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25296	.	A	C	261	PASS	1762	0.045403	0	"1651,0,80,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25301	.	T	G	95	PASS	1754	0.026796	0	"1706,0,47,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25304	.	T	G	82	PASS	1784	0.024103	0	"1736,0,43,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3742T>G	p.Cys1248Gly	3742/3822	3742/3822	1248/1273	1248	1273		",G"	C1248G	T25304G	C1248G	S:C1248G	1248	S	C1248G	S:C1248G	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25311	.	G	T	896	PASS	1828	0.055252	0	"1727,0,101,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3749G>T	p.Cys1250Phe	3749/3822	3749/3822	1250/1273	1250	1273		",T"	C1250F	G25311T	C1250F	S:C1250F	1250	S	C1250F	S:C1250F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25312	.	T	G	161	PASS	1813	0.033094	0	"1748,0,60,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25314	.	G	T	116	PASS	1831	0.028946	0	"1764,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25317	.	C	T	6612	PASS	1834	0.203926	0	"1452,0,374,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25323	.	G	C	86	PASS	1788	0.026846	0	"1729,0,48,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25324	.	C	A	718	PASS	1802	0.068812	0	"1676,0,124,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25327	.	A	T	75	PASS	1791	0.023451	0	"1747,0,42,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25331	.	G	T	149	PASS	1771	0.037267	0	"1687,0,66,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25334	.	G	T	108	PASS	1726	0.035342	0	"1635,0,61,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25336	.	A	C	232	PASS	1722	0.0482	0	"1620,0,83,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25505	.	A	G	5652	PASS	1383	0.203181	0	"1095,0,281,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25563	.	G	T	18467	PASS	1309	0.504202	0	"648,0,660,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25606	.	G	T	104	PASS	1481	0.01553	0	"1457,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.214G>T	p.Ala72Ser	214/828	214/828	72/275	72	275		",T"	A72S	G25606T	A72S	ORF3A:A72S	72	ORF3a	A72S	ORF3A:A72S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25620	.	T	G	687	PASS	1332	0.071321	0	"1236,0,95,0"	FALSE	G	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.228T>G	p.Gly76Gly	228/828	228/828	76/275	76	275		",G"	G76G	T25620G	G76G	ORF3A:G76G	76	ORF3a	G76G	ORF3A:G76G	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25703	.	C	CT	2111	PASS	884	0.111991	0	"785,0,99,0"	TRUE	CT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.315dupT	p.Leu106fs	316/828	316/828	106/275	106	275		"INFO_REALIGN_3_PRIME,CT"	del106	C25703CT	del106	ORF3A:DEL106	106	ORF3a	del106	ORF3A:DEL106	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25707	.	TCTCTA	T	582	PASS	855	0.035088	0	"877,0,30,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.316_320delCTCTA	p.Leu106fs	316/828	316/828	106/275	106	275		",T"	del106	TCTCTA25707T	del106	ORF3A:DEL106	106	ORF3a	del106	ORF3A:DEL106	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25710	.	C	T	9599	PASS	827	0.451028	0	"421,0,373,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25791	.	C	T	542	PASS	334	0.107784	0	"298,0,36,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.399C>T	p.Cys133Cys	399/828	399/828	133/275	133	275		",T"	C133C	C25791T	C133C	ORF3A:C133C	133	ORF3a	C133C	ORF3A:C133C	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25886	.	C	T	293	PASS	339	0.070796	0	"311,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25906	.	G	C	245	PASS	335	0.059701	0	"314,0,20,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	25996	.	G	T	279	PASS	379	0.063325	0	"355,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26062	.	G	T	1347	PASS	291	0.216495	0	"228,0,63,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26110	.	C	T	251	PASS	747	0.033467	0	"721,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.718C>T	p.Pro240Ser	718/828	718/828	240/275	240	275		",T"	P240S	C26110T	P240S	ORF3A:P240S	240	ORF3a	P240S	ORF3A:P240S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26113	.	G	T	301	PASS	765	0.039216	0	"734,0,30,0"	FALSE	T	stop_gained	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.721G>T	p.Glu241*	721/828	721/828	241/275	241	275		",T"	E241*	G26113T	E241*	ORF3A:E241*	241	ORF3a	E241*	ORF3A:E241*	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26204	.	C	T	157	PASS	1622	0.01418	0	"1597,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.812C>T	p.Thr271Ile	812/828	812/828	271/275	271	275		",T"	T271I	C26204T	T271I	ORF3A:T271I	271	ORF3a	T271I	ORF3A:T271I	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26270	.	C	T	120	PASS	1689	0.013025	0	"1666,0,22,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.26C>T	p.Thr9Ile	26/228	26/228	9/75	9	75		",T"	T9I	C26270T	T9I	E:T9I	9	E	T9I	E:T9I	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26514	.	A	AT	6034	PASS	2940	0.078912	0	"2710,0,232,0"	TRUE	AT	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-9_-8insT						NA	8	",AT"	del	A26514AT	del	M:DEL	NA	M	del	M:DEL	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26530	.	A	G	127	PASS	2828	0.012376	0	"2785,0,35,0"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.8A>G	p.Asp3Gly	8/669	8/669	3/222	3	222		",G"	D3G	A26530G	D3G	M:D3G	3	M	D3G	M:D3G	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26609	.	T	C	2851	PASS	2568	0.080607	0	"2358,0,207,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.87T>C	p.Leu29Leu	87/669	87/669	29/222	29	222		",C"	L29L	T26609C	L29L	M:L29L	29	M	L29L	M:L29L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26735	.	C	T	26313	PASS	2179	0.446076	0	"1202,0,972,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26801	.	C	G	11115	PASS	1857	0.250942	0	"1384,0,466,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26818	.	C	T	3404	PASS	1499	0.113409	0	"1328,0,170,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.296C>T	p.Ser99Phe	296/669	296/669	99/222	99	222		",T"	S99F	C26818T	S99F	M:S99F	99	M	S99F	M:S99F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26876	.	T	C	10408	PASS	898	0.433185	0	"508,0,389,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	26894	.	C	T	991	PASS	598	0.102007	0	"532,0,61,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.372C>T	p.Leu124Leu	372/669	372/669	124/222	124	222		",T"	L124L	C26894T	L124L	M:L124L	124	M	L124L	M:L124L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	27277	.	A	T	1067	PASS	1137	0.069481	0	"1056,0,79,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.76A>T	p.Ile26Phe	76/186	76/186	26/61	26	61		",T"	I26F	A27277T	I26F	ORF6:I26F	26	ORF6	I26F	ORF6:I26F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	27567	.	CTTTAGCACTCAATTTGCTT	C	2707	PASS	2464	0.042208	0	"2361,0,104,0"	TRUE	C	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.177_195delTAGCACTCAATTTGCTTTT	p.Phe59fs	177/366	177/366	59/121	59	121		"INFO_REALIGN_3_PRIME,C"	del59	CTTTAGCACTCAATTTGCTT27567C	del59	ORF7A:DEL59	59	ORF7a	del59	ORF7A:DEL59	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	27570	.	T	G	84	PASS	2425	0.010722	0	"2287,0,26,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.177T>G	p.Phe59Leu	177/366	177/366	59/121	59	121		",G"	F59L	T27570G	F59L	ORF7A:F59L	59	ORF7a	F59L	ORF7A:F59L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	27670	.	G	T	1838	PASS	2517	0.061184	0	"2359,0,154,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.277G>T	p.Val93Phe	277/366	277/366	93/121	93	121		",T"	V93F	G27670T	V93F	ORF7A:V93F	93	ORF7a	V93F	ORF7A:V93F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	27798	.	G	T	1263	PASS	2028	0.054241	0	"1917,0,110,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.43G>T	p.Ala15Ser	43/132	43/132	15/43	15	43		",T"	A15S	G27798T	A15S	ORF7B:A15S	15	ORF7b	A15S	ORF7B:A15S	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	27922	.	T	C	1759	PASS	2040	0.060784	0	"1912,0,124,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	27944	.	C	T	953	PASS	1723	0.055136	0	"1616,0,95,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	27986	.	T	C	2965	PASS	1272	0.125786	0	"1108,0,160,0"	FALSE	C	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.93T>C	p.Tyr31Tyr	93/366	93/366	31/121	31	121		",C"	Y31Y	T27986C	Y31Y	ORF8:Y31Y	31	ORF8	Y31Y	ORF8:Y31Y	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28134	.	G	GT	1124	PASS	364	0.107143	0	"329,0,39,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.244dupT	p.Ser82fs	245/366	245/366	82/121	82	121		"INFO_REALIGN_3_PRIME,GT"	del82	G28134GT	del82	ORF8:DEL82	82	ORF8	del82	ORF8:DEL82	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28270	.	TA	T	1618	PASS	515	0.132039	0	"447,0,68,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28280	.	G	C	1097	PASS	532	0.12782	0	"463,0,68,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28281	.	A	T	1065	PASS	541	0.121996	0	"474,0,66,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28282	.	T	A	916	PASS	548	0.131387	0	"476,0,72,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28290	.	C	T	1044	PASS	614	0.118893	0	"541,0,73,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.17C>T	p.Pro6Leu	17/1260	17/1260	6/419	6	419		",T"	P6L	C28290T	P6L	N:P6L	6	N	P6L	N:P6L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28378	.	G	T	5669	PASS	872	0.288991	0	"620,0,252,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28548	.	G	T	1742	PASS	2146	0.068034	0	"1997,0,146,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.275G>T	p.Arg92Ile	275/1260	275/1260	92/419	92	419		",T"	R92I	G28548T	R92I	N:R92I	92	N	R92I	N:R92I	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28634	.	C	T	710	PASS	1945	0.03856	0	"1869,0,75,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.361C>T	p.Leu121Phe	361/1260	361/1260	121/419	121	419		",T"	L121F	C28634T	L121F	N:L121F	121	N	L121F	N:L121F	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28651	.	C	T	22914	PASS	2084	0.419866	0	"1204,0,875,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28869	.	C	T	35197	PASS	3132	0.424649	0	"1797,0,1330,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28932	.	C	T	6823	PASS	3000	0.135667	0	"2589,0,407,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28957	.	C	T	2310	PASS	2893	0.068787	0	"2686,0,199,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28975	.	G	C	31893	PASS	2867	0.420998	0	"1655,0,1207,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	28987	.	CCAA	C	264	PASS	2653	0.005654	0	"2657,0,15,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-2	NC_045512.2	29091	.	C	CT	4198	PASS	1885	0.081698	0	"1731,0,154,0"	TRUE	CT	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.821dupT	p.Gly275fs	822/1260	822/1260	274/419	274	419		"INFO_REALIGN_3_PRIME,CT"	del275	C29091CT	del275	N:DEL275	275	N	del275	N:DEL275	BEG35-2	BEGGEN	2020-11-24T00:00:00Z	30.9328	32.26	x	1022021	2020-11-24
BEG35-3	NC_045512.2	61	.	G	GT	1491	PASS	211	0.218009	0	"165,0,46,0"	TRUE	GT	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205_-204insT						NA	204	",GT"	del	G61GT	del	ORF1AB:DEL	NA	NA	del	NA:DEL	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	241	.	C	T	49314	PASS	1482	0.997301	0	"1,0,1478,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	335	.	C	T	34467	PASS	1409	0.766501	0	"322,0,1080,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	571	.	G	A	6242	PASS	1469	0.19401	0	"1182,0,285,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	583	.	C	T	6671	PASS	1388	0.224784	0	"1075,0,312,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.318C>T	p.Val106Val	318/21291	318/21291	106/7096	106	7096		",T"	V106V	C583T	V106V	ORF1AB:V106V	106	ORF1a	V106V	ORF1A:V106V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	641	.	A	G	522	PASS	1648	0.040655	0	"1575,0,67,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.376A>G	p.Asn126Asp	376/21291	376/21291	126/7096	126	7096		",G"	N126D	A641G	N126D	ORF1AB:N126D	126	ORF1a	N126D	ORF1A:N126D	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	724	.	T	C	2196	PASS	1984	0.075101	0	"1833,0,149,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.459T>C	p.Pro153Pro	459/21291	459/21291	153/7096	153	7096		",C"	P153P	T724C	P153P	ORF1AB:P153P	153	ORF1a	P153P	ORF1A:P153P	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	823	.	C	T	7396	PASS	1550	0.216774	0	"1208,0,336,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	875	.	C	A	4756	PASS	1354	0.1839	0	"1104,0,249,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	913	.	C	T	9636	PASS	1276	0.314263	0	"872,0,401,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	1233	.	GTGATCAT	G	2672	PASS	1629	0.065684	0	"1553,0,107,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.971_977delATCATTG	p.Asp324fs	971/21291	971/21291	324/7096	324	7096		"INFO_REALIGN_3_PRIME,G"	del324	GTGATCAT1233G	del324	ORF1AB:DEL324	324	ORF1a	del324	ORF1A:DEL324	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	1366	.	A	G	2176	PASS	1634	0.089351	0	"1488,0,146,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1101A>G	p.Lys367Lys	1101/21291	1101/21291	367/7096	367	7096		",G"	K367K	A1366G	K367K	ORF1AB:K367K	367	ORF1a	K367K	ORF1A:K367K	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	1514	.	C	T	2926	PASS	1611	0.116077	0	"1420,0,187,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1249C>T	p.His417Tyr	1249/21291	1249/21291	417/7096	417	7096		",T"	H417Y	C1514T	H417Y	ORF1AB:H417Y	417	ORF1a	H417Y	ORF1A:H417Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	1604	.	A	G	85	PASS	2079	0.010101	0	"2052,0,21,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1339A>G	p.Asn447Asp	1339/21291	1339/21291	447/7096	447	7096		",G"	N447D	A1604G	N447D	ORF1AB:N447D	447	ORF1a	N447D	ORF1A:N447D	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	1628	.	CA	C	5509	PASS	2061	0.104318	0	"1846,0,215,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1368delA	p.Glu457fs	1368/21291	1368/21291	456/7096	456	7096		"INFO_REALIGN_3_PRIME,C"	del457	CA1628C	del457	ORF1AB:DEL457	457	ORF1a	del457	ORF1A:DEL457	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	1701	.	C	T	3881	PASS	2033	0.119528	0	"1784,0,243,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1436C>T	p.Ser479Phe	1436/21291	1436/21291	479/7096	479	7096		",T"	S479F	C1701T	S479F	ORF1AB:S479F	479	ORF1a	S479F	ORF1A:S479F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	1813	.	TA	T	54	PASS	1559	0.003849	0	"1553,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1554delA	p.Gly519fs	1554/21291	1554/21291	518/7096	518	7096		"INFO_REALIGN_3_PRIME,T"	del519	TA1813T	del519	ORF1AB:DEL519	519	ORF1a	del519	ORF1A:DEL519	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	2416	.	C	T	543	PASS	356	0.08427	0	"326,0,30,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	3037	.	C	T	39947	PASS	1168	0.996575	2147483647	"0,0,1164,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	3602	.	C	T	294	PASS	67	0.238806	0	"51,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	4040	.	A	G	264	PASS	34	0.323529	0	"23,0,11,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	4316	.	A	G	511	PASS	230	0.130435	0	"200,0,30,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4051A>G	p.Ser1351Gly	4051/21291	4051/21291	1351/7096	1351	7096		",G"	S1351G	A4316G	S1351G	ORF1AB:S1351G	1351	ORF1a	S1351G	ORF1A:S1351G	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	4543	.	C	T	8278	PASS	342	0.777778	0	"75,0,266,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	4585	.	T	C	814	PASS	404	0.138614	0	"347,0,56,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4320T>C	p.Asp1440Asp	4320/21291	4320/21291	1440/7096	1440	7096		",C"	D1440D	T4585C	D1440D	ORF1AB:D1440D	1440	ORF1a	D1440D	ORF1A:D1440D	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	4921	.	C	T	1770	PASS	783	0.127714	0	"680,0,100,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4656C>T	p.Thr1552Thr	4656/21291	4656/21291	1552/7096	1552	7096		",T"	T1552T	C4921T	T1552T	ORF1AB:T1552T	1552	ORF1a	T1552T	ORF1A:T1552T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	5104	.	T	A	2344	PASS	1036	0.120656	0	"911,0,125,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4839T>A	p.His1613Gln	4839/21291	4839/21291	1613/7096	1613	7096		",A"	H1613Q	T5104A	H1613Q	ORF1AB:H1613Q	1613	ORF1a	H1613Q	ORF1A:H1613Q	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	5353	.	A	G	92	PASS	826	0.020581	0	"804,0,17,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5088A>G	p.Gln1696Gln	5088/21291	5088/21291	1696/7096	1696	7096		",G"	Q1696Q	A5353G	Q1696Q	ORF1AB:Q1696Q	1696	ORF1a	Q1696Q	ORF1A:Q1696Q	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	5390	.	A	G	393	PASS	807	0.043371	0	"770,0,35,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5125A>G	p.Asn1709Asp	5125/21291	5125/21291	1709/7096	1709	7096		",G"	N1709D	A5390G	N1709D	ORF1AB:N1709D	1709	ORF1a	N1709D	ORF1A:N1709D	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	5629	.	G	T	6705	PASS	429	0.543124	0	"196,0,233,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	5884	.	C	T	460	PASS	367	0.084469	0	"335,0,31,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	5937	.	A	T	162	PASS	387	0.041344	0	"367,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5672A>T	p.Glu1891Val	5672/21291	5672/21291	1891/7096	1891	7096		",T"	E1891V	A5937T	E1891V	ORF1AB:E1891V	1891	ORF1a	E1891V	ORF1A:E1891V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	6026	.	C	T	309	PASS	451	0.05765	0	"425,0,26,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5761C>T	p.Pro1921Ser	5761/21291	5761/21291	1921/7096	1921	7096		",T"	P1921S	C6026T	P1921S	ORF1AB:P1921S	1921	ORF1a	P1921S	ORF1A:P1921S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	6543	.	C	T	394	PASS	551	0.058076	0	"518,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6278C>T	p.Thr2093Ile	6278/21291	6278/21291	2093/7096	2093	7096		",T"	T2093I	C6543T	T2093I	ORF1AB:T2093I	2093	ORF1a	T2093I	ORF1A:T2093I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	6555	.	C	T	2360	PASS	545	0.222018	0	"422,0,121,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	6696	.	C	CT	1453	PASS	396	0.126263	0	"346,0,50,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	6696	.	C	T	324	PASS	396	0.070707	0	"364,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	6941	.	C	T	911	PASS	557	0.104129	0	"498,0,58,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	6954	.	T	C	964	PASS	561	0.124777	0	"491,0,70,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	7174	.	T	C	115	PASS	271	0.04059	0	"260,0,11,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6909T>C	p.Ser2303Ser	6909/21291	6909/21291	2303/7096	2303	7096		",C"	S2303S	T7174C	S2303S	ORF1AB:S2303S	2303	ORF1a	S2303S	ORF1A:S2303S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	7192	.	T	C	116	PASS	253	0.047431	0	"240,0,12,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6927T>C	p.Ile2309Ile	6927/21291	6927/21291	2309/7096	2309	7096		",C"	I2309I	T7192C	I2309I	ORF1AB:I2309I	2309	ORF1a	I2309I	ORF1A:I2309I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	7312	.	G	GT	440	PASS	154	0.103896	0	"140,0,16,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7052dupT	p.Ser2352fs	7053/21291	7053/21291	2351/7096	2351	7096		"INFO_REALIGN_3_PRIME,GT"	del2352	G7312GT	del2352	ORF1AB:DEL2352	2352	ORF1a	del2352	ORF1A:DEL2352	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	7323	.	A	AT	237	PASS	157	0.057325	0	"148,0,9,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7062dupT	p.Ala2355fs	7063/21291	7063/21291	2355/7096	2355	7096		"INFO_REALIGN_3_PRIME,AT"	del2355	A7323AT	del2355	ORF1AB:DEL2355	2355	ORF1a	del2355	ORF1A:DEL2355	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	7516	.	A	G	136	PASS	152	0.085526	0	"139,0,13,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7251A>G	p.Arg2417Arg	7251/21291	7251/21291	2417/7096	2417	7096		",G"	R2417R	A7516G	R2417R	ORF1AB:R2417R	2417	ORF1a	R2417R	ORF1A:R2417R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	7672	.	TG	T	430	PASS	600	0.03	0	"582,0,18,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7408delG	p.Ala2470fs	7408/21291	7408/21291	2470/7096	2470	7096		",T"	del2470	TG7672T	del2470	ORF1AB:DEL2470	2470	ORF1a	del2470	ORF1A:DEL2470	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	7767	.	T	C	84	PASS	466	0.019313	0	"457,0,9,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7502T>C	p.Ile2501Thr	7502/21291	7502/21291	2501/7096	2501	7096		",C"	I2501T	T7767C	I2501T	ORF1AB:I2501T	2501	ORF1a	I2501T	ORF1A:I2501T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	7812	.	A	T	1700	PASS	466	0.190987	0	"375,0,89,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7547A>T	p.His2516Leu	7547/21291	7547/21291	2516/7096	2516	7096		",T"	H2516L	A7812T	H2516L	ORF1AB:H2516L	2516	ORF1a	H2516L	ORF1A:H2516L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	8102	.	G	T	2870	PASS	660	0.212121	0	"517,0,140,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7837G>T	p.Val2613Phe	7837/21291	7837/21291	2613/7096	2613	7096		",T"	V2613F	G8102T	V2613F	ORF1AB:V2613F	2613	ORF1a	V2613F	ORF1A:V2613F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	8395	.	T	C	104	PASS	321	0.034268	0	"309,0,11,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8130T>C	p.Ala2710Ala	8130/21291	8130/21291	2710/7096	2710	7096		",C"	A2710A	T8395C	A2710A	ORF1AB:A2710A	2710	ORF1a	A2710A	ORF1A:A2710A	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	8618	.	G	A	442	PASS	297	0.10101	0	"267,0,30,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	8836	.	C	A	284	PASS	379	0.058047	0	"357,0,22,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8571C>A	p.Val2857Val	8571/21291	8571/21291	2857/7096	2857	7096		",A"	V2857V	C8836A	V2857V	ORF1AB:V2857V	2857	ORF1a	V2857V	ORF1A:V2857V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	8905	.	C	CT	282	PASS	363	0.033058	0	"351,0,12,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8645dupT	p.Leu2882fs	8646/21291	8646/21291	2882/7096	2882	7096		"INFO_REALIGN_3_PRIME,CT"	del2882	C8905CT	del2882	ORF1AB:DEL2882	2882	ORF1a	del2882	ORF1A:DEL2882	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	9290	.	G	T	558	PASS	523	0.07457	0	"483,0,39,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9025G>T	p.Asp3009Tyr	9025/21291	9025/21291	3009/7096	3009	7096		",T"	D3009Y	G9290T	D3009Y	ORF1AB:D3009Y	3009	ORF1a	D3009Y	ORF1A:D3009Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	9526	.	G	T	11536	PASS	1002	0.441118	0	"560,0,442,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	10507	.	C	T	145	PASS	956	0.026151	0	"928,0,25,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10242C>T	p.Asn3414Asn	10242/21291	10242/21291	3414/7096	3414	7096		",T"	N3414N	C10507T	N3414N	ORF1AB:N3414N	3414	ORF1a	N3414N	ORF1A:N3414N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	10737	.	AT	A	1064	PASS	217	0.170507	0	"180,0,37,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10473delT	p.Asn3491fs	10473/21291	10473/21291	3491/7096	3491	7096		",A"	del3491	AT10737A	del3491	ORF1AB:DEL3491	3491	ORF1a	del3491	ORF1A:DEL3491	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	10984	.	A	G	451	PASS	343	0.090379	0	"311,0,31,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10719A>G	p.Lys3573Lys	10719/21291	10719/21291	3573/7096	3573	7096		",G"	K3573K	A10984G	K3573K	ORF1AB:K3573K	3573	ORF1a	K3573K	ORF1A:K3573K	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	11103	.	CT	C	48	PASS	760	0.003947	0	"757,0,3,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10842delT	p.Phe3614fs	10842/21291	10842/21291	3614/7096	3614	7096		"INFO_REALIGN_3_PRIME,C"	del3614	CT11103C	del3614	ORF1AB:DEL3614	3614	ORF1a	del3614	ORF1A:DEL3614	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	11497	.	C	T	8266	PASS	605	0.500826	0	"302,0,303,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	12436	.	T	C	3139	PASS	977	0.166837	0	"812,0,163,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	12988	.	G	T	3466	PASS	2170	0.103687	0	"1943,0,225,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	13394	.	A	G	363	PASS	2607	0.019179	0	"2555,0,50,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13129A>G	p.Lys4377Glu	13129/21291	13129/21291	4377/7096	4377	7096		",G"	K4377E	A13394G	K4377E	ORF1AB:K4377E	4377	ORF1a	K4377E	ORF1A:K4377E	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	13504	.	T	C	768	PASS	2170	0.047005	0	"2059,0,102,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13240T>C	p.Cys4414Arg	13240/21291	13240/21291	4414/7096	4414	7096		",C"	C4414R	T13504C	C4414R	ORF1AB:C4414R	13	ORF1b	C13R	ORF1B:C13R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	13517	.	C	T	1630	PASS	2170	0.057604	0	"2043,0,125,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	13993	.	G	T	19546	PASS	1555	0.463666	0	"834,0,721,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	14058	.	AT	A	45	PASS	1181	0.00254	0	"1203,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13796delT	p.Leu4599fs	13796/21291	13796/21291	4599/7096	4599	7096		"INFO_REALIGN_3_PRIME,A"	del4599	AT14058A	del4599	ORF1AB:DEL4599	198	ORF1b	del198	ORF1B:DEL198	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	14676	.	C	T	4925	PASS	1235	0.197571	0	"986,0,244,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	15245	.	TA	T	3729	PASS	1439	0.09729	0	"1302,0,140,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14986delA	p.Thr4996fs	14986/21291	14986/21291	4996/7096	4996	7096		"INFO_REALIGN_3_PRIME,T"	del4996	TA15245T	del4996	ORF1AB:DEL4996	595	ORF1b	del595	ORF1B:DEL595	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	15279	.	C	T	3354	PASS	1031	0.176528	0	"847,0,182,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	15324	.	C	T	3920	PASS	585	0.287179	0	"416,0,168,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	15598	.	G	A	427	PASS	304	0.095395	0	"274,0,29,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15334G>A	p.Val5112Ile	15334/21291	15334/21291	5112/7096	5112	7096		",A"	V5112I	G15598A	V5112I	ORF1AB:V5112I	711	ORF1b	V711I	ORF1B:V711I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	15766	.	G	T	4847	PASS	334	0.511976	0	"162,0,171,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	16022	.	C	CT	188	PASS	47	0.12766	0	"41,0,6,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15761dupT	p.Leu5254fs	15762/21291	15762/21291	5254/7096	5254	7096		"INFO_REALIGN_3_PRIME,CT"	del5254	C16022CT	del5254	ORF1AB:DEL5254	853	ORF1b	del853	ORF1B:DEL853	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	16260	.	C	T	510	PASS	487	0.067762	0	"453,0,33,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15996C>T	p.Cys5332Cys	15996/21291	15996/21291	5332/7096	5332	7096		",T"	C5332C	C16260T	C5332C	ORF1AB:C5332C	931	ORF1b	C931C	ORF1B:C931C	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	16564	.	G	T	10330	PASS	2541	0.194805	0	"2042,0,495,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16300G>T	p.Ala5434Ser	16300/21291	16300/21291	5434/7096	5434	7096		",T"	A5434S	G16564T	A5434S	ORF1AB:A5434S	1033	ORF1b	A1033S	ORF1B:A1033S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	16616	.	CTG	C	7942	PASS	2749	0.108039	0	"2467,0,297,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16353_16354delTG	p.Glu5452fs	16353/21291	16353/21291	5451/7096	5451	7096		",C"	del5452	CTG16616C	del5452	ORF1AB:DEL5452	1051	ORF1b	del1051	ORF1B:DEL1051	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	16642	.	G	A	4415	PASS	2663	0.096132	0	"2406,0,256,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16378G>A	p.Glu5460Lys	16378/21291	16378/21291	5460/7096	5460	7096		",A"	E5460K	G16642A	E5460K	ORF1AB:E5460K	1059	ORF1b	E1059K	ORF1B:E1059K	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	16650	.	CA	C	8084	PASS	2596	0.108243	0	"2315,0,281,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16389delA	p.Ala5464fs	16389/21291	16389/21291	5463/7096	5463	7096		"INFO_REALIGN_3_PRIME,C"	del5464	CA16650C	del5464	ORF1AB:DEL5464	1063	ORF1b	del1063	ORF1B:DEL1063	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	16837	.	GA	G	79	PASS	2191	0.002738	0	"2193,0,6,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	16889	.	A	G	27313	PASS	1976	0.480769	0	"1024,0,950,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	17019	.	G	T	11294	PASS	1057	0.405866	0	"626,0,429,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	17059	.	C	CA	2674	PASS	839	0.112038	0	"745,0,94,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799dupA	p.Tyr5601fs	16800/21291	16800/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,CA"	del5601	C17059CA	del5601	ORF1AB:DEL5601	1200	ORF1b	del1200	ORF1B:DEL1200	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	17059	.	CA	C	2066	PASS	839	0.089392	0	"764,0,75,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799delA	p.Lys5600fs	16799/21291	16799/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,C"	del5600	CA17059C	del5600	ORF1AB:DEL5600	1199	ORF1b	del1199	ORF1B:DEL1199	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	17064	.	G	T	2790	PASS	819	0.162393	0	"685,0,133,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16800G>T	p.Lys5600Asn	16800/21291	16800/21291	5600/7096	5600	7096		",T"	K5600N	G17064T	K5600N	ORF1AB:K5600N	1199	ORF1b	K1199N	ORF1B:K1199N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	17104	.	C	T	897	PASS	123	0.300813	0	"86,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	17615	.	A	G	7365	PASS	1254	0.261563	0	"923,0,328,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	18028	.	G	T	2897	PASS	1760	0.104545	0	"1575,0,184,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17764G>T	p.Ala5922Ser	17764/21291	17764/21291	5922/7096	5922	7096		",T"	A5922S	G18028T	A5922S	ORF1AB:A5922S	1521	ORF1b	A1521S	ORF1B:A1521S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	18546	.	G	GT	821	PASS	295	0.101695	0	"269,0,30,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18284dupT	p.Leu6095fs	18285/21291	18285/21291	6095/7096	6095	7096		"INFO_REALIGN_3_PRIME,GT"	del6095	G18546GT	del6095	ORF1AB:DEL6095	1694	ORF1b	del1694	ORF1B:DEL1694	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	18687	.	C	T	168	PASS	894	0.025727	0	"868,0,23,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18423C>T	p.Cys6141Cys	18423/21291	18423/21291	6141/7096	6141	7096		",T"	C6141C	C18687T	C6141C	ORF1AB:C6141C	1740	ORF1b	C1740C	ORF1B:C1740C	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	18782	.	G	GT	416	PASS	1353	0.01626	0	"1334,0,22,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18522dupT	p.Thr6175fs	18523/21291	18523/21291	6175/7096	6175	7096		"INFO_REALIGN_3_PRIME,GT"	del6175	G18782GT	del6175	ORF1AB:DEL6175	1774	ORF1b	del1774	ORF1B:DEL1774	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	18858	.	TG	T	45	PASS	1341	0.002237	0	"1339,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18595delG	p.Ala6199fs	18595/21291	18595/21291	6199/7096	6199	7096		",T"	del6199	TG18858T	del6199	ORF1AB:DEL6199	1798	ORF1b	del1798	ORF1B:DEL1798	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	18877	.	C	T	14632	PASS	1488	0.379032	0	"921,0,564,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	18895	.	T	C	3523	PASS	1561	0.149263	0	"1318,0,233,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18631T>C	p.Phe6211Leu	18631/21291	18631/21291	6211/7096	6211	7096		",C"	F6211L	T18895C	F6211L	ORF1AB:F6211L	1810	ORF1b	F1810L	ORF1B:F1810L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	19524	.	C	T	7011	PASS	1149	0.261097	0	"847,0,300,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	19617	.	T	C	1097	PASS	1159	0.075065	0	"1069,0,87,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19353T>C	p.Leu6451Leu	19353/21291	19353/21291	6451/7096	6451	7096		",C"	L6451L	T19617C	L6451L	ORF1AB:L6451L	2050	ORF1b	L2050L	ORF1B:L2050L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	20703	.	CA	C	3462	PASS	1548	0.082687	0	"1420,0,128,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20443delA	p.Met6815fs	20443/21291	20443/21291	6815/7096	6815	7096		"INFO_REALIGN_3_PRIME,C"	del6815	CA20703C	del6815	ORF1AB:DEL6815	2414	ORF1b	del2414	ORF1B:DEL2414	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	20823	.	C	T	2729	PASS	1368	0.11769	0	"1202,0,161,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20559C>T	p.Asn6853Asn	20559/21291	20559/21291	6853/7096	6853	7096		",T"	N6853N	C20823T	N6853N	ORF1AB:N6853N	2452	ORF1b	N2452N	ORF1B:N2452N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	20921	.	G	T	2662	PASS	1323	0.116402	0	"1169,0,154,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20657G>T	p.Trp6886Leu	20657/21291	20657/21291	6886/7096	6886	7096		",T"	W6886L	G20921T	W6886L	ORF1AB:W6886L	2485	ORF1b	W2485L	ORF1B:W2485L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	21077	.	C	T	1897	PASS	1089	0.107438	0	"969,0,117,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20813C>T	p.Thr6938Ile	20813/21291	20813/21291	6938/7096	6938	7096		",T"	T6938I	C21077T	T6938I	ORF1AB:T6938I	2537	ORF1b	T2537I	ORF1B:T2537I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	21282	.	A	G	2933	PASS	712	0.195225	0	"571,0,139,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21018A>G	p.Gly7006Gly	21018/21291	21018/21291	7006/7096	7006	7096		",G"	G7006G	A21282G	G7006G	ORF1AB:G7006G	2605	ORF1b	G2605G	ORF1B:G2605G	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	21372	.	G	T	3738	PASS	696	0.242816	0	"527,0,169,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21108G>T	p.Gln7036His	21108/21291	21108/21291	7036/7096	7036	7096		",T"	Q7036H	G21372T	Q7036H	ORF1AB:Q7036H	2635	ORF1b	Q2635H	ORF1B:Q2635H	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	21646	.	C	T	569	PASS	679	0.067747	0	"632,0,46,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.84C>T	p.Tyr28Tyr	84/3822	84/3822	28/1273	28	1273		",T"	Y28Y	C21646T	Y28Y	S:Y28Y	28	S	Y28Y	S:Y28Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	21737	.	T	C	743	PASS	491	0.09776	0	"442,0,48,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.175T>C	p.Phe59Leu	175/3822	175/3822	59/1273	59	1273		",C"	F59L	T21737C	F59L	S:F59L	59	S	F59L	S:F59L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	21855	.	C	T	2864	PASS	647	0.20711	0	"511,0,134,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	22009	.	CA	C	1538	PASS	634	0.09306	0	"575,0,59,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.451delA	p.Ser151fs	451/3822	451/3822	151/1273	151	1273		"INFO_REALIGN_3_PRIME,C"	del151	CA22009C	del151	S:DEL151	151	S	del151	S:DEL151	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	22025	.	A	G	931	PASS	609	0.093596	0	"551,0,57,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.463A>G	p.Ser155Gly	463/3822	463/3822	155/1273	155	1273		",G"	S155G	A22025G	S155G	S:S155G	155	S	S155G	S:S155G	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	22227	.	C	T	1168	PASS	315	0.196825	0	"252,0,62,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	22812	.	A	C	168	PASS	181	0.066298	0	"169,0,12,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1250A>C	p.Lys417Thr	1250/3822	1250/3822	417/1273	417	1273		",C"	K417T	A22812C	K417T	S:K417T	417	S	K417T	S:K417T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	22988	.	G	T	248	PASS	303	0.066007	0	"283,0,20,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1426G>T	p.Gly476Cys	1426/3822	1426/3822	476/1273	476	1273		",T"	G476C	G22988T	G476C	S:G476C	476	S	G476C	S:G476C	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	22992	.	G	A	4246	PASS	322	0.506211	0	"158,0,163,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	23014	.	A	C	202	PASS	276	0.057971	0	"259,0,16,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1452A>C	p.Glu484Asp	1452/3822	1452/3822	484/1273	484	1273		",C"	E484D	A23014C	E484D	S:E484D	484	S	E484D	S:E484D	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	23230	.	CA	C	291	PASS	247	0.048583	0	"235,0,12,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1673delA	p.Lys558fs	1673/3822	1673/3822	558/1273	558	1273		"INFO_REALIGN_3_PRIME,C"	del558	CA23230C	del558	S:DEL558	558	S	del558	S:DEL558	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	23403	.	A	G	6641	PASS	196	1	2147483647	"0,0,196,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	23468	.	T	C	205	PASS	129	0.100775	0	"116,0,13,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1906T>C	p.Tyr636His	1906/3822	1906/3822	636/1273	636	1273		",C"	Y636H	T23468C	Y636H	S:Y636H	636	S	Y636H	S:Y636H	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	23895	.	C	T	198	PASS	260	0.065385	0	"241,0,17,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2333C>T	p.Thr778Ile	2333/3822	2333/3822	778/1273	778	1273		",T"	T778I	C23895T	T778I	S:T778I	778	S	T778I	S:T778I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	23948	.	G	T	152	PASS	183	0.065574	0	"171,0,12,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	23958	.	G	GT	265	PASS	178	0.061798	0	"167,0,11,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	24140	.	G	GT	188	PASS	134	0.052239	0	"127,0,7,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2582dupT	p.Leu861fs	2583/3822	2583/3822	861/1273	861	1273		"INFO_REALIGN_3_PRIME,GT"	del861	G24140GT	del861	S:DEL861	861	S	del861	S:DEL861	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	24368	.	G	T	181	PASS	254	0.051181	0	"241,0,13,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2806G>T	p.Asp936Tyr	2806/3822	2806/3822	936/1273	936	1273		",T"	D936Y	G24368T	D936Y	S:D936Y	936	S	D936Y	S:D936Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	24435	.	C	CT	649	PASS	493	0.05071	0	"468,0,25,0"	TRUE	CT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2876dupT	p.Leu959fs	2877/3822	2877/3822	959/1273	959	1273		"INFO_REALIGN_3_PRIME,CT"	del959	C24435CT	del959	S:DEL959	959	S	del959	S:DEL959	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	24456	.	A	G	337	PASS	558	0.060932	0	"519,0,34,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2894A>G	p.Gln965Arg	2894/3822	2894/3822	965/1273	965	1273		",G"	Q965R	A24456G	Q965R	S:Q965R	965	S	Q965R	S:Q965R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	24518	.	A	G	168	PASS	517	0.034816	0	"499,0,18,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2956A>G	p.Lys986Glu	2956/3822	2956/3822	986/1273	986	1273		",G"	K986E	A24518G	K986E	S:K986E	986	S	K986E	S:K986E	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	24910	.	T	C	1037	PASS	669	0.109118	0	"596,0,73,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3348T>C	p.Thr1116Thr	3348/3822	3348/3822	1116/1273	1116	1273		",C"	T1116T	T24910C	T1116T	S:T1116T	1116	S	T1116T	S:T1116T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	24990	.	CTG	C	2186	PASS	1067	0.076851	0	"985,0,82,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3429_3430delTG	p.Glu1144fs	3429/3822	3429/3822	1143/1273	1143	1273		",C"	del1144	CTG24990C	del1144	S:DEL1144	1144	S	del1144	S:DEL1144	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25135	.	G	T	1510	PASS	1212	0.081683	0	"1111,0,99,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3573G>T	p.Lys1191Asn	3573/3822	3573/3822	1191/1273	1191	1273		",T"	K1191N	G25135T	K1191N	S:K1191N	1191	S	K1191N	S:K1191N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25277	.	A	T	77	PASS	1295	0.026255	0	"1245,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25289	.	T	G	93	PASS	1317	0.028853	0	"1276,0,38,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25296	.	A	C	146	PASS	1331	0.039068	0	"1249,0,52,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25301	.	T	G	135	PASS	1321	0.035579	0	"1272,0,47,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25312	.	T	G	79	PASS	1340	0.026866	0	"1304,0,36,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25314	.	G	T	79	PASS	1383	0.027477	0	"1335,0,38,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25317	.	C	T	10632	PASS	1380	0.365217	0	"864,0,504,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25324	.	C	A	402	PASS	1364	0.056452	0	"1286,0,77,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25327	.	A	T	130	PASS	1350	0.031111	0	"1307,0,42,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25331	.	G	T	98	PASS	1339	0.034354	0	"1285,0,46,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25336	.	A	C	143	PASS	1333	0.04126	0	"1262,0,55,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25505	.	A	G	10374	PASS	1093	0.379689	0	"677,0,415,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25563	.	G	T	14753	PASS	946	0.542283	0	"433,0,513,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25593	.	G	T	107	PASS	1055	0.018009	0	"1035,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25710	.	C	T	9592	PASS	623	0.52809	0	"293,0,329,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25906	.	G	C	221	PASS	233	0.06867	0	"217,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25907	.	G	A	1398	PASS	238	0.268908	0	"173,0,64,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.515G>A	p.Gly172Asp	515/828	515/828	172/275	172	275		",A"	G172D	G25907A	G172D	ORF3A:G172D	172	ORF3a	G172D	ORF3A:G172D	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	25996	.	G	T	94	PASS	244	0.045082	0	"233,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26110	.	C	T	1471	PASS	773	0.112549	0	"684,0,87,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.718C>T	p.Pro240Ser	718/828	718/828	240/275	240	275		",T"	P240S	C26110T	P240S	ORF3A:P240S	240	ORF3a	P240S	ORF3A:P240S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26416	.	G	GT	4369	PASS	3275	0.052519	0	"3136,0,172,0"	TRUE	GT	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.175dupT	p.Tyr59fs	176/228	176/228	59/75	59	75		"INFO_REALIGN_3_PRIME,GT"	del59	G26416GT	del59	E:DEL59	59	E	del59	E:DEL59	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26519	.	A	G	3897	PASS	3455	0.078148	0	"3182,0,270,0"	FALSE	G	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-4A>G						NA	4	",G"		A26519G		NA	NA	M		NA	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26600	.	C	T	3506	PASS	3121	0.077219	0	"2869,0,241,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26735	.	C	T	20702	PASS	2465	0.332252	0	"1644,0,819,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26801	.	C	G	6068	PASS	2058	0.142371	0	"1763,0,293,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26876	.	T	C	7448	PASS	990	0.313131	0	"679,0,310,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26951	.	G	T	111	PASS	41	0.121951	0	"36,0,5,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	26972	.	T	C	105	PASS	48	0.125	0	"42,0,6,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	27281	.	G	T	876	PASS	1004	0.069721	0	"932,0,70,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.80G>T	p.Trp27Leu	80/186	80/186	27/61	27	61		",T"	W27L	G27281T	W27L	ORF6:W27L	27	ORF6	W27L	ORF6:W27L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	27360	.	TG	T	1819	PASS	1946	0.040596	0	"1870,0,79,0"	TRUE	T	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.160delG	p.Glu54fs	160/186	160/186	54/61	54	61		",T"	del54	TG27360T	del54	ORF6:DEL54	54	ORF6	del54	ORF6:DEL54	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	27585	.	T	C	2123	PASS	2845	0.063972	0	"2653,0,182,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.192T>C	p.Ala64Ala	192/366	192/366	64/121	64	121		",C"	A64A	T27585C	A64A	ORF7A:A64A	64	ORF7a	A64A	ORF7A:A64A	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	27670	.	G	T	7462	PASS	2835	0.139683	0	"2434,0,396,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.277G>T	p.Val93Phe	277/366	277/366	93/121	93	121		",T"	V93F	G27670T	V93F	ORF7A:V93F	93	ORF7a	V93F	ORF7A:V93F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	27707	.	C	T	4795	PASS	2832	0.117232	0	"2492,0,332,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	27944	.	C	T	7110	PASS	1938	0.183695	0	"1578,0,356,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	27970	.	C	A	2385	PASS	1552	0.090851	0	"1410,0,141,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28045	.	C	T	328	PASS	551	0.058076	0	"516,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28133	.	A	T	659	PASS	457	0.085339	0	"418,0,39,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28254	.	A	C	93	PASS	433	0.032333	0	"419,0,14,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28378	.	G	T	1158	PASS	884	0.091629	0	"802,0,81,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28439	.	C	T	560	PASS	1396	0.039398	0	"1337,0,55,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.166C>T	p.Leu56Phe	166/1260	166/1260	56/419	56	419		",T"	L56F	C28439T	L56F	N:L56F	56	N	L56F	N:L56F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28514	.	G	T	4941	PASS	2423	0.116385	0	"2139,0,282,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.241G>T	p.Asp81Tyr	241/1260	241/1260	81/419	81	419		",T"	D81Y	G28514T	D81Y	N:D81Y	81	N	D81Y	N:D81Y	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28603	.	C	T	134	PASS	2177	0.012862	0	"2143,0,28,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.330C>T	p.Phe110Phe	330/1260	330/1260	110/419	110	419		",T"	F110F	C28603T	F110F	N:F110F	110	N	F110F	N:F110F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28651	.	C	T	27190	PASS	2408	0.424003	0	"1382,0,1021,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28776	.	CA	C	88	PASS	3592	0.001949	0	"3584,0,7,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28855	.	A	C	10863	PASS	3342	0.170257	0	"2766,0,569,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28869	.	C	T	37027	PASS	3320	0.428313	0	"1886,0,1422,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28881	.	G	A	5904	PASS	3131	0.118812	0	"2738,0,372,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28882	.	G	A	5305	PASS	3166	0.116235	0	"2780,0,368,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28883	.	G	C	6377	PASS	3170	0.118927	0	"2782,0,377,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28887	.	C	T	3304	PASS	3119	0.077589	0	"2872,0,242,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28918	.	TGA	T	4271	PASS	3058	0.062459	0	"2880,0,191,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.646_647delGA	p.Asp216fs	646/1260	646/1260	216/419	216	419		",T"	del216	TGA28918T	del216	N:DEL216	216	N	del216	N:DEL216	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28932	.	C	T	11069	PASS	3142	0.178867	0	"2570,0,562,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28957	.	C	T	3226	PASS	3017	0.080212	0	"2764,0,242,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28975	.	G	C	9188	PASS	3020	0.168543	0	"2507,0,509,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28977	.	C	T	2804	PASS	2897	0.068347	0	"2697,0,198,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	28978	.	T	A	2637	PASS	2898	0.068668	0	"2698,0,199,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	29003	.	CA	C	5982	PASS	2681	0.081686	0	"2463,0,219,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.733delA	p.Thr245fs	733/1260	733/1260	245/419	245	419		"INFO_REALIGN_3_PRIME,C"	del245	CA29003C	del245	N:DEL245	245	N	del245	N:DEL245	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG35-3	NC_045512.2	29091	.	C	T	2080	PASS	1959	0.076059	0	"1804,0,149,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.818C>T	p.Ala273Val	818/1260	818/1260	273/419	273	419		",T"	A273V	C29091T	A273V	N:A273V	273	N	A273V	N:A273V	BEG35-3	BEGGEN	2020-11-26T00:00:00Z	30.8945	32.35333333	x	1022021	2020-11-26
BEG36-1	NC_045512.2	162	.	C	T	13532	PASS	2258	0.241807	0	"1711,0,546,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-104C>T						NA	104	",T"		C162T		NA	NA	NA		NA	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	241	.	C	T	49314	PASS	3418	0.996782	0	"1,0,3407,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	282	.	C	T	2549	PASS	3287	0.059629	0	"3084,0,196,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.17C>T	p.Pro6Leu	17/21291	17/21291	6/7096	6	7096		",T"	P6L	C282T	P6L	ORF1AB:P6L	6	ORF1a	P6L	ORF1A:P6L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	313	.	C	T	4208	PASS	3349	0.080621	0	"3074,0,270,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.48C>T	p.Leu16Leu	48/21291	48/21291	16/7096	16	7096		",T"	L16L	C313T	L16L	ORF1AB:L16L	16	ORF1a	L16L	ORF1A:L16L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	335	.	C	T	4207	PASS	3518	0.080443	0	"3227,0,283,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	337	.	C	T	3713	PASS	3517	0.085869	0	"3208,0,302,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.72C>T	p.Arg24Arg	72/21291	72/21291	24/7096	24	7096		",T"	R24R	C337T	R24R	ORF1AB:R24R	24	ORF1a	R24R	ORF1A:R24R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	434	.	GA	G	51	PASS	3865	0.001294	0	"3880,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	445	.	T	C	34640	PASS	4014	0.371201	0	"2512,0,1490,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	533	.	G	C	5259	PASS	3570	0.087115	0	"3257,0,311,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.268G>C	p.Ala90Pro	268/21291	268/21291	90/7096	90	7096		",C"	A90P	G533C	A90P	ORF1AB:A90P	90	ORF1a	A90P	ORF1A:A90P	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	571	.	G	A	4574	PASS	3496	0.078375	0	"3217,0,274,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	593	.	C	T	18564	PASS	3156	0.248733	0	"2364,0,785,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	802	.	A	C	79	PASS	2840	0.008099	0	"2806,0,23,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	843	.	C	T	1200	PASS	2465	0.046247	0	"2347,0,114,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.578C>T	p.Pro193Leu	578/21291	578/21291	193/7096	193	7096		",T"	P193L	C843T	P193L	ORF1AB:P193L	193	ORF1a	P193L	ORF1A:P193L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	894	.	A	G	2786	PASS	2056	0.096304	0	"1853,0,198,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.629A>G	p.Lys210Arg	629/21291	629/21291	210/7096	210	7096		",G"	K210R	A894G	K210R	ORF1AB:K210R	210	ORF1a	K210R	ORF1A:K210R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	1277	.	A	T	3748	PASS	2688	0.085193	0	"2456,0,229,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1012A>T	p.Lys338*	1012/21291	1012/21291	338/7096	338	7096		",T"	K338*	A1277T	K338*	ORF1AB:K338*	338	ORF1a	K338*	ORF1A:K338*	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	1514	.	C	T	4558	PASS	2410	0.116183	0	"2124,0,280,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1249C>T	p.His417Tyr	1249/21291	1249/21291	417/7096	417	7096		",T"	H417Y	C1514T	H417Y	ORF1AB:H417Y	417	ORF1a	H417Y	ORF1A:H417Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	1701	.	CT	C	213	PASS	2754	0.005084	0	"2740,0,14,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1441delT	p.Ser481fs	1441/21291	1441/21291	481/7096	481	7096		"INFO_REALIGN_3_PRIME,C"	del481	CT1701C	del481	ORF1AB:DEL481	481	ORF1a	del481	ORF1A:DEL481	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	1749	.	AT	A	52	PASS	2636	0.001517	0	"2677,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1486delT	p.Tyr496fs	1486/21291	1486/21291	496/7096	496	7096		"INFO_REALIGN_3_PRIME,A"	del496	AT1749A	del496	ORF1AB:DEL496	496	ORF1a	del496	ORF1A:DEL496	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	1813	.	TA	T	68	PASS	2180	0.00367	0	"2172,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1554delA	p.Gly519fs	1554/21291	1554/21291	518/7096	518	7096		"INFO_REALIGN_3_PRIME,T"	del519	TA1813T	del519	ORF1AB:DEL519	519	ORF1a	del519	ORF1A:DEL519	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	1862	.	C	T	4043	PASS	2073	0.106609	0	"1848,0,221,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1597C>T	p.Leu533Phe	1597/21291	1597/21291	533/7096	533	7096		",T"	L533F	C1862T	L533F	ORF1AB:L533F	533	ORF1a	L533F	ORF1A:L533F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	2531	.	G	T	2823	PASS	1717	0.098427	0	"1547,0,169,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2266G>T	p.Val756Phe	2266/21291	2266/21291	756/7096	756	7096		",T"	V756F	G2531T	V756F	ORF1AB:V756F	756	ORF1a	V756F	ORF1A:V756F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	2555	.	CA	C	3839	PASS	1557	0.090559	0	"1416,0,141,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2292delA	p.Gln764fs	2292/21291	2292/21291	764/7096	764	7096		"INFO_REALIGN_3_PRIME,C"	del764	CA2555C	del764	ORF1AB:DEL764	764	ORF1a	del764	ORF1A:DEL764	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	2612	.	G	GT	4004	PASS	2008	0.073705	0	"1888,0,148,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2350dupT	p.Cys784fs	2351/21291	2351/21291	784/7096	784	7096		"INFO_REALIGN_3_PRIME,GT"	del784	G2612GT	del784	ORF1AB:DEL784	784	ORF1a	del784	ORF1A:DEL784	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	2904	.	TA	T	7256	PASS	3025	0.090248	0	"2772,0,273,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2644delA	p.Thr882fs	2644/21291	2644/21291	882/7096	882	7096		"INFO_REALIGN_3_PRIME,T"	del882	TA2904T	del882	ORF1AB:DEL882	882	ORF1a	del882	ORF1A:DEL882	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	3036	.	TC	T	55	PASS	2247	0.00178	0	"2252,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	3037	.	C	T	49314	PASS	2280	0.997368	0	"1,0,2274,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	3126	.	A	G	93	PASS	1637	0.011607	0	"1612,0,19,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2861A>G	p.Asp954Gly	2861/21291	2861/21291	954/7096	954	7096		",G"	D954G	A3126G	D954G	ORF1AB:D954G	954	ORF1a	D954G	ORF1A:D954G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	3439	.	T	TA	731	PASS	267	0.097378	0	"244,0,26,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3176dupA	p.Asn1059fs	3177/21291	3177/21291	1059/7096	1059	7096		"INFO_REALIGN_3_PRIME,TA"	del1059	T3439TA	del1059	ORF1AB:DEL1059	1059	ORF1a	del1059	ORF1A:DEL1059	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	3602	.	C	T	1883	PASS	248	0.33871	0	"164,0,84,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	3914	.	GA	G	484	PASS	162	0.104938	0	"145,0,17,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3652delA	p.Ser1218fs	3652/21291	3652/21291	1218/7096	1218	7096		"INFO_REALIGN_3_PRIME,G"	del1218	GA3914G	del1218	ORF1AB:DEL1218	1218	ORF1a	del1218	ORF1A:DEL1218	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	4001	.	A	G	114	PASS	167	0.071856	0	"154,0,12,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3736A>G	p.Thr1246Ala	3736/21291	3736/21291	1246/7096	1246	7096		",G"	T1246A	A4001G	T1246A	ORF1AB:T1246A	1246	ORF1a	T1246A	ORF1A:T1246A	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	4017	.	A	G	86	PASS	165	0.060606	0	"155,0,10,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3752A>G	p.Glu1251Gly	3752/21291	3752/21291	1251/7096	1251	7096		",G"	E1251G	A4017G	E1251G	ORF1AB:E1251G	1251	ORF1a	E1251G	ORF1A:E1251G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	4161	.	TG	T	154	PASS	299	0.026756	0	"291,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3898delG	p.Val1300fs	3898/21291	3898/21291	1300/7096	1300	7096		"INFO_REALIGN_3_PRIME,T"	del1300	TG4161T	del1300	ORF1AB:DEL1300	1300	ORF1a	del1300	ORF1A:DEL1300	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	4364	.	A	AT	2230	PASS	752	0.105053	0	"673,0,79,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4101dupT	p.Leu1368fs	4102/21291	4102/21291	1368/7096	1368	7096		"INFO_REALIGN_3_PRIME,AT"	del1368	A4364AT	del1368	ORF1AB:DEL1368	1368	ORF1a	del1368	ORF1A:DEL1368	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	4543	.	C	T	8268	PASS	784	0.41199	0	"458,0,323,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	4886	.	C	T	1406	PASS	1492	0.069035	0	"1385,0,103,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4621C>T	p.Pro1541Ser	4621/21291	4621/21291	1541/7096	1541	7096		",T"	P1541S	C4886T	P1541S	ORF1AB:P1541S	1541	ORF1a	P1541S	ORF1A:P1541S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	4893	.	C	T	2339	PASS	1522	0.095269	0	"1373,0,145,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4628C>T	p.Thr1543Ile	4628/21291	4628/21291	1543/7096	1543	7096		",T"	T1543I	C4893T	T1543I	ORF1AB:T1543I	1543	ORF1a	T1543I	ORF1A:T1543I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	5051	.	C	T	3618	PASS	1955	0.109463	0	"1734,0,214,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4786C>T	p.Pro1596Ser	4786/21291	4786/21291	1596/7096	1596	7096		",T"	P1596S	C5051T	P1596S	ORF1AB:P1596S	1596	ORF1a	P1596S	ORF1A:P1596S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	5161	.	T	C	143	PASS	1914	0.014629	0	"1880,0,28,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4896T>C	p.Phe1632Phe	4896/21291	4896/21291	1632/7096	1632	7096		",C"	F1632F	T5161C	F1632F	ORF1AB:F1632F	1632	ORF1a	F1632F	ORF1A:F1632F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	5330	.	A	G	460	PASS	1675	0.028657	0	"1625,0,48,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5065A>G	p.Lys1689Glu	5065/21291	5065/21291	1689/7096	1689	7096		",G"	K1689E	A5330G	K1689E	ORF1AB:K1689E	1689	ORF1a	K1689E	ORF1A:K1689E	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	5367	.	G	T	194	PASS	1515	0.021122	0	"1482,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5102G>T	p.Arg1701Ile	5102/21291	5102/21291	1701/7096	1701	7096		",T"	R1701I	G5367T	R1701I	ORF1AB:R1701I	1701	ORF1a	R1701I	ORF1A:R1701I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	5629	.	G	T	10998	PASS	1120	0.372321	0	"703,0,417,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6045	.	AT	A	1458	PASS	799	0.070088	0	"748,0,56,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5784delT	p.Phe1928fs	5784/21291	5784/21291	1928/7096	1928	7096		"INFO_REALIGN_3_PRIME,A"	del1928	AT6045A	del1928	ORF1AB:DEL1928	1928	ORF1a	del1928	ORF1A:DEL1928	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6286	.	C	T	13203	PASS	877	0.521095	0	"418,0,457,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6438	.	A	G	115	PASS	922	0.016269	0	"907,0,15,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6173A>G	p.Gln2058Arg	6173/21291	6173/21291	2058/7096	2058	7096		",G"	Q2058R	A6438G	Q2058R	ORF1AB:Q2058R	2058	ORF1a	Q2058R	ORF1A:Q2058R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6517	.	A	T	552	PASS	1283	0.042089	0	"1229,0,54,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6252A>T	p.Leu2084Phe	6252/21291	6252/21291	2084/7096	2084	7096		",T"	L2084F	A6517T	L2084F	ORF1AB:L2084F	2084	ORF1a	L2084F	ORF1A:L2084F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6518	.	A	T	488	PASS	1268	0.041009	0	"1216,0,52,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6253A>T	p.Lys2085*	6253/21291	6253/21291	2085/7096	2085	7096		",T"	K2085*	A6518T	K2085*	ORF1AB:K2085*	2085	ORF1a	K2085*	ORF1A:K2085*	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6555	.	C	T	1460	PASS	1379	0.079768	0	"1260,0,110,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6629	.	C	T	567	PASS	1098	0.054645	0	"1030,0,60,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6364C>T	p.Leu2122Phe	6364/21291	6364/21291	2122/7096	2122	7096		",T"	L2122F	C6629T	L2122F	ORF1AB:L2122F	2122	ORF1a	L2122F	ORF1A:L2122F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6634	.	T	C	773	PASS	1123	0.054319	0	"1062,0,61,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6369T>C	p.Ala2123Ala	6369/21291	6369/21291	2123/7096	2123	7096		",C"	A2123A	T6634C	A2123A	ORF1AB:A2123A	2123	ORF1a	A2123A	ORF1A:A2123A	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6659	.	A	G	686	PASS	1168	0.053082	0	"1104,0,62,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6394A>G	p.Ser2132Gly	6394/21291	6394/21291	2132/7096	2132	7096		",G"	S2132G	A6659G	S2132G	ORF1AB:S2132G	2132	ORF1a	S2132G	ORF1A:S2132G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6665	.	C	T	421	PASS	1180	0.051695	0	"1109,0,61,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6400C>T	p.Pro2134Ser	6400/21291	6400/21291	2134/7096	2134	7096		",T"	P2134S	C6665T	P2134S	ORF1AB:P2134S	2134	ORF1a	P2134S	ORF1A:P2134S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6696	.	C	T	757	PASS	1130	0.065487	0	"1054,0,74,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6941	.	C	T	10608	PASS	1677	0.267144	0	"1222,0,448,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	6954	.	T	C	2845	PASS	1650	0.115758	0	"1456,0,191,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	7273	.	G	GT	423	PASS	218	0.077982	0	"207,0,17,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7013dupT	p.Tyr2339fs	7014/21291	7014/21291	2338/7096	2338	7096		"INFO_REALIGN_3_PRIME,GT"	del2339	G7273GT	del2339	ORF1AB:DEL2339	2339	ORF1a	del2339	ORF1A:DEL2339	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	8983	.	T	G	6343	PASS	901	0.300777	0	"627,0,271,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	8992	.	A	G	2312	PASS	852	0.14554	0	"725,0,124,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8727A>G	p.Ala2909Ala	8727/21291	8727/21291	2909/7096	2909	7096		",G"	A2909A	A8992G	A2909A	ORF1AB:A2909A	2909	ORF1a	A2909A	ORF1A:A2909A	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	9101	.	GA	G	3497	PASS	860	0.136047	0	"745,0,117,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8839delA	p.Ser2947fs	8839/21291	8839/21291	2947/7096	2947	7096		"INFO_REALIGN_3_PRIME,G"	del2947	GA9101G	del2947	ORF1AB:DEL2947	2947	ORF1a	del2947	ORF1A:DEL2947	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	9120	.	C	T	2856	PASS	923	0.15818	0	"771,0,146,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8855C>T	p.Thr2952Ile	8855/21291	8855/21291	2952/7096	2952	7096		",T"	T2952I	C9120T	T2952I	ORF1AB:T2952I	2952	ORF1a	T2952I	ORF1A:T2952I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	9204	.	A	C	2040	PASS	856	0.135514	0	"739,0,116,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8939A>C	p.Asp2980Ala	8939/21291	8939/21291	2980/7096	2980	7096		",C"	D2980A	A9204C	D2980A	ORF1AB:D2980A	2980	ORF1a	D2980A	ORF1A:D2980A	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	9314	.	G	GT	2041	PASS	1353	0.060606	0	"1273,0,82,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9053dupT	p.Cys3019fs	9054/21291	9054/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,GT"	del3019	G9314GT	del3019	ORF1AB:DEL3019	3019	ORF1a	del3019	ORF1A:DEL3019	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	9409	.	A	G	853	PASS	2317	0.04057	0	"2219,0,94,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9144A>G	p.Val3048Val	9144/21291	9144/21291	3048/7096	3048	7096		",G"	V3048V	A9409G	V3048V	ORF1AB:V3048V	3048	ORF1a	V3048V	ORF1A:V3048V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	9526	.	G	T	731	PASS	2431	0.034965	0	"2345,0,85,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	9587	.	A	AT	8607	PASS	2741	0.109084	0	"2442,0,299,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9325dupT	p.Tyr3109fs	9326/21291	9326/21291	3109/7096	3109	7096		"INFO_REALIGN_3_PRIME,AT"	del3109	A9587AT	del3109	ORF1AB:DEL3109	3109	ORF1a	del3109	ORF1A:DEL3109	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	9666	.	CT	C	48	PASS	3055	0.001309	0	"3052,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9404delT	p.Leu3135fs	9404/21291	9404/21291	3135/7096	3135	7096		"INFO_REALIGN_3_PRIME,C"	del3135	CT9666C	del3135	ORF1AB:DEL3135	3135	ORF1a	del3135	ORF1A:DEL3135	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10186	.	C	T	407	PASS	2849	0.021762	0	"2780,0,62,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9921C>T	p.Cys3307Cys	9921/21291	9921/21291	3307/7096	3307	7096		",T"	C3307C	C10186T	C3307C	ORF1AB:C3307C	3307	ORF1a	C3307C	ORF1A:C3307C	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10206	.	A	C	5542	PASS	3021	0.150612	0	"2560,0,455,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9941A>C	p.Asn3314Thr	9941/21291	9941/21291	3314/7096	3314	7096		",C"	N3314T	A10206C	N3314T	ORF1AB:N3314T	3314	ORF1a	N3314T	ORF1A:N3314T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10426	.	TG	T	8921	PASS	2769	0.130011	0	"2446,0,360,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10162delG	p.Val3388fs	10162/21291	10162/21291	3388/7096	3388	7096		",T"	del3388	TG10426T	del3388	ORF1AB:DEL3388	3388	ORF1a	del3388	ORF1A:DEL3388	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10456	.	C	T	8526	PASS	2656	0.16491	0	"2211,0,438,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10191C>T	p.Phe3397Phe	10191/21291	10191/21291	3397/7096	3397	7096		",T"	F3397F	C10456T	F3397F	ORF1AB:F3397F	3397	ORF1a	F3397F	ORF1A:F3397F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10500	.	G	T	4234	PASS	2529	0.107948	0	"2255,0,273,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10235G>T	p.Gly3412Val	10235/21291	10235/21291	3412/7096	3412	7096		",T"	G3412V	G10500T	G3412V	ORF1AB:G3412V	3412	ORF1a	G3412V	ORF1A:G3412V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10503	.	T	G	204	PASS	2536	0.018139	0	"2488,0,46,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10238T>G	p.Phe3413Cys	10238/21291	10238/21291	3413/7096	3413	7096		",G"	F3413C	T10503G	F3413C	ORF1AB:F3413C	3413	ORF1a	F3413C	ORF1A:F3413C	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10537	.	C	T	1429	PASS	2726	0.051724	0	"2578,0,141,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10272C>T	p.Tyr3424Tyr	10272/21291	10272/21291	3424/7096	3424	7096		",T"	Y3424Y	C10537T	Y3424Y	ORF1AB:Y3424Y	3424	ORF1a	Y3424Y	ORF1A:Y3424Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10560	.	C	T	1789	PASS	2564	0.058502	0	"2408,0,150,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10295C>T	p.Thr3432Ile	10295/21291	10295/21291	3432/7096	3432	7096		",T"	T3432I	C10560T	T3432I	ORF1AB:T3432I	3432	ORF1a	T3432I	ORF1A:T3432I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10783	.	A	G	1227	PASS	1267	0.081294	0	"1161,0,103,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10518A>G	p.Thr3506Thr	10518/21291	10518/21291	3506/7096	3506	7096		",G"	T3506T	A10783G	T3506T	ORF1AB:T3506T	3506	ORF1a	T3506T	ORF1A:T3506T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10835	.	G	GT	2566	PASS	1208	0.07947	0	"1130,0,96,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10574dupT	p.Leu3525fs	10575/21291	10575/21291	3525/7096	3525	7096		"INFO_REALIGN_3_PRIME,GT"	del3525	G10835GT	del3525	ORF1AB:DEL3525	3525	ORF1a	del3525	ORF1A:DEL3525	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10858	.	A	G	1463	PASS	1262	0.099049	0	"1135,0,125,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10593A>G	p.Leu3531Leu	10593/21291	10593/21291	3531/7096	3531	7096		",G"	L3531L	A10858G	L3531L	ORF1AB:L3531L	3531	ORF1a	L3531L	ORF1A:L3531L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10912	.	A	G	1794	PASS	1182	0.098985	0	"1064,0,117,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10647A>G	p.Leu3549Leu	10647/21291	10647/21291	3549/7096	3549	7096		",G"	L3549L	A10912G	L3549L	ORF1AB:L3549L	3549	ORF1a	L3549L	ORF1A:L3549L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10950	.	A	G	100	PASS	1070	0.015888	0	"1052,0,17,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10685A>G	p.Gln3562Arg	10685/21291	10685/21291	3562/7096	3562	7096		",G"	Q3562R	A10950G	Q3562R	ORF1AB:Q3562R	3562	ORF1a	Q3562R	ORF1A:Q3562R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	10972	.	A	G	701	PASS	1095	0.054795	0	"1032,0,60,0"	FALSE	G	splice_region_variant&synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	YP_009725301.1	protein_coding	1/1	c.918A>G	p.Gln306Gln	918/918	918/918	306/305	306	305		"WARNING_TRANSCRIPT_NO_START_CODON,G"	Q306Q	A10972G	Q306Q	ORF1AB:Q306Q	306	ORF1a	Q306Q	ORF1A:Q306Q	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11075	.	T	C	615	PASS	1867	0.039636	0	"1785,0,74,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10810T>C	p.Phe3604Leu	10810/21291	10810/21291	3604/7096	3604	7096		",C"	F3604L	T11075C	F3604L	ORF1AB:F3604L	3604	ORF1a	F3604L	ORF1A:F3604L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11145	.	TG	T	914	PASS	1826	0.024096	0	"1844,0,44,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10881delG	p.Met3627fs	10881/21291	10881/21291	3627/7096	3627	7096		",T"	del3627	TG11145T	del3627	ORF1AB:DEL3627	3627	ORF1a	del3627	ORF1A:DEL3627	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11167	.	A	T	412	PASS	1587	0.030246	0	"1539,0,48,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10902A>T	p.Ala3634Ala	10902/21291	10902/21291	3634/7096	3634	7096		",T"	A3634A	A11167T	A3634A	ORF1AB:A3634A	3634	ORF1a	A3634A	ORF1A:A3634A	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11197	.	T	C	114	PASS	1708	0.015222	0	"1676,0,26,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10932T>C	p.Leu3644Leu	10932/21291	10932/21291	3644/7096	3644	7096		",C"	L3644L	T11197C	L3644L	ORF1AB:L3644L	3644	ORF1a	L3644L	ORF1A:L3644L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11282	.	A	G	249	PASS	1704	0.022887	0	"1664,0,39,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11017A>G	p.Ser3673Gly	11017/21291	11017/21291	3673/7096	3673	7096		",G"	S3673G	A11282G	S3673G	ORF1AB:S3673G	3673	ORF1a	S3673G	ORF1A:S3673G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11386	.	A	G	1752	PASS	1837	0.074034	0	"1694,0,136,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11121A>G	p.Arg3707Arg	11121/21291	11121/21291	3707/7096	3707	7096		",G"	R3707R	A11386G	R3707R	ORF1AB:R3707R	3707	ORF1a	R3707R	ORF1A:R3707R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11497	.	C	T	24949	PASS	1791	0.493021	0	"905,0,883,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11522	.	T	G	3443	PASS	1626	0.144526	0	"1386,0,235,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11257T>G	p.Phe3753Val	11257/21291	11257/21291	3753/7096	3753	7096		",G"	F3753V	T11522G	F3753V	ORF1AB:F3753V	3753	ORF1a	F3753V	ORF1A:F3753V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	11572	.	C	T	5098	PASS	1478	0.169147	0	"1225,0,250,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11307C>T	p.Phe3769Phe	11307/21291	11307/21291	3769/7096	3769	7096		",T"	F3769F	C11572T	F3769F	ORF1AB:F3769F	3769	ORF1a	F3769F	ORF1A:F3769F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	12436	.	T	C	4166	PASS	1763	0.135564	0	"1519,0,239,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13077	.	C	CT	12644	PASS	4716	0.097116	0	"4258,0,458,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12816dupT	p.Ala4273fs	12817/21291	12817/21291	4273/7096	4273	7096		"INFO_REALIGN_3_PRIME,CT"	del4273	C13077CT	del4273	ORF1AB:DEL4273	4273	ORF1a	del4273	ORF1A:DEL4273	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13191	.	C	T	6695	PASS	4503	0.090384	0	"4091,0,407,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12926C>T	p.Thr4309Ile	12926/21291	12926/21291	4309/7096	4309	7096		",T"	T4309I	C13191T	T4309I	ORF1AB:T4309I	4309	ORF1a	T4309I	ORF1A:T4309I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13195	.	TA	T	8654	PASS	4500	0.076	0	"4209,0,342,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12931delA	p.Thr4311fs	12931/21291	12931/21291	4311/7096	4311	7096		",T"	del4311	TA13195T	del4311	ORF1AB:DEL4311	4311	ORF1a	del4311	ORF1A:DEL4311	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13276	.	A	C	5186	PASS	4629	0.077555	0	"4259,0,359,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13011A>C	p.Pro4337Pro	13011/21291	13011/21291	4337/7096	4337	7096		",C"	P4337P	A13276C	P4337P	ORF1AB:P4337P	4337	ORF1a	P4337P	ORF1A:P4337P	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13361	.	A	G	185	PASS	3905	0.009987	0	"3857,0,39,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13096A>G	p.Lys4366Glu	13096/21291	13096/21291	4366/7096	4366	7096		",G"	K4366E	A13361G	K4366E	ORF1AB:K4366E	4366	ORF1a	K4366E	ORF1A:K4366E	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13500	.	A	T	1396	PASS	3309	0.049864	0	"3134,0,165,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13236A>T	p.Thr4412Thr	13236/21291	13236/21291	4412/7096	4412	7096		",T"	T4412T	A13500T	T4412T	ORF1AB:T4412T	11	ORF1b	T11T	ORF1B:T11T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13517	.	C	T	4906	PASS	3193	0.096774	0	"2882,0,309,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13864	.	T	C	5679	PASS	3230	0.104954	0	"2887,0,339,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13600T>C	p.Leu4534Leu	13600/21291	13600/21291	4534/7096	4534	7096		",C"	L4534L	T13864C	L4534L	ORF1AB:L4534L	133	ORF1b	L133L	ORF1B:L133L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13933	.	T	C	3671	PASS	2822	0.091425	0	"2560,0,258,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13669T>C	p.Phe4557Leu	13669/21291	13669/21291	4557/7096	4557	7096		",C"	F4557L	T13933C	F4557L	ORF1AB:F4557L	156	ORF1b	F156L	ORF1B:F156L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	13993	.	G	T	26919	PASS	2313	0.439256	0	"1297,0,1016,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14129	.	G	T	1095	PASS	864	0.085648	0	"790,0,74,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13865G>T	p.Gly4622Val	13865/21291	13865/21291	4622/7096	4622	7096		",T"	G4622V	G14129T	G4622V	ORF1AB:G4622V	221	ORF1b	G221V	ORF1B:G221V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14225	.	CA	C	77	PASS	61	0.04918	0	"58,0,3,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13964delA	p.Lys4655fs	13964/21291	13964/21291	4655/7096	4655	7096		"INFO_REALIGN_3_PRIME,C"	del4655	CA14225C	del4655	ORF1AB:DEL4655	254	ORF1b	del254	ORF1B:DEL254	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14226	.	A	G	74	PASS	61	0.065574	0	"54,0,4,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13962A>G	p.Thr4654Thr	13962/21291	13962/21291	4654/7096	4654	7096		",G"	T4654T	A14226G	T4654T	ORF1AB:T4654T	253	ORF1b	T253T	ORF1B:T253T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14408	.	C	T	1824	PASS	51	1	2147483647	"0,0,51,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14457	.	A	T	81	PASS	57	0.087719	0	"52,0,5,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14193A>T	p.Pro4731Pro	14193/21291	14193/21291	4731/7096	4731	7096		",T"	P4731P	A14457T	P4731P	ORF1AB:P4731P	330	ORF1b	P330P	ORF1B:P330P	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14587	.	G	A	2315	PASS	1204	0.112957	0	"1065,0,136,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14323G>A	p.Ala4775Thr	14323/21291	14323/21291	4775/7096	4775	7096		",A"	A4775T	G14587A	A4775T	ORF1AB:A4775T	374	ORF1b	A374T	ORF1B:A374T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14621	.	C	T	3166	PASS	1579	0.10703	0	"1404,0,169,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14357C>T	p.Thr4786Met	14357/21291	14357/21291	4786/7096	4786	7096		",T"	T4786M	C14621T	T4786M	ORF1AB:T4786M	385	ORF1b	T385M	ORF1B:T385M	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14625	.	C	CT	233	PASS	1664	0.007812	0	"1651,0,13,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14365dupT	p.Ser4789fs	14366/21291	14366/21291	4789/7096	4789	7096		"INFO_REALIGN_3_PRIME,CT"	del4789	C14625CT	del4789	ORF1AB:DEL4789	388	ORF1b	del388	ORF1B:DEL388	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14724	.	C	T	1079	PASS	2002	0.045954	0	"1906,0,92,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14460C>T	p.Phe4820Phe	14460/21291	14460/21291	4820/7096	4820	7096		",T"	F4820F	C14724T	F4820F	ORF1AB:F4820F	419	ORF1b	F419F	ORF1B:F419F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	14968	.	G	T	68	PASS	3125	0.00992	0	"3094,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14704G>T	p.Gly4902Cys	14704/21291	14704/21291	4902/7096	4902	7096		",T"	G4902C	G14968T	G4902C	ORF1AB:G4902C	501	ORF1b	G501C	ORF1B:G501C	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	15019	.	CT	C	13212	PASS	2946	0.153089	0	"2495,0,451,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14759delT	p.Phe4920fs	14759/21291	14759/21291	4920/7096	4920	7096		"INFO_REALIGN_3_PRIME,C"	del4920	CT15019C	del4920	ORF1AB:DEL4920	519	ORF1b	del519	ORF1B:DEL519	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	15324	.	C	T	4520	PASS	1066	0.19606	0	"855,0,209,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	15598	.	G	A	1439	PASS	781	0.120359	0	"682,0,94,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15334G>A	p.Val5112Ile	15334/21291	15334/21291	5112/7096	5112	7096		",A"	V5112I	G15598A	V5112I	ORF1AB:V5112I	711	ORF1b	V711I	ORF1B:V711I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	15720	.	C	T	147	PASS	657	0.028919	0	"636,0,19,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15456C>T	p.Asp5152Asp	15456/21291	15456/21291	5152/7096	5152	7096		",T"	D5152D	C15720T	D5152D	ORF1AB:D5152D	751	ORF1b	D751D	ORF1B:D751D	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	15766	.	G	T	6489	PASS	701	0.368046	0	"442,0,258,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	16068	.	G	T	238	PASS	87	0.137931	0	"75,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15804G>T	p.Glu5268Asp	15804/21291	15804/21291	5268/7096	5268	7096		",T"	E5268D	G16068T	E5268D	ORF1AB:E5268D	867	ORF1b	E867D	ORF1B:E867D	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	16528	.	G	T	3691	PASS	3786	0.073957	0	"3499,0,280,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16264G>T	p.Val5422Phe	16264/21291	16264/21291	5422/7096	5422	7096		",T"	V5422F	G16528T	V5422F	ORF1AB:V5422F	1021	ORF1b	V1021F	ORF1B:V1021F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	16631	.	T	C	3487	PASS	4674	0.060548	0	"4382,0,283,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16367T>C	p.Leu5456Pro	16367/21291	16367/21291	5456/7096	5456	7096		",C"	L5456P	T16631C	L5456P	ORF1AB:L5456P	1055	ORF1b	L1055P	ORF1B:L1055P	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	16837	.	GA	G	6483	PASS	4266	0.06165	0	"4014,0,263,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	16889	.	A	G	15989	PASS	3799	0.192419	0	"3060,0,731,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	16899	.	TG	T	7095	PASS	3552	0.077984	0	"3364,0,277,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16637delG	p.Gly5546fs	16637/21291	16637/21291	5546/7096	5546	7096		"INFO_REALIGN_3_PRIME,T"	del5546	TG16899T	del5546	ORF1AB:DEL5546	1145	ORF1b	del1145	ORF1B:DEL1145	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	16912	.	G	T	2663	PASS	3483	0.057135	0	"3281,0,199,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17014	.	G	T	1316	PASS	2039	0.050515	0	"1936,0,103,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16750G>T	p.Asp5584Tyr	16750/21291	16750/21291	5584/7096	5584	7096		",T"	D5584Y	G17014T	D5584Y	ORF1AB:D5584Y	1183	ORF1b	D1183Y	ORF1B:D1183Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17017	.	G	C	1904	PASS	2008	0.067729	0	"1864,0,136,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16753G>C	p.Glu5585Gln	16753/21291	16753/21291	5585/7096	5585	7096		",C"	E5585Q	G17017C	E5585Q	ORF1AB:E5585Q	1184	ORF1b	E1184Q	ORF1B:E1184Q	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17019	.	G	T	7666	PASS	1962	0.181957	0	"1602,0,357,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17059	.	C	CA	3184	PASS	1422	0.082278	0	"1305,0,117,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799dupA	p.Tyr5601fs	16800/21291	16800/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,CA"	del5601	C17059CA	del5601	ORF1AB:DEL5601	1200	ORF1b	del1200	ORF1B:DEL1200	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17084	.	C	T	1464	PASS	779	0.111682	0	"691,0,87,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16820C>T	p.Pro5607Leu	16820/21291	16820/21291	5607/7096	5607	7096		",T"	P5607L	C17084T	P5607L	ORF1AB:P5607L	1206	ORF1b	P1206L	ORF1B:P1206L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17178	.	T	G	146	PASS	103	0.087379	0	"94,0,9,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16914T>G	p.Val5638Val	16914/21291	16914/21291	5638/7096	5638	7096		",G"	V5638V	T17178G	V5638V	ORF1AB:V5638V	1237	ORF1b	V1237V	ORF1B:V1237V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17566	.	T	G	2191	PASS	2545	0.068762	0	"2366,0,175,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17302T>G	p.Cys5768Gly	17302/21291	17302/21291	5768/7096	5768	7096		",G"	C5768G	T17566G	C5768G	ORF1AB:C5768G	1367	ORF1b	C1367G	ORF1B:C1367G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17615	.	A	G	2585	PASS	2340	0.076068	0	"2161,0,178,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17634	.	CA	C	52	PASS	2520	0.001587	0	"2516,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17373delA	p.Lys5791fs	17373/21291	17373/21291	5791/7096	5791	7096		"INFO_REALIGN_3_PRIME,C"	del5791	CA17634C	del5791	ORF1AB:DEL5791	1390	ORF1b	del1390	ORF1B:DEL1390	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	17826	.	T	A	5146	PASS	4224	0.079309	0	"3886,0,335,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17562T>A	p.Thr5854Thr	17562/21291	17562/21291	5854/7096	5854	7096		",A"	T5854T	T17826A	T5854T	ORF1AB:T5854T	1453	ORF1b	T1453T	ORF1B:T1453T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	18086	.	C	T	3598	PASS	3069	0.076898	0	"2829,0,236,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17822C>T	p.Thr5941Ile	17822/21291	17822/21291	5941/7096	5941	7096		",T"	T5941I	C18086T	T5941I	ORF1AB:T5941I	1540	ORF1b	T1540I	ORF1B:T1540I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	18649	.	G	T	1524	PASS	843	0.103203	0	"756,0,87,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18385G>T	p.Glu6129*	18385/21291	18385/21291	6129/7096	6129	7096		",T"	E6129*	G18649T	E6129*	ORF1AB:E6129*	1728	ORF1b	E1728*	ORF1B:E1728*	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	18687	.	C	T	1160	PASS	1659	0.057263	0	"1559,0,95,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18423C>T	p.Cys6141Cys	18423/21291	18423/21291	6141/7096	6141	7096		",T"	C6141C	C18687T	C6141C	ORF1AB:C6141C	1740	ORF1b	C1740C	ORF1B:C1740C	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	18877	.	C	T	22751	PASS	3109	0.292377	0	"2193,0,909,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	19370	.	T	C	693	PASS	3211	0.023669	0	"3130,0,76,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19106T>C	p.Phe6369Ser	19106/21291	19106/21291	6369/7096	6369	7096		",C"	F6369S	T19370C	F6369S	ORF1AB:F6369S	1968	ORF1b	F1968S	ORF1B:F1968S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	19577	.	A	T	3920	PASS	3131	0.084637	0	"2866,0,265,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19313A>T	p.Gln6438Leu	19313/21291	19313/21291	6438/7096	6438	7096		",T"	Q6438L	A19577T	Q6438L	ORF1AB:Q6438L	2037	ORF1b	Q2037L	ORF1B:Q2037L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	19637	.	C	CT	7237	PASS	2891	0.093393	0	"2620,0,270,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19377dupT	p.Asn6460fs	19378/21291	19378/21291	6460/7096	6460	7096		"INFO_REALIGN_3_PRIME,CT"	del6460	C19637CT	del6460	ORF1AB:DEL6460	2059	ORF1b	del2059	ORF1B:DEL2059	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	19711	.	G	GT	4077	PASS	2680	0.057836	0	"2525,0,155,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19450dupT	p.Tyr6484fs	19451/21291	19451/21291	6484/7096	6484	7096		"INFO_REALIGN_3_PRIME,GT"	del6484	G19711GT	del6484	ORF1AB:DEL6484	2083	ORF1b	del2083	ORF1B:DEL2083	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	19750	.	G	A	2770	PASS	2564	0.069813	0	"2379,0,179,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19486G>A	p.Glu6496Lys	19486/21291	19486/21291	6496/7096	6496	7096		",A"	E6496K	G19750A	E6496K	ORF1AB:E6496K	2095	ORF1b	E2095K	ORF1B:E2095K	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	21077	.	C	T	3001	PASS	1933	0.094671	0	"1746,0,183,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20813C>T	p.Thr6938Ile	20813/21291	20813/21291	6938/7096	6938	7096		",T"	T6938I	C21077T	T6938I	ORF1AB:T6938I	2537	ORF1b	T2537I	ORF1B:T2537I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	21101	.	G	GT	3103	PASS	1810	0.085083	0	"1660,0,154,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843dupT	p.Thr6949fs	20844/21291	20844/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,GT"	del6949	G21101GT	del6949	ORF1AB:DEL6949	2548	ORF1b	del2548	ORF1B:DEL2548	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	21222	.	A	T	5584	PASS	1834	0.154853	0	"1549,0,284,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	21255	.	G	C	17004	PASS	2167	0.313798	0	"1482,0,680,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	21682	.	CA	C	3632	PASS	933	0.13612	0	"807,0,127,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.123delA	p.Val42fs	123/3822	123/3822	41/1273	41	1273		"INFO_REALIGN_3_PRIME,C"	del42	CA21682C	del42	S:DEL42	42	S	del42	S:DEL42	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	21855	.	C	T	2139	PASS	617	0.165316	0	"512,0,102,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	22227	.	C	T	83	PASS	241	0.041494	0	"230,0,10,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	22992	.	G	A	1108	PASS	112	0.401786	0	"67,0,45,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	23236	.	G	T	568	PASS	340	0.105882	0	"304,0,36,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1674G>T	p.Lys558Asn	1674/3822	1674/3822	558/1273	558	1273		",T"	K558N	G23236T	K558N	S:K558N	558	S	K558N	S:K558N	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	23260	.	C	T	222	PASS	382	0.052356	0	"361,0,20,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1698C>T	p.Gly566Gly	1698/3822	1698/3822	566/1273	566	1273		",T"	G566G	C23260T	G566G	S:G566G	566	S	G566G	S:G566G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	23271	.	C	A	82	PASS	459	0.023965	0	"446,0,11,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>A	p.Ala570Asp	1709/3822	1709/3822	570/1273	570	1273		",A"	A570D	C23271A	A570D	S:A570D	570	S	A570D	S:A570D	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	23403	.	A	G	20939	PASS	630	0.987302	0	"2,0,622,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	23604	.	C	A	236	PASS	697	0.037303	0	"671,0,26,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	23709	.	C	T	469	PASS	729	0.050754	0	"691,0,37,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2147C>T	p.Thr716Ile	2147/3822	2147/3822	716/1273	716	1273		",T"	T716I	C23709T	T716I	S:T716I	716	S	T716I	S:T716I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	23835	.	G	GT	68	PASS	632	0.006329	0	"639,0,4,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2278dupT	p.Cys760fs	2279/3822	2279/3822	760/1273	760	1273		"INFO_REALIGN_3_PRIME,GT"	del760	G23835GT	del760	S:DEL760	760	S	del760	S:DEL760	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	23947	.	A	C	368	PASS	410	0.068293	0	"381,0,28,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2385A>C	p.Lys795Asn	2385/3822	2385/3822	795/1273	795	1273		",C"	K795N	A23947C	K795N	S:K795N	795	S	K795N	S:K795N	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	24193	.	GT	G	48	PASS	124	0.016129	0	"122,0,2,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2633delT	p.Leu878fs	2633/3822	2633/3822	878/1273	878	1273		"INFO_REALIGN_3_PRIME,G"	del878	GT24193G	del878	S:DEL878	878	S	del878	S:DEL878	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	24213	.	C	T	440	PASS	140	0.15	0	"119,0,21,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2651C>T	p.Ser884Phe	2651/3822	2651/3822	884/1273	884	1273		",T"	S884F	C24213T	S884F	S:S884F	884	S	S884F	S:S884F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	24422	.	C	A	680	PASS	882	0.058957	0	"830,0,52,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2860C>A	p.Gln954Lys	2860/3822	2860/3822	954/1273	954	1273		",A"	Q954K	C24422A	Q954K	S:Q954K	954	S	Q954K	S:Q954K	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25049	.	G	T	6455	PASS	2384	0.139681	0	"2050,0,333,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3487G>T	p.Asp1163Tyr	3487/3822	3487/3822	1163/1273	1163	1273		",T"	D1163Y	G25049T	D1163Y	S:D1163Y	1163	S	D1163Y	S:D1163Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25254	.	C	A	77	PASS	1638	0.019536	0	"1603,0,32,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25277	.	A	T	70	PASS	1581	0.022138	0	"1533,0,35,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25289	.	T	G	89	PASS	1599	0.025016	0	"1556,0,40,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25296	.	A	C	126	PASS	1616	0.032797	0	"1530,0,53,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25301	.	T	G	80	PASS	1604	0.024314	0	"1565,0,39,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25312	.	T	G	83	PASS	1637	0.023824	0	"1593,0,39,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25317	.	C	T	9246	PASS	1679	0.290649	0	"1177,0,488,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25324	.	C	A	871	PASS	1649	0.079442	0	"1518,0,131,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25327	.	A	T	130	PASS	1628	0.02887	0	"1580,0,47,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25331	.	G	T	78	PASS	1620	0.02963	0	"1557,0,48,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25336	.	A	C	291	PASS	1604	0.055486	0	"1492,0,89,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25505	.	A	G	24929	PASS	1362	0.618209	0	"518,0,842,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25563	.	G	T	13593	PASS	1299	0.39107	0	"790,0,508,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25710	.	C	T	10190	PASS	938	0.407249	0	"554,0,382,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25847	.	A	G	472	PASS	567	0.063492	0	"530,0,36,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.455A>G	p.Asn152Ser	455/828	455/828	152/275	152	275		",G"	N152S	A25847G	N152S	ORF3A:N152S	152	ORF3a	N152S	ORF3A:N152S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25886	.	C	T	922	PASS	617	0.094003	0	"559,0,58,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25906	.	G	C	778	PASS	648	0.083333	0	"591,0,54,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	25996	.	G	T	1120	PASS	690	0.095652	0	"624,0,66,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	26092	.	AAT	A	885	PASS	819	0.045177	0	"783,0,37,0"	TRUE	A	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.702_703delTA	p.Asn234fs	702/828	702/828	234/275	234	275		"INFO_REALIGN_3_PRIME,A"	del234	AAT26092A	del234	ORF3A:DEL234	234	ORF3a	del234	ORF3A:DEL234	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	26110	.	C	T	3228	PASS	1066	0.148218	0	"906,0,158,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.718C>T	p.Pro240Ser	718/828	718/828	240/275	240	275		",T"	P240S	C26110T	P240S	ORF3A:P240S	240	ORF3a	P240S	ORF3A:P240S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	26165	.	C	T	230	PASS	1474	0.02578	0	"1431,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.773C>T	p.Pro258Leu	773/828	773/828	258/275	258	275		",T"	P258L	C26165T	P258L	ORF3A:P258L	258	ORF3a	P258L	ORF3A:P258L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	26216	.	T	C	112	PASS	1808	0.012721	0	"1783,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.824T>C	p.Leu275Ser	824/828	824/828	275/275	275	275		",C"	L275S	T26216C	L275S	ORF3A:L275S	275	ORF3a	L275S	ORF3A:L275S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	26735	.	C	T	32289	PASS	2243	0.508694	0	"1099,0,1141,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	26801	.	C	G	8783	PASS	1845	0.209214	0	"1457,0,386,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	26876	.	T	C	12230	PASS	967	0.462254	0	"520,0,447,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	26894	.	C	T	857	PASS	699	0.078684	0	"643,0,55,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.372C>T	p.Leu124Leu	372/669	372/669	124/222	124	222		",T"	L124L	C26894T	L124L	M:L124L	124	M	L124L	M:L124L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	27212	.	TC	T	51	PASS	325	0.055385	0	"309,0,18,0"	TRUE	T	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.12delC	p.Val5fs	12/186	12/186	4/61	4	61		",T"	del5	TC27212T	del5	ORF6:DEL5	5	ORF6	del5	ORF6:DEL5	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	27297	.	C	T	108	PASS	1574	0.012706	0	"1546,0,20,0"	FALSE	T	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.96C>T	p.Ile32Ile	96/186	96/186	32/61	32	61		",T"	I32I	C27297T	I32I	ORF6:I32I	32	ORF6	I32I	ORF6:I32I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	27339	.	GA	G	683	PASS	2063	0.015511	0	"2034,0,32,0"	TRUE	G	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.140delA	p.Asn47fs	140/186	140/186	47/61	47	61		"INFO_REALIGN_3_PRIME,G"	del47	GA27339G	del47	ORF6:DEL47	47	ORF6	del47	ORF6:DEL47	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	27670	.	G	T	11083	PASS	3018	0.173956	0	"2493,0,525,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.277G>T	p.Val93Phe	277/366	277/366	93/121	93	121		",T"	V93F	G27670T	V93F	ORF7A:V93F	93	ORF7a	V93F	ORF7A:V93F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	27707	.	C	T	16398	PASS	3105	0.245733	0	"2333,0,763,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	27922	.	T	C	213	PASS	2962	0.012829	0	"2921,0,38,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	27944	.	C	T	19459	PASS	2600	0.303077	0	"1803,0,788,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	27972	.	C	T	3008	PASS	2207	0.08473	0	"2016,0,187,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28048	.	G	T	101	PASS	1232	0.013799	0	"1213,0,17,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28078	.	T	G	569	PASS	1090	0.056881	0	"1025,0,62,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.185T>G	p.Val62Gly	185/366	185/366	62/121	62	121		",G"	V62G	T28078G	V62G	ORF8:V62G	62	ORF8	V62G	ORF8:V62G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28133	.	A	T	2483	PASS	1304	0.109663	0	"1161,0,143,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28209	.	G	T	1614	PASS	1304	0.084356	0	"1193,0,110,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.316G>T	p.Glu106*	316/366	316/366	106/121	106	121		",T"	E106*	G28209T	E106*	ORF8:E106*	106	ORF8	E106*	ORF8:E106*	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28249	.	A	G	1144	PASS	1312	0.06936	0	"1219,0,91,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.356A>G	p.Asp119Gly	356/366	356/366	119/121	119	121		",G"	D119G	A28249G	D119G	ORF8:D119G	119	ORF8	D119G	ORF8:D119G	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28273	.	A	T	5302	PASS	1685	0.164392	0	"1405,0,277,0"	FALSE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-1A>T						NA	1	",T"		A28273T		NA	NA	N		NA	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28343	.	A	T	169	PASS	1828	0.019694	0	"1791,0,36,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.70A>T	p.Thr24Ser	70/1260	70/1260	24/419	24	419		",T"	T24S	A28343T	T24S	N:T24S	24	N	T24S	N:T24S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28502	.	A	T	1548	PASS	3484	0.041332	0	"3337,0,144,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.229A>T	p.Asn77Tyr	229/1260	229/1260	77/419	77	419		",T"	N77Y	A28502T	N77Y	N:N77Y	77	N	N77Y	N:N77Y	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28541	.	G	T	206	PASS	3659	0.013118	0	"3606,0,48,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.268G>T	p.Ala90Ser	268/1260	268/1260	90/419	90	419		",T"	A90S	G28541T	A90S	N:A90S	90	N	A90S	N:A90S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28548	.	G	T	3065	PASS	3589	0.067986	0	"3340,0,244,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.275G>T	p.Arg92Ile	275/1260	275/1260	92/419	92	419		",T"	R92I	G28548T	R92I	N:R92I	92	N	R92I	N:R92I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28556	.	CG	C	5644	PASS	3503	0.068513	0	"3264,0,240,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.284delG	p.Arg95fs	284/1260	284/1260	95/419	95	419		",C"	del95	CG28556C	del95	N:DEL95	95	N	del95	N:DEL95	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28631	.	G	A	150	PASS	3276	0.013736	0	"3220,0,45,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.358G>A	p.Gly120Arg	358/1260	358/1260	120/419	120	419		",A"	G120R	G28631A	G120R	N:G120R	120	N	G120R	N:G120R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28651	.	C	T	26931	PASS	3352	0.322494	0	"2257,0,1081,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28855	.	A	C	23337	PASS	4640	0.226724	0	"3581,0,1052,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28869	.	C	T	31935	PASS	4555	0.292645	0	"3213,0,1333,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28881	.	G	A	8456	PASS	4350	0.117011	0	"3828,0,509,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28882	.	G	A	7729	PASS	4369	0.116732	0	"3844,0,510,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28883	.	G	C	8164	PASS	4359	0.117917	0	"3835,0,514,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28932	.	C	T	23840	PASS	4362	0.248281	0	"3271,0,1083,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28957	.	C	T	4816	PASS	4187	0.080965	0	"3841,0,339,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28975	.	G	C	29676	PASS	4145	0.304704	0	"2871,0,1263,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28977	.	C	T	11141	PASS	3958	0.143002	0	"3382,0,566,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28978	.	T	A	11225	PASS	3969	0.144369	0	"3391,0,573,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG36-1	NC_045512.2	28987	.	CCAA	C	128	PASS	3744	0.002404	0	"3755,0,9,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG36-1	BEGGEN	2020-11-30T00:00:00Z	30.81675	34.41666667	x	1022021	2020-11-30
BEG37-1	NC_045512.2	204	.	G	T	4909	PASS	1221	0.185913	0	"994,0,227,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	241	.	C	T	49314	PASS	1464	0.996585	0	"1,0,1459,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	257	.	A	G	4617	PASS	1489	0.153794	0	"1258,0,229,0"	FALSE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-9A>G						NA	9	",G"		A257G		NA	NA	NA		NA	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	422	.	T	C	5317	PASS	1429	0.193142	0	"1144,0,276,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.157T>C	p.Leu53Leu	157/21291	157/21291	53/7096	53	7096		",C"	L53L	T422C	L53L	ORF1AB:L53L	53	ORF1a	L53L	ORF1A:L53L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	445	.	T	C	23127	PASS	1458	0.563786	0	"630,0,822,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	565	.	T	C	753	PASS	1395	0.060932	0	"1303,0,85,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.300T>C	p.Ser100Ser	300/21291	300/21291	100/7096	100	7096		",C"	S100S	T565C	S100S	ORF1AB:S100S	100	ORF1a	S100S	ORF1A:S100S	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	593	.	C	T	12945	PASS	1247	0.393745	0	"753,0,491,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	619	.	C	T	537	PASS	1482	0.036437	0	"1425,0,54,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.354C>T	p.Tyr118Tyr	354/21291	354/21291	118/7096	118	7096		",T"	Y118Y	C619T	Y118Y	ORF1AB:Y118Y	118	ORF1a	Y118Y	ORF1A:Y118Y	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	802	.	A	C	81	PASS	2009	0.009955	0	"1972,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	837	.	G	T	10914	PASS	2102	0.230733	0	"1612,0,485,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.572G>T	p.Cys191Phe	572/21291	572/21291	191/7096	191	7096		",T"	C191F	G837T	C191F	ORF1AB:C191F	191	ORF1a	C191F	ORF1A:C191F	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	963	.	A	G	3080	PASS	2568	0.088785	0	"2331,0,228,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.698A>G	p.Glu233Gly	698/21291	698/21291	233/7096	233	7096		",G"	E233G	A963G	E233G	ORF1AB:E233G	233	ORF1a	E233G	ORF1A:E233G	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	1135	.	G	GA	19361	PASS	2693	0.238396	0	"2101,0,642,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.875dupA	p.Leu293fs	876/21291	876/21291	292/7096	292	7096		"INFO_REALIGN_3_PRIME,GA"	del293	G1135GA	del293	ORF1AB:DEL293	293	ORF1a	del293	ORF1A:DEL293	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	1384	.	T	C	6149	PASS	1345	0.213383	0	"1056,0,287,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1119T>C	p.Cys373Cys	1119/21291	1119/21291	373/7096	373	7096		",C"	C373C	T1384C	C373C	ORF1AB:C373C	373	ORF1a	C373C	ORF1A:C373C	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	1722	.	CT	C	5218	PASS	401	0.401496	0	"240,0,161,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1461delT	p.Phe487fs	1461/21291	1461/21291	487/7096	487	7096		"INFO_REALIGN_3_PRIME,C"	del487	CT1722C	del487	ORF1AB:DEL487	487	ORF1a	del487	ORF1A:DEL487	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	2388	.	C	T	379	PASS	83	0.192771	0	"67,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2123C>T	p.Thr708Ile	2123/21291	2123/21291	708/7096	708	7096		",T"	T708I	C2388T	T708I	ORF1AB:T708I	708	ORF1a	T708I	ORF1A:T708I	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	2907	.	A	G	67	PASS	792	0.018939	0	"775,0,15,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2642A>G	p.Lys881Arg	2642/21291	2642/21291	881/7096	881	7096		",G"	K881R	A2907G	K881R	ORF1AB:K881R	881	ORF1a	K881R	ORF1A:K881R	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	3037	.	C	T	24028	PASS	696	1	2147483647	"0,0,696,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	3592	.	T	C	1160	PASS	68	0.588235	0	"28,0,40,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	4436	.	G	A	89	PASS	394	0.027919	0	"381,0,11,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4171G>A	p.Val1391Ile	4171/21291	4171/21291	1391/7096	1391	7096		",A"	V1391I	G4436A	V1391I	ORF1AB:V1391I	1391	ORF1a	V1391I	ORF1A:V1391I	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	4543	.	C	T	4820	PASS	420	0.435714	0	"236,0,183,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	5512	.	C	T	1765	PASS	242	0.305785	0	"168,0,74,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5247C>T	p.Asn1749Asn	5247/21291	5247/21291	1749/7096	1749	7096		",T"	N1749N	C5512T	N1749N	ORF1AB:N1749N	1749	ORF1a	N1749N	ORF1A:N1749N	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	5629	.	G	T	8612	PASS	308	0.850649	0	"46,0,262,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	6026	.	C	T	81	PASS	257	0.035019	0	"248,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5761C>T	p.Pro1921Ser	5761/21291	5761/21291	1921/7096	1921	7096		",T"	P1921S	C6026T	P1921S	ORF1AB:P1921S	1921	ORF1a	P1921S	ORF1A:P1921S	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	6286	.	C	T	1084	PASS	84	0.488095	0	"43,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	6941	.	C	T	6248	PASS	780	0.332051	0	"519,0,259,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	8913	.	A	T	3369	PASS	1047	0.161414	0	"877,0,169,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8648A>T	p.His2883Leu	8648/21291	8648/21291	2883/7096	2883	7096		",T"	H2883L	A8913T	H2883L	ORF1AB:H2883L	2883	ORF1a	H2883L	ORF1A:H2883L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	9025	.	A	G	3688	PASS	1178	0.157046	0	"989,0,185,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8760A>G	p.Thr2920Thr	8760/21291	8760/21291	2920/7096	2920	7096		",G"	T2920T	A9025G	T2920T	ORF1AB:T2920T	2920	ORF1a	T2920T	ORF1A:T2920T	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	9120	.	C	T	4167	PASS	1285	0.170428	0	"1064,0,219,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8855C>T	p.Thr2952Ile	8855/21291	8855/21291	2952/7096	2952	7096		",T"	T2952I	C9120T	T2952I	ORF1AB:T2952I	2952	ORF1a	T2952I	ORF1A:T2952I	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	9204	.	A	C	4325	PASS	1277	0.170713	0	"1056,0,218,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8939A>C	p.Asp2980Ala	8939/21291	8939/21291	2980/7096	2980	7096		",C"	D2980A	A9204C	D2980A	ORF1AB:D2980A	2980	ORF1a	D2980A	ORF1A:D2980A	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	9526	.	G	T	14516	PASS	1123	0.482636	0	"578,0,542,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	10433	.	C	T	1482	PASS	2978	0.050034	0	"2818,0,149,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10168C>T	p.Gln3390*	10168/21291	10168/21291	3390/7096	3390	7096		",T"	Q3390*	C10433T	Q3390*	ORF1AB:Q3390*	3390	ORF1a	Q3390*	ORF1A:Q3390*	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	10456	.	C	T	6512	PASS	2827	0.126636	0	"2462,0,358,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10191C>T	p.Phe3397Phe	10191/21291	10191/21291	3397/7096	3397	7096		",T"	F3397F	C10456T	F3397F	ORF1AB:F3397F	3397	ORF1a	F3397F	ORF1A:F3397F	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	10605	.	CT	C	55	PASS	1611	0.002483	0	"1607,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10344delT	p.Phe3448fs	10344/21291	10344/21291	3448/7096	3448	7096		"INFO_REALIGN_3_PRIME,C"	del3448	CT10605C	del3448	ORF1AB:DEL3448	3448	ORF1a	del3448	ORF1A:DEL3448	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	11193	.	C	T	106	PASS	1207	0.01657	0	"1184,0,20,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10928C>T	p.Ser3643Phe	10928/21291	10928/21291	3643/7096	3643	7096		",T"	S3643F	C11193T	S3643F	ORF1AB:S3643F	3643	ORF1a	S3643F	ORF1A:S3643F	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	11476	.	A	G	12316	PASS	1595	0.317868	0	"1083,0,507,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11211A>G	p.Ile3737Met	11211/21291	11211/21291	3737/7096	3737	7096		",G"	I3737M	A11476G	I3737M	ORF1AB:I3737M	3737	ORF1a	I3737M	ORF1A:I3737M	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	11497	.	C	T	4201	PASS	1436	0.150418	0	"1219,0,216,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	12779	.	TACA	T	1126	PASS	2310	0.021645	0	"2260,0,50,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12518_12520delACA	p.Asn4173del	12518/21291	12518/21291	4173/7096	4173	7096		"INFO_REALIGN_3_PRIME,T"	del4173	TACA12779T	del4173	ORF1AB:DEL4173	4173	ORF1a	del4173	ORF1A:DEL4173	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	12782	.	A	T	82	PASS	2357	0.012728	0	"2273,0,30,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12517A>T	p.Asn4173Tyr	12517/21291	12517/21291	4173/7096	4173	7096		",T"	N4173Y	A12782T	N4173Y	ORF1AB:N4173Y	4173	ORF1a	N4173Y	ORF1A:N4173Y	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	12856	.	TA	T	53	PASS	2418	0.001654	0	"2415,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12593delA	p.Lys4198fs	12593/21291	12593/21291	4198/7096	4198	7096		"INFO_REALIGN_3_PRIME,T"	del4198	TA12856T	del4198	ORF1AB:DEL4198	4198	ORF1a	del4198	ORF1A:DEL4198	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	12969	.	A	G	2729	PASS	1625	0.116923	0	"1429,0,190,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12704A>G	p.Asn4235Ser	12704/21291	12704/21291	4235/7096	4235	7096		",G"	N4235S	A12969G	N4235S	ORF1AB:N4235S	4235	ORF1a	N4235S	ORF1A:N4235S	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	13987	.	C	T	273	PASS	1242	0.028986	0	"1201,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13723C>T	p.Arg4575Cys	13723/21291	13723/21291	4575/7096	4575	7096		",T"	R4575C	C13987T	R4575C	ORF1AB:R4575C	174	ORF1b	R174C	ORF1B:R174C	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	13993	.	G	T	20418	PASS	1183	0.596788	0	"476,0,706,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	15157	.	CA	C	220	PASS	1515	0.008581	0	"1502,0,13,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14898delA	p.Lys4966fs	14898/21291	14898/21291	4966/7096	4966	7096		"INFO_REALIGN_3_PRIME,C"	del4966	CA15157C	del4966	ORF1AB:DEL4966	565	ORF1b	del565	ORF1B:DEL565	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	15237	.	C	T	9967	PASS	1336	0.303892	0	"924,0,406,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14973C>T	p.His4991His	14973/21291	14973/21291	4991/7096	4991	7096		",T"	H4991H	C15237T	H4991H	ORF1AB:H4991H	590	ORF1b	H590H	ORF1B:H590H	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	15324	.	C	T	262	PASS	419	0.057279	0	"395,0,24,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	15501	.	T	C	400	PASS	137	0.145985	0	"116,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15237T>C	p.Thr5079Thr	15237/21291	15237/21291	5079/7096	5079	7096		",C"	T5079T	T15501C	T5079T	ORF1AB:T5079T	678	ORF1b	T678T	ORF1B:T678T	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	15766	.	G	T	9197	PASS	383	0.770235	0	"86,0,295,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	15906	.	G	T	927	PASS	287	0.160279	0	"241,0,46,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15642G>T	p.Gln5214His	15642/21291	15642/21291	5214/7096	5214	7096		",T"	Q5214H	G15906T	Q5214H	ORF1AB:Q5214H	813	ORF1b	Q813H	ORF1B:Q813H	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	16800	.	TA	T	56	PASS	1386	0.002886	0	"1382,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16541delA	p.Asn5514fs	16541/21291	16541/21291	5514/7096	5514	7096		"INFO_REALIGN_3_PRIME,T"	del5514	TA16800T	del5514	ORF1AB:DEL5514	1113	ORF1b	del1113	ORF1B:DEL1113	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	16889	.	A	G	20539	PASS	1177	0.585387	0	"485,0,689,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	17019	.	G	T	8290	PASS	547	0.539305	0	"251,0,295,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	17924	.	T	C	160	PASS	283	0.056537	0	"267,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17660T>C	p.Val5887Ala	17660/21291	17660/21291	5887/7096	5887	7096		",C"	V5887A	T17924C	V5887A	ORF1AB:V5887A	1486	ORF1b	V1486A	ORF1B:V1486A	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	17955	.	T	C	2770	PASS	322	0.354037	0	"206,0,114,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17691T>C	p.Leu5897Leu	17691/21291	17691/21291	5897/7096	5897	7096		",C"	L5897L	T17955C	L5897L	ORF1AB:L5897L	1496	ORF1b	L1496L	ORF1B:L1496L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	18518	.	A	G	625	PASS	52	0.461538	0	"28,0,24,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18254A>G	p.Asn6085Ser	18254/21291	18254/21291	6085/7096	6085	7096		",G"	N6085S	A18518G	N6085S	ORF1AB:N6085S	1684	ORF1b	N1684S	ORF1B:N1684S	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	18877	.	C	T	14170	PASS	450	0.957778	0	"18,0,431,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	19035	.	T	C	97	PASS	563	0.021314	0	"551,0,12,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18771T>C	p.Ile6257Ile	18771/21291	18771/21291	6257/7096	6257	7096		",C"	I6257I	T19035C	I6257I	ORF1AB:I6257I	1856	ORF1b	I1856I	ORF1B:I1856I	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	20486	.	AGT	A	84	PASS	1293	0.003867	0	"1300,0,5,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20231_20232delGT	p.Cys6744fs	20231/21291	20231/21291	6744/7096	6744	7096		"INFO_REALIGN_3_PRIME,A"	del6744	AGT20486A	del6744	ORF1AB:DEL6744	2343	ORF1b	del2343	ORF1B:DEL2343	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	21066	.	TA	T	55	PASS	1408	0.002841	0	"1404,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20807delA	p.Asn6936fs	20807/21291	20807/21291	6936/7096	6936	7096		"INFO_REALIGN_3_PRIME,T"	del6936	TA21066T	del6936	ORF1AB:DEL6936	2535	ORF1b	del2535	ORF1B:DEL2535	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	21120	.	T	C	376	PASS	994	0.042254	0	"950,0,42,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20856T>C	p.Cys6952Cys	20856/21291	20856/21291	6952/7096	6952	7096		",C"	C6952C	T21120C	C6952C	ORF1AB:C6952C	2551	ORF1b	C2551C	ORF1B:C2551C	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	21255	.	G	C	3951	PASS	447	0.353468	0	"288,0,158,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	21711	.	C	T	2430	PASS	903	0.146179	0	"768,0,132,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.149C>T	p.Ser50Leu	149/3822	149/3822	50/1273	50	1273		",T"	S50L	C21711T	S50L	S:S50L	50	S	S50L	S:S50L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	21717	.	AG	A	4311	PASS	905	0.162431	0	"759,0,147,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.157delG	p.Asp53fs	157/3822	157/3822	53/1273	53	1273		"INFO_REALIGN_3_PRIME,A"	del53	AG21717A	del53	S:DEL53	53	S	del53	S:DEL53	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	21828	.	G	T	3615	PASS	1129	0.170062	0	"936,0,192,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.266G>T	p.Gly89Val	266/3822	266/3822	89/1273	89	1273		",T"	G89V	G21828T	G89V	S:G89V	89	S	G89V	S:G89V	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	21855	.	C	T	19334	PASS	1271	0.535799	0	"584,0,681,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	22005	.	A	G	3866	PASS	1164	0.166667	0	"968,0,194,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.443A>G	p.Asn148Ser	443/3822	443/3822	148/1273	148	1273		",G"	N148S	A22005G	N148S	S:N148S	148	S	N148S	S:N148S	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	22009	.	CA	C	4986	PASS	1156	0.150519	0	"982,0,174,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.451delA	p.Ser151fs	451/3822	451/3822	151/1273	151	1273		"INFO_REALIGN_3_PRIME,C"	del151	CA22009C	del151	S:DEL151	151	S	del151	S:DEL151	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	22083	.	CT	C	4274	PASS	979	0.159346	0	"823,0,156,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.525delT	p.Met177fs	525/3822	525/3822	175/1273	175	1273		"INFO_REALIGN_3_PRIME,C"	del177	CT22083C	del177	S:DEL177	177	S	del177	S:DEL177	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	22826	.	A	G	1298	PASS	367	0.166213	0	"305,0,61,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1264A>G	p.Asn422Asp	1264/3822	1264/3822	422/1273	422	1273		",G"	N422D	A22826G	N422D	S:N422D	422	S	N422D	S:N422D	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	22992	.	G	A	8313	PASS	527	0.563567	0	"229,0,297,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	23336	.	T	G	752	PASS	399	0.107769	0	"354,0,43,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1774T>G	p.Phe592Val	1774/3822	1774/3822	592/1273	592	1273		",G"	F592V	T23336G	F592V	S:F592V	592	S	F592V	S:F592V	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	23403	.	A	G	8122	PASS	240	0.995833	2147483647	"0,0,239,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	23427	.	T	C	189	PASS	169	0.08284	0	"155,0,14,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1865T>C	p.Val622Ala	1865/3822	1865/3822	622/1273	622	1273		",C"	V622A	T23427C	V622A	S:V622A	622	S	V622A	S:V622A	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	24399	.	G	A	517	PASS	138	0.166667	0	"115,0,23,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2837G>A	p.Gly946Glu	2837/3822	2837/3822	946/1273	946	1273		",A"	G946E	G24399A	G946E	S:G946E	946	S	G946E	S:G946E	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25156	.	C	A	6955	PASS	860	0.319767	0	"585,0,275,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3594C>A	p.Ile1198Ile	3594/3822	3594/3822	1198/1273	1198	1273		",A"	I1198I	C25156A	I1198I	S:I1198I	1198	S	I1198I	S:I1198I	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25204	.	G	C	11661	PASS	899	0.474972	0	"470,0,427,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3642G>C	p.Trp1214Cys	3642/3822	3642/3822	1214/1273	1214	1273		",C"	W1214C	G25204C	W1214C	S:W1214C	1214	S	W1214C	S:W1214C	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25218	.	G	GT	12488	PASS	1042	0.388676	0	"644,0,405,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3660dupT	p.Ile1221fs	3661/3822	3661/3822	1221/1273	1221	1273		"INFO_REALIGN_3_PRIME,GT"	del1221	G25218GT	del1221	S:DEL1221	1221	S	del1221	S:DEL1221	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25254	.	C	A	83	PASS	1223	0.021259	0	"1193,0,26,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25277	.	A	T	84	PASS	1204	0.027409	0	"1162,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25296	.	A	C	99	PASS	1236	0.033981	0	"1167,0,42,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25301	.	T	G	89	PASS	1197	0.032581	0	"1154,0,39,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25312	.	T	G	204	PASS	1216	0.04523	0	"1158,0,55,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25324	.	C	A	455	PASS	1230	0.066667	0	"1148,0,82,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25336	.	A	C	231	PASS	1210	0.057851	0	"1124,0,70,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25337	.	G	C	75	PASS	1179	0.030534	0	"1141,0,36,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25563	.	G	T	10112	PASS	944	0.397246	0	"568,0,375,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25674	.	T	C	1143	PASS	805	0.086957	0	"734,0,70,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.282T>C	p.Leu94Leu	282/828	282/828	94/275	94	275		",C"	L94L	T25674C	L94L	ORF3A:L94L	94	ORF3a	L94L	ORF3A:L94L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25710	.	C	T	6639	PASS	624	0.402244	0	"372,0,251,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	25886	.	C	T	2722	PASS	338	0.316568	0	"230,0,107,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	26621	.	T	C	18446	PASS	1796	0.398107	0	"1077,0,715,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.99T>C	p.Cys33Cys	99/669	99/669	33/222	33	222		",C"	C33C	T26621C	C33C	M:C33C	33	M	C33C	M:C33C	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	26735	.	C	T	18536	PASS	1595	0.427586	0	"910,0,682,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	26780	.	T	C	107	PASS	1548	0.01938	0	"1511,0,30,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.258T>C	p.Cys86Cys	258/669	258/669	86/222	86	222		",C"	C86C	T26780C	C86C	M:C86C	86	M	C86C	M:C86C	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	26833	.	CG	C	5552	PASS	948	0.198312	0	"771,0,188,0"	TRUE	C	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.312delG	p.Arg105fs	312/669	312/669	104/222	104	222		",C"	del105	CG26833C	del105	M:DEL105	105	M	del105	M:DEL105	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	26876	.	T	C	5959	PASS	615	0.369106	0	"388,0,227,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	27534	.	T	C	27096	PASS	1516	0.609499	0	"587,0,924,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.141T>C	p.His47His	141/366	141/366	47/121	47	121		",C"	H47H	T27534C	H47H	ORF7A:H47H	47	ORF7a	H47H	ORF7A:H47H	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	27741	.	CA	C	19058	PASS	1779	0.345138	0	"1165,0,614,0"	TRUE	C	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.352delA	p.Arg118fs	352/366	352/366	118/121	118	121		"INFO_REALIGN_3_PRIME,C"	del118	CA27741C	del118	ORF7A:DEL118	118	ORF7a	del118	ORF7A:DEL118	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	27944	.	C	T	78	PASS	1117	0.014324	0	"1095,0,16,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28270	.	TA	T	1485	PASS	207	0.289855	0	"147,0,60,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28280	.	G	C	1353	PASS	211	0.2891	0	"149,0,61,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28281	.	A	T	1267	PASS	213	0.286385	0	"152,0,61,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28282	.	T	A	1191	PASS	217	0.299539	0	"152,0,65,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28290	.	C	T	1408	PASS	291	0.223368	0	"224,0,65,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.17C>T	p.Pro6Leu	17/1260	17/1260	6/419	6	419		",T"	P6L	C28290T	P6L	N:P6L	6	N	P6L	N:P6L	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28846	.	C	T	18366	PASS	2970	0.26734	0	"2173,0,794,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.573C>T	p.Arg191Arg	573/1260	573/1260	191/419	191	419		",T"	R191R	C28846T	R191R	N:R191R	191	N	R191R	N:R191R	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28881	.	G	A	11760	PASS	2750	0.207636	0	"2167,0,571,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28882	.	G	A	11222	PASS	2784	0.204741	0	"2208,0,570,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28883	.	G	C	11831	PASS	2781	0.205681	0	"2199,0,572,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28908	.	G	T	16011	PASS	2828	0.255304	0	"2102,0,722,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.635G>T	p.Gly212Val	635/1260	635/1260	212/419	212	419		",T"	G212V	G28908T	G212V	N:G212V	212	N	G212V	N:G212V	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28975	.	G	C	49314	PASS	2707	0.728851	0	"728,0,1973,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	28987	.	CCAA	C	162	PASS	2607	0.003836	0	"2610,0,10,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG37-1	NC_045512.2	29001	.	G	T	22356	PASS	2585	0.373694	0	"1615,0,966,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.728G>T	p.Gly243Val	728/1260	728/1260	243/419	243	419		",T"	G243V	G29001T	G243V	N:G243V	243	N	G243V	N:G243V	BEG37-1	BEGGEN	2020-12-06T00:00:00Z	31.70075	32.71	x	1022021	2020-12-06
BEG38-1	NC_045512.2	241	.	C	T	49314	PASS	3399	0.990585	0	"11,0,3367,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	313	.	C	T	22536	PASS	3392	0.277123	0	"2442,0,940,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.48C>T	p.Leu16Leu	48/21291	48/21291	16/7096	16	7096		",T"	L16L	C313T	L16L	ORF1AB:L16L	16	ORF1a	L16L	ORF1A:L16L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	445	.	T	C	47123	PASS	3935	0.469377	0	"2074,0,1847,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	947	.	GT	G	15566	PASS	1746	0.329897	0	"1177,0,576,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.683delT	p.Val228fs	683/21291	683/21291	228/7096	228	7096		",G"	del228	GT947G	del228	ORF1AB:DEL228	228	ORF1a	del228	ORF1A:DEL228	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	1346	.	C	A	11568	PASS	2610	0.218774	0	"2039,0,571,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1081C>A	p.Pro361Thr	1081/21291	1081/21291	361/7096	361	7096		",A"	P361T	C1346A	P361T	ORF1AB:P361T	361	ORF1a	P361T	ORF1A:P361T	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	3036	.	TC	T	47	PASS	1411	0.002835	0	"1408,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	3037	.	C	T	48959	PASS	1441	0.99653	2147483647	"0,0,1436,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	3340	.	G	T	1714	PASS	248	0.318548	0	"169,0,79,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3075G>T	p.Val1025Val	3075/21291	3075/21291	1025/7096	1025	7096		",T"	V1025V	G3340T	V1025V	ORF1AB:V1025V	1025	ORF1a	V1025V	ORF1A:V1025V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	4148	.	G	GT	238	PASS	145	0.062069	0	"137,0,9,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3887dupT	p.Leu1296fs	3888/21291	3888/21291	1296/7096	1296	7096		"INFO_REALIGN_3_PRIME,GT"	del1296	G4148GT	del1296	ORF1AB:DEL1296	1296	ORF1a	del1296	ORF1A:DEL1296	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	4543	.	C	T	537	PASS	471	0.087049	0	"426,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	5178	.	C	T	20659	PASS	1216	0.592928	0	"494,0,721,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4913C>T	p.Thr1638Ile	4913/21291	4913/21291	1638/7096	1638	7096		",T"	T1638I	C5178T	T1638I	ORF1AB:T1638I	1638	ORF1a	T1638I	ORF1A:T1638I	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	5353	.	A	G	15342	PASS	1136	0.502641	0	"561,0,571,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5088A>G	p.Gln1696Gln	5088/21291	5088/21291	1696/7096	1696	7096		",G"	Q1696Q	A5353G	Q1696Q	ORF1AB:Q1696Q	1696	ORF1a	Q1696Q	ORF1A:Q1696Q	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	5548	.	C	T	794	PASS	679	0.089838	0	"615,0,61,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5283C>T	p.Thr1761Thr	5283/21291	5283/21291	1761/7096	1761	7096		",T"	T1761T	C5548T	T1761T	ORF1AB:T1761T	1761	ORF1a	T1761T	ORF1A:T1761T	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	5629	.	G	T	5981	PASS	670	0.356716	0	"431,0,239,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	5814	.	G	T	4463	PASS	511	0.369863	0	"322,0,189,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5549G>T	p.Gly1850Val	5549/21291	5549/21291	1850/7096	1850	7096		",T"	G1850V	G5814T	G1850V	ORF1AB:G1850V	1850	ORF1a	G1850V	ORF1A:G1850V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	6286	.	C	T	9906	PASS	485	0.672165	0	"157,0,326,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	6555	.	C	T	1336	PASS	1002	0.095808	0	"901,0,96,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	6706	.	CA	C	450	PASS	905	0.022099	0	"886,0,20,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6444delA	p.Val2149fs	6444/21291	6444/21291	2148/7096	2148	7096		"INFO_REALIGN_3_PRIME,C"	del2149	CA6706C	del2149	ORF1AB:DEL2149	2149	ORF1a	del2149	ORF1A:DEL2149	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	6941	.	C	T	6995	PASS	1388	0.230548	0	"1066,0,320,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	7262	.	C	T	695	PASS	144	0.215278	0	"113,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6997C>T	p.Leu2333Phe	6997/21291	6997/21291	2333/7096	2333	7096		",T"	L2333F	C7262T	L2333F	ORF1AB:L2333F	2333	ORF1a	L2333F	ORF1A:L2333F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	7765	.	C	T	233	PASS	1126	0.024867	0	"1095,0,28,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7500C>T	p.Ser2500Ser	7500/21291	7500/21291	2500/7096	2500	7096		",T"	S2500S	C7765T	S2500S	ORF1AB:S2500S	2500	ORF1a	S2500S	ORF1A:S2500S	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	8303	.	G	A	4166	PASS	955	0.206283	0	"757,0,197,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8038G>A	p.Val2680Ile	8038/21291	8038/21291	2680/7096	2680	7096		",A"	V2680I	G8303A	V2680I	ORF1AB:V2680I	2680	ORF1a	V2680I	ORF1A:V2680I	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	10087	.	TA	T	20623	PASS	2635	0.255028	0	"1994,0,672,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9825delA	p.Val3276fs	9825/21291	9825/21291	3275/7096	3275	7096		"INFO_REALIGN_3_PRIME,T"	del3276	TA10087T	del3276	ORF1AB:DEL3276	3276	ORF1a	del3276	ORF1A:DEL3276	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	10097	.	G	A	16681	PASS	2671	0.275178	0	"1926,0,735,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9832G>A	p.Gly3278Ser	9832/21291	9832/21291	3278/7096	3278	7096		",A"	G3278S	G10097A	G3278S	ORF1AB:G3278S	3278	ORF1a	G3278S	ORF1A:G3278S	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	10600	.	T	C	3102	PASS	1890	0.090476	0	"1714,0,171,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10335T>C	p.Tyr3445Tyr	10335/21291	10335/21291	3445/7096	3445	7096		",C"	Y3445Y	T10600C	Y3445Y	ORF1AB:Y3445Y	3445	ORF1a	Y3445Y	ORF1A:Y3445Y	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	10626	.	C	T	7088	PASS	1470	0.218367	0	"1144,0,321,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10361C>T	p.Ala3454Val	10361/21291	10361/21291	3454/7096	3454	7096		",T"	A3454V	C10626T	A3454V	ORF1AB:A3454V	3454	ORF1a	A3454V	ORF1A:A3454V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	10912	.	A	G	11205	PASS	331	0.996979	2147483647	"0,0,330,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10647A>G	p.Leu3549Leu	10647/21291	10647/21291	3549/7096	3549	7096		",G"	L3549L	A10912G	L3549L	ORF1AB:L3549L	3549	ORF1a	L3549L	ORF1A:L3549L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	12303	.	AT	A	13437	PASS	1257	0.370724	0	"818,0,466,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12039delT	p.Tyr4013fs	12039/21291	12039/21291	4013/7096	4013	7096		",A"	del4013	AT12303A	del4013	ORF1AB:DEL4013	4013	ORF1a	del4013	ORF1A:DEL4013	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	12304	.	T	A	113	PASS	1257	0.015911	0	"768,0,20,0"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12039T>A	p.Tyr4013*	12039/21291	12039/21291	4013/7096	4013	7096		",A"	Y4013*	T12304A	Y4013*	ORF1AB:Y4013*	4013	ORF1a	Y4013*	ORF1A:Y4013*	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	12534	.	C	T	19910	PASS	2208	0.36096	0	"1403,0,797,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12269C>T	p.Thr4090Ile	12269/21291	12269/21291	4090/7096	4090	7096		",T"	T4090I	C12534T	T4090I	ORF1AB:T4090I	4090	ORF1a	T4090I	ORF1A:T4090I	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	12676	.	CA	C	22772	PASS	2195	0.332118	0	"1466,0,729,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12414delA	p.Lys4138fs	12414/21291	12414/21291	4138/7096	4138	7096		"INFO_REALIGN_3_PRIME,C"	del4138	CA12676C	del4138	ORF1AB:DEL4138	4138	ORF1a	del4138	ORF1A:DEL4138	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	12797	.	G	C	9263	PASS	2069	0.21073	0	"1625,0,436,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12532G>C	p.Gly4178Arg	12532/21291	12532/21291	4178/7096	4178	7096		",C"	G4178R	G12797C	G4178R	ORF1AB:G4178R	4178	ORF1a	G4178R	ORF1A:G4178R	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	13123	.	TG	T	47	PASS	2164	0.001848	0	"2186,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	13517	.	C	T	3419	PASS	2469	0.08951	0	"2239,0,221,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	13865	.	TA	T	59	PASS	3352	0.001492	0	"3355,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13605delA	p.Glu4536fs	13605/21291	13605/21291	4535/7096	4535	7096		"INFO_REALIGN_3_PRIME,T"	del4536	TA13865T	del4536	ORF1AB:DEL4536	135	ORF1b	del135	ORF1B:DEL135	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	14586	.	T	C	8695	PASS	1400	0.272143	0	"1017,0,381,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14322T>C	p.Ala4774Ala	14322/21291	14322/21291	4774/7096	4774	7096		",C"	A4774A	T14586C	A4774A	ORF1AB:A4774A	373	ORF1b	A373A	ORF1B:A373A	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	14723	.	TC	T	174	PASS	2506	0.004789	0	"2567,0,12,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14460delC	p.Phe4821fs	14460/21291	14460/21291	4820/7096	4820	7096		",T"	del4821	TC14723T	del4821	ORF1AB:DEL4821	420	ORF1b	del420	ORF1B:DEL420	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	14724	.	C	T	33905	PASS	2564	0.49493	0	"1276,0,1269,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14460C>T	p.Phe4820Phe	14460/21291	14460/21291	4820/7096	4820	7096		",T"	F4820F	C14724T	F4820F	ORF1AB:F4820F	419	ORF1b	F419F	ORF1B:F419F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	15733	.	T	C	3848	PASS	283	0.501767	0	"140,0,142,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15469T>C	p.Cys5157Arg	15469/21291	15469/21291	5157/7096	5157	7096		",C"	C5157R	T15733C	C5157R	ORF1AB:C5157R	756	ORF1b	C756R	ORF1B:C756R	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	15766	.	G	T	8057	PASS	296	0.861486	0	"41,0,255,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	16044	.	A	T	354	PASS	66	0.257576	0	"48,0,17,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15780A>T	p.Pro5260Pro	15780/21291	15780/21291	5260/7096	5260	7096		",T"	P5260P	A16044T	P5260P	ORF1AB:P5260P	859	ORF1b	P859P	ORF1B:P859P	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	16889	.	A	G	49314	PASS	3683	0.773283	0	"829,0,2848,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	17019	.	G	T	42479	PASS	1896	0.725738	0	"516,0,1376,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	17178	.	T	G	1761	PASS	363	0.242424	0	"275,0,88,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16914T>G	p.Val5638Val	16914/21291	16914/21291	5638/7096	5638	7096		",G"	V5638V	T17178G	V5638V	ORF1AB:V5638V	1237	ORF1b	V1237V	ORF1B:V1237V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	17430	.	C	T	614	PASS	637	0.065934	0	"595,0,42,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17166C>T	p.Tyr5722Tyr	17166/21291	17166/21291	5722/7096	5722	7096		",T"	Y5722Y	C17430T	Y5722Y	ORF1AB:Y5722Y	1321	ORF1b	Y1321Y	ORF1B:Y1321Y	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	17514	.	TAG	T	697	PASS	1417	0.021877	0	"1386,0,31,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17252_17253delGA	p.Arg5751fs	17252/21291	17252/21291	5751/7096	5751	7096		"INFO_REALIGN_3_PRIME,T"	del5751	TAG17514T	del5751	ORF1AB:DEL5751	1350	ORF1b	del1350	ORF1B:DEL1350	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	18310	.	G	T	2778	PASS	842	0.168646	0	"699,0,142,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18046G>T	p.Val6016Phe	18046/21291	18046/21291	6016/7096	6016	7096		",T"	V6016F	G18310T	V6016F	ORF1AB:V6016F	1615	ORF1b	V1615F	ORF1B:V1615F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	18324	.	TG	T	3638	PASS	839	0.152563	0	"733,0,128,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18061delG	p.Ala6021fs	18061/21291	18061/21291	6021/7096	6021	7096		",T"	del6021	TG18324T	del6021	ORF1AB:DEL6021	1620	ORF1b	del1620	ORF1B:DEL1620	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	18782	.	GT	G	86	PASS	2048	0.00293	0	"2051,0,6,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18522delT	p.Phe6174fs	18522/21291	18522/21291	6174/7096	6174	7096		"INFO_REALIGN_3_PRIME,G"	del6174	GT18782G	del6174	ORF1AB:DEL6174	1773	ORF1b	del1773	ORF1B:DEL1773	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	18877	.	C	T	49314	PASS	2036	0.984283	0	"25,0,2004,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	19485	.	T	C	69	PASS	1178	0.011036	0	"1162,0,13,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19221T>C	p.Ala6407Ala	19221/21291	19221/21291	6407/7096	6407	7096		",C"	A6407A	T19485C	A6407A	ORF1AB:A6407A	2006	ORF1b	A2006A	ORF1B:A2006A	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	20528	.	TTGA	T	187	PASS	2355	0.005096	0	"2365,0,12,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20265_20267delTGA	p.Glu6756del	20265/21291	20265/21291	6755/7096	6755	7096		",T"	del6756	TTGA20528T	del6756	ORF1AB:DEL6756	2355	ORF1b	del2355	ORF1B:DEL2355	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	20529	.	T	A	3995	PASS	2379	0.108029	0	"2107,0,257,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20265T>A	p.Val6755Val	20265/21291	20265/21291	6755/7096	6755	7096		",A"	V6755V	T20529A	V6755V	ORF1AB:V6755V	2354	ORF1b	V2354V	ORF1B:V2354V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	20530	.	G	A	4199	PASS	2379	0.106768	0	"2105,0,254,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20266G>A	p.Glu6756Lys	20266/21291	20266/21291	6756/7096	6756	7096		",A"	E6756K	G20530A	E6756K	ORF1AB:E6756K	2355	ORF1b	E2355K	ORF1B:E2355K	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	20531	.	A	T	4385	PASS	2388	0.108459	0	"2117,0,259,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20267A>T	p.Glu6756Val	20267/21291	20267/21291	6756/7096	6756	7096		",T"	E6756V	A20531T	E6756V	ORF1AB:E6756V	2355	ORF1b	E2355V	ORF1B:E2355V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	20534	.	TA	T	51	PASS	2485	0.00161	0	"2495,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20272delA	p.Ile6758fs	20272/21291	20272/21291	6758/7096	6758	7096		"INFO_REALIGN_3_PRIME,T"	del6758	TA20534T	del6758	ORF1AB:DEL6758	2357	ORF1b	del2357	ORF1B:DEL2357	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	21575	.	C	T	2493	PASS	1571	0.103119	0	"1401,0,162,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	21658	.	C	T	3041	PASS	1395	0.121864	0	"1222,0,170,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.96C>T	p.Phe32Phe	96/3822	96/3822	32/1273	32	1273		",T"	F32F	C21658T	F32F	S:F32F	32	S	F32F	S:F32F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	21855	.	C	T	18125	PASS	1335	0.489888	0	"680,0,654,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	22992	.	G	A	2273	PASS	954	0.141509	0	"816,0,135,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	23403	.	A	G	13754	PASS	405	0.995062	2147483647	"0,0,403,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	23890	.	A	G	3369	PASS	663	0.244344	0	"501,0,162,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2328A>G	p.Lys776Lys	2328/3822	2328/3822	776/1273	776	1273		",G"	K776K	A23890G	K776K	S:K776K	776	S	K776K	S:K776K	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	23958	.	G	GT	1641	PASS	549	0.111111	0	"492,0,61,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	24442	.	C	T	757	PASS	1333	0.051763	0	"1259,0,69,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2880C>T	p.Asn960Asn	2880/3822	2880/3822	960/1273	960	1273		",T"	N960N	C24442T	N960N	S:N960N	960	S	N960N	S:N960N	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	24611	.	G	A	69	PASS	1127	0.014197	0	"1106,0,16,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3049G>A	p.Glu1017Lys	3049/3822	3049/3822	1017/1273	1017	1273		",A"	E1017K	G24611A	E1017K	S:E1017K	1017	S	E1017K	S:E1017K	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	24959	.	G	T	4221	PASS	1612	0.14206	0	"1379,0,229,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3397G>T	p.Val1133Phe	3397/3822	3397/3822	1133/1273	1133	1273		",T"	V1133F	G24959T	V1133F	S:V1133F	1133	S	V1133F	S:V1133F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25225	.	A	C	134	PASS	2654	0.017709	0	"2600,0,47,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25240	.	C	A	88	PASS	2791	0.017198	0	"2738,0,48,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25244	.	G	T	69	PASS	2883	0.01214	0	"2845,0,35,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25247	.	A	T	95	PASS	2902	0.018608	0	"2838,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25254	.	C	A	117	PASS	3061	0.017315	0	"3002,0,53,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25259	.	A	T	76	PASS	3103	0.014502	0	"3050,0,45,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25277	.	A	T	174	PASS	2925	0.027009	0	"2802,0,79,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25280	.	T	G	97	PASS	2991	0.020729	0	"2923,0,62,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25286	.	A	T	82	PASS	3043	0.02136	0	"2924,0,65,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25289	.	T	G	133	PASS	3008	0.024601	0	"2925,0,74,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25296	.	A	C	412	PASS	3054	0.044204	0	"2837,0,135,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25296	.	A	T	111	PASS	3054	0.025868	0	"2837,0,79,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25301	.	T	G	221	PASS	3031	0.032003	0	"2930,0,97,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25304	.	T	G	91	PASS	3100	0.020968	0	"3033,0,65,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3742T>G	p.Cys1248Gly	3742/3822	3742/3822	1248/1273	1248	1273		",G"	C1248G	T25304G	C1248G	S:C1248G	1248	S	C1248G	S:C1248G	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25312	.	T	G	302	PASS	3124	0.035211	0	"3006,0,110,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25314	.	G	T	191	PASS	3138	0.030911	0	"3033,0,97,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25324	.	C	A	1555	PASS	3145	0.079809	0	"2888,0,251,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25327	.	A	T	246	PASS	3101	0.031603	0	"3002,0,98,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25331	.	G	T	167	PASS	3080	0.033117	0	"2953,0,102,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25334	.	G	T	170	PASS	3055	0.036007	0	"2876,0,110,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25336	.	A	C	644	PASS	3084	0.06096	0	"2858,0,188,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25505	.	A	G	7932	PASS	2382	0.173384	0	"1962,0,413,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25563	.	G	T	47624	PASS	2203	0.709487	0	"639,0,1563,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	25710	.	C	T	28592	PASS	1181	0.762913	0	"276,0,901,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26110	.	C	T	3573	PASS	1590	0.126415	0	"1381,0,201,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.718C>T	p.Pro240Ser	718/828	718/828	240/275	240	275		",T"	P240S	C26110T	P240S	ORF3A:P240S	240	ORF3a	P240S	ORF3A:P240S	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26368	.	T	C	18922	PASS	5441	0.178644	0	"4457,0,972,0"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.124T>C	p.Tyr42His	124/228	124/228	42/75	42	75		",C"	Y42H	T26368C	Y42H	E:Y42H	42	E	Y42H	E:Y42H	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26561	.	T	A	5126	PASS	6518	0.061062	0	"6113,0,398,0"	FALSE	A	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.39T>A	p.Leu13Leu	39/669	39/669	13/222	13	222		",A"	L13L	T26561A	L13L	M:L13L	13	M	L13L	M:L13L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26704	.	CT	C	53	PASS	5551	0.000901	0	"5546,0,5,0"	TRUE	C	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.185delT	p.Leu62fs	185/669	185/669	62/222	62	222		"INFO_REALIGN_3_PRIME,C"	del62	CT26704C	del62	M:DEL62	62	M	del62	M:DEL62	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26718	.	G	T	8162	PASS	5303	0.092401	0	"4811,0,490,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.196G>T	p.Val66Leu	196/669	196/669	66/222	66	222		",T"	V66L	G26718T	V66L	M:V66L	66	M	V66L	M:V66L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26735	.	C	T	49314	PASS	4989	0.615554	0	"1911,0,3071,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26801	.	C	G	5888	PASS	3946	0.088191	0	"3597,0,348,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26876	.	T	C	36002	PASS	1926	0.63136	0	"707,0,1216,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	26894	.	C	T	5582	PASS	1325	0.193208	0	"1068,0,256,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.372C>T	p.Leu124Leu	372/669	372/669	124/222	124	222		",T"	L124L	C26894T	L124L	M:L124L	124	M	L124L	M:L124L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27434	.	C	T	263	PASS	3069	0.015966	0	"3016,0,49,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27567	.	CTTTAGCACTCAATTTGCTT	C	20525	PASS	4590	0.142266	0	"3938,0,653,0"	TRUE	C	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.177_195delTAGCACTCAATTTGCTTTT	p.Phe59fs	177/366	177/366	59/121	59	121		"INFO_REALIGN_3_PRIME,C"	del59	CTTTAGCACTCAATTTGCTT27567C	del59	ORF7A:DEL59	59	ORF7a	del59	ORF7A:DEL59	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27570	.	T	G	386	PASS	4446	0.016644	0	"3712,0,74,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.177T>G	p.Phe59Leu	177/366	177/366	59/121	59	121		",G"	F59L	T27570G	F59L	ORF7A:F59L	59	ORF7a	F59L	ORF7A:F59L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27791	.	CT	C	79	PASS	3923	0.001784	0	"3916,0,7,0"	TRUE	C	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.41delT	p.Leu14fs	41/132	41/132	14/43	14	43		"INFO_REALIGN_3_PRIME,C"	del14	CT27791C	del14	ORF7B:DEL14	14	ORF7b	del14	ORF7B:DEL14	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27875	.	T	C	879	PASS	3877	0.025019	0	"3776,0,97,0"	FALSE	C	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.120T>C	p.Thr40Thr	120/132	120/132	40/43	40	43		",C"	T40T	T27875C	T40T	ORF7B:T40T	40	ORF7b	T40T	ORF7B:T40T	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27881	.	C	T	159	PASS	3868	0.010858	0	"3813,0,42,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27882	.	G	C	168	PASS	3881	0.010822	0	"3824,0,42,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.127G>C	p.Ala43Pro	127/132	127/132	43/43	43	43		",C"	A43P	G27882C	A43P	ORF7B:A43P	43	ORF7b	A43P	ORF7B:A43P	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27883	.	C	T	146	PASS	3897	0.010778	0	"3841,0,42,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.128C>T	p.Ala43Val	128/132	128/132	43/43	43	43		",T"	A43V	C27883T	A43V	ORF7B:A43V	43	ORF7b	A43V	ORF7B:A43V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27938	.	A	AT	3755	PASS	3478	0.043128	0	"3339,0,150,0"	TRUE	AT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.48dupT	p.His17fs	49/366	49/366	17/121	17	121		"INFO_REALIGN_3_PRIME,AT"	del17	A27938AT	del17	ORF8:DEL17	17	ORF8	del17	ORF8:DEL17	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	27944	.	C	T	5336	PASS	3409	0.097389	0	"3070,0,332,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28045	.	C	T	627	PASS	1498	0.038718	0	"1439,0,58,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28254	.	A	C	149	PASS	1619	0.019765	0	"1583,0,32,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28300	.	G	T	2377	PASS	2266	0.079435	0	"2083,0,180,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28378	.	G	T	16979	PASS	2885	0.265511	0	"2119,0,766,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28602	.	T	C	102	PASS	4350	0.008966	0	"4300,0,39,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.329T>C	p.Phe110Ser	329/1260	329/1260	110/419	110	419		",C"	F110S	T28602C	F110S	N:F110S	110	N	F110S	N:F110S	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28651	.	C	T	4256	PASS	4726	0.066441	0	"4410,0,314,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28869	.	C	T	5172	PASS	7056	0.064059	0	"6585,0,452,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28881	.	G	A	11204	PASS	6852	0.10683	0	"6097,0,732,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28882	.	G	A	10134	PASS	6860	0.105977	0	"6105,0,727,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28883	.	G	C	10810	PASS	6830	0.107174	0	"6070,0,732,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28932	.	C	T	48232	PASS	6863	0.30118	0	"4774,0,2067,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28957	.	C	T	7324	PASS	6590	0.082701	0	"6020,0,545,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28969	.	C	CA	15853	PASS	6521	0.090937	0	"5927,0,593,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.700dupA	p.Met234fs	701/1260	701/1260	234/419	234	419		"INFO_REALIGN_3_PRIME,CA"	del234	C28969CA	del234	N:DEL234	234	N	del234	N:DEL234	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28975	.	G	C	49314	PASS	6484	0.501542	0	"3218,0,3252,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28977	.	C	T	14124	PASS	6276	0.12269	0	"5495,0,770,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28978	.	T	A	13911	PASS	6281	0.123388	0	"5499,0,775,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28981	.	TA	T	63	PASS	6218	0.000965	0	"6255,0,6,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.711delA	p.Gly238fs	711/1260	711/1260	237/419	237	419		"INFO_REALIGN_3_PRIME,T"	del238	TA28981T	del238	N:DEL238	238	N	del238	N:DEL238	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-1	NC_045512.2	28987	.	CCAA	C	923	PASS	5975	0.008201	0	"5960,0,49,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG38-1	BEGGEN	2020-12-13T00:00:00Z	31.85725	34.15333333	x	1022021	2020-12-13
BEG38-2	NC_045512.2	241	.	C	T	49314	PASS	1583	0.998105	2147483647	"0,0,1580,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	802	.	A	C	121	PASS	2946	0.009844	0	"2899,0,29,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	816	.	G	A	100	PASS	3167	0.009473	0	"3132,0,30,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.551G>A	p.Arg184His	551/21291	551/21291	184/7096	184	7096		",A"	R184H	G816A	R184H	ORF1AB:R184H	184	ORF1a	R184H	ORF1A:R184H	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	1302	.	C	T	3928	PASS	3918	0.07172	0	"3630,0,281,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1037C>T	p.Thr346Ile	1037/21291	1037/21291	346/7096	346	7096		",T"	T346I	C1302T	T346I	ORF1AB:T346I	346	ORF1a	T346I	ORF1A:T346I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	1471	.	C	T	1337	PASS	1941	0.059248	0	"1823,0,115,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1206C>T	p.Arg402Arg	1206/21291	1206/21291	402/7096	402	7096		",T"	R402R	C1471T	R402R	ORF1AB:R402R	402	ORF1a	R402R	ORF1A:R402R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	2283	.	A	G	130	PASS	45	0.155556	0	"38,0,7,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2018A>G	p.Glu673Gly	2018/21291	2018/21291	673/7096	673	7096		",G"	E673G	A2283G	E673G	ORF1AB:E673G	673	ORF1a	E673G	ORF1A:E673G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	2466	.	A	C	7226	PASS	1129	0.275465	0	"818,0,311,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2201A>C	p.Lys734Thr	2201/21291	2201/21291	734/7096	734	7096		",C"	K734T	A2466C	K734T	ORF1AB:K734T	734	ORF1a	K734T	ORF1A:K734T	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3036	.	TC	T	192	PASS	2431	0.004936	0	"2425,0,12,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3037	.	C	T	49314	PASS	2465	0.993915	0	"2,0,2450,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3088	.	T	C	130	PASS	2660	0.01391	0	"2613,0,37,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2823T>C	p.Phe941Phe	2823/21291	2823/21291	941/7096	941	7096		",C"	F941F	T3088C	F941F	ORF1AB:F941F	941	ORF1a	F941F	ORF1A:F941F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3215	.	A	C	1037	PASS	1219	0.061526	0	"1143,0,75,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2950A>C	p.Ser984Arg	2950/21291	2950/21291	984/7096	984	7096		",C"	S984R	A3215C	S984R	ORF1AB:S984R	984	ORF1a	S984R	ORF1A:S984R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3352	.	T	G	1066	PASS	1196	0.077759	0	"1095,0,93,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3087T>G	p.Ser1029Arg	3087/21291	3087/21291	1029/7096	1029	7096		",G"	S1029R	T3352G	S1029R	ORF1AB:S1029R	1029	ORF1a	S1029R	ORF1A:S1029R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3508	.	T	C	4248	PASS	1082	0.18207	0	"884,0,197,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3243T>C	p.Asn1081Asn	3243/21291	3243/21291	1081/7096	1081	7096		",C"	N1081N	T3508C	N1081N	ORF1AB:N1081N	1081	ORF1a	N1081N	ORF1A:N1081N	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3598	.	T	TA	1716	PASS	1002	0.06487	0	"937,0,65,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3336dupA	p.His1113fs	3337/21291	3337/21291	1113/7096	1113	7096		"INFO_REALIGN_3_PRIME,TA"	del1113	T3598TA	del1113	ORF1AB:DEL1113	1113	ORF1a	del1113	ORF1A:DEL1113	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3598	.	TA	T	48	PASS	1002	0.002994	0	"999,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3336delA	p.Lys1112fs	3336/21291	3336/21291	1112/7096	1112	7096		"INFO_REALIGN_3_PRIME,T"	del1112	TA3598T	del1112	ORF1AB:DEL1112	1112	ORF1a	del1112	ORF1A:DEL1112	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3602	.	C	T	6466	PASS	977	0.284545	0	"693,0,278,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	3980	.	G	GT	682	PASS	79	0.265823	0	"59,0,21,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3717dupT	p.Thr1240fs	3718/21291	3718/21291	1240/7096	1240	7096		"INFO_REALIGN_3_PRIME,GT"	del1240	G3980GT	del1240	ORF1AB:DEL1240	1240	ORF1a	del1240	ORF1A:DEL1240	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	4282	.	A	G	68	PASS	960	0.014583	0	"945,0,14,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4017A>G	p.Val1339Val	4017/21291	4017/21291	1339/7096	1339	7096		",G"	V1339V	A4282G	V1339V	ORF1AB:V1339V	1339	ORF1a	V1339V	ORF1A:V1339V	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	4399	.	G	T	1117	PASS	1279	0.064894	0	"1195,0,83,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4134G>T	p.Met1378Ile	4134/21291	4134/21291	1378/7096	1378	7096		",T"	M1378I	G4399T	M1378I	ORF1AB:M1378I	1378	ORF1a	M1378I	ORF1A:M1378I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	4493	.	A	T	1213	PASS	1286	0.075428	0	"1189,0,97,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4228A>T	p.Lys1410*	4228/21291	4228/21291	1410/7096	1410	7096		",T"	K1410*	A4493T	K1410*	ORF1AB:K1410*	1410	ORF1a	K1410*	ORF1A:K1410*	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	4499	.	CA	C	2364	PASS	1242	0.073269	0	"1151,0,91,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4236delA	p.Glu1413fs	4236/21291	4236/21291	1412/7096	1412	7096		"INFO_REALIGN_3_PRIME,C"	del1413	CA4499C	del1413	ORF1AB:DEL1413	1413	ORF1a	del1413	ORF1A:DEL1413	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	4543	.	C	T	31478	PASS	1355	0.749077	0	"339,0,1015,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	4893	.	C	T	842	PASS	1153	0.055507	0	"1086,0,64,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4628C>T	p.Thr1543Ile	4628/21291	4628/21291	1543/7096	1543	7096		",T"	T1543I	C4893T	T1543I	ORF1AB:T1543I	1543	ORF1a	T1543I	ORF1A:T1543I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	5388	.	C	A	3536	PASS	1534	0.130378	0	"1334,0,200,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	5586	.	T	C	2853	PASS	1784	0.095291	0	"1610,0,170,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5321T>C	p.Leu1774Pro	5321/21291	5321/21291	1774/7096	1774	7096		",C"	L1774P	T5586C	L1774P	ORF1AB:L1774P	1774	ORF1a	L1774P	ORF1A:L1774P	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	5629	.	G	T	49314	PASS	2172	0.728821	0	"586,0,1583,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	5950	.	G	T	885	PASS	1748	0.046339	0	"1666,0,81,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5685G>T	p.Lys1895Asn	5685/21291	5685/21291	1895/7096	1895	7096		",T"	K1895N	G5950T	K1895N	ORF1AB:K1895N	1895	ORF1a	K1895N	ORF1A:K1895N	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	5986	.	C	T	2091	PASS	1843	0.073793	0	"1702,0,136,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5721C>T	p.Phe1907Phe	5721/21291	5721/21291	1907/7096	1907	7096		",T"	F1907F	C5986T	F1907F	ORF1AB:F1907F	1907	ORF1a	F1907F	ORF1A:F1907F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	6027	.	C	T	1005	PASS	1538	0.055267	0	"1449,0,85,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5762C>T	p.Pro1921Leu	5762/21291	5762/21291	1921/7096	1921	7096		",T"	P1921L	C6027T	P1921L	ORF1AB:P1921L	1921	ORF1a	P1921L	ORF1A:P1921L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	6080	.	G	A	293	PASS	1011	0.030663	0	"976,0,31,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5815G>A	p.Asp1939Asn	5815/21291	5815/21291	1939/7096	1939	7096		",A"	D1939N	G6080A	D1939N	ORF1AB:D1939N	1939	ORF1a	D1939N	ORF1A:D1939N	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	6286	.	C	T	4824	PASS	1039	0.218479	0	"807,0,227,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	6605	.	TC	T	4374	PASS	1853	0.089045	0	"1712,0,165,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6341delC	p.Ser2114fs	6341/21291	6341/21291	2114/7096	2114	7096		",T"	del2114	TC6605T	del2114	ORF1AB:DEL2114	2114	ORF1a	del2114	ORF1A:DEL2114	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	6696	.	C	CT	13565	PASS	1840	0.236957	0	"1403,0,436,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	6701	.	C	T	235	PASS	1872	0.030449	0	"1813,0,57,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	6941	.	C	T	10627	PASS	2745	0.188707	0	"2219,0,518,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	6945	.	TA	T	11955	PASS	2744	0.15379	0	"2323,0,422,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6683delA	p.Asn2228fs	6683/21291	6683/21291	2228/7096	2228	7096		"INFO_REALIGN_3_PRIME,T"	del2228	TA6945T	del2228	ORF1AB:DEL2228	2228	ORF1a	del2228	ORF1A:DEL2228	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	7086	.	C	T	4269	PASS	1700	0.131765	0	"1473,0,224,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6821C>T	p.Thr2274Ile	6821/21291	6821/21291	2274/7096	2274	7096		",T"	T2274I	C7086T	T2274I	ORF1AB:T2274I	2274	ORF1a	T2274I	ORF1A:T2274I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	7193	.	AC	A	1989	PASS	923	0.081257	0	"886,0,75,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6930delC	p.Ile2311fs	6930/21291	6930/21291	2310/7096	2310	7096		"INFO_REALIGN_3_PRIME,A"	del2311	AC7193A	del2311	ORF1AB:DEL2311	2311	ORF1a	del2311	ORF1A:DEL2311	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	7225	.	T	C	1178	PASS	742	0.103774	0	"662,0,77,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6960T>C	p.Ala2320Ala	6960/21291	6960/21291	2320/7096	2320	7096		",C"	A2320A	T7225C	A2320A	ORF1AB:A2320A	2320	ORF1a	A2320A	ORF1A:A2320A	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	8561	.	G	T	2764	PASS	202	0.485149	0	"103,0,98,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8296G>T	p.Val2766Phe	8296/21291	8296/21291	2766/7096	2766	7096		",T"	V2766F	G8561T	V2766F	ORF1AB:V2766F	2766	ORF1a	V2766F	ORF1A:V2766F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	8853	.	G	GT	5680	PASS	1300	0.155385	0	"1099,0,202,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8592dupT	p.Val2865fs	8593/21291	8593/21291	2865/7096	2865	7096		"INFO_REALIGN_3_PRIME,GT"	del2865	G8853GT	del2865	ORF1AB:DEL2865	2865	ORF1a	del2865	ORF1A:DEL2865	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	8888	.	C	T	1498	PASS	1327	0.066315	0	"1235,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8623C>T	p.Arg2875Cys	8623/21291	8623/21291	2875/7096	2875	7096		",T"	R2875C	C8888T	R2875C	ORF1AB:R2875C	2875	ORF1a	R2875C	ORF1A:R2875C	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	8983	.	T	G	5542	PASS	1698	0.164311	0	"1416,0,279,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	9206	.	T	C	4736	PASS	1862	0.157358	0	"1566,0,293,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8941T>C	p.Ser2981Pro	8941/21291	8941/21291	2981/7096	2981	7096		",C"	S2981P	T9206C	S2981P	ORF1AB:S2981P	2981	ORF1a	S2981P	ORF1A:S2981P	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	9233	.	G	A	1777	PASS	1784	0.068386	0	"1661,0,122,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8968G>A	p.Glu2990Lys	8968/21291	8968/21291	2990/7096	2990	7096		",A"	E2990K	G9233A	E2990K	ORF1AB:E2990K	2990	ORF1a	E2990K	ORF1A:E2990K	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	9415	.	TG	T	55	PASS	2273	0.00176	0	"2272,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9152delG	p.Gly3051fs	9152/21291	9152/21291	3051/7096	3051	7096		"INFO_REALIGN_3_PRIME,T"	del3051	TG9415T	del3051	ORF1AB:DEL3051	3051	ORF1a	del3051	ORF1A:DEL3051	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	9526	.	G	T	14554	PASS	1814	0.335171	0	"1199,0,608,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	9880	.	T	C	222	PASS	1956	0.018405	0	"1915,0,36,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9615T>C	p.Asn3205Asn	9615/21291	9615/21291	3205/7096	3205	7096		",C"	N3205N	T9880C	N3205N	ORF1AB:N3205N	3205	ORF1a	N3205N	ORF1A:N3205N	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	10078	.	C	T	11790	PASS	3144	0.183206	0	"2565,0,576,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9813C>T	p.Phe3271Phe	9813/21291	9813/21291	3271/7096	3271	7096		",T"	F3271F	C10078T	F3271F	ORF1AB:F3271F	3271	ORF1a	F3271F	ORF1A:F3271F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	10487	.	T	C	13056	PASS	3504	0.180365	0	"2866,0,632,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10222T>C	p.Cys3408Arg	10222/21291	10222/21291	3408/7096	3408	7096		",C"	C3408R	T10487C	C3408R	ORF1AB:C3408R	3408	ORF1a	C3408R	ORF1A:C3408R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	11082	.	TG	T	366	PASS	1791	0.011167	0	"1773,0,20,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	11083	.	G	T	11013	PASS	1794	0.278707	0	"1268,0,500,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	11497	.	C	T	39223	PASS	2005	0.652369	0	"695,0,1308,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	12741	.	C	T	11844	PASS	2301	0.229031	0	"1767,0,527,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12476C>T	p.Thr4159Ile	12476/21291	12476/21291	4159/7096	4159	7096		",T"	T4159I	C12741T	T4159I	ORF1AB:T4159I	4159	ORF1a	T4159I	ORF1A:T4159I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	12777	.	A	C	7557	PASS	2505	0.154491	0	"2117,0,387,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12512A>C	p.Tyr4171Ser	12512/21291	12512/21291	4171/7096	4171	7096		",C"	Y4171S	A12777C	Y4171S	ORF1AB:Y4171S	4171	ORF1a	Y4171S	ORF1A:Y4171S	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	13123	.	TG	T	51	PASS	3772	0.001326	0	"3816,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	13517	.	C	T	13116	PASS	3013	0.199137	0	"2406,0,600,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	13814	.	CA	C	25399	PASS	3536	0.242647	0	"2693,0,858,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13551delA	p.Asp4518fs	13551/21291	13551/21291	4517/7096	4517	7096		",C"	del4518	CA13814C	del4518	ORF1AB:DEL4518	117	ORF1b	del117	ORF1B:DEL117	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	13914	.	TA	T	54	PASS	3386	0.001477	0	"3394,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13655delA	p.Lys4552fs	13655/21291	13655/21291	4552/7096	4552	7096		"INFO_REALIGN_3_PRIME,T"	del4552	TA13914T	del4552	ORF1AB:DEL4552	151	ORF1b	del151	ORF1B:DEL151	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	14024	.	C	G	12314	PASS	2215	0.251467	0	"1653,0,557,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13760C>G	p.Ala4587Gly	13760/21291	13760/21291	4587/7096	4587	7096		",G"	A4587G	C14024G	A4587G	ORF1AB:A4587G	186	ORF1b	A186G	ORF1B:A186G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	14408	.	C	T	788	PASS	23	1	2147483647	"0,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	14922	.	C	T	389	PASS	4210	0.015439	0	"4136,0,65,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14658C>T	p.Ile4886Ile	14658/21291	14658/21291	4886/7096	4886	7096		",T"	I4886I	C14922T	I4886I	ORF1AB:I4886I	485	ORF1b	I485I	ORF1B:I485I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	15032	.	CA	C	33396	PASS	3959	0.270018	0	"2890,0,1069,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14772delA	p.Lys4924fs	14772/21291	14772/21291	4924/7096	4924	7096		"INFO_REALIGN_3_PRIME,C"	del4924	CA15032C	del4924	ORF1AB:DEL4924	523	ORF1b	del523	ORF1B:DEL523	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	15324	.	C	T	4010	PASS	1044	0.178161	0	"856,0,186,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	15766	.	G	T	250	PASS	639	0.034429	0	"617,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	16289	.	C	G	3053	PASS	1540	0.108442	0	"1369,0,167,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16025C>G	p.Ala5342Gly	16025/21291	16025/21291	5342/7096	5342	7096		",G"	A5342G	C16289G	A5342G	ORF1AB:A5342G	941	ORF1b	A941G	ORF1B:A941G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	16668	.	AT	A	383	PASS	5736	0.004184	0	"5815,0,24,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16407delT	p.Phe5469fs	16407/21291	16407/21291	5469/7096	5469	7096		"INFO_REALIGN_3_PRIME,A"	del5469	AT16668A	del5469	ORF1AB:DEL5469	1068	ORF1b	del1068	ORF1B:DEL1068	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	16889	.	A	G	11803	PASS	4575	0.132459	0	"3960,0,606,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	17019	.	G	T	5719	PASS	2357	0.123886	0	"2065,0,292,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	17060	.	A	G	79	PASS	1761	0.010221	0	"1740,0,18,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16796A>G	p.Gln5599Arg	16796/21291	16796/21291	5599/7096	5599	7096		",G"	Q5599R	A17060G	Q5599R	ORF1AB:Q5599R	1198	ORF1b	Q1198R	ORF1B:Q1198R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	17955	.	T	C	22904	PASS	3189	0.290373	0	"2255,0,926,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17691T>C	p.Leu5897Leu	17691/21291	17691/21291	5897/7096	5897	7096		",C"	L5897L	T17955C	L5897L	ORF1AB:L5897L	1496	ORF1b	L1496L	ORF1B:L1496L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	18105	.	G	A	20931	PASS	2520	0.338492	0	"1657,0,853,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17841G>A	p.Gln5947Gln	17841/21291	17841/21291	5947/7096	5947	7096		",A"	Q5947Q	G18105A	Q5947Q	ORF1AB:Q5947Q	1546	ORF1b	Q1546Q	ORF1B:Q1546Q	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	18877	.	C	T	18136	PASS	3168	0.239899	0	"2401,0,760,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	19524	.	C	T	17004	PASS	1960	0.337755	0	"1292,0,662,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	20406	.	T	C	5162	PASS	792	0.281566	0	"566,0,223,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20142T>C	p.Pro6714Pro	20142/21291	20142/21291	6714/7096	6714	7096		",C"	P6714P	T20406C	P6714P	ORF1AB:P6714P	2313	ORF1b	P2313P	ORF1B:P2313P	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	21077	.	CA	C	11083	PASS	2336	0.161387	0	"1959,0,377,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20817delA	p.Glu6940fs	20817/21291	20817/21291	6939/7096	6939	7096		"INFO_REALIGN_3_PRIME,C"	del6940	CA21077C	del6940	ORF1AB:DEL6940	2539	ORF1b	del2539	ORF1B:DEL2539	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	21548	.	A	G	112	PASS	1844	0.013015	0	"1818,0,24,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21284A>G	p.Asn7095Ser	21284/21291	21284/21291	7095/7096	7095	7096		",G"	N7095S	A21548G	N7095S	ORF1AB:N7095S	2694	ORF1b	N2694S	ORF1B:N2694S	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	21855	.	C	T	9374	PASS	1103	0.327289	0	"742,0,361,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	23403	.	A	G	19205	PASS	577	0.996534	2147483647	"0,0,575,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	23743	.	A	G	88	PASS	659	0.022762	0	"643,0,15,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2181A>G	p.Leu727Leu	2181/3822	2181/3822	727/1273	727	1273		",G"	L727L	A23743G	L727L	S:L727L	727	S	L727L	S:L727L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	24492	.	TA	T	1464	PASS	941	0.060574	0	"891,0,57,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2933delA	p.Asn978fs	2933/3822	2933/3822	978/1273	978	1273		"INFO_REALIGN_3_PRIME,T"	del978	TA24492T	del978	S:DEL978	978	S	del978	S:DEL978	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25225	.	A	C	152	PASS	2666	0.019505	0	"2598,0,52,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25240	.	C	A	171	PASS	2784	0.02227	0	"2722,0,62,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25247	.	A	T	119	PASS	2885	0.019064	0	"2827,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25252	.	G	T	98	PASS	3014	0.017916	0	"2941,0,54,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>T	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",T"	V1230V	G25252T	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25254	.	C	T	8842	PASS	3107	0.186675	0	"2468,0,580,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>T	p.Thr1231Ile	3692/3822	3692/3822	1231/1273	1231	1273		",T"	T1231I	C25254T	T1231I	S:T1231I	1231	S	T1231I	S:T1231I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25277	.	A	T	148	PASS	2904	0.024449	0	"2797,0,71,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25284	.	G	T	74	PASS	3006	0.013972	0	"2963,0,42,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3722G>T	p.Cys1241Phe	3722/3822	3722/3822	1241/1273	1241	1273		",T"	C1241F	G25284T	C1241F	S:C1241F	1241	S	C1241F	S:C1241F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25286	.	A	T	78	PASS	3055	0.021277	0	"2951,0,65,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25289	.	T	G	118	PASS	2997	0.022356	0	"2919,0,67,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25296	.	A	C	311	PASS	3047	0.039055	0	"2852,0,119,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25296	.	A	T	91	PASS	3047	0.024286	0	"2852,0,74,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25301	.	T	G	187	PASS	3017	0.029168	0	"2926,0,88,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25304	.	T	G	76	PASS	3080	0.019156	0	"3007,0,59,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3742T>G	p.Cys1248Gly	3742/3822	3742/3822	1248/1273	1248	1273		",G"	C1248G	T25304G	C1248G	S:C1248G	1248	S	C1248G	S:C1248G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25312	.	T	G	215	PASS	3108	0.029601	0	"3010,0,92,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25314	.	G	T	160	PASS	3099	0.027751	0	"2998,0,86,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25324	.	C	A	1432	PASS	3112	0.07455	0	"2879,0,232,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25327	.	A	T	177	PASS	3089	0.025251	0	"3010,0,78,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25331	.	G	T	134	PASS	3061	0.029402	0	"2946,0,90,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25334	.	G	T	99	PASS	3044	0.028581	0	"2897,0,87,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25336	.	A	C	473	PASS	3057	0.050703	0	"2873,0,155,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25505	.	A	G	9892	PASS	2457	0.193325	0	"1972,0,475,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25575	.	A	G	6766	PASS	2246	0.15984	0	"1881,0,359,0"	FALSE	G	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.183A>G	p.Lys61Lys	183/828	183/828	61/275	61	275		",G"	K61K	A25575G	K61K	ORF3A:K61K	61	ORF3a	K61K	ORF3A:K61K	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25756	.	A	G	1018	PASS	576	0.105903	0	"514,0,61,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.364A>G	p.Arg122Gly	364/828	364/828	122/275	122	275		",G"	R122G	A25756G	R122G	ORF3A:R122G	122	ORF3a	R122G	ORF3A:R122G	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25906	.	G	C	544	PASS	296	0.097973	0	"266,0,29,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	25996	.	G	T	605	PASS	316	0.110759	0	"281,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	26151	.	C	T	1151	PASS	1092	0.071429	0	"1013,0,78,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.759C>T	p.Ser253Ser	759/828	759/828	253/275	253	275		",T"	S253S	C26151T	S253S	ORF3A:S253S	253	ORF3a	S253S	ORF3A:S253S	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	26300	.	T	C	71	PASS	1540	0.013636	0	"1511,0,21,0"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.56T>C	p.Leu19Pro	56/228	56/228	19/75	19	75		",C"	L19P	T26300C	L19P	E:L19P	19	E	L19P	E:L19P	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	26735	.	C	T	31003	PASS	1934	0.554292	0	"858,0,1072,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	26801	.	C	G	19944	PASS	1613	0.440174	0	"901,0,710,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	26876	.	T	C	9342	PASS	823	0.425273	0	"472,0,350,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	27707	.	C	T	17045	PASS	3518	0.232234	0	"2687,0,817,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	27944	.	C	T	22069	PASS	2562	0.338017	0	"1690,0,866,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28045	.	C	T	4132	PASS	985	0.19797	0	"788,0,195,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28048	.	G	GA	1263	PASS	1001	0.04995	0	"951,0,50,0"	TRUE	GA	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.159dupA	p.Ser54fs	160/366	160/366	54/121	54	121		"INFO_REALIGN_3_PRIME,GA"	del54	G28048GA	del54	ORF8:DEL54	54	ORF8	del54	ORF8:DEL54	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28254	.	A	C	155	PASS	977	0.025589	0	"950,0,25,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28270	.	TA	T	11305	PASS	1417	0.320395	0	"963,0,454,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28280	.	G	C	9989	PASS	1416	0.326271	0	"952,0,462,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28281	.	A	T	9981	PASS	1427	0.322355	0	"965,0,460,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28282	.	T	A	10163	PASS	1457	0.331503	0	"973,0,483,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28378	.	G	T	3034	PASS	2579	0.081427	0	"2368,0,210,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28436	.	G	T	1451	PASS	3171	0.045412	0	"3025,0,144,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.163G>T	p.Ala55Ser	163/1260	163/1260	55/419	55	419		",T"	A55S	G28436T	A55S	N:A55S	55	N	A55S	N:A55S	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28651	.	C	T	7184	PASS	4972	0.087892	0	"4524,0,437,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28776	.	CA	C	1854	PASS	7417	0.013213	0	"7319,0,98,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28855	.	A	C	10846	PASS	7128	0.093294	0	"6452,0,665,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28869	.	C	T	9004	PASS	7000	0.085714	0	"6378,0,600,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28881	.	G	A	49314	PASS	6628	0.334943	0	"4390,0,2220,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28882	.	G	A	49314	PASS	6628	0.334339	0	"2868,0,2216,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28882	.	G	T	49314	PASS	6628	0.231593	0	"2868,0,1535,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>T	p.Arg203Ser	609/1260	609/1260	203/419	203	419		",T"	R203S	G28882T	R203S	N:R203S	203	N	R203S	N:R203S	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28883	.	G	C	49314	PASS	6640	0.338102	0	"4380,0,2245,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28932	.	C	T	23040	PASS	6830	0.168668	0	"5661,0,1152,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28975	.	G	C	49314	PASS	6461	0.355363	0	"4155,0,2296,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28977	.	C	T	49314	PASS	6140	0.361726	0	"3908,0,2221,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28978	.	T	A	49314	PASS	6144	0.361816	0	"3916,0,2223,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	28987	.	CCAA	C	485	PASS	5907	0.004909	0	"5916,0,29,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-2	NC_045512.2	29202	.	G	T	1697	PASS	1203	0.083126	0	"1103,0,100,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.929G>T	p.Ser310Ile	929/1260	929/1260	310/419	310	419		",T"	S310I	G29202T	S310I	N:S310I	310	N	S310I	N:S310I	BEG38-2	BEGGEN	2020-12-15T00:00:00Z	31.859	33.15666667	x	1022021	2020-12-15
BEG38-3	NC_045512.2	167	.	GT	G	51	PASS	2296	0.001742	0	"2294,0,4,0"	TRUE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-98delT						NA	98	",G"	del	GT167G	del	ORF1AB:DEL	NA	NA	del	NA:DEL	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	241	.	C	T	49314	PASS	3242	0.997532	2147483647	"0,0,3234,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	265	.	G	T	15473	PASS	3254	0.20252	0	"2592,0,659,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-1G>T						NA	1	",T"		G265T		NA	NA	NA		NA	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	335	.	C	T	30387	PASS	3408	0.34419	0	"2228,0,1173,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	445	.	T	C	33173	PASS	3863	0.366296	0	"2437,0,1415,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	550	.	T	C	181	PASS	3616	0.014381	0	"3553,0,52,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.285T>C	p.Ile95Ile	285/21291	285/21291	95/7096	95	7096		",C"	I95I	T550C	I95I	ORF1AB:I95I	95	ORF1a	I95I	ORF1A:I95I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	802	.	A	C	88	PASS	2837	0.00846	0	"2806,0,24,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	915	.	A	G	672	PASS	1813	0.050745	0	"1718,0,92,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.650A>G	p.Glu217Gly	650/21291	650/21291	217/7096	217	7096		",G"	E217G	A915G	E217G	ORF1AB:E217G	217	ORF1a	E217G	ORF1A:E217G	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	1167	.	G	A	43463	PASS	2068	0.685687	0	"646,0,1418,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.902G>A	p.Arg301Gln	902/21291	902/21291	301/7096	301	7096		",A"	R301Q	G1167A	R301Q	ORF1AB:R301Q	301	ORF1a	R301Q	ORF1A:R301Q	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	1350	.	A	G	6010	PASS	2975	0.125042	0	"2593,0,372,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1085A>G	p.Gln362Arg	1085/21291	1085/21291	362/7096	362	7096		",G"	Q362R	A1350G	Q362R	ORF1AB:Q362R	362	ORF1a	Q362R	ORF1A:Q362R	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	1425	.	AC	A	53	PASS	2555	0.001566	0	"2598,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1162delC	p.His388fs	1162/21291	1162/21291	388/7096	388	7096		"INFO_REALIGN_3_PRIME,A"	del388	AC1425A	del388	ORF1AB:DEL388	388	ORF1a	del388	ORF1A:DEL388	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	1513	.	C	T	13308	PASS	3080	0.212013	0	"2416,0,653,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1248C>T	p.Cys416Cys	1248/21291	1248/21291	416/7096	416	7096		",T"	C416C	C1513T	C416C	ORF1AB:C416C	416	ORF1a	C416C	ORF1A:C416C	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	3037	.	C	T	49314	PASS	2256	0.996897	2147483647	"0,0,2249,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	3508	.	T	C	1584	PASS	171	0.350877	0	"110,0,60,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3243T>C	p.Asn1081Asn	3243/21291	3243/21291	1081/7096	1081	7096		",C"	N1081N	T3508C	N1081N	ORF1AB:N1081N	1081	ORF1a	N1081N	ORF1A:N1081N	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	3602	.	C	T	79	PASS	156	0.044872	0	"149,0,7,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	3786	.	A	C	144	PASS	121	0.115702	0	"106,0,14,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3521A>C	p.Tyr1174Ser	3521/21291	3521/21291	1174/7096	1174	7096		",C"	Y1174S	A3786C	Y1174S	ORF1AB:Y1174S	1174	ORF1a	Y1174S	ORF1A:Y1174S	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	3788	.	T	C	91	PASS	111	0.099099	0	"99,0,11,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3523T>C	p.Leu1175Leu	3523/21291	3523/21291	1175/7096	1175	7096		",C"	L1175L	T3788C	L1175L	ORF1AB:L1175L	1175	ORF1a	L1175L	ORF1A:L1175L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	3789	.	TAG	T	262	PASS	107	0.102804	0	"100,0,11,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3525_3526delAG	p.Leu1175fs	3525/21291	3525/21291	1175/7096	1175	7096		",T"	del1175	TAG3789T	del1175	ORF1AB:DEL1175	1175	ORF1a	del1175	ORF1A:DEL1175	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	4543	.	C	T	10738	PASS	436	0.786697	0	"91,0,343,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	5420	.	A	G	6076	PASS	969	0.261094	0	"716,0,253,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5155A>G	p.Asn1719Asp	5155/21291	5155/21291	1719/7096	1719	7096		",G"	N1719D	A5420G	N1719D	ORF1AB:N1719D	1719	ORF1a	N1719D	ORF1A:N1719D	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	5542	.	G	T	2576	PASS	299	0.324415	0	"202,0,97,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5277G>T	p.Gln1759His	5277/21291	5277/21291	1759/7096	1759	7096		",T"	Q1759H	G5542T	Q1759H	ORF1AB:Q1759H	1759	ORF1a	Q1759H	ORF1A:Q1759H	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	6286	.	C	T	10525	PASS	299	0.996656	2147483647	"0,0,298,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	6401	.	C	T	3296	PASS	290	0.42069	0	"167,0,122,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6136C>T	p.Pro2046Ser	6136/21291	6136/21291	2046/7096	2046	7096		",T"	P2046S	C6401T	P2046S	ORF1AB:P2046S	2046	ORF1a	P2046S	ORF1A:P2046S	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	8140	.	C	T	394	PASS	389	0.077121	0	"359,0,30,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7875C>T	p.Ser2625Ser	7875/21291	7875/21291	2625/7096	2625	7096		",T"	S2625S	C8140T	S2625S	ORF1AB:S2625S	2625	ORF1a	S2625S	ORF1A:S2625S	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	8376	.	CA	C	879	PASS	234	0.132479	0	"203,0,31,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	8983	.	T	G	144	PASS	177	0.067797	0	"164,0,12,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	9526	.	G	T	302	PASS	1307	0.028309	0	"1269,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	10456	.	C	T	368	PASS	2180	0.024771	0	"2121,0,54,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10191C>T	p.Phe3397Phe	10191/21291	10191/21291	3397/7096	3397	7096		",T"	F3397F	C10456T	F3397F	ORF1AB:F3397F	3397	ORF1a	F3397F	ORF1A:F3397F	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	10647	.	C	T	6135	PASS	1050	0.261905	0	"773,0,275,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10382C>T	p.Thr3461Ile	10382/21291	10382/21291	3461/7096	3461	7096		",T"	T3461I	C10647T	T3461I	ORF1AB:T3461I	3461	ORF1a	T3461I	ORF1A:T3461I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	11497	.	C	T	20182	PASS	584	1	2147483647	"0,0,584,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	12834	.	AT	A	49	PASS	2517	0.001589	0	"2513,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12572delT	p.Leu4191fs	12572/21291	12572/21291	4191/7096	4191	7096		"INFO_REALIGN_3_PRIME,A"	del4191	AT12834A	del4191	ORF1AB:DEL4191	4191	ORF1a	del4191	ORF1A:DEL4191	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	12988	.	G	T	16226	PASS	3436	0.215367	0	"2693,0,740,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	13033	.	T	C	18095	PASS	4130	0.198789	0	"3304,0,821,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12768T>C	p.Asn4256Asn	12768/21291	12768/21291	4256/7096	4256	7096		",C"	N4256N	T13033C	N4256N	ORF1AB:N4256N	4256	ORF1a	N4256N	ORF1A:N4256N	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	13123	.	TG	T	47	PASS	4627	0.001081	0	"4679,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	13464	.	TA	T	18032	PASS	3388	0.182704	0	"2771,0,619,0"	TRUE	T	frameshift_variant&splice_region_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13202delA	p.Asn4401fs	13202/21291	13202/21291	4401/7096	4401	7096		"INFO_REALIGN_3_PRIME,T"	del4401	TA13464T	del4401	ORF1AB:DEL4401	4401	ORF1a	del4401	ORF1A:DEL4401	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	13993	.	G	T	11493	PASS	1579	0.301457	0	"1102,0,476,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	14400	.	G	T	105	PASS	36	0.166667	0	"30,0,6,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14136G>T	p.Val4712Val	14136/21291	14136/21291	4712/7096	4712	7096		",T"	V4712V	G14400T	V4712V	ORF1AB:V4712V	311	ORF1b	V311V	ORF1B:V311V	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	14408	.	C	T	976	PASS	30	0.933333	0	"1,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	14723	.	TC	T	80	PASS	1460	0.003425	0	"1501,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14460delC	p.Phe4821fs	14460/21291	14460/21291	4820/7096	4820	7096		",T"	del4821	TC14723T	del4821	ORF1AB:DEL4821	420	ORF1b	del420	ORF1B:DEL420	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	14724	.	C	T	23127	PASS	1483	0.552933	0	"655,0,820,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14460C>T	p.Phe4820Phe	14460/21291	14460/21291	4820/7096	4820	7096		",T"	F4820F	C14724T	F4820F	ORF1AB:F4820F	419	ORF1b	F419F	ORF1B:F419F	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	15216	.	CA	C	1936	PASS	1864	0.042918	0	"1784,0,80,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14955delA	p.Lys4985fs	14955/21291	14955/21291	4985/7096	4985	7096		"INFO_REALIGN_3_PRIME,C"	del4985	CA15216C	del4985	ORF1AB:DEL4985	584	ORF1b	del584	ORF1B:DEL584	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	15290	.	G	A	4993	PASS	1189	0.195122	0	"956,0,232,0"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15026G>A	p.Trp5009*	15026/21291	15026/21291	5009/7096	5009	7096		",A"	W5009*	G15290A	W5009*	ORF1AB:W5009*	608	ORF1b	W608*	ORF1B:W608*	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	15324	.	C	T	1571	PASS	1068	0.098315	0	"960,0,105,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	15421	.	CAAG	C	3551	PASS	1146	0.116056	0	"1016,0,133,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15158_15160delAAG	p.Gln5053_Val5054delinsLeu	15158/21291	15158/21291	5053/7096	5053	7096		",C"	indel	CAAG15421C	NA	NA	NA	ORF1b	NA	NA	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	15517	.	G	GT	3823	PASS	1189	0.117746	0	"1062,0,140,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15258dupT	p.Asn5087fs	15259/21291	15259/21291	5087/7096	5087	7096		"INFO_REALIGN_3_PRIME,GT"	del5087	G15517GT	del5087	ORF1AB:DEL5087	686	ORF1b	del686	ORF1B:DEL686	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	15766	.	G	T	13385	PASS	904	0.522124	0	"432,0,472,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	15965	.	G	GT	113	PASS	18	0.222222	0	"14,0,4,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15705dupT	p.Val5236fs	15706/21291	15706/21291	5236/7096	5236	7096		"INFO_REALIGN_3_PRIME,GT"	del5236	G15965GT	del5236	ORF1AB:DEL5236	835	ORF1b	del835	ORF1B:DEL835	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	15976	.	G	T	77	PASS	19	0.210526	0	"15,0,4,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15712G>T	p.Asp5238Tyr	15712/21291	15712/21291	5238/7096	5238	7096		",T"	D5238Y	G15976T	D5238Y	ORF1AB:D5238Y	837	ORF1b	D837Y	ORF1B:D837Y	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	16618	.	G	A	14824	PASS	4617	0.158978	0	"3869,0,734,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16354G>A	p.Glu5452Lys	16354/21291	16354/21291	5452/7096	5452	7096		",A"	E5452K	G16618A	E5452K	ORF1AB:E5452K	1051	ORF1b	E1051K	ORF1B:E1051K	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	16639	.	G	A	2259	PASS	4314	0.044043	0	"4111,0,190,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16375G>A	p.Ala5459Thr	16375/21291	16375/21291	5459/7096	5459	7096		",A"	A5459T	G16639A	A5459T	ORF1AB:A5459T	1058	ORF1b	A1058T	ORF1B:A1058T	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	16795	.	G	T	10343	PASS	4383	0.130048	0	"3809,0,570,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16531G>T	p.Val5511Leu	16531/21291	16531/21291	5511/7096	5511	7096		",T"	V5511L	G16795T	V5511L	ORF1AB:V5511L	1110	ORF1b	V1110L	ORF1B:V1110L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	16889	.	A	G	49314	PASS	3502	0.535694	0	"1618,0,1876,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	17019	.	G	T	23927	PASS	1716	0.497086	0	"861,0,853,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	17670	.	T	C	11757	PASS	2212	0.253165	0	"1643,0,560,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17406T>C	p.Gly5802Gly	17406/21291	17406/21291	5802/7096	5802	7096		",C"	G5802G	T17670C	G5802G	ORF1AB:G5802G	1401	ORF1b	G1401G	ORF1B:G1401G	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	17977	.	CT	C	48	PASS	3128	0.001279	0	"3124,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17716delT	p.Tyr5906fs	17716/21291	17716/21291	5906/7096	5906	7096		"INFO_REALIGN_3_PRIME,C"	del5906	CT17977C	del5906	ORF1AB:DEL5906	1505	ORF1b	del1505	ORF1B:DEL1505	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	18697	.	G	A	93	PASS	1247	0.013633	0	"1228,0,17,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18433G>A	p.Ala6145Thr	18433/21291	18433/21291	6145/7096	6145	7096		",A"	A6145T	G18697A	A6145T	ORF1AB:A6145T	1744	ORF1b	A1744T	ORF1B:A1744T	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	18806	.	A	T	14194	PASS	1987	0.338702	0	"1306,0,673,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18542A>T	p.Asn6181Ile	18542/21291	18542/21291	6181/7096	6181	7096		",T"	N6181I	A18806T	N6181I	ORF1AB:N6181I	1780	ORF1b	N1780I	ORF1B:N1780I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	18877	.	C	T	49314	PASS	2223	0.995502	0	"1,0,2213,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	20376	.	T	C	118	PASS	445	0.029213	0	"430,0,13,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20112T>C	p.Ile6704Ile	20112/21291	20112/21291	6704/7096	6704	7096		",C"	I6704I	T20376C	I6704I	ORF1AB:I6704I	2303	ORF1b	I2303I	ORF1B:I2303I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	20454	.	T	C	120	PASS	1110	0.020721	0	"1083,0,23,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20190T>C	p.Tyr6730Tyr	20190/21291	20190/21291	6730/7096	6730	7096		",C"	Y6730Y	T20454C	Y6730Y	ORF1AB:Y6730Y	2329	ORF1b	Y2329Y	ORF1B:Y2329Y	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	20754	.	T	C	2628	PASS	2294	0.075414	0	"2113,0,173,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20490T>C	p.Asp6830Asp	20490/21291	20490/21291	6830/7096	6830	7096		",C"	D6830D	T20754C	D6830D	ORF1AB:D6830D	2429	ORF1b	D2429D	ORF1B:D2429D	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	22992	.	G	A	10446	PASS	305	1	2147483647	"0,0,305,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	23351	.	GT	G	56	PASS	567	0.005291	0	"570,0,3,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1791delT	p.Ile598fs	1791/3822	1791/3822	597/1273	597	1273		"INFO_REALIGN_3_PRIME,G"	del598	GT23351G	del598	S:DEL598	598	S	del598	S:DEL598	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	23393	.	C	T	2837	PASS	564	0.239362	0	"424,0,135,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1831C>T	p.Leu611Phe	1831/3822	1831/3822	611/1273	611	1273		",T"	L611F	C23393T	L611F	S:L611F	611	S	L611F	S:L611F	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	23403	.	A	G	20029	PASS	592	0.996622	2147483647	"0,0,590,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25225	.	A	C	67	PASS	1168	0.018836	0	"1137,0,22,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25228	.	T	G	75	PASS	1169	0.023952	0	"1138,0,28,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25277	.	A	T	91	PASS	1264	0.029272	0	"1212,0,37,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25286	.	A	T	90	PASS	1327	0.030143	0	"1267,0,40,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25289	.	T	G	70	PASS	1306	0.026034	0	"1266,0,34,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25296	.	A	C	264	PASS	1324	0.053625	0	"1210,0,71,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25296	.	A	T	83	PASS	1324	0.031722	0	"1210,0,42,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25301	.	T	G	105	PASS	1301	0.033051	0	"1257,0,43,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25312	.	T	G	74	PASS	1357	0.026529	0	"1320,0,36,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25324	.	C	A	634	PASS	1347	0.076466	0	"1242,0,103,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25327	.	A	T	69	PASS	1323	0.025699	0	"1289,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25336	.	A	C	224	PASS	1301	0.056111	0	"1210,0,73,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25505	.	A	G	12325	PASS	1111	0.418542	0	"640,0,465,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25563	.	G	T	19379	PASS	1044	0.621648	0	"395,0,649,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25710	.	C	T	14183	PASS	652	0.705521	0	"192,0,460,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25906	.	G	C	1228	PASS	349	0.169054	0	"288,0,59,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	25996	.	G	T	1279	PASS	414	0.169082	0	"342,0,70,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	26598	.	T	C	20277	PASS	3178	0.270296	0	"2312,0,859,0"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.76T>C	p.Phe26Leu	76/669	76/669	26/222	26	222		",C"	F26L	T26598C	F26L	M:F26L	26	M	F26L	M:F26L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	26735	.	C	T	49314	PASS	2557	0.739539	0	"663,0,1891,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	26761	.	T	C	14353	PASS	2441	0.255633	0	"1813,0,624,0"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.239T>C	p.Ile80Thr	239/669	239/669	80/222	80	222		",C"	I80T	T26761C	I80T	M:I80T	80	M	I80T	M:I80T	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	26801	.	C	T	7712	PASS	2080	0.172596	0	"1718,0,359,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>T	p.Leu93Leu	279/669	279/669	93/222	93	222		",T"	L93L	C26801T	L93L	M:L93L	93	M	L93L	M:L93L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	26876	.	T	C	24066	PASS	1080	0.728704	0	"290,0,787,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	27551	.	A	G	3007	PASS	2011	0.090502	0	"1828,0,182,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.158A>G	p.Lys53Arg	158/366	158/366	53/121	53	121		",G"	K53R	A27551G	K53R	ORF7A:K53R	53	ORF7a	K53R	ORF7A:K53R	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	27707	.	C	T	11152	PASS	2478	0.218725	0	"1922,0,542,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	27881	.	C	T	8081	PASS	2105	0.188599	0	"1705,0,397,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	27882	.	G	C	7897	PASS	2099	0.181991	0	"1703,0,382,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.127G>C	p.Ala43Pro	127/132	127/132	43/43	43	43		",C"	A43P	G27882C	A43P	ORF7B:A43P	43	ORF7b	A43P	ORF7B:A43P	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	27883	.	C	T	7955	PASS	2103	0.183072	0	"1714,0,385,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.128C>T	p.Ala43Val	128/132	128/132	43/43	43	43		",T"	A43V	C27883T	A43V	ORF7B:A43V	43	ORF7b	A43V	ORF7B:A43V	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	27944	.	C	T	6497	PASS	1902	0.168244	0	"1577,0,320,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28087	.	C	G	9055	PASS	764	0.434555	0	"432,0,332,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.194C>G	p.Ala65Gly	194/366	194/366	65/121	65	121		",G"	A65G	C28087G	A65G	ORF8:A65G	65	ORF8	A65G	ORF8:A65G	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28088	.	T	C	121	PASS	764	0.030105	0	"739,0,23,0"	FALSE	C	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.195T>C	p.Ala65Ala	195/366	195/366	65/121	65	121		",C"	A65A	T28088C	A65A	ORF8:A65A	65	ORF8	A65A	ORF8:A65A	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28558	.	T	C	272	PASS	2953	0.020996	0	"2867,0,62,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.285T>C	p.Arg95Arg	285/1260	285/1260	95/419	95	419		",C"	R95R	T28558C	R95R	N:R95R	95	N	R95R	N:R95R	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28651	.	C	T	7160	PASS	3481	0.117495	0	"3060,0,409,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28748	.	C	T	1638	PASS	5299	0.032836	0	"5116,0,174,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.475C>T	p.Leu159Leu	475/1260	475/1260	159/419	159	419		",T"	L159L	C28748T	L159L	N:L159L	159	N	L159L	N:L159L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28851	.	G	T	8011	PASS	5206	0.09854	0	"4684,0,513,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.578G>T	p.Ser193Ile	578/1260	578/1260	193/419	193	419		",T"	S193I	G28851T	S193I	N:S193I	193	N	S193I	N:S193I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28869	.	C	T	8630	PASS	5131	0.10154	0	"4600,0,521,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28881	.	G	A	27433	PASS	4910	0.251935	0	"3656,0,1237,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28882	.	G	A	26207	PASS	4915	0.250254	0	"3660,0,1230,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28883	.	G	C	28572	PASS	4908	0.254075	0	"3640,0,1247,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28975	.	G	C	49314	PASS	4802	0.597251	0	"1928,0,2868,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28977	.	C	T	23130	PASS	4616	0.220321	0	"3592,0,1017,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28978	.	T	A	23210	PASS	4616	0.221404	0	"3590,0,1022,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG38-3	NC_045512.2	28987	.	CCAA	C	176	PASS	4412	0.00272	0	"4422,0,12,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG38-3	BEGGEN	2020-12-17T00:00:00Z	31.59075	33.87666667	x	1022021	2020-12-17
BEG42-1	NC_045512.2	174	.	G	T	7088	PASS	2503	0.145425	0	"2136,0,364,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-92G>T						NA	92	",T"		G174T		NA	NA	NA		NA	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	190	.	C	A	1764	PASS	2827	0.05023	0	"2683,0,142,0"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-76C>A						NA	76	",A"		C190A		NA	NA	NA		NA	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	204	.	G	T	8564	PASS	2970	0.145118	0	"2534,0,431,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	240	.	TC	T	48	PASS	3354	0.001193	0	"3382,0,4,0"	TRUE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25delC						NA	25	",T"	del	TC240T	del	ORF1AB:DEL	NA	NA	del	NA:DEL	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	241	.	C	T	49314	PASS	3356	0.996126	0	"3,0,3343,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	434	.	GA	G	53	PASS	3556	0.001406	0	"3563,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	445	.	T	C	49314	PASS	3691	0.525603	0	"1748,0,1940,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	487	.	G	T	6817	PASS	3651	0.108463	0	"3254,0,396,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.222G>T	p.Ser74Ser	222/21291	222/21291	74/7096	74	7096		",T"	S74S	G487T	S74S	ORF1AB:S74S	74	ORF1a	S74S	ORF1A:S74S	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	539	.	C	T	5782	PASS	3386	0.101004	0	"3043,0,342,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.274C>T	p.Leu92Phe	274/21291	274/21291	92/7096	92	7096		",T"	L92F	C539T	L92F	ORF1AB:L92F	92	ORF1a	L92F	ORF1A:L92F	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	564	.	G	A	9179	PASS	3369	0.136836	0	"2902,0,461,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.299G>A	p.Ser100Asn	299/21291	299/21291	100/7096	100	7096		",A"	S100N	G564A	S100N	ORF1AB:S100N	100	ORF1a	S100N	ORF1A:S100N	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	802	.	A	C	135	PASS	2432	0.011102	0	"2400,0,27,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	823	.	C	T	5742	PASS	2172	0.133517	0	"1876,0,290,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	1291	.	AT	A	101	PASS	2365	0.00296	0	"2359,0,7,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1030delT	p.Cys344fs	1030/21291	1030/21291	344/7096	344	7096		"INFO_REALIGN_3_PRIME,A"	del344	AT1291A	del344	ORF1AB:DEL344	344	ORF1a	del344	ORF1A:DEL344	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	1781	.	T	G	10825	PASS	2387	0.201927	0	"1900,0,482,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1516T>G	p.Cys506Gly	1516/21291	1516/21291	506/7096	506	7096		",G"	C506G	T1781G	C506G	ORF1AB:C506G	506	ORF1a	C506G	ORF1A:C506G	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	2407	.	G	A	2712	PASS	325	0.32	0	"221,0,104,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2142G>A	p.Lys714Lys	2142/21291	2142/21291	714/7096	714	7096		",A"	K714K	G2407A	K714K	ORF1AB:K714K	714	ORF1a	K714K	ORF1A:K714K	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	2416	.	C	T	2987	PASS	423	0.281324	0	"304,0,119,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	2692	.	A	T	12177	PASS	1477	0.327014	0	"994,0,483,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2427A>T	p.Thr809Thr	2427/21291	2427/21291	809/7096	809	7096		",T"	T809T	A2692T	T809T	ORF1AB:T809T	809	ORF1a	T809T	ORF1A:T809T	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	3037	.	C	T	48230	PASS	1407	0.996446	0	"1,0,1402,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	3602	.	C	T	154	PASS	254	0.047244	0	"241,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	3743	.	C	T	178	PASS	191	0.073298	0	"176,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3478C>T	p.His1160Tyr	3478/21291	3478/21291	1160/7096	1160	7096		",T"	H1160Y	C3743T	H1160Y	ORF1AB:H1160Y	1160	ORF1a	H1160Y	ORF1A:H1160Y	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	3924	.	C	T	406	PASS	77	0.246753	0	"58,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3659C>T	p.Pro1220Leu	3659/21291	3659/21291	1220/7096	1220	7096		",T"	P1220L	C3924T	P1220L	ORF1AB:P1220L	1220	ORF1a	P1220L	ORF1A:P1220L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	4321	.	C	CT	102	PASS	119	0.033613	0	"115,0,4,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4060dupT	p.Tyr1354fs	4061/21291	4061/21291	1354/7096	1354	7096		"INFO_REALIGN_3_PRIME,CT"	del1354	C4321CT	del1354	ORF1AB:DEL1354	1354	ORF1a	del1354	ORF1A:DEL1354	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	4767	.	T	C	914	PASS	988	0.067814	0	"921,0,67,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4502T>C	p.Phe1501Ser	4502/21291	4502/21291	1501/7096	1501	7096		",C"	F1501S	T4767C	F1501S	ORF1AB:F1501S	1501	ORF1a	F1501S	ORF1A:F1501S	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	5065	.	TG	T	12620	PASS	2378	0.181245	0	"1963,0,431,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4802delG	p.Gly1601fs	4802/21291	4802/21291	1601/7096	1601	7096		"INFO_REALIGN_3_PRIME,T"	del1601	TG5065T	del1601	ORF1AB:DEL1601	1601	ORF1a	del1601	ORF1A:DEL1601	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	5100	.	C	T	8605	PASS	2386	0.17938	0	"1955,0,428,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4835C>T	p.Ser1612Leu	4835/21291	4835/21291	1612/7096	1612	7096		",T"	S1612L	C5100T	S1612L	ORF1AB:S1612L	1612	ORF1a	S1612L	ORF1A:S1612L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	5230	.	G	T	8118	PASS	2182	0.181485	0	"1782,0,396,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4965G>T	p.Lys1655Asn	4965/21291	4965/21291	1655/7096	1655	7096		",T"	K1655N	G5230T	K1655N	ORF1AB:K1655N	1655	ORF1a	K1655N	ORF1A:K1655N	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	5866	.	C	T	3206	PASS	112	0.848214	0	"16,0,95,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5601C>T	p.Phe1867Phe	5601/21291	5601/21291	1867/7096	1867	7096		",T"	F1867F	C5866T	F1867F	ORF1AB:F1867F	1867	ORF1a	F1867F	ORF1A:F1867F	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	5884	.	C	T	1286	PASS	264	0.200758	0	"210,0,53,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	6262	.	TA	T	48	PASS	1082	0.002773	0	"1079,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6000delA	p.Ala2001fs	6000/21291	6000/21291	2000/7096	2000	7096		"INFO_REALIGN_3_PRIME,T"	del2001	TA6262T	del2001	ORF1AB:DEL2001	2001	ORF1a	del2001	ORF1A:DEL2001	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	6286	.	C	T	5936	PASS	1095	0.243836	0	"827,0,267,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	7203	.	CT	C	232	PASS	362	0.027624	0	"352,0,10,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6942delT	p.Phe2314fs	6942/21291	6942/21291	2314/7096	2314	7096		"INFO_REALIGN_3_PRIME,C"	del2314	CT7203C	del2314	ORF1AB:DEL2314	2314	ORF1a	del2314	ORF1A:DEL2314	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	8618	.	G	A	419	PASS	150	0.153333	0	"127,0,23,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	8756	.	C	T	1527	PASS	222	0.288288	0	"157,0,64,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8491C>T	p.His2831Tyr	8491/21291	8491/21291	2831/7096	2831	7096		",T"	H2831Y	C8756T	H2831Y	ORF1AB:H2831Y	2831	ORF1a	H2831Y	ORF1A:H2831Y	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	9526	.	G	T	8735	PASS	1162	0.316695	0	"793,0,368,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	9583	.	TG	T	14246	PASS	1293	0.36891	0	"816,0,477,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9319delG	p.Val3107fs	9319/21291	9319/21291	3107/7096	3107	7096		",T"	del3107	TG9583T	del3107	ORF1AB:DEL3107	3107	ORF1a	del3107	ORF1A:DEL3107	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	9954	.	CTTG	C	8038	PASS	865	0.282081	0	"621,0,244,0"	TRUE	C	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9694_9696delTGT	p.Cys3232del	9694/21291	9694/21291	3232/7096	3232	7096		"INFO_REALIGN_3_PRIME,C"	del3232	CTTG9954C	del3232	ORF1AB:DEL3232	3232	ORF1a	del3232	ORF1A:DEL3232	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	10426	.	TG	T	1700	PASS	208	0.331731	0	"139,0,69,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10162delG	p.Val3388fs	10162/21291	10162/21291	3388/7096	3388	7096		",T"	del3388	TG10426T	del3388	ORF1AB:DEL3388	3388	ORF1a	del3388	ORF1A:DEL3388	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	12664	.	C	CA	13896	PASS	2960	0.163176	0	"2477,0,483,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12401dupA	p.Asn4134fs	12402/21291	12402/21291	4134/7096	4134	7096		"INFO_REALIGN_3_PRIME,CA"	del4134	C12664CA	del4134	ORF1AB:DEL4134	4134	ORF1a	del4134	ORF1A:DEL4134	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	12741	.	C	T	7723	PASS	3019	0.135144	0	"2606,0,408,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12476C>T	p.Thr4159Ile	12476/21291	12476/21291	4159/7096	4159	7096		",T"	T4159I	C12741T	T4159I	ORF1AB:T4159I	4159	ORF1a	T4159I	ORF1A:T4159I	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	12777	.	A	C	5190	PASS	3170	0.101577	0	"2846,0,322,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12512A>C	p.Tyr4171Ser	12512/21291	12512/21291	4171/7096	4171	7096		",C"	Y4171S	A12777C	Y4171S	ORF1AB:Y4171S	4171	ORF1a	Y4171S	ORF1A:Y4171S	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	12832	.	GGATT	G	10285	PASS	3279	0.114669	0	"2938,0,376,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12568_12571delGATT	p.Asp4190fs	12568/21291	12568/21291	4190/7096	4190	7096		",G"	del4190	GGATT12832G	del4190	ORF1AB:DEL4190	4190	ORF1a	del4190	ORF1A:DEL4190	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	12847	.	TAG	T	10609	PASS	3675	0.103673	0	"3294,0,381,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12584_12585delGA	p.Arg4195fs	12584/21291	12584/21291	4195/7096	4195	7096		"INFO_REALIGN_3_PRIME,T"	del4195	TAG12847T	del4195	ORF1AB:DEL4195	4195	ORF1a	del4195	ORF1A:DEL4195	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	13105	.	CA	C	27711	PASS	3690	0.237398	0	"2814,0,876,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12843delA	p.Asp4282fs	12843/21291	12843/21291	4281/7096	4281	7096		"INFO_REALIGN_3_PRIME,C"	del4282	CA13105C	del4282	ORF1AB:DEL4282	4282	ORF1a	del4282	ORF1A:DEL4282	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	13481	.	TA	T	1632	PASS	3202	0.132417	0	"2779,0,424,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13208delA	p.Cys4404fs	13208/21291	13208/21291	4403/7096	4403	7096		"INFO_REALIGN_3_PRIME,T"	del4404	TA13481T	del4404	ORF1AB:DEL4404	3	ORF1b	del3	ORF1B:DEL3	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	13484	.	G	C	1726	PASS	3097	0.13723	0	"2637,0,425,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13220G>C	p.Ser4407Thr	13220/21291	13220/21291	4407/7096	4407	7096		",C"	S4407T	G13484C	S4407T	ORF1AB:S4407T	6	ORF1b	S6T	ORF1B:S6T	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	13630	.	A	G	285	PASS	2485	0.017304	0	"2441,0,43,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13366A>G	p.Asn4456Asp	13366/21291	13366/21291	4456/7096	4456	7096		",G"	N4456D	A13630G	N4456D	ORF1AB:N4456D	55	ORF1b	N55D	ORF1B:N55D	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	13945	.	C	T	12339	PASS	2695	0.214471	0	"2108,0,578,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13681C>T	p.Pro4561Ser	13681/21291	13681/21291	4561/7096	4561	7096		",T"	P4561S	C13945T	P4561S	ORF1AB:P4561S	160	ORF1b	P160S	ORF1B:P160S	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	14408	.	C	T	1044	PASS	29	1	2147483647	"0,0,29,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	14676	.	C	T	13372	PASS	1508	0.349469	0	"974,0,527,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	14865	.	T	C	363	PASS	2409	0.024076	0	"2345,0,58,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14601T>C	p.Val4867Val	14601/21291	14601/21291	4867/7096	4867	7096		",C"	V4867V	T14865C	V4867V	ORF1AB:V4867V	466	ORF1b	V466V	ORF1B:V466V	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	15082	.	A	AT	110	PASS	2036	0.003438	0	"2034,0,7,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14820dupT	p.Ser4941fs	14821/21291	14821/21291	4941/7096	4941	7096		"INFO_REALIGN_3_PRIME,AT"	del4941	A15082AT	del4941	ORF1AB:DEL4941	540	ORF1b	del540	ORF1B:DEL540	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	15157	.	CA	C	2864	PASS	2051	0.057533	0	"1933,0,118,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14898delA	p.Lys4966fs	14898/21291	14898/21291	4966/7096	4966	7096		"INFO_REALIGN_3_PRIME,C"	del4966	CA15157C	del4966	ORF1AB:DEL4966	565	ORF1b	del565	ORF1B:DEL565	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	15279	.	C	T	8806	PASS	1314	0.294521	0	"924,0,387,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	15324	.	C	T	3331	PASS	813	0.200492	0	"648,0,163,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	15357	.	T	C	3428	PASS	443	0.316027	0	"301,0,140,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15093T>C	p.Ala5031Ala	15093/21291	15093/21291	5031/7096	5031	7096		",C"	A5031A	T15357C	A5031A	ORF1AB:A5031A	630	ORF1b	A630A	ORF1B:A630A	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	15766	.	G	T	123	PASS	565	0.026549	0	"550,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	15925	.	C	T	957	PASS	90	0.4	0	"54,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15661C>T	p.Leu5221Phe	15661/21291	15661/21291	5221/7096	5221	7096		",T"	L5221F	C15925T	L5221F	ORF1AB:L5221F	820	ORF1b	L820F	ORF1B:L820F	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	17013	.	A	G	443	PASS	848	0.043632	0	"809,0,37,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16749A>G	p.Ser5583Ser	16749/21291	16749/21291	5583/7096	5583	7096		",G"	S5583S	A17013G	S5583S	ORF1AB:S5583S	1182	ORF1b	S1182S	ORF1B:S1182S	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	17019	.	G	T	203	PASS	809	0.023486	0	"790,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	18486	.	C	T	4209	PASS	599	0.290484	0	"424,0,174,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18222C>T	p.Leu6074Leu	18222/21291	18222/21291	6074/7096	6074	7096		",T"	L6074L	C18486T	L6074L	ORF1AB:L6074L	1673	ORF1b	L1673L	ORF1B:L1673L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	18749	.	AT	A	50	PASS	2074	0.001929	0	"2070,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18486delT	p.Tyr6162fs	18486/21291	18486/21291	6162/7096	6162	7096		",A"	del6162	AT18749A	del6162	ORF1AB:DEL6162	1761	ORF1b	del1761	ORF1B:DEL1761	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	18877	.	C	T	123	PASS	1918	0.011992	0	"1891,0,23,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	19486	.	G	T	4787	PASS	1965	0.129262	0	"1711,0,254,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19222G>T	p.Val6408Phe	19222/21291	19222/21291	6408/7096	6408	7096		",T"	V6408F	G19486T	V6408F	ORF1AB:V6408F	2007	ORF1b	V2007F	ORF1B:V2007F	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	19857	.	T	C	3697	PASS	1906	0.1149	0	"1684,0,219,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19593T>C	p.Ile6531Ile	19593/21291	19593/21291	6531/7096	6531	7096		",C"	I6531I	T19857C	I6531I	ORF1AB:I6531I	2130	ORF1b	I2130I	ORF1B:I2130I	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	20661	.	T	C	27967	PASS	3590	0.319499	0	"2440,0,1147,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20397T>C	p.Ser6799Ser	20397/21291	20397/21291	6799/7096	6799	7096		",C"	S6799S	T20661C	S6799S	ORF1AB:S6799S	2398	ORF1b	S2398S	ORF1B:S2398S	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21057	.	C	T	6797	PASS	3314	0.123416	0	"2894,0,409,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20793C>T	p.Asp6931Asp	20793/21291	20793/21291	6931/7096	6931	7096		",T"	D6931D	C21057T	D6931D	ORF1AB:D6931D	2530	ORF1b	D2530D	ORF1B:D2530D	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21101	.	GT	G	61	PASS	2732	0.002928	0	"2734,0,8,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843delT	p.Phe6948fs	20843/21291	20843/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,G"	del6948	GT21101G	del6948	ORF1AB:DEL6948	2547	ORF1b	del2547	ORF1B:DEL2547	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21156	.	C	T	221	PASS	2347	0.017895	0	"2294,0,42,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20892C>T	p.Ser6964Ser	20892/21291	20892/21291	6964/7096	6964	7096		",T"	S6964S	C21156T	S6964S	ORF1AB:S6964S	2563	ORF1b	S2563S	ORF1B:S2563S	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21255	.	G	C	14658	PASS	2740	0.229927	0	"2102,0,630,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21295	.	G	T	18676	PASS	3030	0.265016	0	"2221,0,803,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21031G>T	p.Gly7011Cys	21031/21291	21031/21291	7011/7096	7011	7096		",T"	G7011C	G21295T	G7011C	ORF1AB:G7011C	2610	ORF1b	G2610C	ORF1B:G2610C	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21331	.	C	T	15694	PASS	3037	0.227856	0	"2338,0,692,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21067C>T	p.His7023Tyr	21067/21291	21067/21291	7023/7096	7023	7096		",T"	H7023Y	C21331T	H7023Y	ORF1AB:H7023Y	2622	ORF1b	H2622Y	ORF1B:H2622Y	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21586	.	GC	G	71	PASS	2352	0.002126	0	"2373,0,5,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.26delC	p.Pro9fs	26/3822	26/3822	9/1273	9	1273		"INFO_REALIGN_3_PRIME,G"	del9	GC21586G	del9	S:DEL9	9	S	del9	S:DEL9	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21764	.	ATACATG	A	3819	PASS	933	0.145766	0	"801,0,136,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21800	.	G	C	6802	PASS	1148	0.261324	0	"845,0,300,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.238G>C	p.Asp80His	238/3822	238/3822	80/1273	80	1273		",C"	D80H	G21800C	D80H	S:D80H	80	S	D80H	S:D80H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21801	.	A	C	4805	PASS	1167	0.203085	0	"927,0,237,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.239A>C	p.Asp80Ala	239/3822	239/3822	80/1273	80	1273		",C"	D80A	A21801C	D80A	S:D80A	80	S	D80A	S:D80A	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	21807	.	C	A	5481	PASS	1217	0.204601	0	"968,0,249,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.245C>A	p.Pro82His	245/3822	245/3822	82/1273	82	1273		",A"	P82H	C21807A	P82H	S:P82H	82	S	P82H	S:P82H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	22127	.	C	T	4526	PASS	1142	0.181261	0	"933,0,207,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.565C>T	p.Leu189Phe	565/3822	565/3822	189/1273	189	1273		",T"	L189F	C22127T	L189F	S:L189F	189	S	L189F	S:L189F	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	22206	.	A	G	3201	PASS	820	0.17561	0	"675,0,144,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.644A>G	p.Asp215Gly	644/3822	644/3822	215/1273	215	1273		",G"	D215G	A22206G	D215G	S:D215G	215	S	D215G	S:D215G	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	22216	.	G	A	2911	PASS	745	0.185235	0	"607,0,138,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.654G>A	p.Gln218Gln	654/3822	654/3822	218/1273	218	1273		",A"	Q218Q	G22216A	Q218Q	S:Q218Q	218	S	Q218Q	S:Q218Q	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	22218	.	GT	G	87	PASS	706	0.007082	0	"728,0,5,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.661delT	p.Ser221fs	661/3822	661/3822	221/1273	221	1273		"INFO_REALIGN_3_PRIME,G"	del221	GT22218G	del221	S:DEL221	221	S	del221	S:DEL221	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	22227	.	C	T	5618	PASS	637	0.384615	0	"387,0,245,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	22252	.	A	T	98	PASS	460	0.026087	0	"448,0,12,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.690A>T	p.Pro230Pro	690/3822	690/3822	230/1273	230	1273		",T"	P230P	A22252T	P230P	S:P230P	230	S	P230P	S:P230P	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	22255	.	AG	A	1572	PASS	452	0.117257	0	"399,0,53,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.695delG	p.Gly232fs	695/3822	695/3822	232/1273	232	1273		"INFO_REALIGN_3_PRIME,A"	del232	AG22255A	del232	S:DEL232	232	S	del232	S:DEL232	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	22280	.	ACTTTACTTG	A	318	PASS	266	0.045113	0	"271,0,12,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.725_733delTTGCTTTAC	p.Leu242_Leu244del	725/3822	725/3822	242/1273	242	1273		"INFO_REALIGN_3_PRIME,A"	del242/244	ACTTTACTTG22280A	del242/244	S:DEL242/244	242/244	S	del242/244	S:DEL242/244	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	23403	.	A	G	20690	PASS	626	0.992013	2147483647	"0,0,621,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	24506	.	T	G	1149	PASS	1193	0.067896	0	"1111,0,81,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25000	.	C	T	4641	PASS	1771	0.137211	0	"1525,0,243,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3438C>T	p.Asp1146Asp	3438/3822	3438/3822	1146/1273	1146	1273		",T"	D1146D	C25000T	D1146D	S:D1146D	1146	S	D1146D	S:D1146D	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25170	.	T	C	647	PASS	1919	0.035956	0	"1847,0,69,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3608T>C	p.Leu1203Pro	3608/3822	3608/3822	1203/1273	1203	1273		",C"	L1203P	T25170C	L1203P	S:L1203P	1203	S	L1203P	S:L1203P	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25186	.	G	T	261	PASS	1976	0.018725	0	"1938,0,37,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3624G>T	p.Gln1208His	3624/3822	3624/3822	1208/1273	1208	1273		",T"	Q1208H	G25186T	Q1208H	S:Q1208H	1208	S	Q1208H	S:Q1208H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25247	.	A	T	79	PASS	2210	0.017647	0	"2168,0,39,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25254	.	C	A	74	PASS	2342	0.014944	0	"2304,0,35,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25256	.	A	T	76	PASS	2349	0.015326	0	"2312,0,36,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3694A>T	p.Ile1232Phe	3694/3822	3694/3822	1232/1273	1232	1273		",T"	I1232F	A25256T	I1232F	S:I1232F	1232	S	I1232F	S:I1232F	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25277	.	A	T	126	PASS	2234	0.025962	0	"2149,0,58,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25286	.	A	T	84	PASS	2346	0.023444	0	"2266,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25296	.	A	C	147	PASS	2337	0.032092	0	"2206,0,75,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25301	.	T	G	142	PASS	2310	0.029437	0	"2240,0,68,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25312	.	T	G	214	PASS	2408	0.034053	0	"2322,0,82,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25314	.	G	T	90	PASS	2406	0.024938	0	"2338,0,60,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25324	.	C	A	1064	PASS	2439	0.073391	0	"2258,0,179,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25327	.	A	T	130	PASS	2414	0.024855	0	"2353,0,60,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25336	.	A	C	373	PASS	2387	0.052786	0	"2242,0,126,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25337	.	G	C	68	PASS	2306	0.024718	0	"2245,0,57,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25563	.	G	T	22887	PASS	1861	0.446534	0	"1030,0,831,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25589	.	A	G	3307	PASS	1952	0.101947	0	"1747,0,199,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.197A>G	p.Lys66Arg	197/828	197/828	66/275	66	275		",G"	K66R	A25589G	K66R	ORF3A:K66R	66	ORF3a	K66R	ORF3A:K66R	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25703	.	CT	C	917	PASS	1098	0.035519	0	"1059,0,39,0"	TRUE	C	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.315delT	p.Leu106fs	315/828	315/828	105/275	105	275		"INFO_REALIGN_3_PRIME,C"	del106	CT25703C	del106	ORF3A:DEL106	106	ORF3a	del106	ORF3A:DEL106	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25710	.	C	T	8390	PASS	1018	0.327112	0	"683,0,333,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25906	.	G	C	205	PASS	328	0.057927	0	"307,0,19,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	25996	.	G	T	284	PASS	362	0.060773	0	"340,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	26038	.	T	C	761	PASS	330	0.121212	0	"290,0,40,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	26059	.	A	G	1450	PASS	339	0.215339	0	"265,0,73,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.667A>G	p.Thr223Ala	667/828	667/828	223/275	223	275		",G"	T223A	A26059G	T223A	ORF3A:T223A	223	ORF3a	T223A	ORF3A:T223A	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	26801	.	C	G	49314	PASS	1934	0.893485	0	"206,0,1728,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	26895	.	C	T	2053	PASS	868	0.137097	0	"745,0,119,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.373C>T	p.His125Tyr	373/669	373/669	125/222	125	222		",T"	H125Y	C26895T	H125Y	M:H125Y	125	M	H125Y	M:H125Y	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	26951	.	G	T	1050	PASS	509	0.117878	0	"449,0,60,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	26972	.	T	C	976	PASS	568	0.102113	0	"509,0,58,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	27146	.	A	T	977	PASS	1128	0.064716	0	"1052,0,73,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.624A>T	p.Thr208Thr	624/669	624/669	208/222	208	222		",T"	T208T	A27146T	T208T	M:T208T	208	M	T208T	M:T208T	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	27881	.	C	T	860	PASS	1741	0.043079	0	"1660,0,75,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	27944	.	C	T	9931	PASS	1625	0.255385	0	"1206,0,415,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28038	.	G	T	2881	PASS	946	0.153277	0	"799,0,145,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.145G>T	p.Val49Leu	145/366	145/366	49/121	49	121		",T"	V49L	G28038T	V49L	ORF8:V49L	49	ORF8	V49L	ORF8:V49L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28253	.	CA	C	5051	PASS	966	0.177019	0	"795,0,171,0"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361delA	p.Ile121fs	361/366	361/366	121/121	121	121		",C"	del121	CA28253C	del121	ORF8:DEL121	121	ORF8	del121	ORF8:DEL121	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28254	.	A	C	134	PASS	1007	0.02284	0	"811,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28270	.	TA	T	3409	PASS	1318	0.110774	0	"1172,0,146,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28280	.	G	C	2541	PASS	1338	0.110613	0	"1189,0,148,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28281	.	A	T	2622	PASS	1354	0.109306	0	"1206,0,148,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28282	.	T	A	2319	PASS	1380	0.116667	0	"1218,0,161,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28300	.	G	T	2987	PASS	1529	0.114454	0	"1353,0,175,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28651	.	C	T	22828	PASS	2980	0.30906	0	"2055,0,921,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28729	.	TA	T	57	PASS	4368	0.001145	0	"4363,0,5,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.458delA	p.Asn153fs	458/1260	458/1260	153/419	153	419		"INFO_REALIGN_3_PRIME,T"	del153	TA28729T	del153	N:DEL153	153	N	del153	N:DEL153	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28869	.	C	T	31470	PASS	4219	0.304812	0	"2919,0,1286,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28932	.	C	T	49314	PASS	4179	0.702321	0	"1232,0,2935,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	28987	.	CCAA	C	77	PASS	3709	0.001618	0	"3730,0,6,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	29190	.	A	G	916	PASS	993	0.063444	0	"927,0,63,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.917A>G	p.Gln306Arg	917/1260	917/1260	306/419	306	419		",G"	Q306R	A29190G	Q306R	N:Q306R	306	N	Q306R	N:Q306R	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG42-1	NC_045512.2	29195	.	GC	G	4003	PASS	894	0.155481	0	"759,0,139,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.927delC	p.Ser310fs	927/1260	927/1260	309/419	309	419		"INFO_REALIGN_3_PRIME,G"	del310	GC29195G	del310	N:DEL310	310	N	del310	N:DEL310	BEG42-1	BEGGEN	2021-01-11T00:00:00Z	31.88875	34.47666667	x	1022021	2021-01-11
BEG48-1	NC_045512.2	174	.	G	T	3098	PASS	545	0.245872	0	"402,9,131,3"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-92G>T						NA	92	",T"		G174T		NA	NA	NA		NA	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	210	.	G	T	3082	PASS	590	0.218644	0	"398,62,113,16"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-56G>T						NA	56	",T"		G210T		NA	NA	NA		NA	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	241	.	C	T	27711	PASS	778	1	0	"0,0,552,226"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	913	.	C	T	6751	PASS	264	0.768939	1	"33,28,104,99"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	1059	.	C	T	1206	PASS	236	0.220339	2	"103,81,26,26"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.794C>T	p.Thr265Ile	794/21291	794/21291	265/7096	265	7096		",T"	T265I	C1059T	T265I	ORF1AB:T265I	265	ORF1a	T265I	ORF1A:T265I	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	1274	.	G	A	1174	PASS	610	0.093443	97	"456,97,24,33"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1009G>A	p.Val337Ile	1009/21291	1009/21291	337/7096	337	7096		",A"	V337I	G1274A	V337I	ORF1AB:V337I	337	ORF1a	V337I	ORF1A:V337I	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	1589	.	G	A	3703	PASS	853	0.188746	23	"421,271,117,44"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1324G>A	p.Gly442Ser	1324/21291	1324/21291	442/7096	442	7096		",A"	G442S	G1589A	G442S	ORF1AB:G442S	442	ORF1a	G442S	ORF1A:G442S	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	1653	.	TTG	T	4931	PASS	858	0.187646	23	"410,298,113,48"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1390_1391delGT	p.Val464fs	1390/21291	1390/21291	464/7096	464	7096		"INFO_REALIGN_3_PRIME,T"	del464	TTG1653T	del464	ORF1AB:DEL464	464	ORF1a	del464	ORF1A:DEL464	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	1730	.	G	A	3764	PASS	804	0.202736	3	"306,335,83,80"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1465G>A	p.Glu489Lys	1465/21291	1465/21291	489/7096	489	7096		",A"	E489K	G1730A	E489K	ORF1AB:E489K	489	ORF1a	E489K	ORF1A:E489K	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	2453	.	C	T	1010	PASS	107	0.336449	9	"66,5,29,7"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2188C>T	p.Leu730Phe	2188/21291	2188/21291	730/7096	730	7096		",T"	L730F	C2453T	L730F	ORF1AB:L730F	730	ORF1a	L730F	ORF1A:L730F	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	2526	.	A	G	803	PASS	131	0.244275	12	"68,30,28,4"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2261A>G	p.Glu754Gly	2261/21291	2261/21291	754/7096	754	7096		",G"	E754G	A2526G	E754G	ORF1AB:E754G	754	ORF1a	E754G	ORF1A:E754G	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	2731	.	G	T	1139	PASS	183	0.240437	4	"80,59,22,22"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2466G>T	p.Lys822Asn	2466/21291	2466/21291	822/7096	822	7096		",T"	K822N	G2731T	K822N	ORF1AB:K822N	822	ORF1a	K822N	ORF1A:K822N	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	2802	.	ATG	A	1456	PASS	171	0.269006	1	"75,56,25,21"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2538_2539delTG	p.Asp846fs	2538/21291	2538/21291	846/7096	846	7096		",A"	del846	ATG2802A	del846	ORF1AB:DEL846	846	ORF1a	del846	ORF1A:DEL846	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	3037	.	C	T	3698	PASS	100	1	0	"0,0,28,72"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	3267	.	C	T	606	PASS	16	1	0	"0,0,9,7"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	5150	.	G	T	522	PASS	68	0.308824	7	"25,22,7,14"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4885G>T	p.Val1629Phe	4885/21291	4885/21291	1629/7096	1629	7096		",T"	V1629F	G5150T	V1629F	ORF1AB:V1629F	1629	ORF1a	V1629F	ORF1A:V1629F	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	5388	.	C	A	1391	PASS	67	0.671642	0	"6,16,14,31"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	6593	.	C	T	63	PASS	46	0.065217	2	"30,13,3,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6328C>T	p.Pro2110Ser	6328/21291	6328/21291	2110/7096	2110	7096		",T"	P2110S	C6593T	P2110S	ORF1AB:P2110S	2110	ORF1a	P2110S	ORF1A:P2110S	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	6696	.	C	CT	405	PASS	79	0.164557	6	"45,22,6,7"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	6822	.	C	CA	391	PASS	90	0.144444	1	"53,24,10,3"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6560dupA	p.Asn2187fs	6561/21291	6561/21291	2187/7096	2187	7096		"INFO_REALIGN_3_PRIME,CA"	del2187	C6822CA	del2187	ORF1AB:DEL2187	2187	ORF1a	del2187	ORF1A:DEL2187	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	6954	.	T	C	1647	PASS	104	0.519231	4	"17,32,14,40"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	8290	.	C	T	394	PASS	75	0.226667	0	"3,55,0,17"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8025C>T	p.Leu2675Leu	8025/21291	8025/21291	2675/7096	2675	7096		",T"	L2675L	C8290T	L2675L	ORF1AB:L2675L	2675	ORF1a	L2675L	ORF1A:L2675L	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	8868	.	G	GT	66	PASS	16	0.125	0	"12,2,2,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8606dupT	p.Leu2869fs	8607/21291	8607/21291	2869/7096	2869	7096		"INFO_REALIGN_3_PRIME,GT"	del2869	G8868GT	del2869	ORF1AB:DEL2869	2869	ORF1a	del2869	ORF1A:DEL2869	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	9241	.	A	G	438	PASS	39	0.384615	0	"7,17,5,10"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8976A>G	p.Ser2992Ser	8976/21291	8976/21291	2992/7096	2992	7096		",G"	S2992S	A9241G	S2992S	ORF1AB:S2992S	2992	ORF1a	S2992S	ORF1A:S2992S	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	9454	.	T	C	257	PASS	28	0.321429	0	"3,16,2,7"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9189T>C	p.Tyr3063Tyr	9189/21291	9189/21291	3063/7096	3063	7096		",C"	Y3063Y	T9454C	Y3063Y	ORF1AB:Y3063Y	3063	ORF1a	Y3063Y	ORF1A:Y3063Y	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	9969	.	C	CA	698	PASS	391	0.066496	0	"345,21,25,1"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9707dupA	p.Ala3237fs	9708/21291	9708/21291	3236/7096	3236	7096		"INFO_REALIGN_3_PRIME,CA"	del3237	C9969CA	del3237	ORF1AB:DEL3237	3237	ORF1a	del3237	ORF1A:DEL3237	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	10171	.	A	G	2222	PASS	575	0.173913	3	"273,201,53,47"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9906A>G	p.Pro3302Pro	9906/21291	9906/21291	3302/7096	3302	7096		",G"	P3302P	A10171G	P3302P	ORF1AB:P3302P	3302	ORF1a	P3302P	ORF1A:P3302P	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	10323	.	A	G	5022	PASS	589	0.332767	1	"177,216,86,110"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10058A>G	p.Lys3353Arg	10058/21291	10058/21291	3353/7096	3353	7096		",G"	K3353R	A10323G	K3353R	ORF1AB:K3353R	3353	ORF1a	K3353R	ORF1A:K3353R	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	10619	.	C	CA	1318	PASS	568	0.082746	31	"205,317,7,40"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10357dupA	p.Thr3453fs	10358/21291	10358/21291	3453/7096	3453	7096		"INFO_REALIGN_3_PRIME,CA"	del3453	C10619CA	del3453	ORF1AB:DEL3453	3453	ORF1a	del3453	ORF1A:DEL3453	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	11287	.	GTCTGGTTTT	G	4261	PASS	132	0.992424	13	"6,1,52,79"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	11521	.	G	GT	1433	PASS	122	0.352459	2	"43,36,21,22"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11261dupT	p.Leu3754fs	11262/21291	11262/21291	3754/7096	3754	7096		"INFO_REALIGN_3_PRIME,GT"	del3754	G11521GT	del3754	ORF1AB:DEL3754	3754	ORF1a	del3754	ORF1A:DEL3754	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	11628	.	A	AT	1212	PASS	102	0.352941	1	"22,44,10,26"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11368dupT	p.Cys3790fs	11369/21291	11369/21291	3790/7096	3790	7096		"INFO_REALIGN_3_PRIME,AT"	del3790	A11628AT	del3790	ORF1AB:DEL3790	3790	ORF1a	del3790	ORF1A:DEL3790	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	11670	.	G	A	72	PASS	108	0.046296	2	"13,90,1,4"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11405G>A	p.Arg3802His	11405/21291	11405/21291	3802/7096	3802	7096		",A"	R3802H	G11670A	R3802H	ORF1AB:R3802H	3802	ORF1a	R3802H	ORF1A:R3802H	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	14134	.	C	T	4427	PASS	358	0.438547	1	"11,190,11,146"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13870C>T	p.Pro4624Ser	13870/21291	13870/21291	4624/7096	4624	7096		",T"	P4624S	C14134T	P4624S	ORF1AB:P4624S	223	ORF1b	P223S	ORF1B:P223S	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	14408	.	C	T	546	PASS	15	1	0	"0,0,6,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	14676	.	C	T	14975	PASS	661	0.694402	1	"163,38,366,93"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	15168	.	G	A	129	PASS	598	0.038462	29	"164,409,0,23"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	15279	.	C	T	13269	PASS	519	0.786127	3	"7,102,38,370"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	18138	.	C	CA	5001	PASS	189	0.703704	330	"52,4,7,126"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17878dupA	p.Thr5960fs	17879/21291	17879/21291	5960/7096	5960	7096		"INFO_REALIGN_3_PRIME,CA"	del5960	C18138CA	del5960	ORF1AB:DEL5960	1559	ORF1b	del1559	ORF1B:DEL1559	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	19983	.	C	CT	122	PASS	32	0.15625	0	"0,28,0,5"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19725dupT	p.Asp6576fs	19726/21291	19726/21291	6576/7096	6576	7096		"INFO_REALIGN_3_PRIME,CT"	del6576	C19983CT	del6576	ORF1AB:DEL6576	2175	ORF1b	del2175	ORF1B:DEL2175	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	20398	.	G	A	11231	PASS	309	1	0	"0,0,306,3"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20134G>A	p.Glu6712Lys	20134/21291	20134/21291	6712/7096	6712	7096		",A"	E6712K	G20398A	E6712K	ORF1AB:E6712K	2311	ORF1b	E2311K	ORF1B:E2311K	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	20578	.	G	T	14871	PASS	630	0.757143	6	"115,38,333,144"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20314G>T	p.Val6772Leu	20314/21291	20314/21291	6772/7096	6772	7096		",T"	V6772L	G20578T	V6772L	ORF1AB:V6772L	2371	ORF1b	V2371L	ORF1B:V2371L	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	21164	.	TA	T	1354	PASS	350	0.131429	52	"77,227,0,46"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20903delA	p.Lys6968fs	20903/21291	20903/21291	6968/7096	6968	7096		"INFO_REALIGN_3_PRIME,T"	del6968	TA21164T	del6968	ORF1AB:DEL6968	2567	ORF1b	del2567	ORF1B:DEL2567	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	21614	.	C	T	3232	PASS	145	0.682759	153	"40,6,17,82"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.52C>T	p.Leu18Phe	52/3822	52/3822	18/1273	18	1273		",T"	L18F	C21614T	L18F	S:L18F	18	S	L18F	S:L18F	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	21764	.	ATACATG	A	529	PASS	95	0.178947	8	"21,57,8,9"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	21990	.	TTTA	T	1005	PASS	74	0.405405	0	"24,20,18,12"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.432_434delTTA	p.Tyr145del	432/3822	432/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,T"	del145	TTTA21990T	del145	S:DEL145	145	S	del145	S:DEL145	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	22206	.	A	G	174	PASS	63	0.126984	25	"16,39,7,1"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.644A>G	p.Asp215Gly	644/3822	644/3822	215/1273	215	1273		",G"	D215G	A22206G	D215G	S:D215G	215	S	D215G	S:D215G	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	22280	.	ACTTTACTTG	A	188	PASS	36	0.166667	6	"11,19,4,2"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.725_733delTTGCTTTAC	p.Leu242_Leu244del	725/3822	725/3822	242/1273	242	1273		"INFO_REALIGN_3_PRIME,A"	del242/244	ACTTTACTTG22280A	del242/244	S:DEL242/244	242/244	S	del242/244	S:DEL242/244	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	22690	.	T	C	297	PASS	39	0.282051	15	"14,14,1,10"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1128T>C	p.Thr376Thr	1128/3822	1128/3822	376/1273	376	1273		",C"	T376T	T22690C	T376T	S:T376T	376	S	T376T	S:T376T	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	22813	.	G	T	75	PASS	24	0.125	6	"11,10,0,3"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1251G>T	p.Lys417Asn	1251/3822	1251/3822	417/1273	417	1273		",T"	K417N	G22813T	K417N	S:K417N	417	S	K417N	S:K417N	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	23063	.	A	T	390	PASS	21	0.571429	4	"7,2,6,6"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	23126	.	G	T	227	PASS	25	0.32	0	"10,7,5,3"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1564G>T	p.Ala522Ser	1564/3822	1564/3822	522/1273	522	1273		",T"	A522S	G23126T	A522S	S:A522S	522	S	A522S	S:A522S	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	23271	.	C	A	234	PASS	15	0.533333	0	"2,5,3,5"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>A	p.Ala570Asp	1709/3822	1709/3822	570/1273	570	1273		",A"	A570D	C23271A	A570D	S:A570D	570	S	A570D	S:A570D	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	23403	.	A	G	786	PASS	21	1	0	"0,0,9,12"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	23670	.	A	G	165	PASS	11	0.545455	12	"0,5,4,2"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2108A>G	p.Asn703Ser	2108/3822	2108/3822	703/1273	703	1273		",G"	N703S	A23670G	N703S	S:N703S	703	S	N703S	S:N703S	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	23709	.	C	T	200	PASS	11	0.545455	12	"3,2,0,6"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2147C>T	p.Thr716Ile	2147/3822	2147/3822	716/1273	716	1273		",T"	T716I	C23709T	T716I	S:T716I	716	S	T716I	S:T716I	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	24506	.	T	G	17686	PASS	495	0.983838	20	"2,6,348,139"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	24914	.	G	C	18773	PASS	622	0.909968	136	"50,6,211,355"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	25100	.	CA	C	1496	PASS	481	0.114345	61	"125,302,1,54"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3543delA	p.Glu1182fs	3543/3822	3543/3822	1181/1273	1181	1273		"INFO_REALIGN_3_PRIME,C"	del1182	CA25100C	del1182	S:DEL1182	1182	S	del1182	S:DEL1182	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	27972	.	C	T	15099	PASS	415	0.995181	0	"0,0,234,179"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28048	.	G	T	17939	PASS	479	1	0	"0,0,321,158"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28111	.	A	G	18392	PASS	523	0.998088	5	"0,1,361,161"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28140	.	T	C	1551	PASS	498	0.138554	1	"269,160,42,27"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.247T>C	p.Cys83Arg	247/366	247/366	83/121	83	121		",C"	C83R	T28140C	C83R	ORF8:C83R	83	ORF8	C83R	ORF8:C83R	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28214	.	C	CT	1709	PASS	554	0.110108	8	"239,254,36,25"	TRUE	CT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.326dupT	p.Leu109fs	327/366	327/366	109/121	109	121		"INFO_REALIGN_3_PRIME,CT"	del109	C28214CT	del109	ORF8:DEL109	109	ORF8	del109	ORF8:DEL109	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28270	.	TA	T	10477	PASS	597	0.770519	10	"78,60,220,240"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28280	.	G	C	9821	PASS	529	0.84121	86	"68,16,205,240"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28281	.	A	T	9844	PASS	531	0.838041	91	"70,16,205,240"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28282	.	T	A	9911	PASS	539	0.840445	94	"70,16,206,247"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28310	.	C	T	2139	PASS	798	0.131579	115	"320,372,86,19"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.37C>T	p.Pro13Ser	37/1260	37/1260	13/419	13	419		",T"	P13S	C28310T	P13S	N:P13S	13	N	P13S	N:P13S	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28324	.	T	A	1650	PASS	843	0.106762	4	"421,332,55,35"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.51T>A	p.Phe17Leu	51/1260	51/1260	17/419	17	419		",A"	F17L	T28324A	F17L	N:F17L	17	N	F17L	N:F17L	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28325	.	G	C	1669	PASS	844	0.109005	4	"420,331,56,36"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.52G>C	p.Gly18Arg	52/1260	52/1260	18/419	18	419		",C"	G18R	G28325C	G18R	N:G18R	18	N	G18R	N:G18R	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28747	.	G	T	131	PASS	1695	0.012979	0	"961,712,13,9"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.474G>T	p.Val158Val	474/1260	474/1260	158/419	158	419		",T"	V158V	G28747T	V158V	N:V158V	158	N	V158V	N:V158V	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28881	.	G	A	34975	PASS	1247	0.816359	24	83146478540	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28882	.	G	A	33958	PASS	1245	0.811245	29	82149477533	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28883	.	G	C	34805	PASS	1249	0.817454	22	83145478543	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28887	.	C	T	3863	PASS	1337	0.15258	18	"556,577,81,123"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28977	.	C	T	29243	PASS	1317	0.697039	25	1.55241E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	28981	.	T	G	80	PASS	1291	0.017041	58	"390,878,18,4"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.708T>G	p.Gly236Gly	708/1260	708/1260	236/419	236	419		",G"	G236G	T28981G	G236G	N:G236G	236	N	G236G	N:G236G	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	29051	.	C	CA	4185	PASS	1061	0.138549	1	"206,712,31,116"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG48-1	NC_045512.2	29095	.	C	T	3225	PASS	962	0.161123	0	"101,705,19,136"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.822C>T	p.Phe274Phe	822/1260	822/1260	274/419	274	419		",T"	F274F	C29095T	F274F	N:F274F	274	N	F274F	N:F274F	BEG48-1	BEGGEN	2021-02-21T00:00:00Z	30.93975	33.91666667	To be done	NA	2021-02-21
BEG49-1	NC_045512.2	61	.	G	A	2165	PASS	66	0.969697	0	"1,0,64,0"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>A						NA	205	",A"		G61A		NA	NA	NA		NA	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	240	.	TC	T	43	PASS	222	0.009009	3	"172,50,1,1"	TRUE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25delC						NA	25	",T"	del	TC240T	del	ORF1AB:DEL	NA	NA	del	NA:DEL	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	241	.	C	T	7837	PASS	222	0.990991	0	"0,0,170,50"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	434	.	GA	G	39	PASS	235	0.008511	0	"102,133,1,1"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	2692	.	A	T	520	PASS	106	0.188679	3	"53,33,10,10"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2427A>T	p.Thr809Thr	2427/21291	2427/21291	809/7096	809	7096		",T"	T809T	A2692T	T809T	ORF1AB:T809T	809	ORF1a	T809T	ORF1A:T809T	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	3037	.	C	T	3165	PASS	86	1	0	"0,0,28,58"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	3119	.	G	A	356	PASS	92	0.163043	9	"21,56,1,14"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2854G>A	p.Glu952Lys	2854/21291	2854/21291	952/7096	952	7096		",A"	E952K	G3119A	E952K	ORF1AB:E952K	952	ORF1a	E952K	ORF1A:E952K	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	3177	.	C	T	68	PASS	60	0.066667	29	"8,48,4,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2912C>T	p.Pro971Leu	2912/21291	2912/21291	971/7096	971	7096		",T"	P971L	C3177T	P971L	ORF1AB:P971L	971	ORF1a	P971L	ORF1A:P971L	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	3200	.	TG	T	117	PASS	54	0.074074	6	"10,40,2,2"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2937delG	p.Trp979fs	2937/21291	2937/21291	979/7096	979	7096		"INFO_REALIGN_3_PRIME,T"	del979	TG3200T	del979	ORF1AB:DEL979	979	ORF1a	del979	ORF1A:DEL979	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	3267	.	C	T	547	PASS	17	0.882353	0	"1,1,8,7"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	3638	.	G	T	168	PASS	19	0.315789	0	"2,11,0,6"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3373G>T	p.Gly1125Cys	3373/21291	3373/21291	1125/7096	1125	7096		",T"	G1125C	G3638T	G1125C	ORF1AB:G1125C	1125	ORF1a	G1125C	ORF1A:G1125C	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	5230	.	G	T	415	PASS	35	0.4	2	"8,13,7,7"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4965G>T	p.Lys1655Asn	4965/21291	4965/21291	1655/7096	1655	7096		",T"	K1655N	G5230T	K1655N	ORF1AB:K1655N	1655	ORF1a	K1655N	ORF1A:K1655N	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	6954	.	T	C	1204	PASS	32	1	0	"0,0,11,21"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	8082	.	TGG	T	74	PASS	48	0.208333	1	"23,15,7,3"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7818_7819delGG	p.Met2606fs	7818/21291	7818/21291	2606/7096	2606	7096		",T"	del2606	TGG8082T	del2606	ORF1AB:DEL2606	2606	ORF1a	del2606	ORF1A:DEL2606	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	8311	.	C	T	388	PASS	40	0.325	0	"1,26,1,12"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8046C>T	p.Asn2682Asn	8046/21291	8046/21291	2682/7096	2682	7096		",T"	N2682N	C8311T	N2682N	ORF1AB:N2682N	2682	ORF1a	N2682N	ORF1A:N2682N	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	10323	.	A	G	2503	PASS	71	1	0	"0,0,22,49"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10058A>G	p.Lys3353Arg	10058/21291	10058/21291	3353/7096	3353	7096		",G"	K3353R	A10323G	K3353R	ORF1AB:K3353R	3353	ORF1a	K3353R	ORF1A:K3353R	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	10833	.	C	T	790	PASS	100	0.35	0	"25,40,13,22"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10568C>T	p.Ala3523Val	10568/21291	10568/21291	3523/7096	3523	7096		",T"	A3523V	C10833T	A3523V	ORF1AB:A3523V	3523	ORF1a	A3523V	ORF1A:A3523V	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	11287	.	GTCTGGTTTT	G	994	PASS	87	0.367816	5	"25,33,18,14"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	11451	.	A	G	1459	PASS	98	0.489796	0	"25,25,23,25"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11186A>G	p.Gln3729Arg	11186/21291	11186/21291	3729/7096	3729	7096		",G"	Q3729R	A11451G	Q3729R	ORF1AB:Q3729R	3729	ORF1a	Q3729R	ORF1A:Q3729R	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	11602	.	A	G	459	PASS	67	0.253731	14	"21,29,2,15"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11337A>G	p.Ile3779Met	11337/21291	11337/21291	3779/7096	3779	7096		",G"	I3779M	A11602G	I3779M	ORF1AB:I3779M	3779	ORF1a	I3779M	ORF1A:I3779M	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	12568	.	T	C	2611	PASS	172	0.505814	7	"46,39,57,30"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12303T>C	p.Val4101Val	12303/21291	12303/21291	4101/7096	4101	7096		",C"	V4101V	T12568C	V4101V	ORF1AB:V4101V	4101	ORF1a	V4101V	ORF1A:V4101V	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	14120	.	C	T	943	PASS	176	0.221591	0	"8,129,2,37"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13856C>T	p.Pro4619Leu	13856/21291	13856/21291	4619/7096	4619	7096		",T"	P4619L	C14120T	P4619L	ORF1AB:P4619L	218	ORF1b	P218L	ORF1B:P218L	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	15168	.	G	A	116	PASS	258	0.054264	34	"115,129,0,14"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	15279	.	C	T	186	PASS	238	0.046218	19	"58,169,7,4"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	15324	.	C	T	627	PASS	199	0.145729	11	"66,104,17,12"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	15372	.	G	T	545	PASS	147	0.156463	9	"72,52,18,5"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15108G>T	p.Thr5036Thr	15108/21291	15108/21291	5036/7096	5036	7096		",T"	T5036T	G15372T	T5036T	ORF1AB:T5036T	635	ORF1b	T635T	ORF1B:T635T	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	15559	.	C	T	299	PASS	135	0.103704	3	"62,59,9,5"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15295C>T	p.Leu5099Phe	15295/21291	15295/21291	5099/7096	5099	7096		",T"	L5099F	C15559T	L5099F	ORF1AB:L5099F	698	ORF1b	L698F	ORF1B:L698F	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	16423	.	CTT	C	39	PASS	376	0.005319	4	"294,80,1,1"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16161_16162delTT	p.Tyr5388fs	16161/21291	16161/21291	5387/7096	5387	7096		"INFO_REALIGN_3_PRIME,C"	del5388	CTT16423C	del5388	ORF1AB:DEL5388	987	ORF1b	del987	ORF1B:DEL987	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	16726	.	C	T	4728	PASS	509	0.333988	10	"179,160,76,94"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16462C>T	p.His5488Tyr	16462/21291	16462/21291	5488/7096	5488	7096		",T"	H5488Y	C16726T	H5488Y	ORF1AB:H5488Y	1087	ORF1b	H1087Y	ORF1B:H1087Y	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	17430	.	C	T	656	PASS	252	0.123016	0	"217,4,31,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17166C>T	p.Tyr5722Tyr	17166/21291	17166/21291	5722/7096	5722	7096		",T"	Y5722Y	C17430T	Y5722Y	ORF1AB:Y5722Y	1321	ORF1b	Y1321Y	ORF1B:Y1321Y	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	17804	.	C	A	3437	PASS	815	0.181595	4	"357,310,73,75"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17540C>A	p.Ser5847*	17540/21291	17540/21291	5847/7096	5847	7096		",A"	S5847*	C17804A	S5847*	ORF1AB:S5847*	1446	ORF1b	S1446*	ORF1B:S1446*	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	17861	.	A	G	104	PASS	856	0.014019	0	"439,405,6,6"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17597A>G	p.Asp5866Gly	17597/21291	17597/21291	5866/7096	5866	7096		",G"	D5866G	A17861G	D5866G	ORF1AB:D5866G	1465	ORF1b	D1465G	ORF1B:D1465G	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	17925	.	TG	T	2633	PASS	706	0.130312	0	"358,259,55,37"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17662delG	p.Ala5888fs	17662/21291	17662/21291	5888/7096	5888	7096		",T"	del5888	TG17925T	del5888	ORF1AB:DEL5888	1487	ORF1b	del1487	ORF1B:DEL1487	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	18132	.	T	C	1292	PASS	436	0.142202	1	"15,359,1,61"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17868T>C	p.Thr5956Thr	17868/21291	17868/21291	5956/7096	5956	7096		",C"	T5956T	T18132C	T5956T	ORF1AB:T5956T	1555	ORF1b	T1555T	ORF1B:T1555T	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	19287	.	TG	T	125	PASS	34	0.117647	17	"21,10,0,4"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19025delG	p.Gly6342fs	19025/21291	19025/21291	6342/7096	6342	7096		"INFO_REALIGN_3_PRIME,T"	del6342	TG19287T	del6342	ORF1AB:DEL6342	1941	ORF1b	del1941	ORF1B:DEL1941	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	20558	.	TAG	T	5413	PASS	320	0.50625	0	"118,40,123,39"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20295_20296delAG	p.Val6766fs	20295/21291	20295/21291	6765/7096	6765	7096		",T"	del6766	TAG20558T	del6766	ORF1AB:DEL6766	2365	ORF1b	del2365	ORF1B:DEL2365	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	20864	.	A	AT	6026	PASS	373	0.469169	2	"88,114,71,104"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20604dupT	p.Gly6869fs	20605/21291	20605/21291	6869/7096	6869	7096		"INFO_REALIGN_3_PRIME,AT"	del6869	A20864AT	del6869	ORF1AB:DEL6869	2468	ORF1b	del2468	ORF1B:DEL2468	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	21028	.	TG	T	3328	PASS	351	0.290598	127	"146,103,17,85"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20767delG	p.Asp6923fs	20767/21291	20767/21291	6923/7096	6923	7096		"INFO_REALIGN_3_PRIME,T"	del6923	TG21028T	del6923	ORF1AB:DEL6923	2522	ORF1b	del2522	ORF1B:DEL2522	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	21218	.	TCG	T	3221	PASS	199	0.472362	1	"61,45,52,42"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20956_20957delGC	p.Ala6986fs	20956/21291	20956/21291	6986/7096	6986	7096		"INFO_REALIGN_3_PRIME,T"	del6986	TCG21218T	del6986	ORF1AB:DEL6986	2585	ORF1b	del2585	ORF1B:DEL2585	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	21519	.	A	G	3320	PASS	173	0.618497	8	"16,50,38,69"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21255A>G	p.Arg7085Arg	21255/21291	21255/21291	7085/7096	7085	7096		",G"	R7085R	A21519G	R7085R	ORF1AB:R7085R	2684	ORF1b	R2684R	ORF1B:R2684R	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	21614	.	C	T	1826	PASS	140	0.435714	3	"13,66,7,54"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.52C>T	p.Leu18Phe	52/3822	52/3822	18/1273	18	1273		",T"	L18F	C21614T	L18F	S:L18F	18	S	L18F	S:L18F	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	21637	.	C	T	3074	PASS	197	0.538071	0	"9,81,9,97"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.75C>T	p.Pro25Pro	75/3822	75/3822	25/1273	25	1273		",T"	P25P	C21637T	P25P	S:P25P	25	S	P25P	S:P25P	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	21764	.	ATACATG	A	52	PASS	72	0.027778	34	"0,70,2,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	22165	.	T	C	260	PASS	18	0.444444	0	"9,1,8,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.603T>C	p.Phe201Phe	603/3822	603/3822	201/1273	201	1273		",C"	F201F	T22165C	F201F	S:F201F	201	S	F201F	S:F201F	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	22206	.	A	G	303	PASS	18	0.555556	2	"6,2,9,1"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.644A>G	p.Asp215Gly	644/3822	644/3822	215/1273	215	1273		",G"	D215G	A22206G	D215G	S:D215G	215	S	D215G	S:D215G	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	22280	.	ACTTTACTTG	A	214	PASS	17	0.352941	0	"6,5,3,3"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.725_733delTTGCTTTAC	p.Leu242_Leu244del	725/3822	725/3822	242/1273	242	1273		"INFO_REALIGN_3_PRIME,A"	del242/244	ACTTTACTTG22280A	del242/244	S:DEL242/244	242/244	S	del242/244	S:DEL242/244	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	22417	.	T	A	210	PASS	15	0.466667	0	"3,5,3,4"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.855T>A	p.Ile285Ile	855/3822	855/3822	285/1273	285	1273		",A"	I285I	T22417A	I285I	S:I285I	285	S	I285I	S:I285I	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	22813	.	G	T	70	PASS	18	0.166667	2	"5,10,0,3"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1251G>T	p.Lys417Asn	1251/3822	1251/3822	417/1273	417	1273		",T"	K417N	G22813T	K417N	S:K417N	417	S	K417N	S:K417N	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	23063	.	A	T	75	PASS	11	0.272727	0	"4,4,1,2"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	23126	.	G	T	130	PASS	13	0.384615	5	"6,2,2,3"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1564G>T	p.Ala522Ser	1564/3822	1564/3822	522/1273	522	1273		",T"	A522S	G23126T	A522S	S:A522S	522	S	A522S	S:A522S	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	25482	.	C	T	3778	PASS	202	0.594059	2	"32,49,42,78"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.90C>T	p.Arg30Arg	90/828	90/828	30/275	30	275		",T"	R30R	C25482T	R30R	ORF3A:R30R	30	ORF3a	R30R	ORF3A:R30R	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	25563	.	G	T	2466	PASS	132	0.606061	0	"8,44,14,66"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	25710	.	C	T	1225	PASS	74	0.540541	29	"8,26,0,40"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	25904	.	C	T	488	PASS	30	0.533333	0	"8,6,10,6"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.512C>T	p.Ser171Leu	512/828	512/828	171/275	171	275		",T"	S171L	C25904T	S171L	ORF3A:S171L	171	ORF3a	S171L	ORF3A:S171L	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	25906	.	G	T	334	PASS	29	0.413793	3	"12,5,6,6"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>T	p.Gly172Cys	514/828	514/828	172/275	172	275		",T"	G172C	G25906T	G172C	ORF3A:G172C	172	ORF3a	G172C	ORF3A:G172C	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	26673	.	T	C	3493	PASS	474	0.278481	28	"137,205,32,100"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.151T>C	p.Leu51Leu	151/669	151/669	51/222	51	222		",C"	L51L	T26673C	L51L	M:L51L	51	M	L51L	M:L51L	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	26735	.	C	T	602	PASS	433	0.073903	27	"126,275,2,30"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	26777	.	TTG	T	329	PASS	562	0.024911	96	"107,443,14,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.257_258delGT	p.Cys86fs	257/669	257/669	86/222	86	222		"INFO_REALIGN_3_PRIME,T"	del86	TTG26777T	del86	M:DEL86	86	M	del86	M:DEL86	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	26876	.	T	C	174	PASS	365	0.038356	6	"83,266,1,13"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	26892	.	C	T	305	PASS	314	0.063694	48	"64,230,14,6"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.370C>T	p.Leu124Phe	370/669	370/669	124/222	124	222		",T"	L124F	C26892T	L124F	M:L124F	124	M	L124F	M:L124F	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	27459	.	G	T	1451	PASS	234	0.252137	5	"74,101,30,29"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.66G>T	p.Glu22Asp	66/366	66/366	22/121	22	121		",T"	E22D	G27459T	E22D	ORF7A:E22D	22	ORF7a	E22D	ORF7A:E22D	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	27835	.	T	C	656	PASS	219	0.136986	17	"82,106,6,24"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.80T>C	p.Ile27Thr	80/132	80/132	27/43	27	43		",C"	I27T	T27835C	I27T	ORF7B:I27T	27	ORF7b	I27T	ORF7B:I27T	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	27972	.	C	T	2734	PASS	321	0.320872	35	"109,109,29,74"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28009	.	T	C	374	PASS	296	0.070946	30	"158,117,4,17"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.116T>C	p.Ile39Thr	116/366	116/366	39/121	39	121		",C"	I39T	T28009C	I39T	ORF8:I39T	39	ORF8	I39T	ORF8:I39T	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28048	.	G	T	2134	PASS	300	0.276667	3	"148,68,61,22"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28090	.	GTTCTA	G	2163	PASS	268	0.261194	4	"150,50,48,22"	TRUE	G	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.198_202delTTCTA	p.Ser67fs	198/366	198/366	66/121	66	121		",G"	del67	GTTCTA28090G	del67	ORF8:DEL67	67	ORF8	del67	ORF8:DEL67	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28111	.	A	G	1461	PASS	276	0.224638	20	"147,67,53,9"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28253	.	CA	C	2077	PASS	236	0.279661	0	"80,91,32,34"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361delA	p.Ile121fs	361/366	361/366	121/121	121	121		",C"	del121	CA28253C	del121	ORF8:DEL121	121	ORF8	del121	ORF8:DEL121	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28253	.	C	T	3259	PASS	237	0.464135	3	"57,70,55,55"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.360C>T	p.Phe120Phe	360/366	360/366	120/121	120	121		",T"	F120F	C28253T	F120F	ORF8:F120F	120	ORF8	F120F	ORF8:F120F	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28254	.	A	C	1933	PASS	240	0.295833	4	"46,57,37,34"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28270	.	TA	T	2873	PASS	315	0.412698	100	"73,112,99,31"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28280	.	G	C	2567	PASS	319	0.398119	85	"82,110,97,30"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28281	.	A	T	2561	PASS	323	0.390093	87	"85,112,97,29"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28282	.	T	A	2648	PASS	332	0.403614	84	"85,113,101,33"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28396	.	G	T	959	PASS	606	0.09901	19	"352,194,28,32"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.123G>T	p.Arg41Arg	123/1260	123/1260	41/419	41	419		",T"	R41R	G28396T	R41R	N:R41R	41	N	R41R	N:R41R	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28546	.	CAG	C	4131	PASS	1221	0.116298	95	"650,433,122,20"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.275_276delGA	p.Arg92fs	275/1260	275/1260	92/419	92	419		"INFO_REALIGN_3_PRIME,C"	del92	CAG28546C	del92	N:DEL92	92	N	del92	N:DEL92	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28657	.	C	T	11861	PASS	1048	0.41126	38	3.11305E+11	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28862	.	T	A	15888	PASS	1093	0.484904	0	2.30329E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.589T>A	p.Ser197Thr	589/1260	589/1260	197/419	197	419		",A"	S197T	T28862A	S197T	N:S197T	197	N	S197T	N:S197T	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28875	.	G	T	3496	PASS	1044	0.158046	8	"348,530,76,89"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.602G>T	p.Ser201Ile	602/1260	602/1260	201/419	201	419		",T"	S201I	G28875T	S201I	N:S201I	201	N	S201I	N:S201I	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28881	.	G	A	11859	PASS	989	0.418605	0	2.50325E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28882	.	G	A	11409	PASS	995	0.413065	0	2.53329E+11	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28883	.	G	C	11620	PASS	995	0.41809	0	2.51327E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28887	.	C	T	8595	PASS	1020	0.330392	0	3.15368E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28913	.	G	T	7736	PASS	932	0.31867	7	2.91342E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.640G>T	p.Gly214Cys	640/1260	640/1260	214/419	214	419		",T"	G214C	G28913T	G214C	N:G214C	214	N	G214C	N:G214C	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28975	.	G	C	3400	PASS	942	0.178344	1	"245,523,56,112"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BEG49-1	NC_045512.2	28987	.	CCAA	C	51	PASS	855	0.003509	0	"255,611,1,2"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BEG49-1	BEGGEN	2021-03-01T00:00:00Z	31.89375	35.09666667	To be done	NA	2021-03-01
BET19	NC_045512.2	241	.	C	T	32842	PASS	925	1	2147483647	"0,0,925,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	505	.	T	C	36790	PASS	1062	0.999058	2147483647	"0,0,1061,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.240T>C	p.Pro80Pro	240/21291	240/21291	80/7096	80	7096		",C"	P80P	T505C	P80P	ORF1AB:P80P	80	ORF1a	P80P	ORF1A:P80P	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	872	.	G	T	3132	PASS	220	0.540909	0	"101,0,119,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.607G>T	p.Asp203Tyr	607/21291	607/21291	203/7096	203	7096		",T"	D203Y	G872T	D203Y	ORF1AB:D203Y	203	ORF1a	D203Y	ORF1A:D203Y	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	1246	.	T	C	2488	PASS	340	0.302941	0	"235,0,103,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.981T>C	p.Gly327Gly	981/21291	981/21291	327/7096	327	7096		",C"	G327G	T1246C	G327G	ORF1AB:G327G	327	ORF1a	G327G	ORF1A:G327G	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	2555	.	CA	C	45	PASS	178	0.011236	0	"176,0,2,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2292delA	p.Gln764fs	2292/21291	2292/21291	764/7096	764	7096		"INFO_REALIGN_3_PRIME,C"	del764	CA2555C	del764	ORF1AB:DEL764	764	ORF1a	del764	ORF1A:DEL764	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	2574	.	C	T	7574	PASS	228	0.95614	0	"10,0,218,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2309C>T	p.Thr770Ile	2309/21291	2309/21291	770/7096	770	7096		",T"	T770I	C2574T	T770I	ORF1AB:T770I	770	ORF1a	T770I	ORF1A:T770I	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	2617	.	T	C	65	PASS	259	0.019305	0	"253,0,5,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2352T>C	p.Cys784Cys	2352/21291	2352/21291	784/7096	784	7096		",C"	C784C	T2617C	C784C	ORF1AB:C784C	784	ORF1a	C784C	ORF1A:C784C	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	3037	.	C	T	8023	PASS	231	0.995671	2147483647	"0,0,230,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	3802	.	TA	T	84	PASS	44	0.068182	0	"41,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3542delA	p.Asn1181fs	3542/21291	3542/21291	1181/7096	1181	7096		"INFO_REALIGN_3_PRIME,T"	del1181	TA3802T	del1181	ORF1AB:DEL1181	1181	ORF1a	del1181	ORF1A:DEL1181	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	6945	.	TA	T	54	PASS	67	0.029851	0	"65,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6683delA	p.Asn2228fs	6683/21291	6683/21291	2228/7096	2228	7096		"INFO_REALIGN_3_PRIME,T"	del2228	TA6945T	del2228	ORF1AB:DEL2228	2228	ORF1a	del2228	ORF1A:DEL2228	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	7032	.	AT	A	107	PASS	73	0.054795	0	"69,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6770delT	p.Leu2257fs	6770/21291	6770/21291	2257/7096	2257	7096		"INFO_REALIGN_3_PRIME,A"	del2257	AT7032A	del2257	ORF1AB:DEL2257	2257	ORF1a	del2257	ORF1A:DEL2257	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	7246	.	GT	G	76	PASS	80	0.0375	0	"78,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6986delT	p.Leu2329fs	6986/21291	6986/21291	2329/7096	2329	7096		"INFO_REALIGN_3_PRIME,G"	del2329	GT7246G	del2329	ORF1AB:DEL2329	2329	ORF1a	del2329	ORF1A:DEL2329	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	18434	.	A	AT	1218	PASS	233	0.175966	0	"192,0,41,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18175dupT	p.Ser6059fs	18176/21291	18176/21291	6059/7096	6059	7096		"INFO_REALIGN_3_PRIME,AT"	del6059	A18434AT	del6059	ORF1AB:DEL6059	1658	ORF1b	del1658	ORF1B:DEL1658	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	18774	.	AC	A	6137	PASS	1203	0.179551	0	"1001,0,216,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18511delC	p.Gln6171fs	18511/21291	18511/21291	6171/7096	6171	7096		",A"	del6171	AC18774A	del6171	ORF1AB:DEL6171	1770	ORF1b	del1770	ORF1B:DEL1770	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	18918	.	TA	T	10403	PASS	1667	0.217157	0	"1305,0,362,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18655delA	p.Ile6219fs	18655/21291	18655/21291	6219/7096	6219	7096		",T"	del6219	TA18918T	del6219	ORF1AB:DEL6219	1818	ORF1b	del1818	ORF1B:DEL1818	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	19263	.	C	T	5860	PASS	1221	0.207207	0	"967,0,253,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18999C>T	p.Asn6333Asn	18999/21291	18999/21291	6333/7096	6333	7096		",T"	N6333N	C19263T	N6333N	ORF1AB:N6333N	1932	ORF1b	N1932N	ORF1B:N1932N	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	19892	.	A	G	891	PASS	179	0.21229	0	"141,0,38,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19628A>G	p.Asp6543Gly	19628/21291	19628/21291	6543/7096	6543	7096		",G"	D6543G	A19892G	D6543G	ORF1AB:D6543G	2142	ORF1b	D2142G	ORF1B:D2142G	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	20010	.	A	G	324	PASS	47	0.255319	0	"35,0,12,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19746A>G	p.Gln6582Gln	19746/21291	19746/21291	6582/7096	6582	7096		",G"	Q6582Q	A20010G	Q6582Q	ORF1AB:Q6582Q	2181	ORF1b	Q2181Q	ORF1B:Q2181Q	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	20680	.	G	T	4360	PASS	2020	0.114356	0	"1789,0,231,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20416G>T	p.Gly6806Cys	20416/21291	20416/21291	6806/7096	6806	7096		",T"	G6806C	G20680T	G6806C	ORF1AB:G6806C	2405	ORF1b	G2405C	ORF1B:G2405C	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	20946	.	C	T	49314	PASS	1710	0.969591	0	"52,0,1658,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20682C>T	p.Val6894Val	20682/21291	20682/21291	6894/7096	6894	7096		",T"	V6894V	C20946T	V6894V	ORF1AB:V6894V	2493	ORF1b	V2493V	ORF1B:V2493V	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	21101	.	G	GT	1508	PASS	1438	0.054937	0	"1363,0,79,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843dupT	p.Thr6949fs	20844/21291	20844/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,GT"	del6949	G21101GT	del6949	ORF1AB:DEL6949	2548	ORF1b	del2548	ORF1B:DEL2548	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	21101	.	GT	G	44	PASS	1438	0.003477	0	"1437,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843delT	p.Phe6948fs	20843/21291	20843/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,G"	del6948	GT21101G	del6948	ORF1AB:DEL6948	2547	ORF1b	del2547	ORF1B:DEL2547	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	21220	.	G	T	5709	PASS	1142	0.215412	0	"896,0,246,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20956G>T	p.Ala6986Ser	20956/21291	20956/21291	6986/7096	6986	7096		",T"	A6986S	G21220T	A6986S	ORF1AB:A6986S	2585	ORF1b	A2585S	ORF1B:A2585S	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	21408	.	T	C	6472	PASS	1323	0.208617	0	"1047,0,276,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21144T>C	p.Phe7048Phe	21144/21291	21144/21291	7048/7096	7048	7096		",C"	F7048F	T21408C	F7048F	ORF1AB:F7048F	2647	ORF1b	F2647F	ORF1B:F2647F	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	21711	.	C	T	1711	PASS	327	0.211009	0	"258,0,69,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.149C>T	p.Ser50Leu	149/3822	149/3822	50/1273	50	1273		",T"	S50L	C21711T	S50L	S:S50L	50	S	S50L	S:S50L	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	22075	.	C	T	2663	PASS	87	0.931035	0	"6,0,81,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.513C>T	p.Val171Val	513/3822	513/3822	171/1273	171	1273		",T"	V171V	C22075T	V171V	S:V171V	171	S	V171V	S:V171V	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	22180	.	GCA	G	172	PASS	83	0.072289	0	"83,0,6,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.622_623delAC	p.Thr208fs	622/3822	622/3822	208/1273	208	1273		"INFO_REALIGN_3_PRIME,G"	del208	GCA22180G	del208	S:DEL208	208	S	del208	S:DEL208	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	22192	.	T	C	73	PASS	80	0.05	0	"76,0,4,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.630T>C	p.Ile210Ile	630/3822	630/3822	210/1273	210	1273		",C"	I210I	T22192C	I210I	S:I210I	210	S	I210I	S:I210I	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	23403	.	A	G	3086	PASS	89	1	2147483647	"0,0,89,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	23725	.	T	A	602	PASS	105	0.219048	0	"82,0,23,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2163T>A	p.Ser721Arg	2163/3822	2163/3822	721/1273	721	1273		",A"	S721R	T23725A	S721R	S:S721R	721	S	S721R	S:S721R	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	23726	.	G	A	581	PASS	105	0.219048	0	"82,0,23,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2164G>A	p.Val722Ile	2164/3822	2164/3822	722/1273	722	1273		",A"	V722I	G23726A	V722I	S:V722I	722	S	V722I	S:V722I	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	23868	.	G	C	394	PASS	512	0.054688	0	"484,0,28,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2306G>C	p.Gly769Ala	2306/3822	2306/3822	769/1273	769	1273		",C"	G769A	G23868C	G769A	S:G769A	769	S	G769A	S:G769A	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	23905	.	T	C	161	PASS	549	0.030965	0	"532,0,17,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2343T>C	p.Val781Val	2343/3822	2343/3822	781/1273	781	1273		",C"	V781V	T23905C	V781V	S:V781V	781	S	V781V	S:V781V	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	24223	.	C	CT	3580	PASS	670	0.171642	0	"555,0,115,0"	TRUE	CT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2664dupT	p.Gly889fs	2665/3822	2665/3822	889/1273	889	1273		"INFO_REALIGN_3_PRIME,CT"	del889	C24223CT	del889	S:DEL889	889	S	del889	S:DEL889	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	24566	.	CA	C	207	PASS	859	0.011641	0	"849,0,10,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3007delA	p.Ser1003fs	3007/3822	3007/3822	1003/1273	1003	1273		"INFO_REALIGN_3_PRIME,C"	del1003	CA24566C	del1003	S:DEL1003	1003	S	del1003	S:DEL1003	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25244	.	G	T	69	PASS	631	0.026941	0	"614,0,17,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25247	.	A	T	98	PASS	633	0.034755	0	"610,0,22,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25252	.	G	C	78	PASS	652	0.030675	0	"622,0,20,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>C	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",C"	V1230V	G25252C	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25254	.	C	A	118	PASS	688	0.036337	0	"663,0,25,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25273	.	G	C	70	PASS	637	0.031397	0	"613,0,20,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25277	.	A	T	231	PASS	626	0.067093	0	"576,0,42,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25286	.	A	T	290	PASS	662	0.074018	0	"598,0,49,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25296	.	A	C	348	PASS	656	0.08689	0	"560,0,57,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25296	.	A	T	128	PASS	656	0.050305	0	"560,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25314	.	G	T	109	PASS	691	0.047757	0	"653,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25323	.	G	C	106	PASS	680	0.05	0	"632,0,34,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25324	.	C	A	1244	PASS	687	0.186317	0	"559,0,128,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25327	.	A	T	193	PASS	678	0.069322	0	"631,0,47,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25331	.	G	T	162	PASS	673	0.065379	0	"626,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25334	.	G	C	152	PASS	672	0.063988	0	"600,0,43,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25334	.	G	T	65	PASS	672	0.043155	0	"600,0,29,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25336	.	A	C	676	PASS	683	0.14202	0	"584,0,97,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25337	.	G	C	165	PASS	630	0.068254	0	"587,0,43,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25614	.	CA	C	2185	PASS	837	0.099164	0	"754,0,83,0"	TRUE	C	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.224delA	p.Lys75fs	224/828	224/828	75/275	75	275		"INFO_REALIGN_3_PRIME,C"	del75	CA25614C	del75	ORF3A:DEL75	75	ORF3a	del75	ORF3A:DEL75	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	25963	.	GA	G	50	PASS	591	0.005076	0	"588,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.576delA	p.Lys192fs	576/828	576/828	192/275	192	275		"INFO_REALIGN_3_PRIME,G"	del192	GA25963G	del192	ORF3A:DEL192	192	ORF3a	del192	ORF3A:DEL192	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	26428	.	G	T	5251	PASS	1406	0.167141	0	"1171,0,235,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.184G>T	p.Val62Phe	184/228	184/228	62/75	62	75		",T"	V62F	G26428T	V62F	E:V62F	62	E	V62F	E:V62F	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	26713	.	G	GT	7063	PASS	1182	0.193739	0	"953,0,229,0"	TRUE	GT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.195dupT	p.Val66fs	196/669	196/669	66/222	66	222		"INFO_REALIGN_3_PRIME,GT"	del66	G26713GT	del66	M:DEL66	66	M	del66	M:DEL66	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	27115	.	GC	G	49	PASS	103	0.019417	0	"101,0,2,0"	TRUE	G	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.594delC	p.Tyr199fs	594/669	594/669	198/222	198	222		",G"	del199	GC27115G	del199	M:DEL199	199	M	del199	M:DEL199	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	27418	.	C	T	242	PASS	260	0.05	0	"247,0,13,0"	FALSE	T	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.25C>T	p.Leu9Leu	25/366	25/366	9/121	9	121		",T"	L9L	C27418T	L9L	ORF7A:L9L	9	ORF7a	L9L	ORF7A:L9L	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	27945	.	C	T	17970	PASS	736	0.752717	0	"181,0,554,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.52C>T	p.Gln18*	52/366	52/366	18/121	18	121		",T"	Q18*	C27945T	Q18*	ORF8:Q18*	18	ORF8	Q18*	ORF8:Q18*	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	28115	.	C	T	11194	PASS	1191	0.345928	0	"779,0,412,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.222C>T	p.Ile74Ile	222/366	222/366	74/121	74	121		",T"	I74I	C28115T	I74I	ORF8:I74I	74	ORF8	I74I	ORF8:I74I	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	28221	.	G	T	19002	PASS	1198	0.530885	0	"562,0,636,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.328G>T	p.Glu110*	328/366	328/366	110/121	110	121		",T"	E110*	G28221T	E110*	ORF8:E110*	110	ORF8	E110*	ORF8:E110*	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	28377	.	CG	C	4004	PASS	1025	0.136585	0	"886,0,140,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105delG	p.Arg36fs	105/1260	105/1260	35/419	35	419		",C"	del36	CG28377C	del36	N:DEL36	36	N	del36	N:DEL36	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	28550	.	C	T	6411	PASS	1378	0.204644	0	"1093,0,282,0"	FALSE	T	stop_gained	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.277C>T	p.Arg93*	277/1260	277/1260	93/419	93	419		",T"	R93*	C28550T	R93*	N:R93*	93	N	R93*	N:R93*	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	28881	.	G	A	47633	PASS	1349	0.996294	0	"1,0,1344,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	28882	.	G	A	47028	PASS	1348	0.996291	0	"1,0,1343,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	28883	.	G	C	48333	PASS	1358	0.994845	2147483647	"0,0,1351,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET19	NC_045512.2	28987	.	CCAA	C	63	PASS	1348	0.002967	0	"1350,0,4,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BET19	BETTEMBOURG	2020-08-05T00:00:00Z	32.7515	35	NA	19/09/2021	2020-08-05
BET31	NC_045512.2	204	.	G	T	20203	PASS	2014	0.362959	0	"1283,0,731,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	241	.	C	T	49314	PASS	2373	0.999579	2147483647	"0,0,2372,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	335	.	C	T	23075	PASS	2477	0.338716	0	"1635,0,839,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	434	.	GA	G	73	PASS	2786	0.002154	0	"2793,0,6,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	445	.	T	C	26774	PASS	2880	0.353125	0	"1858,0,1017,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	536	.	G	T	27521	PASS	2750	0.358182	0	"1765,0,985,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.271G>T	p.Glu91*	271/21291	271/21291	91/7096	91	7096		",T"	E91*	G536T	E91*	ORF1AB:E91*	91	ORF1a	E91*	ORF1A:E91*	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	723	.	C	T	758	PASS	2601	0.026913	0	"2526,0,70,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.458C>T	p.Pro153Leu	458/21291	458/21291	153/7096	153	7096		",T"	P153L	C723T	P153L	ORF1AB:P153L	153	ORF1a	P153L	ORF1A:P153L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	3037	.	C	T	48167	PASS	1369	1	2147483647	"0,0,1369,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	3602	.	C	T	670	PASS	84	0.297619	0	"59,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	4040	.	A	G	1053	PASS	199	0.211055	0	"157,0,42,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	4352	.	G	C	472	PASS	152	0.138158	0	"131,0,21,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4087G>C	p.Glu1363Gln	4087/21291	4087/21291	1363/7096	1363	7096		",C"	E1363Q	G4352C	E1363Q	ORF1AB:E1363Q	1363	ORF1a	E1363Q	ORF1A:E1363Q	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	4543	.	C	T	2467	PASS	179	0.480447	0	"93,0,86,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	5629	.	G	T	7397	PASS	558	0.453405	0	"305,0,253,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	6286	.	C	T	5693	PASS	675	0.32	0	"458,0,216,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	6513	.	G	GT	344	PASS	589	0.025467	0	"578,0,15,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6251dupT	p.Leu2084fs	6252/21291	6252/21291	2084/7096	2084	7096		"INFO_REALIGN_3_PRIME,GT"	del2084	G6513GT	del2084	ORF1AB:DEL2084	2084	ORF1a	del2084	ORF1A:DEL2084	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	6941	.	C	T	1152	PASS	250	0.2	0	"200,0,50,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	7058	.	G	A	343	PASS	197	0.086294	0	"180,0,17,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6793G>A	p.Gly2265Ser	6793/21291	6793/21291	2265/7096	2265	7096		",A"	G2265S	G7058A	G2265S	ORF1AB:G2265S	2265	ORF1a	G2265S	ORF1A:G2265S	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	7059	.	G	C	331	PASS	199	0.085427	0	"182,0,17,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6794G>C	p.Gly2265Ala	6794/21291	6794/21291	2265/7096	2265	7096		",C"	G2265A	G7059C	G2265A	ORF1AB:G2265A	2265	ORF1a	G2265A	ORF1A:G2265A	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	8374	.	A	G	216	PASS	138	0.072464	0	"128,0,10,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8109A>G	p.Val2703Val	8109/21291	8109/21291	2703/7096	2703	7096		",G"	V2703V	A8374G	V2703V	ORF1AB:V2703V	2703	ORF1a	V2703V	ORF1A:V2703V	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	8505	.	CT	C	50	PASS	98	0.020408	0	"96,0,2,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8241delT	p.Arg2748fs	8241/21291	8241/21291	2747/7096	2747	7096		",C"	del2748	CT8505C	del2748	ORF1AB:DEL2748	2748	ORF1a	del2748	ORF1A:DEL2748	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	9526	.	G	T	42111	PASS	1838	0.723069	0	"509,0,1329,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	9811	.	CT	C	48	PASS	2110	0.001896	0	"2106,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9551delT	p.Leu3184fs	9551/21291	9551/21291	3184/7096	3184	7096		"INFO_REALIGN_3_PRIME,C"	del3184	CT9811C	del3184	ORF1AB:DEL3184	3184	ORF1a	del3184	ORF1A:DEL3184	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	10252	.	C	T	3410	PASS	718	0.206128	0	"570,0,148,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9987C>T	p.Phe3329Phe	9987/21291	9987/21291	3329/7096	3329	7096		",T"	F3329F	C10252T	F3329F	ORF1AB:F3329F	3329	ORF1a	F3329F	ORF1A:F3329F	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	11075	.	T	C	69	PASS	500	0.024	0	"485,0,12,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10810T>C	p.Phe3604Leu	10810/21291	10810/21291	3604/7096	3604	7096		",C"	F3604L	T11075C	F3604L	ORF1AB:F3604L	3604	ORF1a	F3604L	ORF1A:F3604L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	11083	.	G	T	388	PASS	594	0.047138	0	"566,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	11087	.	GA	G	342	PASS	598	0.025084	0	"583,0,15,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10826delA	p.Asn3609fs	10826/21291	10826/21291	3609/7096	3609	7096		"INFO_REALIGN_3_PRIME,G"	del3609	GA11087G	del3609	ORF1AB:DEL3609	3609	ORF1a	del3609	ORF1A:DEL3609	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	11497	.	C	T	1545	PASS	138	0.398551	0	"83,0,55,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	12226	.	TA	T	48	PASS	129	0.015504	0	"127,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11964delA	p.Lys3988fs	11964/21291	11964/21291	3988/7096	3988	7096		"INFO_REALIGN_3_PRIME,T"	del3988	TA12226T	del3988	ORF1AB:DEL3988	3988	ORF1a	del3988	ORF1A:DEL3988	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	12528	.	C	T	2366	PASS	272	0.323529	0	"184,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12263C>T	p.Thr4088Ile	12263/21291	12263/21291	4088/7096	4088	7096		",T"	T4088I	C12528T	T4088I	ORF1AB:T4088I	4088	ORF1a	T4088I	ORF1A:T4088I	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	12880	.	C	T	576	PASS	2080	0.020192	0	"2037,0,42,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12615C>T	p.Ile4205Ile	12615/21291	12615/21291	4205/7096	4205	7096		",T"	I4205I	C12880T	I4205I	ORF1AB:I4205I	4205	ORF1a	I4205I	ORF1A:I4205I	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	13914	.	TA	T	75	PASS	456	0.008772	0	"453,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13655delA	p.Lys4552fs	13655/21291	13655/21291	4552/7096	4552	7096		"INFO_REALIGN_3_PRIME,T"	del4552	TA13914T	del4552	ORF1AB:DEL4552	151	ORF1b	del151	ORF1B:DEL151	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	13993	.	G	T	784	PASS	368	0.103261	0	"330,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	14408	.	C	T	969	PASS	27	1	2147483647	"0,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	14555	.	TTG	T	64	PASS	242	0.012397	0	"239,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14295_14296delGT	p.Tyr4766fs	14295/21291	14295/21291	4765/7096	4765	7096		"INFO_REALIGN_3_PRIME,T"	del4766	TTG14555T	del4766	ORF1AB:DEL4766	365	ORF1b	del365	ORF1B:DEL365	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	15324	.	C	T	2888	PASS	651	0.187404	0	"527,0,122,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	15559	.	C	T	2179	PASS	729	0.137174	0	"628,0,100,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15295C>T	p.Leu5099Phe	15295/21291	15295/21291	5099/7096	5099	7096		",T"	L5099F	C15559T	L5099F	ORF1AB:L5099F	698	ORF1b	L698F	ORF1B:L698F	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	15766	.	G	T	11822	PASS	578	0.655709	0	"199,0,379,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	16801	.	A	G	320	PASS	3036	0.011858	0	"2999,0,36,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16537A>G	p.Lys5513Glu	16537/21291	16537/21291	5513/7096	5513	7096		",G"	K5513E	A16801G	K5513E	ORF1AB:K5513E	1112	ORF1b	K1112E	ORF1B:K1112E	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	16889	.	A	G	35129	PASS	2372	0.492833	0	"1202,0,1169,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	17019	.	G	T	14315	PASS	1071	0.457516	0	"580,0,490,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	18659	.	GTT	G	172	PASS	555	0.014414	0	"547,0,8,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18396_18397delTT	p.Cys6132fs	18396/21291	18396/21291	6132/7096	6132	7096		",G"	del6132	GTT18659G	del6132	ORF1AB:DEL6132	1731	ORF1b	del1731	ORF1B:DEL1731	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	18877	.	C	T	49026	PASS	1949	0.762442	0	"462,0,1486,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	19538	.	T	C	3722	PASS	480	0.2875	0	"341,0,138,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19274T>C	p.Met6425Thr	19274/21291	19274/21291	6425/7096	6425	7096		",C"	M6425T	T19538C	M6425T	ORF1AB:M6425T	2024	ORF1b	M2024T	ORF1B:M2024T	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	21081	.	A	G	17110	PASS	1294	0.459815	0	"698,0,595,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20817A>G	p.Lys6939Lys	20817/21291	20817/21291	6939/7096	6939	7096		",G"	K6939K	A21081G	K6939K	ORF1AB:K6939K	2538	ORF1b	K2538K	ORF1B:K2538K	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	21486	.	TA	T	8593	PASS	1677	0.175909	0	"1420,0,295,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21225delA	p.Gly7076fs	21225/21291	21225/21291	7075/7096	7075	7096		"INFO_REALIGN_3_PRIME,T"	del7076	TA21486T	del7076	ORF1AB:DEL7076	2675	ORF1b	del2675	ORF1B:DEL2675	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	21568	.	T	C	251	PASS	1413	0.016277	0	"1390,0,23,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.6T>C	p.Phe2Phe	6/3822	6/3822	2/1273	2	1273		",C"	F2F	T21568C	F2F	S:F2F	2	S	F2F	S:F2F	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	22883	.	CT	C	379	PASS	64	0.203125	0	"51,0,13,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1323delT	p.Asp442fs	1323/3822	1323/3822	441/1273	441	1273		"INFO_REALIGN_3_PRIME,C"	del442	CT22883C	del442	S:DEL442	442	S	del442	S:DEL442	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	22992	.	G	A	1792	PASS	96	0.614583	0	"37,0,59,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	23311	.	G	C	161	PASS	191	0.04712	0	"182,0,9,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1749G>C	p.Glu583Asp	1749/3822	1749/3822	583/1273	583	1273		",C"	E583D	G23311C	E583D	S:E583D	583	S	E583D	S:E583D	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	23403	.	A	G	5989	PASS	173	1	2147483647	"0,0,173,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	24627	.	C	T	5973	PASS	417	0.486811	0	"212,0,203,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3065C>T	p.Ala1022Val	3065/3822	3065/3822	1022/1273	1022	1273		",T"	A1022V	C24627T	A1022V	S:A1022V	1022	S	A1022V	S:A1022V	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	24793	.	TG	T	8385	PASS	529	0.493384	0	"278,0,261,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3232delG	p.Ala1078fs	3232/3822	3232/3822	1078/1273	1078	1273		",T"	del1078	TG24793T	del1078	S:DEL1078	1078	S	del1078	S:DEL1078	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25002	.	C	T	387	PASS	479	0.048017	0	"455,0,23,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3440C>T	p.Ser1147Leu	3440/3822	3440/3822	1147/1273	1147	1273		",T"	S1147L	C25002T	S1147L	S:S1147L	1147	S	S1147L	S:S1147L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25216	.	A	T	88	PASS	222	0.054054	0	"209,0,12,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25277	.	A	T	102	PASS	267	0.067416	0	"245,0,18,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25286	.	A	T	170	PASS	272	0.095588	0	"240,0,26,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25296	.	A	C	196	PASS	276	0.105072	0	"235,0,29,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25323	.	G	C	130	PASS	281	0.092527	0	"249,0,26,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25324	.	C	A	633	PASS	282	0.205674	0	"224,0,58,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25331	.	G	T	68	PASS	276	0.065217	0	"255,0,18,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25334	.	G	C	90	PASS	275	0.076364	0	"242,0,21,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25336	.	A	C	394	PASS	281	0.174377	0	"232,0,49,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25337	.	G	C	175	PASS	260	0.119231	0	"229,0,31,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25549	.	C	T	349	PASS	288	0.069444	0	"267,0,20,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.157C>T	p.Leu53Phe	157/828	157/828	53/275	53	275		",T"	L53F	C25549T	L53F	ORF3A:L53F	53	ORF3a	L53F	ORF3A:L53F	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25563	.	G	T	5902	PASS	292	0.636986	0	"103,0,186,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25669	.	C	T	3529	PASS	293	0.423208	0	"169,0,124,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.277C>T	p.His93Tyr	277/828	277/828	93/275	93	275		",T"	H93Y	C25669T	H93Y	ORF3A:H93Y	93	ORF3a	H93Y	ORF3A:H93Y	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25710	.	C	T	2394	PASS	232	0.37069	0	"146,0,86,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25797	.	C	CA	1029	PASS	148	0.243243	0	"112,0,36,0"	TRUE	CA	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.410dupA	p.Asn137fs	411/828	411/828	137/275	137	275		"INFO_REALIGN_3_PRIME,CA"	del137	C25797CA	del137	ORF3A:DEL137	137	ORF3a	del137	ORF3A:DEL137	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25844	.	C	T	949	PASS	161	0.223602	0	"124,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.452C>T	p.Thr151Ile	452/828	452/828	151/275	151	275		",T"	T151I	C25844T	T151I	ORF3A:T151I	151	ORF3a	T151I	ORF3A:T151I	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25906	.	G	C	1587	PASS	177	0.333333	0	"118,0,59,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	25996	.	G	T	1358	PASS	149	0.348993	0	"96,0,52,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	26263	.	G	T	487	PASS	520	0.055769	0	"490,0,29,0"	FALSE	T	stop_gained	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.19G>T	p.Glu7*	19/228	19/228	7/75	7	75		",T"	E7*	G26263T	E7*	E:E7*	7	E	E7*	E:E7*	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	26735	.	C	T	16076	PASS	658	0.753799	0	"162,0,496,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	26801	.	C	G	3499	PASS	614	0.226384	0	"475,0,139,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	26876	.	T	C	6650	PASS	321	0.666667	0	"107,0,214,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	26895	.	CA	C	140	PASS	226	0.026549	0	"225,0,6,0"	TRUE	C	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.374delA	p.His125fs	374/669	374/669	125/222	125	222		",C"	del125	CA26895C	del125	M:DEL125	125	M	del125	M:DEL125	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	27428	.	T	C	69	PASS	576	0.010417	0	"570,0,6,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.35T>C	p.Leu12Pro	35/366	35/366	12/121	12	121		",C"	L12P	T27428C	L12P	ORF7A:L12P	12	ORF7a	L12P	ORF7A:L12P	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	27434	.	C	T	9100	PASS	670	0.474627	0	"350,0,318,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	27481	.	C	CT	3648	PASS	762	0.158793	0	"641,0,121,0"	TRUE	CT	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.92dupT	p.Leu31fs	93/366	93/366	31/121	31	121		"INFO_REALIGN_3_PRIME,CT"	del31	C27481CT	del31	ORF7A:DEL31	31	ORF7a	del31	ORF7A:DEL31	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	27837	.	T	C	3373	PASS	1031	0.14161	0	"885,0,146,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.82T>C	p.Phe28Leu	82/132	82/132	28/43	28	43		",C"	F28L	T27837C	F28L	ORF7B:F28L	28	ORF7b	F28L	ORF7B:F28L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	27944	.	C	T	530	PASS	1102	0.037205	0	"1060,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	28133	.	A	T	3048	PASS	1145	0.119651	0	"1007,0,137,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	28514	.	G	T	2975	PASS	1649	0.097029	0	"1489,0,160,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.241G>T	p.Asp81Tyr	241/1260	241/1260	81/419	81	419		",T"	D81Y	G28514T	D81Y	N:D81Y	81	N	D81Y	N:D81Y	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	28651	.	C	T	4647	PASS	1322	0.155825	0	"1116,0,206,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	28790	.	G	C	532	PASS	1932	0.027433	0	"1876,0,53,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.517G>C	p.Ala173Pro	517/1260	517/1260	173/419	173	419		",C"	A173P	G28790C	A173P	N:A173P	173	N	A173P	N:A173P	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	28869	.	C	T	4104	PASS	1736	0.11924	0	"1523,0,207,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	28932	.	C	T	3693	PASS	1735	0.115274	0	"1534,0,200,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	28975	.	G	C	41199	PASS	1647	0.76017	0	"393,0,1252,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET31	NC_045512.2	28987	.	CCAA	C	81	PASS	1527	0.003274	0	"1531,0,5,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BET31	BETTEMBOURG	2020-10-26T00:00:00Z	30.99575	34.73666667	x	14122020	2020-10-26
BET33-3	NC_045512.2	59	.	C	T	775	PASS	322	0.118012	0	"284,0,38,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-207C>T						NA	207	",T"		C59T		NA	NA	NA		NA	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	241	.	C	T	49314	PASS	3972	0.997734	0	"2,0,3963,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	370	.	G	T	10136	PASS	4352	0.127528	0	"3792,0,555,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.105G>T	p.Val35Val	105/21291	105/21291	35/7096	35	7096		",T"	V35V	G370T	V35V	ORF1AB:V35V	35	ORF1a	V35V	ORF1A:V35V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	445	.	T	C	11847	PASS	4559	0.16429	0	"3792,0,749,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	479	.	A	G	126	PASS	4683	0.008328	0	"4634,0,39,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.214A>G	p.Lys72Glu	214/21291	214/21291	72/7096	72	7096		",G"	K72E	A479G	K72E	ORF1AB:K72E	72	ORF1a	K72E	ORF1A:K72E	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	593	.	C	T	14920	PASS	3805	0.182654	0	"3101,0,695,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	677	.	G	A	2335	PASS	4434	0.04691	0	"4214,0,208,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.412G>A	p.Ala138Thr	412/21291	412/21291	138/7096	138	7096		",A"	A138T	G677A	A138T	ORF1AB:A138T	138	ORF1a	A138T	ORF1A:A138T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	712	.	T	C	6251	PASS	4705	0.086504	0	"4293,0,407,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.447T>C	p.Leu149Leu	447/21291	447/21291	149/7096	149	7096		",C"	L149L	T712C	L149L	ORF1AB:L149L	149	ORF1a	L149L	ORF1A:L149L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	788	.	CG	C	15537	PASS	3746	0.149226	0	"3187,0,559,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.524delG	p.Arg175fs	524/21291	524/21291	175/7096	175	7096		",C"	del175	CG788C	del175	ORF1AB:DEL175	175	ORF1a	del175	ORF1A:DEL175	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	802	.	A	C	85	PASS	3354	0.007454	0	"3312,0,25,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	860	.	G	T	1275	PASS	2861	0.040895	0	"2743,0,117,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.595G>T	p.Glu199*	595/21291	595/21291	199/7096	199	7096		",T"	E199*	G860T	E199*	ORF1AB:E199*	199	ORF1a	E199*	ORF1A:E199*	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	1211	.	T	G	13706	PASS	2745	0.244809	0	"2067,0,672,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.946T>G	p.Cys316Gly	946/21291	946/21291	316/7096	316	7096		",G"	C316G	T1211G	C316G	ORF1AB:C316G	316	ORF1a	C316G	ORF1A:C316G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	1480	.	CT	C	1307	PASS	1198	0.370618	0	"754,0,444,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1218delT	p.Phe406fs	1218/21291	1218/21291	406/7096	406	7096		"INFO_REALIGN_3_PRIME,C"	del406	CT1480C	del406	ORF1AB:DEL406	406	ORF1a	del406	ORF1A:DEL406	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	1483	.	TG	T	59	PASS	1194	0.021776	0	"1168,0,26,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1220delG	p.Gly407fs	1220/21291	1220/21291	407/7096	407	7096		"INFO_REALIGN_3_PRIME,T"	del407	TG1483T	del407	ORF1AB:DEL407	407	ORF1a	del407	ORF1A:DEL407	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	1484	.	G	C	1630	PASS	1198	0.376461	0	"717,0,451,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1219G>C	p.Gly407Arg	1219/21291	1219/21291	407/7096	407	7096		",C"	G407R	G1484C	G407R	ORF1AB:G407R	407	ORF1a	G407R	ORF1A:G407R	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	1559	.	G	A	16769	PASS	1737	0.3673	0	"1092,0,638,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1294G>A	p.Gly432Ser	1294/21291	1294/21291	432/7096	432	7096		",A"	G432S	G1559A	G432S	ORF1AB:G432S	432	ORF1a	G432S	ORF1A:G432S	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	1730	.	G	A	7752	PASS	1741	0.199311	0	"1391,0,347,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1465G>A	p.Glu489Lys	1465/21291	1465/21291	489/7096	489	7096		",A"	E489K	G1730A	E489K	ORF1AB:E489K	489	ORF1a	E489K	ORF1A:E489K	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2416	.	C	T	1609	PASS	368	0.195652	0	"296,0,72,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2433	.	C	T	2136	PASS	475	0.195789	0	"381,0,93,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2168C>T	p.Ser723Phe	2168/21291	2168/21291	723/7096	723	7096		",T"	S723F	C2433T	S723F	ORF1AB:S723F	723	ORF1a	S723F	ORF1A:S723F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2644	.	C	T	5119	PASS	1303	0.178818	0	"1067,0,233,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2379C>T	p.Ile793Ile	2379/21291	2379/21291	793/7096	793	7096		",T"	I793I	C2644T	I793I	ORF1AB:I793I	793	ORF1a	I793I	ORF1A:I793I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2669	.	C	T	4315	PASS	1292	0.164087	0	"1078,0,212,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2404C>T	p.Leu802Phe	2404/21291	2404/21291	802/7096	802	7096		",T"	L802F	C2669T	L802F	ORF1AB:L802F	802	ORF1a	L802F	ORF1A:L802F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2695	.	C	T	6943	PASS	1580	0.196835	0	"1268,0,311,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2430C>T	p.Asn810Asn	2430/21291	2430/21291	810/7096	810	7096		",T"	N810N	C2695T	N810N	ORF1AB:N810N	810	ORF1a	N810N	ORF1A:N810N	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2764	.	G	T	6618	PASS	1749	0.184677	0	"1425,0,323,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2499G>T	p.Val833Val	2499/21291	2499/21291	833/7096	833	7096		",T"	V833V	G2764T	V833V	ORF1AB:V833V	833	ORF1a	V833V	ORF1A:V833V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2883	.	G	T	6832	PASS	1860	0.180645	0	"1524,0,336,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2618G>T	p.Cys873Phe	2618/21291	2618/21291	873/7096	873	7096		",T"	C873F	G2883T	C873F	ORF1AB:C873F	873	ORF1a	C873F	ORF1A:C873F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2950	.	T	C	8190	PASS	1580	0.227215	0	"1218,0,359,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2685T>C	p.Ile895Ile	2685/21291	2685/21291	895/7096	895	7096		",C"	I895I	T2950C	I895I	ORF1AB:I895I	895	ORF1a	I895I	ORF1A:I895I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	2952	.	AT	A	61	PASS	1571	0.002546	0	"1579,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2690delT	p.Leu897fs	2690/21291	2690/21291	897/7096	897	7096		"INFO_REALIGN_3_PRIME,A"	del897	AT2952A	del897	ORF1AB:DEL897	897	ORF1a	del897	ORF1A:DEL897	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	3037	.	C	T	48799	PASS	1407	0.995025	0	"2,0,1400,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	3602	.	C	T	535	PASS	40	0.45	0	"22,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	3621	.	G	C	162	PASS	53	0.169811	0	"44,0,9,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3356G>C	p.Gly1119Ala	3356/21291	3356/21291	1119/7096	1119	7096		",C"	G1119A	G3621C	G1119A	ORF1AB:G1119A	1119	ORF1a	G1119A	ORF1A:G1119A	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	3734	.	G	T	331	PASS	61	0.245902	0	"46,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3469G>T	p.Asp1157Tyr	3469/21291	3469/21291	1157/7096	1157	7096		",T"	D1157Y	G3734T	D1157Y	ORF1AB:D1157Y	1157	ORF1a	D1157Y	ORF1A:D1157Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	4543	.	C	T	4989	PASS	257	0.657588	0	"88,0,169,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	5884	.	C	T	107	PASS	203	0.044335	0	"194,0,9,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	6286	.	C	T	2127	PASS	217	0.387097	0	"133,0,84,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	6555	.	C	T	586	PASS	249	0.136546	0	"213,0,34,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	6604	.	A	G	1138	PASS	204	0.25	0	"153,0,51,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6339A>G	p.Leu2113Leu	6339/21291	6339/21291	2113/7096	2113	7096		",G"	L2113L	A6604G	L2113L	ORF1AB:L2113L	2113	ORF1a	L2113L	ORF1A:L2113L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	6632	.	G	T	243	PASS	170	0.094118	0	"154,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6367G>T	p.Ala2123Ser	6367/21291	6367/21291	2123/7096	2123	7096		",T"	A2123S	G6632T	A2123S	ORF1AB:A2123S	2123	ORF1a	A2123S	ORF1A:A2123S	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	6696	.	C	CT	2228	PASS	89	0.696629	0	"27,0,62,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	6941	.	C	T	4183	PASS	120	1	2147483647	"0,0,120,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	7594	.	C	T	1418	PASS	297	0.212121	0	"234,0,63,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7329C>T	p.Gly2443Gly	7329/21291	7329/21291	2443/7096	2443	7096		",T"	G2443G	C7594T	G2443G	ORF1AB:G2443G	2443	ORF1a	G2443G	ORF1A:G2443G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	8376	.	CA	C	683	PASS	711	0.040788	0	"682,0,29,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	8591	.	G	GT	4036	PASS	805	0.170186	0	"672,0,137,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8328dupT	p.Thr2777fs	8329/21291	8329/21291	2777/7096	2777	7096		"INFO_REALIGN_3_PRIME,GT"	del2777	G8591GT	del2777	ORF1AB:DEL2777	2777	ORF1a	del2777	ORF1A:DEL2777	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	8618	.	G	A	3847	PASS	705	0.236879	0	"537,0,167,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	8677	.	T	C	2213	PASS	675	0.171852	0	"558,0,116,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8412T>C	p.Ser2804Ser	8412/21291	8412/21291	2804/7096	2804	7096		",C"	S2804S	T8677C	S2804S	ORF1AB:S2804S	2804	ORF1a	S2804S	ORF1A:S2804S	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	8983	.	T	G	2881	PASS	831	0.168472	0	"689,0,140,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	9526	.	G	T	12362	PASS	1865	0.284719	0	"1328,0,531,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	9540	.	T	C	68	PASS	1883	0.008497	0	"1864,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9275T>C	p.Leu3092Pro	9275/21291	9275/21291	3092/7096	3092	7096		",C"	L3092P	T9540C	L3092P	ORF1AB:L3092P	3092	ORF1a	L3092P	ORF1A:L3092P	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	9935	.	A	G	6207	PASS	1884	0.177282	0	"1546,0,334,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9670A>G	p.Thr3224Ala	9670/21291	9670/21291	3224/7096	3224	7096		",G"	T3224A	A9935G	T3224A	ORF1AB:T3224A	3224	ORF1a	T3224A	ORF1A:T3224A	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	10664	.	GT	G	78	PASS	441	0.00907	0	"456,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10403delT	p.Leu3468fs	10403/21291	10403/21291	3468/7096	3468	7096		"INFO_REALIGN_3_PRIME,G"	del3468	GT10664G	del3468	ORF1AB:DEL3468	3468	ORF1a	del3468	ORF1A:DEL3468	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	10912	.	A	G	1424	PASS	101	0.504951	0	"49,0,51,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10647A>G	p.Leu3549Leu	10647/21291	10647/21291	3549/7096	3549	7096		",G"	L3549L	A10912G	L3549L	ORF1AB:L3549L	3549	ORF1a	L3549L	ORF1A:L3549L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	11133	.	CT	C	89	PASS	835	0.005988	0	"830,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10872delT	p.Phe3624fs	10872/21291	10872/21291	3624/7096	3624	7096		"INFO_REALIGN_3_PRIME,C"	del3624	CT11133C	del3624	ORF1AB:DEL3624	3624	ORF1a	del3624	ORF1A:DEL3624	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	11483	.	GT	G	50	PASS	891	0.003367	0	"888,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11220delT	p.Thr3741fs	11220/21291	11220/21291	3740/7096	3740	7096		"INFO_REALIGN_3_PRIME,G"	del3741	GT11483G	del3741	ORF1AB:DEL3741	3741	ORF1a	del3741	ORF1A:DEL3741	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	11497	.	C	T	13230	PASS	907	0.529217	0	"426,0,480,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	13357	.	A	G	19681	PASS	3495	0.242346	0	"2641,0,847,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13092A>G	p.Thr4364Thr	13092/21291	13092/21291	4364/7096	4364	7096		",G"	T4364T	A13357G	T4364T	ORF1AB:T4364T	4364	ORF1a	T4364T	ORF1A:T4364T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	13412	.	TG	T	4639	PASS	3353	0.056069	0	"3190,0,188,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13148delG	p.Cys4383fs	13148/21291	13148/21291	4383/7096	4383	7096		",T"	del4383	TG13412T	del4383	ORF1AB:DEL4383	4383	ORF1a	del4383	ORF1A:DEL4383	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	13517	.	C	T	16939	PASS	2196	0.307377	0	"1519,0,675,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	13809	.	A	G	781	PASS	1522	0.047306	0	"1446,0,72,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13545A>G	p.Thr4515Thr	13545/21291	13545/21291	4515/7096	4515	7096		",G"	T4515T	A13809G	T4515T	ORF1AB:T4515T	114	ORF1b	T114T	ORF1B:T114T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	13993	.	G	T	9869	PASS	1158	0.341105	0	"762,0,395,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	14063	.	A	T	7547	PASS	833	0.357743	0	"534,0,298,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13799A>T	p.Asp4600Val	13799/21291	13799/21291	4600/7096	4600	7096		",T"	D4600V	A14063T	D4600V	ORF1AB:D4600V	199	ORF1b	D199V	ORF1B:D199V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	14681	.	A	T	8915	PASS	1113	0.327044	0	"748,0,364,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14417A>T	p.Asn4806Ile	14417/21291	14417/21291	4806/7096	4806	7096		",T"	N4806I	A14681T	N4806I	ORF1AB:N4806I	405	ORF1b	N405I	ORF1B:N405I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	14998	.	A	T	17173	PASS	2110	0.330806	0	"1409,0,698,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14734A>T	p.Ser4912Cys	14734/21291	14734/21291	4912/7096	4912	7096		",T"	S4912C	A14998T	S4912C	ORF1AB:S4912C	511	ORF1b	S511C	ORF1B:S511C	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	15360	.	CA	C	1137	PASS	129	0.271318	0	"94,0,35,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15099delA	p.Lys5033fs	15099/21291	15099/21291	5033/7096	5033	7096		"INFO_REALIGN_3_PRIME,C"	del5033	CA15360C	del5033	ORF1AB:DEL5033	632	ORF1b	del632	ORF1B:DEL632	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	15661	.	T	C	856	PASS	198	0.207071	0	"157,0,41,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15397T>C	p.Phe5133Leu	15397/21291	15397/21291	5133/7096	5133	7096		",C"	F5133L	T15661C	F5133L	ORF1AB:F5133L	732	ORF1b	F732L	ORF1B:F732L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	15766	.	G	T	89	PASS	256	0.035156	0	"246,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	16320	.	A	G	5703	PASS	1620	0.172222	0	"1337,0,279,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16056A>G	p.Lys5352Lys	16056/21291	16056/21291	5352/7096	5352	7096		",G"	K5352K	A16320G	K5352K	ORF1AB:K5352K	951	ORF1b	K951K	ORF1B:K951K	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	16541	.	A	G	9457	PASS	3258	0.148864	0	"2766,0,485,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16277A>G	p.Asn5426Ser	16277/21291	16277/21291	5426/7096	5426	7096		",G"	N5426S	A16541G	N5426S	ORF1AB:N5426S	1025	ORF1b	N1025S	ORF1B:N1025S	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	16889	.	A	G	11478	PASS	2896	0.182666	0	"2359,0,529,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	17019	.	G	T	6191	PASS	1368	0.209064	0	"1082,0,286,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	17523	.	GA	G	11359	PASS	1282	0.280031	0	"923,0,359,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17263delA	p.Thr5755fs	17263/21291	17263/21291	5755/7096	5755	7096		"INFO_REALIGN_3_PRIME,G"	del5755	GA17523G	del5755	ORF1AB:DEL5755	1354	ORF1b	del1354	ORF1B:DEL1354	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	17589	.	T	A	7721	PASS	1423	0.239635	0	"1079,0,341,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17325T>A	p.Thr5775Thr	17325/21291	17325/21291	5775/7096	5775	7096		",A"	T5775T	T17589A	T5775T	ORF1AB:T5775T	1374	ORF1b	T1374T	ORF1B:T1374T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	17590	.	G	C	7529	PASS	1434	0.236402	0	"1092,0,339,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17326G>C	p.Val5776Leu	17326/21291	17326/21291	5776/7096	5776	7096		",C"	V5776L	G17590C	V5776L	ORF1AB:V5776L	1375	ORF1b	V1375L	ORF1B:V1375L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	18687	.	C	T	7545	PASS	1582	0.214286	0	"1239,0,339,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18423C>T	p.Cys6141Cys	18423/21291	18423/21291	6141/7096	6141	7096		",T"	C6141C	C18687T	C6141C	ORF1AB:C6141C	1740	ORF1b	C1740C	ORF1B:C1740C	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	21255	.	G	C	11968	PASS	1530	0.315033	0	"1041,0,482,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	21855	.	C	T	2454	PASS	385	0.267532	0	"282,0,103,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	22055	.	A	G	2325	PASS	376	0.263298	0	"277,0,99,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.493A>G	p.Asn165Asp	493/3822	493/3822	165/1273	165	1273		",G"	N165D	A22055G	N165D	S:N165D	165	S	N165D	S:N165D	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	22218	.	GT	G	63	PASS	202	0.014851	0	"210,0,3,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.661delT	p.Ser221fs	661/3822	661/3822	221/1273	221	1273		"INFO_REALIGN_3_PRIME,G"	del221	GT22218G	del221	S:DEL221	221	S	del221	S:DEL221	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	22227	.	C	T	2076	PASS	185	0.481081	0	"96,0,89,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	22789	.	A	G	256	PASS	105	0.133333	0	"91,0,14,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1227A>G	p.Gln409Gln	1227/3822	1227/3822	409/1273	409	1273		",G"	Q409Q	A22789G	Q409Q	S:Q409Q	409	S	Q409Q	S:Q409Q	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	22992	.	G	A	944	PASS	122	0.319672	0	"82,0,39,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	23230	.	CA	C	594	PASS	224	0.102679	0	"201,0,23,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1673delA	p.Lys558fs	1673/3822	1673/3822	558/1273	558	1273		"INFO_REALIGN_3_PRIME,C"	del558	CA23230C	del558	S:DEL558	558	S	del558	S:DEL558	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	23403	.	A	G	9047	PASS	270	0.996296	2147483647	"0,0,269,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	23820	.	T	C	367	PASS	297	0.080808	0	"273,0,24,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2258T>C	p.Leu753Ser	2258/3822	2258/3822	753/1273	753	1273		",C"	L753S	T23820C	L753S	S:L753S	753	S	L753S	S:L753S	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	23887	.	CA	C	423	PASS	295	0.057627	0	"278,0,17,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2330delA	p.Asn777fs	2330/3822	2330/3822	777/1273	777	1273		"INFO_REALIGN_3_PRIME,C"	del777	CA23887C	del777	S:DEL777	777	S	del777	S:DEL777	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	24360	.	A	C	398	PASS	276	0.097826	0	"249,0,27,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2798A>C	p.Lys933Thr	2798/3822	2798/3822	933/1273	933	1273		",C"	K933T	A24360C	K933T	S:K933T	933	S	K933T	S:K933T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	24506	.	T	G	3198	PASS	774	0.182171	0	"632,0,141,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	24794	.	G	T	3505	PASS	1339	0.14115	0	"1150,0,189,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3232G>T	p.Ala1078Ser	3232/3822	3232/3822	1078/1273	1078	1273		",T"	A1078S	G24794T	A1078S	S:A1078S	1078	S	A1078S	S:A1078S	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	24914	.	G	C	5044	PASS	1131	0.213086	0	"886,0,241,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	24965	.	A	G	1925	PASS	1473	0.088934	0	"1338,0,131,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3403A>G	p.Asn1135Asp	3403/3822	3403/3822	1135/1273	1135	1273		",G"	N1135D	A24965G	N1135D	S:N1135D	1135	S	N1135D	S:N1135D	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	24971	.	G	GT	6082	PASS	1578	0.130545	0	"1384,0,206,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3412dupT	p.Tyr1138fs	3413/3822	3413/3822	1138/1273	1138	1273		"INFO_REALIGN_3_PRIME,GT"	del1138	G24971GT	del1138	S:DEL1138	1138	S	del1138	S:DEL1138	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25173	.	GA	G	8356	PASS	2039	0.140755	0	"1753,0,287,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3614delA	p.Lys1205fs	3614/3822	3614/3822	1205/1273	1205	1273		"INFO_REALIGN_3_PRIME,G"	del1205	GA25173G	del1205	S:DEL1205	1205	S	del1205	S:DEL1205	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25218	.	GT	G	8112	PASS	2177	0.135508	0	"1906,0,295,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3660delT	p.Phe1220fs	3660/3822	3660/3822	1220/1273	1220	1273		"INFO_REALIGN_3_PRIME,G"	del1220	GT25218G	del1220	S:DEL1220	1220	S	del1220	S:DEL1220	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25219	.	T	G	292	PASS	2238	0.041108	0	"1847,0,92,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3657T>G	p.Gly1219Gly	3657/3822	3657/3822	1219/1273	1219	1273		",G"	G1219G	T25219G	G1219G	S:G1219G	1219	S	G1219G	S:G1219G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25225	.	A	C	91	PASS	2221	0.016659	0	"2172,0,37,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25254	.	C	A	130	PASS	2517	0.019865	0	"2463,0,50,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25256	.	A	T	82	PASS	2532	0.015008	0	"2493,0,38,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3694A>T	p.Ile1232Phe	3694/3822	3694/3822	1232/1273	1232	1273		",T"	I1232F	A25256T	I1232F	S:I1232F	1232	S	I1232F	S:I1232F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25277	.	A	T	104	PASS	2381	0.0231	0	"2300,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25286	.	A	T	70	PASS	2500	0.0216	0	"2415,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25296	.	A	C	151	PASS	2491	0.032116	0	"2347,0,80,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25301	.	T	G	111	PASS	2481	0.025393	0	"2418,0,63,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25312	.	T	G	120	PASS	2592	0.024691	0	"2521,0,64,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25314	.	G	T	138	PASS	2582	0.028273	0	"2497,0,73,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25324	.	C	A	1073	PASS	2619	0.069874	0	"2435,0,183,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25327	.	A	T	143	PASS	2609	0.025297	0	"2543,0,66,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25331	.	G	T	129	PASS	2591	0.031262	0	"2491,0,81,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25334	.	G	T	79	PASS	2574	0.027584	0	"2446,0,71,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25336	.	A	C	281	PASS	2601	0.043445	0	"2466,0,113,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25382	.	TA	T	12640	PASS	2753	0.15692	0	"2332,0,432,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3811delA	p.His1271fs	3811/3822	3811/3822	1271/1273	1271	1273		"INFO_REALIGN_3_PRIME,T"	del1271	TA25382T	del1271	S:DEL1271	1271	S	del1271	S:DEL1271	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25505	.	A	G	7060	PASS	2065	0.17385	0	"1697,0,359,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25563	.	G	T	14145	PASS	1938	0.295666	0	"1362,0,573,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25710	.	C	T	10090	PASS	1236	0.317961	0	"841,0,393,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25826	.	A	T	1887	PASS	682	0.148094	0	"581,0,101,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.434A>T	p.Tyr145Phe	434/828	434/828	145/275	145	275		",T"	Y145F	A25826T	Y145F	ORF3A:Y145F	145	ORF3a	Y145F	ORF3A:Y145F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25886	.	C	T	5728	PASS	741	0.309042	0	"511,0,229,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25906	.	G	C	1178	PASS	750	0.1	0	"672,0,75,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	25996	.	G	T	1603	PASS	787	0.114358	0	"696,0,90,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	26167	.	G	T	8282	PASS	2264	0.17712	0	"1862,0,401,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.775G>T	p.Val259Leu	775/828	775/828	259/275	259	275		",T"	V259L	G26167T	V259L	ORF3A:V259L	259	ORF3a	V259L	ORF3A:V259L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	26242	.	CT	C	50	PASS	3005	0.001331	0	"3001,0,4,0"	TRUE	C	upstream_gene_variant	MODIFIER	E	GU280_gp04	transcript	GU280_gp04	protein_coding		c.-2delT						NA	2	",C"	del	CT26242C	del	E:DEL	NA	E	del	E:DEL	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	26596	.	G	GT	19266	PASS	4610	0.145553	0	"4038,0,671,0"	TRUE	GT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.77dupT	p.Leu27fs	78/669	78/669	26/222	26	222		"INFO_REALIGN_3_PRIME,GT"	del27	G26596GT	del27	M:DEL27	27	M	del27	M:DEL27	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	26735	.	C	T	25609	PASS	3641	0.288382	0	"2583,0,1050,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	26801	.	C	G	27065	PASS	2855	0.353415	0	"1841,0,1009,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	26876	.	T	C	9455	PASS	1283	0.300857	0	"893,0,386,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	27358	.	G	T	90	PASS	3541	0.00706	0	"3508,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.157G>T	p.Asp53Tyr	157/186	157/186	53/61	53	61		",T"	D53Y	G27358T	D53Y	ORF6:D53Y	53	ORF6	D53Y	ORF6:D53Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	27364	.	G	C	5072	PASS	3650	0.084384	0	"3331,0,308,0"	FALSE	C	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.163G>C	p.Glu55Gln	163/186	163/186	55/61	55	61		",C"	E55Q	G27364C	E55Q	ORF6:E55Q	55	ORF6	E55Q	ORF6:E55Q	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	27577	.	C	T	4538	PASS	5196	0.062356	0	"4869,0,324,0"	FALSE	T	stop_gained	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.184C>T	p.Gln62*	184/366	184/366	62/121	62	121		",T"	Q62*	C27577T	Q62*	ORF7A:Q62*	62	ORF7a	Q62*	ORF7A:Q62*	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	27670	.	G	T	6693	PASS	5097	0.082794	0	"4671,0,422,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.277G>T	p.Val93Phe	277/366	277/366	93/121	93	121		",T"	V93F	G27670T	V93F	ORF7A:V93F	93	ORF7a	V93F	ORF7A:V93F	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	27791	.	CT	C	48	PASS	4483	0.001115	0	"4477,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.41delT	p.Leu14fs	41/132	41/132	14/43	14	43		"INFO_REALIGN_3_PRIME,C"	del14	CT27791C	del14	ORF7B:DEL14	14	ORF7b	del14	ORF7B:DEL14	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	27800	.	C	A	4344	PASS	4276	0.076239	0	"3948,0,326,0"	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	27944	.	C	T	17245	PASS	3524	0.216515	0	"2752,0,763,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	27970	.	C	A	4058	PASS	2831	0.081597	0	"2597,0,231,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28001	.	G	A	1092	PASS	1907	0.04667	0	"1814,0,89,0"	FALSE	A	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.108G>A	p.Pro36Pro	108/366	108/366	36/121	36	121		",A"	P36P	G28001A	P36P	ORF8:P36P	36	ORF8	P36P	ORF8:P36P	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28045	.	C	T	3122	PASS	915	0.175956	0	"751,0,161,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28231	.	A	G	980	PASS	789	0.084918	0	"719,0,67,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.338A>G	p.Asp113Gly	338/366	338/366	113/121	113	121		",G"	D113G	A28231G	D113G	ORF8:D113G	113	ORF8	D113G	ORF8:D113G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28254	.	A	C	315	PASS	806	0.042184	0	"769,0,34,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28378	.	G	T	2769	PASS	2743	0.074736	0	"2533,0,205,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28399	.	C	T	183	PASS	2711	0.014755	0	"2663,0,40,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.126C>T	p.Pro42Pro	126/1260	126/1260	42/419	42	419		",T"	P42P	C28399T	P42P	N:P42P	42	N	P42P	N:P42P	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28435	.	CG	C	1183	PASS	3484	0.016935	0	"3430,0,59,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.163delG	p.Ala55fs	163/1260	163/1260	55/419	55	419		",C"	del55	CG28435C	del55	N:DEL55	55	N	del55	N:DEL55	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28517	.	G	T	1718	PASS	5617	0.035072	0	"5420,0,197,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.244G>T	p.Asp82Tyr	244/1260	244/1260	82/419	82	419		",T"	D82Y	G28517T	D82Y	N:D82Y	82	N	D82Y	N:D82Y	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28645	.	T	C	1740	PASS	5645	0.041453	0	"5389,0,234,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.372T>C	p.Gly124Gly	372/1260	372/1260	124/419	124	419		",C"	G124G	T28645C	G124G	N:G124G	124	N	G124G	N:G124G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28651	.	C	T	43348	PASS	5910	0.295601	0	"4151,0,1747,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28698	.	C	T	3830	PASS	7664	0.046842	0	"7279,0,359,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.425C>T	p.Pro142Leu	425/1260	425/1260	142/419	142	419		",T"	P142L	C28698T	P142L	N:P142L	142	N	P142L	N:P142L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28776	.	CA	C	72	PASS	9357	0.000855	0	"9349,0,8,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28798	.	G	A	6179	PASS	9583	0.051132	0	"9077,0,490,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28869	.	C	T	49314	PASS	8928	0.288418	0	"6325,0,2575,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28881	.	G	A	1532	PASS	8733	0.023703	0	"8508,0,207,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28882	.	G	A	1303	PASS	8798	0.023642	0	"8556,0,208,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28883	.	G	C	1415	PASS	8802	0.024313	0	"8561,0,214,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28887	.	C	T	13176	PASS	8624	0.094156	0	"7797,0,812,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28932	.	C	T	49314	PASS	8645	0.298901	0	"6045,0,2584,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28957	.	C	T	5000	PASS	8153	0.052251	0	"7706,0,426,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28975	.	G	C	45974	PASS	7992	0.246622	0	"6011,0,1971,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	28987	.	CCAA	C	663	PASS	7297	0.005345	0	"7302,0,39,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33-3	NC_045512.2	29164	.	T	C	856	PASS	2593	0.041265	0	"2484,0,107,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.891T>C	p.Asp297Asp	891/1260	891/1260	297/419	297	419		",C"	D297D	T29164C	D297D	N:D297D	297	N	D297D	N:D297D	BET33-3	BETTEMBOURG	2020-11-12T00:00:00Z	30.54925	32.81333333	x	1022021	2020-11-12
BET33	NC_045512.2	204	.	G	T	6206	PASS	3762	0.084264	4	"2825,619,267,50"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	241	.	C	T	49314	PASS	4459	0.999103	3	"1,1,3266,1189"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	335	.	C	T	7590	PASS	4687	0.083422	28	"2320,1975,178,213"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	378	.	T	C	342	PASS	4934	0.010742	14	"2521,2359,35,18"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.113T>C	p.Val38Ala	113/21291	113/21291	38/7096	38	7096		",C"	V38A	T378C	V38A	ORF1AB:V38A	38	ORF1a	V38A	ORF1A:V38A	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	434	.	GA	G	47	PASS	4800	0.001042	0	"2236,2574,2,3"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	445	.	T	C	15651	PASS	4951	0.15714	28	"1822,2350,388,390"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	507	.	ATGGTCATGTTATGGT	A	7093	PASS	5217	0.052329	4	"2223,2734,115,158"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.245_259delGTCATGTTATGGTTG	p.Gly82_Val86del	245/21291	245/21291	82/7096	82	7096		"INFO_REALIGN_3_PRIME,A"	del82/86	ATGGTCATGTTATGGT507A	del82/86	ORF1AB:DEL82/86	82/86	ORF1a	del82/86	ORF1A:DEL82/86	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	509	.	GGTCATGTTA	G	8822	PASS	5047	0.069348	5	"2184,2684,146,204"	TRUE	G	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.245_253delGTCATGTTA	p.Gly82_Met85delinsVal	245/21291	245/21291	82/7096	82	7096		",G"	indel	GGTCATGTTA509G	NA	NA	NA	ORF1a	NA	NA	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	571	.	G	A	7467	PASS	5026	0.075607	19	"2196,2450,206,174"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	593	.	C	T	7427	PASS	5120	0.075195	129	"2727,2008,146,239"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	642	.	A	G	5669	PASS	5169	0.071967	68	"2577,2218,147,225"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.377A>G	p.Asn126Ser	377/21291	377/21291	126/7096	126	7096		",G"	N126S	A642G	N126S	ORF1AB:N126S	126	ORF1a	N126S	ORF1A:N126S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	1044	.	CA	C	7112	PASS	2425	0.101856	4	"1139,1047,136,111"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.782delA	p.Lys261fs	782/21291	782/21291	261/7096	261	7096		"INFO_REALIGN_3_PRIME,C"	del261	CA1044C	del261	ORF1AB:DEL261	261	ORF1a	del261	ORF1A:DEL261	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	1404	.	CT	C	6508	PASS	3266	0.07624	128	"1150,1918,154,95"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1140delT	p.Glu381fs	1140/21291	1140/21291	380/7096	380	7096		",C"	del381	CT1404C	del381	ORF1AB:DEL381	381	ORF1a	del381	ORF1A:DEL381	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	1521	.	A	G	157	PASS	3148	0.007306	3	"1798,1326,11,12"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1256A>G	p.Lys419Arg	1256/21291	1256/21291	419/7096	419	7096		",G"	K419R	A1521G	K419R	ORF1AB:K419R	419	ORF1a	K419R	ORF1A:K419R	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	1946	.	G	GT	8827	PASS	2756	0.112119	7	"432,2026,64,245"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1685dupT	p.Leu562fs	1686/21291	1686/21291	562/7096	562	7096		"INFO_REALIGN_3_PRIME,GT"	del562	G1946GT	del562	ORF1AB:DEL562	562	ORF1a	del562	ORF1A:DEL562	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	2416	.	C	T	567	PASS	687	0.049491	2	"594,59,30,4"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	2518	.	G	T	5833	PASS	1476	0.182927	2	"976,230,215,55"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2253G>T	p.Val751Val	2253/21291	2253/21291	751/7096	751	7096		",T"	V751V	G2518T	V751V	ORF1AB:V751V	751	ORF1a	V751V	ORF1A:V751V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	2869	.	A	G	11279	PASS	1950	0.227179	26	8.07698E+11	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2604A>G	p.Val868Val	2604/21291	2604/21291	868/7096	868	7096		",G"	V868V	A2869G	V868V	ORF1AB:V868V	868	ORF1a	V868V	ORF1A:V868V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	3011	.	T	C	99	PASS	1748	0.007437	2	"753,982,7,6"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2746T>C	p.Leu916Leu	2746/21291	2746/21291	916/7096	916	7096		",C"	L916L	T3011C	L916L	ORF1AB:L916L	916	ORF1a	L916L	ORF1A:L916L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	3037	.	C	T	49314	PASS	1645	0.998176	0	"0,0,600,1042"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	3088	.	T	C	802	PASS	1690	0.042604	1	"474,1144,23,49"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2823T>C	p.Phe941Phe	2823/21291	2823/21291	941/7096	941	7096		",C"	F941F	T3088C	F941F	ORF1AB:F941F	941	ORF1a	F941F	ORF1A:F941F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	3158	.	A	T	2780	PASS	1246	0.111557	10	"164,941,13,126"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2893A>T	p.Thr965Ser	2893/21291	2893/21291	965/7096	965	7096		",T"	T965S	A3158T	T965S	ORF1AB:T965S	965	ORF1a	T965S	ORF1A:T965S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	3201	.	G	T	1242	PASS	797	0.084065	4	"91,639,5,62"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2936G>T	p.Trp979Leu	2936/21291	2936/21291	979/7096	979	7096		",T"	W979L	G3201T	W979L	ORF1AB:W979L	979	ORF1a	W979L	ORF1A:W979L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	3592	.	T	C	113	PASS	109	0.055046	9	"54,49,1,5"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	3602	.	C	T	896	PASS	125	0.272	9	"56,35,15,19"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	3722	.	AT	A	675	PASS	210	0.114286	0	"134,52,18,6"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3462delT	p.Phe1154fs	3462/21291	3462/21291	1154/7096	1154	7096		"INFO_REALIGN_3_PRIME,A"	del1154	AT3722A	del1154	ORF1AB:DEL1154	1154	ORF1a	del1154	ORF1A:DEL1154	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	4040	.	A	G	509	PASS	279	0.082437	1	"105,151,8,15"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	4543	.	C	T	1479	PASS	55	0.818182	7	"7,3,20,25"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	4870	.	A	G	1457	PASS	985	0.081218	3	"613,292,58,22"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4605A>G	p.Val1535Val	4605/21291	4605/21291	1535/7096	1535	7096		",G"	V1535V	A4870G	V1535V	ORF1AB:V1535V	1535	ORF1a	V1535V	ORF1A:V1535V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	5128	.	A	G	2197	PASS	1237	0.113985	3	"570,525,79,62"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4863A>G	p.Leu1621Leu	4863/21291	4863/21291	1621/7096	1621	7096		",G"	L1621L	A5128G	L1621L	ORF1AB:L1621L	1621	ORF1a	L1621L	ORF1A:L1621L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	5161	.	T	C	128	PASS	1321	0.011355	6	"643,663,10,5"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4896T>C	p.Phe1632Phe	4896/21291	4896/21291	1632/7096	1632	7096		",C"	F1632F	T5161C	F1632F	ORF1AB:F1632F	1632	ORF1a	F1632F	ORF1A:F1632F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	5497	.	CAA	C	893	PASS	1011	0.036597	25	"290,684,3,34"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5235_5236delAA	p.Arg1746fs	5235/21291	5235/21291	1745/7096	1745	7096		"INFO_REALIGN_3_PRIME,C"	del1746	CAA5497C	del1746	ORF1AB:DEL1746	1746	ORF1a	del1746	ORF1A:DEL1746	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	5498	.	A	G	99	PASS	1011	0.011869	12	"283,678,7,5"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5233A>G	p.Lys1745Glu	5233/21291	5233/21291	1745/7096	1745	7096		",G"	K1745E	A5498G	K1745E	ORF1AB:K1745E	1745	ORF1a	K1745E	ORF1A:K1745E	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	5585	.	C	T	1096	PASS	299	0.160535	1	"118,133,21,27"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5320C>T	p.Leu1774Phe	5320/21291	5320/21291	1774/7096	1774	7096		",T"	L1774F	C5585T	L1774F	ORF1AB:L1774F	1774	ORF1a	L1774F	ORF1A:L1774F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	5629	.	G	T	1464	PASS	389	0.156812	4	"129,199,28,33"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	5884	.	C	T	352	PASS	619	0.037157	23	"408,188,22,1"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	6286	.	C	T	2581	PASS	1241	0.104754	13	"562,548,53,77"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	6352	.	G	T	2529	PASS	1323	0.093726	23	"608,589,80,44"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6087G>T	p.Lys2029Asn	6087/21291	6087/21291	2029/7096	2029	7096		",T"	K2029N	G6352T	K2029N	ORF1AB:K2029N	2029	ORF1a	K2029N	ORF1A:K2029N	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	6445	.	C	T	1848	PASS	1123	0.087266	0	"505,519,47,51"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6180C>T	p.Asp2060Asp	6180/21291	6180/21291	2060/7096	2060	7096		",T"	D2060D	C6445T	D2060D	ORF1AB:D2060D	2060	ORF1a	D2060D	ORF1A:D2060D	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	6696	.	C	CT	1706	PASS	680	0.089706	29	"235,398,10,51"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	6941	.	C	T	6273	PASS	407	0.525798	4	"71,120,69,145"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	6976	.	T	C	74	PASS	463	0.015119	3	"131,325,3,4"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6711T>C	p.Ser2237Ser	6711/21291	6711/21291	2237/7096	2237	7096		",C"	S2237S	T6976C	S2237S	ORF1AB:S2237S	2237	ORF1a	S2237S	ORF1A:S2237S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	7123	.	A	G	838	PASS	566	0.083039	85	"353,166,11,36"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6858A>G	p.Ile2286Met	6858/21291	6858/21291	2286/7096	2286	7096		",G"	I2286M	A7123G	I2286M	ORF1AB:I2286M	2286	ORF1a	I2286M	ORF1A:I2286M	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	7203	.	C	T	326	PASS	484	0.053719	49	"290,168,5,21"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6938C>T	p.Ser2313Phe	6938/21291	6938/21291	2313/7096	2313	7096		",T"	S2313F	C7203T	S2313F	ORF1AB:S2313F	2313	ORF1a	S2313F	ORF1A:S2313F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	7504	.	C	CA	816	PASS	395	0.073418	0	"156,212,12,17"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7242dupA	p.Arg2415fs	7243/21291	7243/21291	2415/7096	2415	7096		"INFO_REALIGN_3_PRIME,CA"	del2415	C7504CA	del2415	ORF1AB:DEL2415	2415	ORF1a	del2415	ORF1A:DEL2415	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	7528	.	C	T	720	PASS	392	0.086735	9	"180,178,12,22"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7263C>T	p.Val2421Val	7263/21291	7263/21291	2421/7096	2421	7096		",T"	V2421V	C7528T	V2421V	ORF1AB:V2421V	2421	ORF1a	V2421V	ORF1A:V2421V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	7767	.	T	C	1639	PASS	812	0.093596	86	"398,338,14,62"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7502T>C	p.Ile2501Thr	7502/21291	7502/21291	2501/7096	2501	7096		",C"	I2501T	T7767C	I2501T	ORF1AB:I2501T	2501	ORF1a	I2501T	ORF1A:I2501T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	7834	.	C	T	273	PASS	667	0.026987	29	"272,377,1,17"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7569C>T	p.Asn2523Asn	7569/21291	7569/21291	2523/7096	2523	7096		",T"	N2523N	C7834T	N2523N	ORF1AB:N2523N	2523	ORF1a	N2523N	ORF1A:N2523N	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	8092	.	C	CA	2072	PASS	563	0.12611	0	"254,241,35,36"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7831dupA	p.Thr2611fs	7832/21291	7832/21291	2611/7096	2611	7096		"INFO_REALIGN_3_PRIME,CA"	del2611	C8092CA	del2611	ORF1AB:DEL2611	2611	ORF1a	del2611	ORF1A:DEL2611	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	8139	.	C	T	2076	PASS	590	0.161017	45	"256,239,27,68"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7874C>T	p.Ser2625Phe	7874/21291	7874/21291	2625/7096	2625	7096		",T"	S2625F	C8139T	S2625F	ORF1AB:S2625F	2625	ORF1a	S2625F	ORF1A:S2625F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	8560	.	T	C	519	PASS	235	0.119149	1	"108,99,16,12"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8295T>C	p.Ile2765Ile	8295/21291	8295/21291	2765/7096	2765	7096		",C"	I2765I	T8560C	I2765I	ORF1AB:I2765I	2765	ORF1a	I2765I	ORF1A:I2765I	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	8983	.	T	G	1466	PASS	624	0.116987	27	"358,193,33,40"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	9526	.	G	T	25482	PASS	3423	0.285714	24	"1324,1120,584,394"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	9560	.	T	C	130	PASS	3267	0.006122	1	"1913,1331,13,7"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9295T>C	p.Ser3099Pro	9295/21291	9295/21291	3099/7096	3099	7096		",C"	S3099P	T9560C	S3099P	ORF1AB:S3099P	3099	ORF1a	S3099P	ORF1A:S3099P	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	9688	.	A	G	82	PASS	3038	0.005596	2	"1499,1521,7,10"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9423A>G	p.Thr3141Thr	9423/21291	9423/21291	3141/7096	3141	7096		",G"	T3141T	A9688G	T3141T	ORF1AB:T3141T	3141	ORF1a	T3141T	ORF1A:T3141T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	9720	.	A	T	6125	PASS	3056	0.097513	1	"1144,1613,127,171"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9455A>T	p.His3152Leu	9455/21291	9455/21291	3152/7096	3152	7096		",T"	H3152L	A9720T	H3152L	ORF1AB:H3152L	3152	ORF1a	H3152L	ORF1A:H3152L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	10066	.	A	G	2615	PASS	2602	0.060338	94	"807,1636,92,65"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9801A>G	p.Arg3267Arg	9801/21291	9801/21291	3267/7096	3267	7096		",G"	R3267R	A10066G	R3267R	ORF1AB:R3267R	3267	ORF1a	R3267R	ORF1A:R3267R	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	10717	.	TC	T	3331	PASS	1308	0.094801	2	"609,578,60,64"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10453delC	p.Arg3485fs	10453/21291	10453/21291	3485/7096	3485	7096		",T"	del3485	TC10717T	del3485	ORF1AB:DEL3485	3485	ORF1a	del3485	ORF1A:DEL3485	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	10772	.	G	T	2841	PASS	1435	0.100348	25	"607,684,87,57"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10507G>T	p.Glu3503*	10507/21291	10507/21291	3503/7096	3503	7096		",T"	E3503*	G10772T	E3503*	ORF1AB:E3503*	3503	ORF1a	E3503*	ORF1A:E3503*	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	11132	.	G	T	360	PASS	1218	0.02381	76	"334,854,23,6"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10867G>T	p.Ala3623Ser	10867/21291	10867/21291	3623/7096	3623	7096		",T"	A3623S	G11132T	A3623S	ORF1AB:A3623S	3623	ORF1a	A3623S	ORF1A:A3623S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	11497	.	C	T	1016	PASS	214	0.196262	6	"74,98,23,19"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	11654	.	T	C	648	PASS	162	0.166667	0	"33,102,6,21"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11389T>C	p.Phe3797Leu	11389/21291	11389/21291	3797/7096	3797	7096		",C"	F3797L	T11654C	F3797L	ORF1AB:F3797L	3797	ORF1a	F3797L	ORF1A:F3797L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	11747	.	C	T	79	PASS	109	0.036697	31	"4,101,3,1"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11482C>T	p.Leu3828Leu	11482/21291	11482/21291	3828/7096	3828	7096		",T"	L3828L	C11747T	L3828L	ORF1AB:L3828L	3828	ORF1a	L3828L	ORF1A:L3828L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	12764	.	A	G	391	PASS	1786	0.020157	57	"1187,563,10,26"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12499A>G	p.Asn4167Asp	12499/21291	12499/21291	4167/7096	4167	7096		",G"	N4167D	A12764G	N4167D	ORF1AB:N4167D	4167	ORF1a	N4167D	ORF1A:N4167D	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	12988	.	G	T	49314	PASS	3707	0.503372	4	"1129,710,1173,693"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	13039	.	A	G	10823	PASS	4037	0.120882	0	"1961,1584,273,215"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12774A>G	p.Thr4258Thr	12774/21291	12774/21291	4258/7096	4258	7096		",G"	T4258T	A13039G	T4258T	ORF1AB:T4258T	4258	ORF1a	T4258T	ORF1A:T4258T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	13081	.	T	C	130	PASS	3830	0.006005	19	"1946,1860,18,5"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12816T>C	p.Phe4272Phe	12816/21291	12816/21291	4272/7096	4272	7096		",C"	F4272F	T13081C	F4272F	ORF1AB:F4272F	4272	ORF1a	F4272F	ORF1A:F4272F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	13123	.	TG	T	49	PASS	4292	0.001165	1	"2217,2136,2,3"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	13459	.	G	GT	11919	PASS	3797	0.114301	109	"1178,2232,82,352"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13199dupT	p.Leu4400fs	13200/21291	13200/21291	4400/7096	4400	7096		"INFO_REALIGN_3_PRIME,GT"	del4400	G13459GT	del4400	ORF1AB:DEL4400	4400	ORF1a	del4400	ORF1A:DEL4400	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	13993	.	G	T	8777	PASS	943	0.341463	7	2.04416E+11	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	14408	.	C	T	418	PASS	12	1	0	"0,0,3,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	15216	.	CA	C	4940	PASS	1710	0.102924	94	"609,929,29,147"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14955delA	p.Lys4985fs	14955/21291	14955/21291	4985/7096	4985	7096		"INFO_REALIGN_3_PRIME,C"	del4985	CA15216C	del4985	ORF1AB:DEL4985	584	ORF1b	del584	ORF1B:DEL584	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	15598	.	G	A	9908	PASS	693	0.481962	2	1.62197E+11	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15334G>A	p.Val5112Ile	15334/21291	15334/21291	5112/7096	5112	7096		",A"	V5112I	G15598A	V5112I	ORF1AB:V5112I	711	ORF1b	V711I	ORF1B:V711I	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	15766	.	G	T	1893	PASS	510	0.158824	2	"113,316,24,57"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	15965	.	G	GT	99	PASS	17	0.176471	0	"11,3,3,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15705dupT	p.Val5236fs	15706/21291	15706/21291	5236/7096	5236	7096		"INFO_REALIGN_3_PRIME,GT"	del5236	G15965GT	del5236	ORF1AB:DEL5236	835	ORF1b	del835	ORF1B:DEL835	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	16620	.	A	G	10230	PASS	4625	0.109622	0	"2056,2062,253,254"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16356A>G	p.Glu5452Glu	16356/21291	16356/21291	5452/7096	5452	7096		",G"	E5452E	A16620G	E5452E	ORF1AB:E5452E	1051	ORF1b	E1051E	ORF1B:E1051E	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	16788	.	T	C	6302	PASS	4056	0.101578	1	"1639,1997,191,221"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16524T>C	p.Gly5508Gly	16524/21291	16524/21291	5508/7096	5508	7096		",C"	G5508G	T16788C	G5508G	ORF1AB:G5508G	1107	ORF1b	G1107G	ORF1B:G1107G	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	16795	.	G	T	9083	PASS	4075	0.110184	0	"1677,1949,206,243"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16531G>T	p.Val5511Leu	16531/21291	16531/21291	5511/7096	5511	7096		",T"	V5511L	G16795T	V5511L	ORF1AB:V5511L	1110	ORF1b	V1110L	ORF1B:V1110L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	16889	.	A	G	20010	PASS	3578	0.221632	0	"1057,1727,305,488"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	17019	.	G	T	12418	PASS	2393	0.209779	15	"301,1590,101,401"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	17094	.	TG	T	48	PASS	984	0.003049	4	"133,862,1,2"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16832delG	p.Gly5611fs	16832/21291	16832/21291	5611/7096	5611	7096		"INFO_REALIGN_3_PRIME,T"	del5611	TG17094T	del5611	ORF1AB:DEL5611	1210	ORF1b	del1210	ORF1B:DEL1210	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	17104	.	C	T	8668	PASS	705	0.428369	7	"52,350,29,273"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	18028	.	G	T	22923	PASS	3034	0.295649	14	"744,1392,349,548"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17764G>T	p.Ala5922Ser	17764/21291	17764/21291	5922/7096	5922	7096		",T"	A5922S	G18028T	A5922S	ORF1AB:A5922S	1521	ORF1b	A1521S	ORF1B:A1521S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	18105	.	G	T	6236	PASS	2756	0.110668	11	"661,1790,97,208"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17841G>T	p.Gln5947His	17841/21291	17841/21291	5947/7096	5947	7096		",T"	Q5947H	G18105T	Q5947H	ORF1AB:Q5947H	1546	ORF1b	Q1546H	ORF1B:Q1546H	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	18115	.	CA	C	6434	PASS	2626	0.096725	0	"660,1828,66,188"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17852delA	p.His5951fs	17852/21291	17852/21291	5951/7096	5951	7096		",C"	del5951	CA18115C	del5951	ORF1AB:DEL5951	1550	ORF1b	del1550	ORF1B:DEL1550	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	18116	.	A	C	153	PASS	2626	0.012947	25	"648,1688,2,32"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17852A>C	p.His5951Pro	17852/21291	17852/21291	5951/7096	5951	7096		",C"	H5951P	A18116C	H5951P	ORF1AB:H5951P	1550	ORF1b	H1550P	ORF1B:H1550P	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	18218	.	T	C	2733	PASS	1717	0.079208	12	"439,1142,27,109"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17954T>C	p.Phe5985Ser	17954/21291	17954/21291	5985/7096	5985	7096		",C"	F5985S	T18218C	F5985S	ORF1AB:F5985S	1584	ORF1b	F1584S	ORF1B:F1584S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	18659	.	G	GT	4654	PASS	1616	0.099629	17	"1180,275,143,18"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18397dupT	p.Cys6133fs	18398/21291	18398/21291	6133/7096	6133	7096		"INFO_REALIGN_3_PRIME,GT"	del6133	G18659GT	del6133	ORF1AB:DEL6133	1732	ORF1b	del1732	ORF1B:DEL1732	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	18821	.	G	T	6812	PASS	3634	0.095762	4	"2098,1186,232,116"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18557G>T	p.Cys6186Phe	18557/21291	18557/21291	6186/7096	6186	7096		",T"	C6186F	G18821T	C6186F	ORF1AB:C6186F	1785	ORF1b	C1785F	ORF1B:C1785F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	18877	.	C	T	21164	PASS	4124	0.207565	18	"2032,1235,493,363"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	19442	.	TA	T	3286	PASS	2293	0.056694	105	"608,1555,6,124"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19181delA	p.Lys6394fs	19181/21291	19181/21291	6394/7096	6394	7096		"INFO_REALIGN_3_PRIME,T"	del6394	TA19442T	del6394	ORF1AB:DEL6394	1993	ORF1b	del1993	ORF1B:DEL1993	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	19584	.	T	C	380	PASS	1169	0.023952	2	"650,491,14,14"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19320T>C	p.Asp6440Asp	19320/21291	19320/21291	6440/7096	6440	7096		",C"	D6440D	T19584C	D6440D	ORF1AB:D6440D	2039	ORF1b	D2039D	ORF1B:D2039D	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	19645	.	G	T	6085	PASS	1101	0.223433	1	4.30425E+11	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19381G>T	p.Val6461Phe	19381/21291	19381/21291	6461/7096	6461	7096		",T"	V6461F	G19645T	V6461F	ORF1AB:V6461F	2060	ORF1b	V2060F	ORF1B:V2060F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	19828	.	A	G	106	PASS	899	0.013348	0	"258,628,3,9"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19564A>G	p.Lys6522Glu	19564/21291	19564/21291	6522/7096	6522	7096		",G"	K6522E	A19828G	K6522E	ORF1AB:K6522E	2121	ORF1b	K2121E	ORF1B:K2121E	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	19956	.	T	A	97	PASS	512	0.017578	25	"64,439,5,4"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19692T>A	p.Thr6564Thr	19692/21291	19692/21291	6564/7096	6564	7096		",A"	T6564T	T19956A	T6564T	ORF1AB:T6564T	2163	ORF1b	T2163T	ORF1B:T2163T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	20268	.	A	G	424	PASS	36	0.444444	1	"11,9,10,6"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20004A>G	p.Leu6668Leu	20004/21291	20004/21291	6668/7096	6668	7096		",G"	L6668L	A20268G	L6668L	ORF1AB:L6668L	2267	ORF1b	L2267L	ORF1B:L2267L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	20451	.	C	T	227	PASS	542	0.02952	53	"444,82,5,11"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20187C>T	p.Asn6729Asn	20187/21291	20187/21291	6729/7096	6729	7096		",T"	N6729N	C20451T	N6729N	ORF1AB:N6729N	2328	ORF1b	N2328N	ORF1B:N2328N	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	21255	.	G	C	20923	PASS	967	0.681489	9	1.65141E+11	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	21311	.	A	G	291	PASS	1015	0.02266	2	"464,528,9,14"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21047A>G	p.Gln7016Arg	21047/21291	21047/21291	7016/7096	7016	7096		",G"	Q7016R	A21311G	Q7016R	ORF1AB:Q7016R	2615	ORF1b	Q2615R	ORF1B:Q2615R	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	21855	.	C	T	658	PASS	66	0.363636	1	"27,15,14,10"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	22129	.	T	C	434	PASS	79	0.227848	12	"30,31,4,14"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.567T>C	p.Leu189Leu	567/3822	567/3822	189/1273	189	1273		",C"	L189L	T22129C	L189L	S:L189L	189	S	L189L	S:L189L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	22227	.	C	T	442	PASS	57	0.298246	1	"12,28,6,11"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	22992	.	G	A	827	PASS	97	0.309278	4	"24,43,14,16"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	23191	.	C	T	700	PASS	226	0.141593	11	"129,65,16,16"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1629C>T	p.Phe543Phe	1629/3822	1629/3822	543/1273	543	1273		",T"	F543F	C23191T	F543F	S:F543F	543	S	F543F	S:F543F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	23403	.	A	G	18268	PASS	521	1	0	"0,0,316,205"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	23825	.	C	CA	327	PASS	540	0.025926	45	"244,282,14,0"	TRUE	CA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2265dupA	p.Tyr756fs	2266/3822	2266/3822	756/1273	756	1273		"INFO_REALIGN_3_PRIME,CA"	del756	C23825CA	del756	S:DEL756	756	S	del756	S:DEL756	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	23949	.	AT	A	169	PASS	445	0.017978	7	"83,360,3,5"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2391delT	p.Phe797fs	2391/3822	2391/3822	797/1273	797	1273		"INFO_REALIGN_3_PRIME,A"	del797	AT23949A	del797	S:DEL797	797	S	del797	S:DEL797	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	23958	.	GT	G	57	PASS	418	0.007177	3	"76,347,1,2"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400delT	p.Phe800fs	2400/3822	2400/3822	800/1273	800	1273		"INFO_REALIGN_3_PRIME,G"	del800	GT23958G	del800	S:DEL800	800	S	del800	S:DEL800	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	24910	.	T	C	3476	PASS	1030	0.151456	44	"423,450,48,108"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3348T>C	p.Thr1116Thr	3348/3822	3348/3822	1116/1273	1116	1273		",C"	T1116T	T24910C	T1116T	S:T1116T	1116	S	T1116T	S:T1116T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	24965	.	A	G	4341	PASS	1403	0.137562	162	"826,384,70,123"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3403A>G	p.Asn1135Asp	3403/3822	3403/3822	1135/1273	1135	1273		",G"	N1135D	A24965G	N1135D	S:N1135D	1135	S	N1135D	S:N1135D	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25207	.	C	T	3659	PASS	1362	0.127019	3	"609,580,83,90"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3645C>T	p.Tyr1215Tyr	3645/3822	3645/3822	1215/1273	1215	1273		",T"	Y1215Y	C25207T	Y1215Y	S:Y1215Y	1215	S	Y1215Y	S:Y1215Y	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25505	.	A	G	5005	PASS	1238	0.171244	27	"397,629,58,154"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25563	.	G	T	22701	PASS	1078	0.662338	9	1.66197E+11	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25593	.	G	T	4252	PASS	1208	0.152318	3	"359,665,70,114"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25710	.	C	T	15176	PASS	914	0.545952	46	"133,282,98,401"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25774	.	T	A	1125	PASS	404	0.121287	20	"154,201,31,18"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.382T>A	p.Trp128Arg	382/828	382/828	128/275	128	275		",A"	W128R	T25774A	W128R	ORF3A:W128R	128	ORF3a	W128R	ORF3A:W128R	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25826	.	A	T	1088	PASS	286	0.160839	2	"128,112,27,19"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.434A>T	p.Tyr145Phe	434/828	434/828	145/275	145	275		",T"	Y145F	A25826T	Y145F	ORF3A:Y145F	145	ORF3a	Y145F	ORF3A:Y145F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25886	.	C	T	1224	PASS	300	0.17	0	"121,128,24,27"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25907	.	G	A	951	PASS	313	0.146965	1	"114,153,21,25"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.515G>A	p.Gly172Asp	515/828	515/828	172/275	172	275		",A"	G172D	G25907A	G172D	ORF3A:G172D	172	ORF3a	G172D	ORF3A:G172D	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	25996	.	G	T	73	PASS	299	0.016722	1	"140,154,3,2"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26062	.	G	T	1226	PASS	461	0.130152	2	"290,110,46,14"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26255	.	T	C	74	PASS	2399	0.007086	2	"1402,980,9,8"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.11T>C	p.Phe4Ser	11/228	11/228	4/75	4	75		",C"	F4S	T26255C	F4S	E:F4S	4	E	F4S	E:F4S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26600	.	C	T	6355	PASS	2154	0.136955	16	"807,1051,107,188"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26665	.	TA	T	58	PASS	1882	0.002125	0	"802,1083,2,2"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.145delA	p.Ile49fs	145/669	145/669	49/222	49	222		"INFO_REALIGN_3_PRIME,T"	del49	TA26665T	del49	M:DEL49	49	M	del49	M:DEL49	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26684	.	C	T	6054	PASS	1946	0.137205	37	"707,972,80,187"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.162C>T	p.Leu54Leu	162/669	162/669	54/222	54	222		",T"	L54L	C26684T	L54L	M:L54L	54	M	L54L	M:L54L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26735	.	C	T	11518	PASS	1704	0.268192	30	4.70775E+11	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26801	.	C	G	11694	PASS	1834	0.248092	5	"330,1049,97,358"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26811	.	A	G	210	PASS	1639	0.012813	31	"363,1253,12,9"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.289A>G	p.Ile97Val	289/669	289/669	97/222	97	222		",G"	I97V	A26811G	I97V	M:I97V	97	M	I97V	M:I97V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26876	.	T	C	8500	PASS	1210	0.273554	14	"170,709,82,249"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26951	.	G	T	717	PASS	230	0.134783	6	"96,103,19,12"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	26972	.	T	C	613	PASS	220	0.122727	16	"96,97,20,7"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	27005	.	C	T	863	PASS	229	0.161572	16	"132,60,18,19"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.483C>T	p.Ile161Ile	483/669	483/669	161/222	161	222		",T"	I161I	C27005T	I161I	M:I161I	161	M	I161I	M:I161I	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	27069	.	G	A	80	PASS	230	0.026087	3	"129,95,2,4"	FALSE	A	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.547G>A	p.Ala183Thr	547/669	547/669	183/222	183	222		",A"	A183T	G27069A	A183T	M:A183T	183	M	A183T	M:A183T	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	27070	.	C	T	250	PASS	227	0.057269	1	"120,94,8,5"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.548C>T	p.Ala183Val	548/669	548/669	183/222	183	222		",T"	A183V	C27070T	A183V	M:A183V	183	M	A183V	M:A183V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	27741	.	CA	C	6298	PASS	2400	0.100833	9	"1110,1049,111,131"	TRUE	C	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.352delA	p.Arg118fs	352/366	352/366	118/121	118	121		"INFO_REALIGN_3_PRIME,C"	del118	CA27741C	del118	ORF7A:DEL118	118	ORF7a	del118	ORF7A:DEL118	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	27800	.	C	A	8866	PASS	2004	0.190619	19	7.65857E+11	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	27944	.	C	T	8561	PASS	2213	0.169905	299	"307,1527,171,205"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28045	.	C	T	1144	PASS	935	0.068449	54	"310,561,42,22"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28112	.	CA	C	2348	PASS	539	0.153989	1	"291,173,50,33"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.220delA	p.Ile74fs	220/366	220/366	74/121	74	121		",C"	del74	CA28112C	del74	ORF8:DEL74	74	ORF8	del74	ORF8:DEL74	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28131	.	A	G	82	PASS	504	0.015873	0	"309,187,5,3"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.238A>G	p.Thr80Ala	238/366	238/366	80/121	80	121		",G"	T80A	A28131G	T80A	ORF8:T80A	80	ORF8	T80A	ORF8:T80A	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28254	.	A	C	163	PASS	562	0.024911	12	"250,297,10,4"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28346	.	G	T	1840	PASS	1226	0.084013	37	"697,425,44,59"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.73G>T	p.Gly25Cys	73/1260	73/1260	25/419	25	419		",T"	G25C	G28346T	G25C	N:G25C	25	N	G25C	N:G25C	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28378	.	G	T	1302	PASS	1342	0.057377	22	"796,469,36,41"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28384	.	A	T	25391	PASS	1384	0.598988	177	2.70286E+11	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28651	.	C	T	13678	PASS	3658	0.161837	3	"1602,1464,320,272"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28798	.	G	A	20502	PASS	4219	0.202418	30	"1657,1703,476,378"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28854	.	C	T	8371	PASS	3728	0.109442	34	"1565,1751,154,254"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.581C>T	p.Ser194Leu	581/1260	581/1260	194/419	194	419		",T"	S194L	C28854T	S194L	N:S194L	194	N	S194L	N:S194L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28869	.	C	T	16127	PASS	3651	0.186524	20	"1410,1557,285,396"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28882	.	G	T	5746	PASS	3717	0.087974	7	"1599,1791,167,160"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>T	p.Arg203Ser	609/1260	609/1260	203/419	203	419		",T"	R203S	G28882T	R203S	N:R203S	203	N	R203S	N:R203S	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28932	.	C	T	5403	PASS	3706	0.08041	17	"1580,1824,117,181"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28975	.	G	C	43451	PASS	3684	0.415581	28	"825,1326,667,864"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	28987	.	CCAA	C	207	PASS	3443	0.003776	0	"1437,2039,5,8"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	29018	.	A	G	322	PASS	3301	0.012118	11	"1201,2059,9,31"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.745A>G	p.Lys249Glu	745/1260	745/1260	249/419	249	419		",G"	K249E	A29018G	K249E	N:K249E	249	N	K249E	N:K249E	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET33	NC_045512.2	29125	.	A	G	138	PASS	2245	0.009354	9	"338,1886,6,15"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.852A>G	p.Gly284Gly	852/1260	852/1260	284/419	284	419		",G"	G284G	A29125G	G284G	N:G284G	284	N	G284G	N:G284G	BET33	BETTEMBOURG	2020-11-08T00:00:00Z	30.1685	33.27666667	x	14122020	2020-11-08
BET35-1	NC_045512.2	241	.	C	T	49314	PASS	4048	0.996047	0	"4,0,4032,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	445	.	T	C	9538	PASS	4670	0.14561	0	"3970,0,680,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	802	.	A	C	90	PASS	3304	0.008172	0	"3266,0,27,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	823	.	C	T	9837	PASS	3019	0.157337	0	"2539,0,475,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	1315	.	TA	T	80	PASS	3234	0.001855	0	"3228,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1053delA	p.Glu352fs	1053/21291	1053/21291	351/7096	351	7096		"INFO_REALIGN_3_PRIME,T"	del352	TA1315T	del352	ORF1AB:DEL352	352	ORF1a	del352	ORF1A:DEL352	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	1340	.	TA	T	49	PASS	3189	0.001254	0	"3204,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1076delA	p.Tyr359fs	1076/21291	1076/21291	359/7096	359	7096		",T"	del359	TA1340T	del359	ORF1AB:DEL359	359	ORF1a	del359	ORF1A:DEL359	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	1346	.	C	A	5178	PASS	3134	0.108807	0	"2789,0,341,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1081C>A	p.Pro361Thr	1081/21291	1081/21291	361/7096	361	7096		",A"	P361T	C1346A	P361T	ORF1AB:P361T	361	ORF1a	P361T	ORF1A:P361T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	1430	.	AATG	A	9120	PASS	2568	0.128505	0	"2239,0,330,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1167_1169delTGA	p.Asn389_Glu390delinsLys	1167/21291	1167/21291	389/7096	389	7096		"INFO_REALIGN_3_PRIME,A"	indel	AATG1430A	NA	NA	NA	ORF1a	NA	NA	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	1450	.	C	T	337	PASS	2615	0.022562	0	"2545,0,59,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1185C>T	p.Thr395Thr	1185/21291	1185/21291	395/7096	395	7096		",T"	T395T	C1450T	T395T	ORF1AB:T395T	395	ORF1a	T395T	ORF1A:T395T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	1590	.	G	A	7283	PASS	3279	0.131138	0	"2841,0,430,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1325G>A	p.Gly442Asp	1325/21291	1325/21291	442/7096	442	7096		",A"	G442D	G1590A	G442D	ORF1AB:G442D	442	ORF1a	G442D	ORF1A:G442D	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	3037	.	C	T	34790	PASS	1020	0.996078	2147483647	"0,0,1016,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	3267	.	C	T	514	PASS	109	0.211009	0	"86,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	3602	.	C	T	412	PASS	125	0.168	0	"104,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	4395	.	A	G	2188	PASS	555	0.185586	0	"450,0,103,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4130A>G	p.Glu1377Gly	4130/21291	4130/21291	1377/7096	1377	7096		",G"	E1377G	A4395G	E1377G	ORF1AB:E1377G	1377	ORF1a	E1377G	ORF1A:E1377G	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	4543	.	C	T	7765	PASS	566	0.5	0	"282,0,283,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	4913	.	G	A	512	PASS	846	0.046099	0	"804,0,39,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4648G>A	p.Val1550Ile	4648/21291	4648/21291	1550/7096	1550	7096		",A"	V1550I	G4913A	V1550I	ORF1AB:V1550I	1550	ORF1a	V1550I	ORF1A:V1550I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	5512	.	C	T	2199	PASS	790	0.149367	0	"669,0,118,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5247C>T	p.Asn1749Asn	5247/21291	5247/21291	1749/7096	1749	7096		",T"	N1749N	C5512T	N1749N	ORF1AB:N1749N	1749	ORF1a	N1749N	ORF1A:N1749N	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	5629	.	G	T	8947	PASS	823	0.402187	0	"491,0,331,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	5809	.	AGACGGTGCTTTACTT	A	3114	PASS	660	0.169697	0	"569,0,112,0"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5545_5559delGACGGTGCTTTACTT	p.Asp1849_Leu1853del	5545/21291	5545/21291	1849/7096	1849	7096		",A"	del1849/1853	AGACGGTGCTTTACTT5809A	del1849/1853	ORF1AB:DEL1849/1853	1849/1853	ORF1a	del1849/1853	ORF1A:DEL1849/1853	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	6065	.	A	G	676	PASS	397	0.110831	0	"353,0,44,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5800A>G	p.Asn1934Asp	5800/21291	5800/21291	1934/7096	1934	7096		",G"	N1934D	A6065G	N1934D	ORF1AB:N1934D	1934	ORF1a	N1934D	ORF1A:N1934D	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	6286	.	C	T	3276	PASS	334	0.386228	0	"203,0,129,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	6696	.	C	CT	2348	PASS	471	0.174098	0	"389,0,82,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	6930	.	A	AT	4955	PASS	780	0.211538	0	"617,0,165,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6670dupT	p.Ser2224fs	6671/21291	6671/21291	2224/7096	2224	7096		"INFO_REALIGN_3_PRIME,AT"	del2224	A6930AT	del2224	ORF1AB:DEL2224	2224	ORF1a	del2224	ORF1A:DEL2224	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	6941	.	C	T	8041	PASS	783	0.384419	0	"480,0,301,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	8638	.	A	G	1418	PASS	309	0.245955	0	"233,0,76,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8373A>G	p.Thr2791Thr	8373/21291	8373/21291	2791/7096	2791	7096		",G"	T2791T	A8638G	T2791T	ORF1AB:T2791T	2791	ORF1a	T2791T	ORF1A:T2791T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	8982	.	C	T	2881	PASS	258	0.410853	0	"151,0,106,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8717C>T	p.Thr2906Ile	8717/21291	8717/21291	2906/7096	2906	7096		",T"	T2906I	C8982T	T2906I	ORF1AB:T2906I	2906	ORF1a	T2906I	ORF1A:T2906I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	8983	.	T	G	2676	PASS	259	0.413127	0	"150,0,107,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	9313	.	A	AG	48	PASS	612	0.004902	0	"613,0,3,0"	TRUE	AG	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9049dupG	p.Val3017fs	9050/21291	9050/21291	3017/7096	3017	7096		"INFO_REALIGN_3_PRIME,AG"	del3017	A9313AG	del3017	ORF1AB:DEL3017	3017	ORF1a	del3017	ORF1A:DEL3017	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	9314	.	G	GT	2850	PASS	619	0.159935	0	"520,0,99,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9053dupT	p.Cys3019fs	9054/21291	9054/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,GT"	del3019	G9314GT	del3019	ORF1AB:DEL3019	3019	ORF1a	del3019	ORF1A:DEL3019	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	9409	.	A	G	1866	PASS	1260	0.096825	0	"1135,0,122,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9144A>G	p.Val3048Val	9144/21291	9144/21291	3048/7096	3048	7096		",G"	V3048V	A9409G	V3048V	ORF1AB:V3048V	3048	ORF1a	V3048V	ORF1A:V3048V	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	9526	.	G	T	8761	PASS	1351	0.282013	0	"968,0,381,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	9786	.	CT	C	17420	PASS	1514	0.357332	0	"973,0,541,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9525delT	p.Phe3175fs	9525/21291	9525/21291	3175/7096	3175	7096		"INFO_REALIGN_3_PRIME,C"	del3175	CT9786C	del3175	ORF1AB:DEL3175	3175	ORF1a	del3175	ORF1A:DEL3175	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	10369	.	C	T	16534	PASS	2769	0.259661	0	"2041,0,719,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10104C>T	p.Arg3368Arg	10104/21291	10104/21291	3368/7096	3368	7096		",T"	R3368R	C10369T	R3368R	ORF1AB:R3368R	3368	ORF1a	R3368R	ORF1A:R3368R	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	10456	.	C	T	12245	PASS	2419	0.230674	0	"1854,0,558,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10191C>T	p.Phe3397Phe	10191/21291	10191/21291	3397/7096	3397	7096		",T"	F3397F	C10456T	F3397F	ORF1AB:F3397F	3397	ORF1a	F3397F	ORF1A:F3397F	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	11356	.	A	G	664	PASS	2025	0.036543	0	"1947,0,74,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11091A>G	p.Ala3697Ala	11091/21291	11091/21291	3697/7096	3697	7096		",G"	A3697A	A11356G	A3697A	ORF1AB:A3697A	3697	ORF1a	A3697A	ORF1A:A3697A	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	11497	.	C	T	10561	PASS	1974	0.233536	0	"1508,0,461,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	12796	.	A	G	3049	PASS	2004	0.097305	0	"1803,0,195,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12531A>G	p.Gly4177Gly	12531/21291	12531/21291	4177/7096	4177	7096		",G"	G4177G	A12796G	G4177G	ORF1AB:G4177G	4177	ORF1a	G4177G	ORF1A:G4177G	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	12961	.	A	G	11040	PASS	2561	0.196017	0	"2056,0,502,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12696A>G	p.Lys4232Lys	12696/21291	12696/21291	4232/7096	4232	7096		",G"	K4232K	A12961G	K4232K	ORF1AB:K4232K	4232	ORF1a	K4232K	ORF1A:K4232K	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	12972	.	A	C	7793	PASS	2605	0.186564	0	"2115,0,486,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12707A>C	p.Asn4236Thr	12707/21291	12707/21291	4236/7096	4236	7096		",C"	N4236T	A12972C	N4236T	ORF1AB:N4236T	4236	ORF1a	N4236T	ORF1A:N4236T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	12975	.	T	C	9671	PASS	2656	0.176205	0	"2183,0,468,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12710T>C	p.Leu4237Pro	12710/21291	12710/21291	4237/7096	4237	7096		",C"	L4237P	T12975C	L4237P	ORF1AB:L4237P	4237	ORF1a	L4237P	ORF1A:L4237P	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	12976	.	A	T	10267	PASS	2736	0.17617	0	"2252,0,482,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12711A>T	p.Leu4237Leu	12711/21291	12711/21291	4237/7096	4237	7096		",T"	L4237L	A12976T	L4237L	ORF1AB:L4237L	4237	ORF1a	L4237L	ORF1A:L4237L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	13080	.	T	C	257	PASS	3805	0.012615	0	"3751,0,48,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12815T>C	p.Phe4272Ser	12815/21291	12815/21291	4272/7096	4272	7096		",C"	F4272S	T13080C	F4272S	ORF1AB:F4272S	4272	ORF1a	F4272S	ORF1A:F4272S	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	13123	.	TG	T	50	PASS	4016	0.001245	0	"4056,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	13131	.	A	G	19682	PASS	3944	0.233519	0	"3016,0,921,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12866A>G	p.Gln4289Arg	12866/21291	12866/21291	4289/7096	4289	7096		",G"	Q4289R	A13131G	Q4289R	ORF1AB:Q4289R	4289	ORF1a	Q4289R	ORF1A:Q4289R	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	13393	.	GA	G	47	PASS	3264	0.001225	0	"3273,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13131delA	p.Gly4378fs	13131/21291	13131/21291	4377/7096	4377	7096		"INFO_REALIGN_3_PRIME,G"	del4378	GA13393G	del4378	ORF1AB:DEL4378	4378	ORF1a	del4378	ORF1A:DEL4378	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	13495	.	CT	C	53	PASS	2212	0.001808	0	"2208,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13233delT	p.Thr4412fs	13233/21291	13233/21291	4411/7096	4411	7096		"INFO_REALIGN_3_PRIME,C"	del4412	CT13495C	del4412	ORF1AB:DEL4412	11	ORF1b	del11	ORF1B:DEL11	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	13933	.	T	C	17417	PASS	1173	0.519182	0	"561,0,609,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13669T>C	p.Phe4557Leu	13669/21291	13669/21291	4557/7096	4557	7096		",C"	F4557L	T13933C	F4557L	ORF1AB:F4557L	156	ORF1b	F156L	ORF1B:F156L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	14408	.	C	T	600	PASS	19	1	2147483647	"0,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	14414	.	G	T	166	PASS	19	0.368421	0	"12,0,7,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14150G>T	p.Ser4717Ile	14150/21291	14150/21291	4717/7096	4717	7096		",T"	S4717I	G14414T	S4717I	ORF1AB:S4717I	316	ORF1b	S316I	ORF1B:S316I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	14457	.	A	T	112	PASS	17	0.235294	0	"13,0,4,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14193A>T	p.Pro4731Pro	14193/21291	14193/21291	4731/7096	4731	7096		",T"	P4731P	A14457T	P4731P	ORF1AB:P4731P	330	ORF1b	P330P	ORF1B:P330P	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	14849	.	TA	T	49	PASS	2940	0.002381	0	"2933,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14586delA	p.Phe4863fs	14586/21291	14586/21291	4862/7096	4862	7096		",T"	del4863	TA14849T	del4863	ORF1AB:DEL4863	462	ORF1b	del462	ORF1B:DEL462	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	14850	.	AT	A	22591	PASS	2916	0.252058	0	"2214,0,735,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14589delT	p.Phe4863fs	14589/21291	14589/21291	4863/7096	4863	7096		"INFO_REALIGN_3_PRIME,A"	del4863	AT14850A	del4863	ORF1AB:DEL4863	462	ORF1b	del462	ORF1B:DEL462	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	15324	.	C	T	5529	PASS	980	0.245918	0	"739,0,241,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	15579	.	C	T	341	PASS	836	0.037081	0	"805,0,31,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	15637	.	AG	A	1289	PASS	882	0.062358	0	"830,0,55,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15374delG	p.Arg5125fs	15374/21291	15374/21291	5125/7096	5125	7096		",A"	del5125	AG15637A	del5125	ORF1AB:DEL5125	724	ORF1b	del724	ORF1B:DEL724	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	15766	.	G	T	13754	PASS	792	0.593434	0	"322,0,470,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	15776	.	TA	T	75	PASS	713	0.00561	0	"715,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15515delA	p.Lys5172fs	15515/21291	15515/21291	5172/7096	5172	7096		"INFO_REALIGN_3_PRIME,T"	del5172	TA15776T	del5172	ORF1AB:DEL5172	771	ORF1b	del771	ORF1B:DEL771	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	15830	.	CA	C	1613	PASS	573	0.101222	0	"515,0,58,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15570delA	p.Lys5190fs	15570/21291	15570/21291	5190/7096	5190	7096		"INFO_REALIGN_3_PRIME,C"	del5190	CA15830C	del5190	ORF1AB:DEL5190	789	ORF1b	del789	ORF1B:DEL789	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	15965	.	G	GT	371	PASS	26	0.423077	0	"15,0,11,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15705dupT	p.Val5236fs	15706/21291	15706/21291	5236/7096	5236	7096		"INFO_REALIGN_3_PRIME,GT"	del5236	G15965GT	del5236	ORF1AB:DEL5236	835	ORF1b	del835	ORF1B:DEL835	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	16293	.	C	T	5409	PASS	1559	0.163566	0	"1301,0,255,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16029C>T	p.Cys5343Cys	16029/21291	16029/21291	5343/7096	5343	7096		",T"	C5343C	C16293T	C5343C	ORF1AB:C5343C	942	ORF1b	C942C	ORF1B:C942C	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	16800	.	TA	T	14072	PASS	5337	0.099307	0	"4808,0,530,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16541delA	p.Asn5514fs	16541/21291	16541/21291	5514/7096	5514	7096		"INFO_REALIGN_3_PRIME,T"	del5514	TA16800T	del5514	ORF1AB:DEL5514	1113	ORF1b	del1113	ORF1B:DEL1113	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	16801	.	A	G	310	PASS	5361	0.013057	0	"4744,0,70,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16537A>G	p.Lys5513Glu	16537/21291	16537/21291	5513/7096	5513	7096		",G"	K5513E	A16801G	K5513E	ORF1AB:K5513E	1112	ORF1b	K1112E	ORF1B:K1112E	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	16889	.	A	G	49314	PASS	4314	0.548679	0	"1945,0,2367,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	17019	.	G	T	33978	PASS	2212	0.537071	0	"1020,0,1188,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	17059	.	CA	C	5242	PASS	1581	0.116382	0	"1397,0,184,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799delA	p.Lys5600fs	16799/21291	16799/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,C"	del5600	CA17059C	del5600	ORF1AB:DEL5600	1199	ORF1b	del1199	ORF1B:DEL1199	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	17104	.	C	T	100	PASS	150	0.06	0	"141,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	17546	.	T	C	166	PASS	2035	0.013268	0	"2005,0,27,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17282T>C	p.Phe5761Ser	17282/21291	17282/21291	5761/7096	5761	7096		",C"	F5761S	T17546C	F5761S	ORF1AB:F5761S	1360	ORF1b	F1360S	ORF1B:F1360S	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	17558	.	G	T	5948	PASS	2109	0.142248	0	"1807,0,300,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17294G>T	p.Cys5765Phe	17294/21291	17294/21291	5765/7096	5765	7096		",T"	C5765F	G17558T	C5765F	ORF1AB:C5765F	1364	ORF1b	C1364F	ORF1B:C1364F	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	17944	.	G	A	9446	PASS	2916	0.165295	0	"2428,0,482,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17680G>A	p.Val5894Ile	17680/21291	17680/21291	5894/7096	5894	7096		",A"	V5894I	G17944A	V5894I	ORF1AB:V5894I	1493	ORF1b	V1493I	ORF1B:V1493I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	18086	.	C	T	9334	PASS	2439	0.185732	0	"1981,0,453,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17822C>T	p.Thr5941Ile	17822/21291	17822/21291	5941/7096	5941	7096		",T"	T5941I	C18086T	T5941I	ORF1AB:T5941I	1540	ORF1b	T1540I	ORF1B:T1540I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	18614	.	TG	T	47	PASS	133	0.015038	0	"131,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18351delG	p.Thr6118fs	18351/21291	18351/21291	6117/7096	6117	7096		",T"	del6118	TG18614T	del6118	ORF1AB:DEL6118	1717	ORF1b	del1717	ORF1B:DEL1717	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	18615	.	G	T	283	PASS	266	0.093985	0	"238,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18351G>T	p.Leu6117Phe	18351/21291	18351/21291	6117/7096	6117	7096		",T"	L6117F	G18615T	L6117F	ORF1AB:L6117F	1716	ORF1b	L1716F	ORF1B:L1716F	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	18782	.	GT	G	63	PASS	2741	0.001824	0	"2741,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18522delT	p.Phe6174fs	18522/21291	18522/21291	6174/7096	6174	7096		"INFO_REALIGN_3_PRIME,G"	del6174	GT18782G	del6174	ORF1AB:DEL6174	1773	ORF1b	del1773	ORF1B:DEL1773	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	18877	.	C	T	34823	PASS	3446	0.381892	0	"2117,0,1316,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	18952	.	AT	A	23905	PASS	4889	0.169769	0	"4067,0,830,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18690delT	p.Asn6231fs	18690/21291	18690/21291	6230/7096	6230	7096		"INFO_REALIGN_3_PRIME,A"	del6231	AT18952A	del6231	ORF1AB:DEL6231	1830	ORF1b	del1830	ORF1B:DEL1830	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	19117	.	G	T	12283	PASS	4227	0.14573	0	"3608,0,616,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18853G>T	p.Ala6285Ser	18853/21291	18853/21291	6285/7096	6285	7096		",T"	A6285S	G19117T	A6285S	ORF1AB:A6285S	1884	ORF1b	A1884S	ORF1B:A1884S	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	20436	.	C	T	3763	PASS	1042	0.171785	0	"862,0,179,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20172C>T	p.Asp6724Asp	20172/21291	20172/21291	6724/7096	6724	7096		",T"	D6724D	C20436T	D6724D	ORF1AB:D6724D	2323	ORF1b	D2323D	ORF1B:D2323D	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	20661	.	T	C	5130	PASS	2623	0.121998	0	"2301,0,320,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20397T>C	p.Ser6799Ser	20397/21291	20397/21291	6799/7096	6799	7096		",C"	S6799S	T20661C	S6799S	ORF1AB:S6799S	2398	ORF1b	S2398S	ORF1B:S2398S	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	20694	.	T	C	117	PASS	2956	0.008119	0	"2931,0,24,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20430T>C	p.Pro6810Pro	20430/21291	20430/21291	6810/7096	6810	7096		",C"	P6810P	T20694C	P6810P	ORF1AB:P6810P	2409	ORF1b	P2409P	ORF1B:P2409P	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	20806	.	C	T	9512	PASS	2785	0.171275	0	"2299,0,477,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20542C>T	p.Leu6848Leu	20542/21291	20542/21291	6848/7096	6848	7096		",T"	L6848L	C20806T	L6848L	ORF1AB:L6848L	2447	ORF1b	L2447L	ORF1B:L2447L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	20917	.	C	T	902	PASS	2348	0.041738	0	"2247,0,98,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20653C>T	p.Gln6885*	20653/21291	20653/21291	6885/7096	6885	7096		",T"	Q6885*	C20917T	Q6885*	ORF1AB:Q6885*	2484	ORF1b	Q2484*	ORF1B:Q2484*	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	21255	.	G	C	27888	PASS	1998	0.5	0	"997,0,999,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	21526	.	A	AT	2107	PASS	1710	0.047953	0	"1661,0,82,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21265dupT	p.Ser7089fs	21266/21291	21266/21291	7089/7096	7089	7096		"INFO_REALIGN_3_PRIME,AT"	del7089	A21526AT	del7089	ORF1AB:DEL7089	2688	ORF1b	del2688	ORF1B:DEL2688	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	21650	.	A	G	1201	PASS	1212	0.066832	0	"1128,0,81,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.88A>G	p.Asn30Asp	88/3822	88/3822	30/1273	30	1273		",G"	N30D	A21650G	N30D	S:N30D	30	S	N30D	S:N30D	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	22062	.	C	T	3417	PASS	848	0.198113	0	"676,0,168,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.500C>T	p.Thr167Ile	500/3822	500/3822	167/1273	167	1273		",T"	T167I	C22062T	T167I	S:T167I	167	S	T167I	S:T167I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	22227	.	C	T	4501	PASS	368	0.483696	0	"187,0,178,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	22845	.	A	AT	691	PASS	112	0.205357	0	"89,0,23,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1287dupT	p.Thr430fs	1288/3822	1288/3822	430/1273	430	1273		"INFO_REALIGN_3_PRIME,AT"	del430	A22845AT	del430	S:DEL430	430	S	del430	S:DEL430	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	22992	.	G	A	640	PASS	171	0.192982	0	"138,0,33,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	23230	.	CA	C	611	PASS	155	0.141935	0	"133,0,22,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1673delA	p.Lys558fs	1673/3822	1673/3822	558/1273	558	1273		"INFO_REALIGN_3_PRIME,C"	del558	CA23230C	del558	S:DEL558	558	S	del558	S:DEL558	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	23271	.	C	T	604	PASS	156	0.179487	0	"128,0,28,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>T	p.Ala570Val	1709/3822	1709/3822	570/1273	570	1273		",T"	A570V	C23271T	A570V	S:A570V	570	S	A570V	S:A570V	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	23403	.	A	G	2919	PASS	84	1	2147483647	"0,0,84,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	23438	.	G	A	955	PASS	47	0.680851	0	"15,0,32,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1876G>A	p.Ala626Thr	1876/3822	1876/3822	626/1273	626	1273		",A"	A626T	G23438A	A626T	S:A626T	626	S	A626T	S:A626T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	23875	.	TG	T	564	PASS	214	0.102804	0	"192,0,22,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2314delG	p.Val772fs	2314/3822	2314/3822	772/1273	772	1273		",T"	del772	TG23875T	del772	S:DEL772	772	S	del772	S:DEL772	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	24358	.	CA	C	1136	PASS	293	0.136519	0	"253,0,40,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2800delA	p.Ile934fs	2800/3822	2800/3822	934/1273	934	1273		"INFO_REALIGN_3_PRIME,C"	del934	CA24358C	del934	S:DEL934	934	S	del934	S:DEL934	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	24506	.	T	G	1970	PASS	435	0.209195	0	"343,0,91,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	24794	.	G	T	3378	PASS	540	0.274074	0	"390,0,148,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3232G>T	p.Ala1078Ser	3232/3822	3232/3822	1078/1273	1078	1273		",T"	A1078S	G24794T	A1078S	S:A1078S	1078	S	A1078S	S:A1078S	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	24914	.	G	C	4265	PASS	460	0.36087	0	"293,0,166,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	24926	.	G	T	268	PASS	583	0.042882	0	"557,0,25,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3364G>T	p.Val1122Leu	3364/3822	3364/3822	1122/1273	1122	1273		",T"	V1122L	G24926T	V1122L	S:V1122L	1122	S	V1122L	S:V1122L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25225	.	A	C	77	PASS	1839	0.016313	0	"1801,0,30,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25254	.	C	A	96	PASS	2141	0.018216	0	"2101,0,39,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25259	.	A	T	75	PASS	2178	0.015152	0	"2142,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25277	.	A	T	75	PASS	2054	0.021422	0	"1986,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25286	.	A	T	113	PASS	2127	0.027268	0	"2046,0,58,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25289	.	T	G	117	PASS	2089	0.026328	0	"2031,0,55,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25296	.	A	C	222	PASS	2114	0.040208	0	"1978,0,85,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25301	.	T	G	129	PASS	2082	0.029299	0	"2018,0,61,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25312	.	T	G	117	PASS	2180	0.027064	0	"2115,0,59,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25324	.	C	A	978	PASS	2210	0.076018	0	"2040,0,168,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25327	.	A	T	125	PASS	2181	0.026135	0	"2121,0,57,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25331	.	G	T	150	PASS	2162	0.037465	0	"2061,0,81,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25334	.	G	T	110	PASS	2143	0.034064	0	"2024,0,73,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25336	.	A	C	366	PASS	2159	0.055118	0	"2022,0,119,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25563	.	G	T	27088	PASS	1673	0.550508	0	"748,0,921,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25568	.	C	T	4895	PASS	1645	0.159878	0	"1379,0,263,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.176C>T	p.Ala59Val	176/828	176/828	59/275	59	275		",T"	A59V	C25568T	A59V	ORF3A:A59V	59	ORF3a	A59V	ORF3A:A59V	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25674	.	T	C	3409	PASS	1259	0.142176	0	"1078,0,179,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.282T>C	p.Leu94Leu	282/828	282/828	94/275	94	275		",C"	L94L	T25674C	L94L	ORF3A:L94L	94	ORF3a	L94L	ORF3A:L94L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25710	.	C	T	14116	PASS	906	0.53532	0	"419,0,485,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25886	.	C	T	1925	PASS	395	0.212658	0	"310,0,84,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25906	.	G	C	153	PASS	393	0.043257	0	"375,0,17,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25959	.	T	C	78	PASS	396	0.025253	0	"383,0,10,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.567T>C	p.Tyr189Tyr	567/828	567/828	189/275	189	275		",C"	Y189Y	T25959C	Y189Y	ORF3A:Y189Y	189	ORF3a	Y189Y	ORF3A:Y189Y	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25982	.	TA	T	58	PASS	409	0.007335	0	"406,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.594delA	p.Asp199fs	594/828	594/828	198/275	198	275		"INFO_REALIGN_3_PRIME,T"	del199	TA25982T	del199	ORF3A:DEL199	199	ORF3a	del199	ORF3A:DEL199	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	25996	.	G	T	390	PASS	429	0.065268	0	"400,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	26157	.	TGTTAATCCAGTA	T	590	PASS	1788	0.016219	0	"1767,0,29,0"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.766_777delGTTAATCCAGTA	p.Val256_Val259del	766/828	766/828	256/275	256	275		",T"	del256/259	TGTTAATCCAGTA26157T	del256/259	ORF3A:DEL256/259	256/259	ORF3a	del256/259	ORF3A:DEL256/259	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	26735	.	C	T	16723	PASS	3094	0.234324	0	"2363,0,725,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	26762	.	T	C	9456	PASS	3076	0.159298	0	"2583,0,490,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.240T>C	p.Ile80Ile	240/669	240/669	80/222	80	222		",C"	I80I	T26762C	I80I	M:I80I	80	M	I80I	M:I80I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	26801	.	C	G	40579	PASS	2457	0.549858	0	"1105,0,1351,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	26876	.	T	C	5590	PASS	1092	0.225275	0	"845,0,246,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	27308	.	TA	T	53	PASS	2274	0.001759	0	"2270,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.109delA	p.Ile37fs	109/186	109/186	37/61	37	61		"INFO_REALIGN_3_PRIME,T"	del37	TA27308T	del37	ORF6:DEL37	37	ORF6	del37	ORF6:DEL37	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	27384	.	T	C	4584	PASS	3011	0.095981	0	"2714,0,289,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.183T>C	p.Asp61Asp	183/186	183/186	61/61	61	61		",C"	D61D	T27384C	D61D	ORF6:D61D	61	ORF6	D61D	ORF6:D61D	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	27476	.	C	T	5223	PASS	3420	0.093275	0	"3092,0,319,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.83C>T	p.Thr28Ile	83/366	83/366	28/121	28	121		",T"	T28I	C27476T	T28I	ORF7A:T28I	28	ORF7a	T28I	ORF7A:T28I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	27906	.	G	GT	1092	PASS	3723	0.014504	0	"3679,0,54,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.17dupT	p.Gly8fs	18/366	18/366	6/121	6	121		"INFO_REALIGN_3_PRIME,GT"	del8	G27906GT	del8	ORF8:DEL8	8	ORF8	del8	ORF8:DEL8	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	27913	.	T	C	120	PASS	3677	0.007887	0	"3643,0,29,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.20T>C	p.Leu7Ser	20/366	20/366	7/121	7	121		",C"	L7S	T27913C	L7S	ORF8:L7S	7	ORF8	L7S	ORF8:L7S	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	27923	.	C	T	1765	PASS	3726	0.0416	0	"3564,0,155,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.30C>T	p.Ile10Ile	30/366	30/366	10/121	10	121		",T"	I10I	C27923T	I10I	ORF8:I10I	10	ORF8	I10I	ORF8:I10I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	27944	.	C	T	18822	PASS	3130	0.252077	0	"2335,0,789,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28002	.	TG	T	1140	PASS	1781	0.028636	0	"1737,0,51,0"	TRUE	T	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.110delG	p.Cys37fs	110/366	110/366	37/121	37	121		",T"	del37	TG28002T	del37	ORF8:DEL37	37	ORF8	del37	ORF8:DEL37	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28045	.	C	T	2064	PASS	1025	0.114146	0	"906,0,117,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28254	.	A	C	127	PASS	900	0.024444	0	"874,0,22,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28372	.	TG	T	53	PASS	1980	0.00202	0	"1980,0,4,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.103delG	p.Ala35fs	103/1260	103/1260	35/419	35	419		"INFO_REALIGN_3_PRIME,T"	del35	TG28372T	del35	N:DEL35	35	N	del35	N:DEL35	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28378	.	G	T	672	PASS	1923	0.037441	0	"1851,0,72,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28463	.	C	T	2166	PASS	3126	0.060461	0	"2923,0,189,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.190C>T	p.Leu64Phe	190/1260	190/1260	64/419	64	419		",T"	L64F	C28463T	L64F	N:L64F	64	N	L64F	N:L64F	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28603	.	C	T	3165	PASS	3783	0.06397	0	"3533,0,242,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.330C>T	p.Phe110Phe	330/1260	330/1260	110/419	110	419		",T"	F110F	C28603T	F110F	N:F110F	110	N	F110F	N:F110F	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28651	.	C	T	8145	PASS	4154	0.112662	0	"3677,0,468,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28869	.	C	T	10206	PASS	6148	0.104587	0	"5490,0,643,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28881	.	G	A	13563	PASS	5931	0.127634	0	"5158,0,757,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28882	.	G	A	11980	PASS	5937	0.127337	0	"5156,0,756,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28883	.	G	C	13154	PASS	5916	0.12931	0	"5130,0,765,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28900	.	A	G	111	PASS	5992	0.007844	0	"5923,0,47,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.627A>G	p.Arg209Arg	627/1260	627/1260	209/419	209	419		",G"	R209R	A28900G	R209R	N:R209R	209	N	R209R	N:R209R	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28932	.	C	T	36095	PASS	5947	0.268707	0	"4341,0,1598,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28975	.	G	C	49314	PASS	5629	0.473441	0	"2956,0,2665,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28981	.	TA	T	53	PASS	5405	0.000925	0	"5456,0,5,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.711delA	p.Gly238fs	711/1260	711/1260	237/419	237	419		"INFO_REALIGN_3_PRIME,T"	del238	TA28981T	del238	N:DEL238	238	N	del238	N:DEL238	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	28987	.	CCAA	C	406	PASS	5212	0.004797	0	"5216,0,25,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET35-1	NC_045512.2	29116	.	A	G	4025	PASS	3276	0.096764	0	"2952,0,317,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.843A>G	p.Gln281Gln	843/1260	843/1260	281/419	281	419		",G"	Q281Q	A29116G	Q281Q	N:Q281Q	281	N	Q281Q	N:Q281Q	BET35-1	BETTEMBOURG	2020-11-22T00:00:00Z	31.07925	32.90666667	x	1022021	2020-11-22
BET37-1	NC_045512.2	61	.	G	T	2026	PASS	344	0.235465	0	"263,0,81,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>T						NA	205	",T"		G61T		NA	NA	NA		NA	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	222	.	C	T	4991	PASS	2475	0.115556	0	"2183,0,286,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-44C>T						NA	44	",T"		C222T		NA	NA	NA		NA	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	241	.	C	T	49314	PASS	2643	0.996595	0	"4,0,2634,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	434	.	GA	G	70	PASS	3017	0.001989	0	"3023,0,6,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	445	.	T	C	18926	PASS	3094	0.298643	0	"2161,0,924,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	493	.	T	A	7214	PASS	3110	0.154341	0	"2612,0,480,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.228T>A	p.Ala76Ala	228/21291	228/21291	76/7096	76	7096		",A"	A76A	T493A	A76A	ORF1AB:A76A	76	ORF1a	A76A	ORF1A:A76A	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	503	.	C	T	6821	PASS	3110	0.134084	0	"2676,0,417,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.238C>T	p.Pro80Ser	238/21291	238/21291	80/7096	80	7096		",T"	P80S	C503T	P80S	ORF1AB:P80S	80	ORF1a	P80S	ORF1A:P80S	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	571	.	G	A	6864	PASS	2753	0.129313	0	"2393,0,356,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	593	.	C	T	8108	PASS	2498	0.163331	0	"2082,0,408,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	843	.	CTG	C	4066	PASS	1474	0.105156	0	"1322,0,155,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.579_580delTG	p.Asp194fs	579/21291	579/21291	193/7096	193	7096		",C"	del194	CTG843C	del194	ORF1AB:DEL194	194	ORF1a	del194	ORF1A:DEL194	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	843	.	C	T	2190	PASS	1477	0.096141	0	"1334,0,142,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.578C>T	p.Pro193Leu	578/21291	578/21291	193/7096	193	7096		",T"	P193L	C843T	P193L	ORF1AB:P193L	193	ORF1a	P193L	ORF1A:P193L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	1156	.	G	T	13665	PASS	1061	0.467484	0	"564,0,496,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.891G>T	p.Met297Ile	891/21291	891/21291	297/7096	297	7096		",T"	M297I	G1156T	M297I	ORF1AB:M297I	297	ORF1a	M297I	ORF1A:M297I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	1205	.	CAA	C	625	PASS	1127	0.024845	0	"1099,0,28,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.942_943delAA	p.Gln314fs	942/21291	942/21291	314/7096	314	7096		"INFO_REALIGN_3_PRIME,C"	del314	CAA1205C	del314	ORF1AB:DEL314	314	ORF1a	del314	ORF1A:DEL314	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	1430	.	AATG	A	1767	PASS	1412	0.049575	0	"1343,0,70,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1167_1169delTGA	p.Asn389_Glu390delinsLys	1167/21291	1167/21291	389/7096	389	7096		"INFO_REALIGN_3_PRIME,A"	indel	AATG1430A	NA	NA	NA	ORF1a	NA	NA	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	1514	.	C	T	9023	PASS	1606	0.252802	0	"1195,0,406,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1249C>T	p.His417Tyr	1249/21291	1249/21291	417/7096	417	7096		",T"	H417Y	C1514T	H417Y	ORF1AB:H417Y	417	ORF1a	H417Y	ORF1A:H417Y	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	3008	.	A	G	103	PASS	1025	0.016585	0	"1008,0,17,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2743A>G	p.Lys915Glu	2743/21291	2743/21291	915/7096	915	7096		",G"	K915E	A3008G	K915E	ORF1AB:K915E	915	ORF1a	K915E	ORF1A:K915E	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	3037	.	C	T	33326	PASS	960	0.998958	2147483647	"0,0,959,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	3601	.	AC	A	263	PASS	85	0.129412	0	"74,0,11,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337delC	p.His1113fs	3337/21291	3337/21291	1113/7096	1113	7096		",A"	del1113	AC3601A	del1113	ORF1AB:DEL1113	1113	ORF1a	del1113	ORF1A:DEL1113	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	4422	.	G	T	907	PASS	283	0.162544	0	"237,0,46,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4157G>T	p.Arg1386Leu	4157/21291	4157/21291	1386/7096	1386	7096		",T"	R1386L	G4422T	R1386L	ORF1AB:R1386L	1386	ORF1a	R1386L	ORF1A:R1386L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	4543	.	C	T	8027	PASS	316	0.822785	0	"52,0,260,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	4904	.	G	T	2119	PASS	243	0.337449	0	"158,0,82,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4639G>T	p.Asp1547Tyr	4639/21291	4639/21291	1547/7096	1547	7096		",T"	D1547Y	G4904T	D1547Y	ORF1AB:D1547Y	1547	ORF1a	D1547Y	ORF1A:D1547Y	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	5528	.	TG	T	983	PASS	255	0.145098	0	"219,0,37,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5264delG	p.Cys1755fs	5264/21291	5264/21291	1755/7096	1755	7096		",T"	del1755	TG5528T	del1755	ORF1AB:DEL1755	1755	ORF1a	del1755	ORF1A:DEL1755	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	5629	.	G	T	7747	PASS	295	0.816949	0	"53,0,241,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	5644	.	T	C	2175	PASS	277	0.314079	0	"190,0,87,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5379T>C	p.Ala1793Ala	5379/21291	5379/21291	1793/7096	1793	7096		",C"	A1793A	T5644C	A1793A	ORF1AB:A1793A	1793	ORF1a	A1793A	ORF1A:A1793A	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	5674	.	T	C	1699	PASS	280	0.260714	0	"204,0,73,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5409T>C	p.Pro1803Pro	5409/21291	5409/21291	1803/7096	1803	7096		",C"	P1803P	T5674C	P1803P	ORF1AB:P1803P	1803	ORF1a	P1803P	ORF1A:P1803P	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	6204	.	A	G	1543	PASS	333	0.216216	0	"260,0,72,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5939A>G	p.Lys1980Arg	5939/21291	5939/21291	1980/7096	1980	7096		",G"	K1980R	A6204G	K1980R	ORF1AB:K1980R	1980	ORF1a	K1980R	ORF1A:K1980R	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	6286	.	C	T	2094	PASS	414	0.2343	0	"317,0,97,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	6504	.	CA	C	870	PASS	455	0.072527	0	"422,0,33,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6242delA	p.Asn2081fs	6242/21291	6242/21291	2081/7096	2081	7096		"INFO_REALIGN_3_PRIME,C"	del2081	CA6504C	del2081	ORF1AB:DEL2081	2081	ORF1a	del2081	ORF1A:DEL2081	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	6555	.	C	T	906	PASS	569	0.101933	0	"511,0,58,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	6696	.	C	CT	2457	PASS	411	0.194647	0	"331,0,80,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	7406	.	GT	G	47	PASS	148	0.013514	0	"146,0,2,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7143delT	p.Arg2382fs	7143/21291	7143/21291	2381/7096	2381	7096		"INFO_REALIGN_3_PRIME,G"	del2382	GT7406G	del2382	ORF1AB:DEL2382	2382	ORF1a	del2382	ORF1A:DEL2382	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	7926	.	CA	C	5034	PASS	1925	0.097143	0	"1738,0,187,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7665delA	p.Lys2555fs	7665/21291	7665/21291	2555/7096	2555	7096		"INFO_REALIGN_3_PRIME,C"	del2555	CA7926C	del2555	ORF1AB:DEL2555	2555	ORF1a	del2555	ORF1A:DEL2555	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	8621	.	AT	A	48	PASS	90	0.022222	0	"88,0,2,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8360delT	p.Phe2787fs	8360/21291	8360/21291	2787/7096	2787	7096		"INFO_REALIGN_3_PRIME,A"	del2787	AT8621A	del2787	ORF1AB:DEL2787	2787	ORF1a	del2787	ORF1A:DEL2787	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	8664	.	C	T	1765	PASS	88	0.670455	0	"29,0,59,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8399C>T	p.Thr2800Ile	8399/21291	8399/21291	2800/7096	2800	7096		",T"	T2800I	C8664T	T2800I	ORF1AB:T2800I	2800	ORF1a	T2800I	ORF1A:T2800I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	8742	.	G	GT	643	PASS	190	0.121053	0	"166,0,23,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8481dupT	p.Ala2828fs	8482/21291	8482/21291	2828/7096	2828	7096		"INFO_REALIGN_3_PRIME,GT"	del2828	G8742GT	del2828	ORF1AB:DEL2828	2828	ORF1a	del2828	ORF1A:DEL2828	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	8927	.	G	GT	2114	PASS	444	0.166667	0	"370,0,74,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8667dupT	p.Ser2890fs	8668/21291	8668/21291	2890/7096	2890	7096		"INFO_REALIGN_3_PRIME,GT"	del2890	G8927GT	del2890	ORF1AB:DEL2890	2890	ORF1a	del2890	ORF1A:DEL2890	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	9014	.	G	T	1639	PASS	546	0.168498	0	"454,0,92,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8749G>T	p.Ala2917Ser	8749/21291	8749/21291	2917/7096	2917	7096		",T"	A2917S	G9014T	A2917S	ORF1AB:A2917S	2917	ORF1a	A2917S	ORF1A:A2917S	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	9026	.	A	T	959	PASS	596	0.124161	0	"522,0,74,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8761A>T	p.Ile2921Phe	8761/21291	8761/21291	2921/7096	2921	7096		",T"	I2921F	A9026T	I2921F	ORF1AB:I2921F	2921	ORF1a	I2921F	ORF1A:I2921F	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	9526	.	G	T	25242	PASS	813	0.95572	0	"33,0,777,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	10084	.	TG	T	1902	PASS	1619	0.048178	0	"1541,0,78,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9821delG	p.Gly3274fs	9821/21291	9821/21291	3274/7096	3274	7096		"INFO_REALIGN_3_PRIME,T"	del3274	TG10084T	del3274	ORF1AB:DEL3274	3274	ORF1a	del3274	ORF1A:DEL3274	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	10279	.	C	T	10258	PASS	2441	0.204015	0	"1929,0,498,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10014C>T	p.Leu3338Leu	10014/21291	10014/21291	3338/7096	3338	7096		",T"	L3338L	C10279T	L3338L	ORF1AB:L3338L	3338	ORF1a	L3338L	ORF1A:L3338L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	11456	.	A	AT	9793	PASS	1732	0.18649	0	"1412,0,323,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11194dupT	p.Ser3732fs	11195/21291	11195/21291	3732/7096	3732	7096		"INFO_REALIGN_3_PRIME,AT"	del3732	A11456AT	del3732	ORF1AB:DEL3732	3732	ORF1a	del3732	ORF1A:DEL3732	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	11460	.	C	T	85	PASS	1701	0.015873	0	"1672,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11195C>T	p.Ser3732Phe	11195/21291	11195/21291	3732/7096	3732	7096		",T"	S3732F	C11460T	S3732F	ORF1AB:S3732F	3732	ORF1a	S3732F	ORF1A:S3732F	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	11497	.	C	T	26834	PASS	1535	0.597394	0	"615,0,917,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	11567	.	A	T	6240	PASS	1211	0.228737	0	"932,0,277,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11302A>T	p.Ile3768Phe	11302/21291	11302/21291	3768/7096	3768	7096		",T"	I3768F	A11567T	I3768F	ORF1AB:I3768F	3768	ORF1a	I3768F	ORF1A:I3768F	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	11634	.	G	T	5015	PASS	1135	0.209692	0	"896,0,238,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11369G>T	p.Cys3790Phe	11369/21291	11369/21291	3790/7096	3790	7096		",T"	C3790F	G11634T	C3790F	ORF1AB:C3790F	3790	ORF1a	C3790F	ORF1A:C3790F	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	12344	.	A	G	320	PASS	181	0.104972	0	"161,0,19,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12079A>G	p.Ser4027Gly	12079/21291	12079/21291	4027/7096	4027	7096		",G"	S4027G	A12344G	S4027G	ORF1AB:S4027G	4027	ORF1a	S4027G	ORF1A:S4027G	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	12483	.	T	C	3582	PASS	301	0.451827	0	"165,0,136,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12218T>C	p.Val4073Ala	12218/21291	12218/21291	4073/7096	4073	7096		",C"	V4073A	T12483C	V4073A	ORF1AB:V4073A	4073	ORF1a	V4073A	ORF1A:V4073A	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	12812	.	G	T	6510	PASS	1076	0.259294	0	"796,0,279,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12547G>T	p.Ala4183Ser	12547/21291	12547/21291	4183/7096	4183	7096		",T"	A4183S	G12812T	A4183S	ORF1AB:A4183S	4183	ORF1a	A4183S	ORF1A:A4183S	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	12825	.	A	G	7851	PASS	1154	0.289428	0	"816,0,334,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12560A>G	p.Asp4187Gly	12560/21291	12560/21291	4187/7096	4187	7096		",G"	D4187G	A12825G	D4187G	ORF1AB:D4187G	4187	ORF1a	D4187G	ORF1A:D4187G	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	13393	.	GA	G	19099	PASS	2366	0.264582	0	"1744,0,626,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13131delA	p.Gly4378fs	13131/21291	13131/21291	4377/7096	4377	7096		"INFO_REALIGN_3_PRIME,G"	del4378	GA13393G	del4378	ORF1AB:DEL4378	4378	ORF1a	del4378	ORF1A:DEL4378	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	13797	.	T	C	9688	PASS	950	0.398947	0	"568,0,379,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13533T>C	p.Leu4511Leu	13533/21291	13533/21291	4511/7096	4511	7096		",C"	L4511L	T13797C	L4511L	ORF1AB:L4511L	110	ORF1b	L110L	ORF1B:L110L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	13993	.	G	T	2584	PASS	647	0.190108	0	"524,0,123,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	14408	.	C	T	414	PASS	12	1	2147483647	"0,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	14732	.	A	G	6828	PASS	1350	0.22	0	"1053,0,297,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14468A>G	p.Glu4823Gly	14468/21291	14468/21291	4823/7096	4823	7096		",G"	E4823G	A14732G	E4823G	ORF1AB:E4823G	422	ORF1b	E422G	ORF1B:E422G	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	15201	.	A	G	6409	PASS	1488	0.201613	0	"1184,0,300,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14937A>G	p.Val4979Val	14937/21291	14937/21291	4979/7096	4979	7096		",G"	V4979V	A15201G	V4979V	ORF1AB:V4979V	578	ORF1b	V578V	ORF1B:V578V	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	15324	.	C	T	2433	PASS	602	0.196013	0	"484,0,118,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	15559	.	C	CT	1587	PASS	472	0.116525	0	"418,0,55,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15299dupT	p.Leu5100fs	15300/21291	15300/21291	5100/7096	5100	7096		"INFO_REALIGN_3_PRIME,CT"	del5100	C15559CT	del5100	ORF1AB:DEL5100	699	ORF1b	del699	ORF1B:DEL699	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	15707	.	TG	T	1743	PASS	416	0.161058	0	"352,0,67,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15444delG	p.Met5148fs	15444/21291	15444/21291	5148/7096	5148	7096		",T"	del5148	TG15707T	del5148	ORF1AB:DEL5148	747	ORF1b	del747	ORF1B:DEL747	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	15766	.	G	T	7909	PASS	413	0.646489	0	"145,0,267,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	16564	.	G	T	8379	PASS	3514	0.132897	0	"3042,0,467,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16300G>T	p.Ala5434Ser	16300/21291	16300/21291	5434/7096	5434	7096		",T"	A5434S	G16564T	A5434S	ORF1AB:A5434S	1033	ORF1b	A1033S	ORF1B:A1033S	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	16679	.	CT	C	47	PASS	3619	0.001105	0	"3615,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16417delT	p.Tyr5473fs	16417/21291	16417/21291	5473/7096	5473	7096		"INFO_REALIGN_3_PRIME,C"	del5473	CT16679C	del5473	ORF1AB:DEL5473	1072	ORF1b	del1072	ORF1B:DEL1072	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	16889	.	A	G	49314	PASS	2631	0.879894	0	"310,0,2315,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	17019	.	G	T	35626	PASS	1307	0.851568	0	"193,0,1113,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	17977	.	CT	C	75	PASS	1974	0.002533	0	"1970,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17716delT	p.Tyr5906fs	17716/21291	17716/21291	5906/7096	5906	7096		"INFO_REALIGN_3_PRIME,C"	del5906	CT17977C	del5906	ORF1AB:DEL5906	1505	ORF1b	del1505	ORF1B:DEL1505	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	18823	.	C	T	974	PASS	1772	0.047404	0	"1684,0,84,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18559C>T	p.Gln6187*	18559/21291	18559/21291	6187/7096	6187	7096		",T"	Q6187*	C18823T	Q6187*	ORF1AB:Q6187*	1786	ORF1b	Q1786*	ORF1B:Q1786*	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	18877	.	C	T	49314	PASS	2072	0.778958	0	"451,0,1614,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	19344	.	T	C	5021	PASS	1766	0.160249	0	"1477,0,283,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19080T>C	p.Ala6360Ala	19080/21291	19080/21291	6360/7096	6360	7096		",C"	A6360A	T19344C	A6360A	ORF1AB:A6360A	1959	ORF1b	A1959A	ORF1B:A1959A	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	19809	.	T	TA	5961	PASS	480	0.395833	0	"291,0,190,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19548dupA	p.Pro6517fs	19549/21291	19549/21291	6517/7096	6517	7096		"INFO_REALIGN_3_PRIME,TA"	del6517	T19809TA	del6517	ORF1AB:DEL6517	2116	ORF1b	del2116	ORF1B:DEL2116	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	19813	.	C	A	209	PASS	469	0.074627	0	"433,0,35,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19549C>A	p.Pro6517Thr	19549/21291	19549/21291	6517/7096	6517	7096		",A"	P6517T	C19813A	P6517T	ORF1AB:P6517T	2116	ORF1b	P2116T	ORF1B:P2116T	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	21077	.	C	T	3930	PASS	1426	0.149369	0	"1208,0,213,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20813C>T	p.Thr6938Ile	20813/21291	20813/21291	6938/7096	6938	7096		",T"	T6938I	C21077T	T6938I	ORF1AB:T6938I	2537	ORF1b	T2537I	ORF1B:T2537I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	21222	.	A	T	18378	PASS	1335	0.498127	0	"666,0,665,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	21255	.	G	C	22308	PASS	1571	0.504774	0	"769,0,793,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	21578	.	G	GT	759	PASS	1124	0.029359	0	"1096,0,33,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.20dupT	p.Leu7fs	21/3822	21/3822	7/1273	7	1273		"INFO_REALIGN_3_PRIME,GT"	del7	G21578GT	del7	S:DEL7	7	S	del7	S:DEL7	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	22037	.	G	GT	1062	PASS	201	0.179104	0	"173,0,36,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.478dupT	p.Tyr160fs	479/3822	479/3822	160/1273	160	1273		"INFO_REALIGN_3_PRIME,GT"	del160	G22037GT	del160	S:DEL160	160	S	del160	S:DEL160	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	22992	.	G	A	1558	PASS	46	1	2147483647	"0,0,46,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	23403	.	A	G	2176	PASS	63	1	2147483647	"0,0,63,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	24958	.	T	C	224	PASS	763	0.032765	0	"737,0,25,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3396T>C	p.Ile1132Ile	3396/3822	3396/3822	1132/1273	1132	1273		",C"	I1132I	T24958C	I1132I	S:I1132I	1132	S	I1132I	S:I1132I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25225	.	A	C	71	PASS	1021	0.019589	0	"994,0,20,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25254	.	C	A	93	PASS	1175	0.02383	0	"1145,0,28,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25296	.	A	C	119	PASS	1164	0.037801	0	"1101,0,44,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25314	.	G	T	78	PASS	1184	0.028716	0	"1149,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25324	.	C	A	557	PASS	1192	0.075503	0	"1101,0,90,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25327	.	A	T	79	PASS	1178	0.027165	0	"1145,0,32,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25336	.	A	C	150	PASS	1142	0.047285	0	"1078,0,54,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25563	.	G	T	20994	PASS	935	0.720856	0	"261,0,674,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25710	.	C	T	14346	PASS	663	0.698341	0	"199,0,463,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25886	.	C	T	1014	PASS	323	0.154799	0	"273,0,50,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25889	.	C	T	1145	PASS	337	0.172107	0	"277,0,58,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.497C>T	p.Ser166Leu	497/828	497/828	166/275	166	275		",T"	S166L	C25889T	S166L	ORF3A:S166L	166	ORF3a	S166L	ORF3A:S166L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25906	.	G	C	89	PASS	326	0.030675	0	"315,0,10,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	25996	.	G	T	71	PASS	394	0.022843	0	"385,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26057	.	A	G	924	PASS	310	0.167742	0	"258,0,52,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.665A>G	p.Asp222Gly	665/828	665/828	222/275	222	275		",G"	D222G	A26057G	D222G	ORF3A:D222G	222	ORF3a	D222G	ORF3A:D222G	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26062	.	G	T	1362	PASS	309	0.213592	0	"243,0,66,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26110	.	C	T	1798	PASS	714	0.127451	0	"622,0,91,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.718C>T	p.Pro240Ser	718/828	718/828	240/275	240	275		",T"	P240S	C26110T	P240S	ORF3A:P240S	240	ORF3a	P240S	ORF3A:P240S	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26144	.	G	T	1381	PASS	923	0.098592	0	"831,0,91,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.752G>T	p.Gly251Val	752/828	752/828	251/275	251	275		",T"	G251V	G26144T	G251V	ORF3A:G251V	251	ORF3a	G251V	ORF3A:G251V	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26720	.	G	T	12948	PASS	1741	0.306146	0	"1207,0,533,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.198G>T	p.Val66Val	198/669	198/669	66/222	66	222		",T"	V66V	G26720T	V66V	M:V66V	66	M	V66V	M:V66V	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26735	.	C	T	27669	PASS	1637	0.58033	0	"685,0,950,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26801	.	C	G	17170	PASS	1412	0.436969	0	"794,0,617,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26876	.	T	C	12061	PASS	729	0.573388	0	"311,0,418,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	26894	.	C	T	92	PASS	490	0.016327	0	"482,0,8,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.372C>T	p.Leu124Leu	372/669	372/669	124/222	124	222		",T"	L124L	C26894T	L124L	M:L124L	124	M	L124L	M:L124L	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	27005	.	C	T	408	PASS	115	0.165217	0	"96,0,19,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.483C>T	p.Ile161Ile	483/669	483/669	161/222	161	222		",T"	I161I	C27005T	I161I	M:I161I	161	M	I161I	M:I161I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	27030	.	G	A	373	PASS	119	0.151261	0	"101,0,18,0"	FALSE	A	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.508G>A	p.Val170Ile	508/669	508/669	170/222	170	222		",A"	V170I	G27030A	V170I	M:V170I	170	M	V170I	M:V170I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	27670	.	G	T	17577	PASS	2405	0.305613	0	"1667,0,735,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.277G>T	p.Val93Phe	277/366	277/366	93/121	93	121		",T"	V93F	G27670T	V93F	ORF7A:V93F	93	ORF7a	V93F	ORF7A:V93F	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	27760	.	T	C	5375	PASS	2202	0.142144	0	"1883,0,313,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.5T>C	p.Ile2Thr	5/132	5/132	2/43	2	43		",C"	I2T	T27760C	I2T	ORF7B:I2T	2	ORF7b	I2T	ORF7B:I2T	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	27944	.	C	T	5136	PASS	1705	0.16305	0	"1420,0,278,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	27972	.	C	T	4471	PASS	1392	0.159483	0	"1166,0,222,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	28048	.	G	T	351	PASS	419	0.057279	0	"394,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	28451	.	G	T	265	PASS	1221	0.029484	0	"1182,0,36,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.178G>T	p.Gly60Cys	178/1260	178/1260	60/419	60	419		",T"	G60C	G28451T	G60C	N:G60C	60	N	G60C	N:G60C	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	28576	.	G	A	5371	PASS	2200	0.143636	0	"1875,0,316,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.303G>A	p.Met101Ile	303/1260	303/1260	101/419	101	419		",A"	M101I	G28576A	M101I	N:M101I	101	N	M101I	N:M101I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	28798	.	G	T	9899	PASS	4764	0.123846	0	"4167,0,590,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>T	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",T"	G175G	G28798T	G175G	N:G175G	175	N	G175G	N:G175G	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	28932	.	C	T	20805	PASS	4303	0.22984	0	"3299,0,989,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	28957	.	C	T	8678	PASS	4100	0.128293	0	"3562,0,526,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	28975	.	G	C	49314	PASS	3953	0.762965	0	"932,0,3016,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	28987	.	CCAA	C	95	PASS	3687	0.001899	0	"3693,0,7,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	29051	.	C	CA	6775	PASS	3233	0.081039	0	"2971,0,262,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	29095	.	C	T	6847	PASS	2619	0.13593	0	"2262,0,356,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.822C>T	p.Phe274Phe	822/1260	822/1260	274/419	274	419		",T"	F274F	C29095T	F274F	N:F274F	274	N	F274F	N:F274F	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET37-1	NC_045512.2	29171	.	C	T	3919	PASS	1076	0.177509	0	"882,0,191,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.898C>T	p.His300Tyr	898/1260	898/1260	300/419	300	419		",T"	H300Y	C29171T	H300Y	N:H300Y	300	N	H300Y	N:H300Y	BET37-1	BETTEMBOURG	2020-12-06T00:00:00Z	31.9275	34.35333333	x	1022021	2020-12-06
BET38-3	NC_045512.2	241	.	C	T	24812	PASS	705	1	0	"0,0,513,192"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	593	.	C	T	4640	PASS	761	0.245729	69	"353,221,73,114"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	684	.	TA	T	54	PASS	701	0.00428	0	"352,346,2,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.422delA	p.Lys141fs	422/21291	422/21291	141/7096	141	7096		"INFO_REALIGN_3_PRIME,T"	del141	TA684T	del141	ORF1AB:DEL141	141	ORF1a	del141	ORF1A:DEL141	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	913	.	C	T	3701	PASS	502	0.288845	36	"218,139,62,83"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	973	.	TGAA	T	1740	PASS	503	0.12326	12	"303,143,50,12"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.709_711delGAA	p.Glu237del	709/21291	709/21291	237/7096	237	7096		",T"	del237	TGAA973T	del237	ORF1AB:DEL237	237	ORF1a	del237	ORF1A:DEL237	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	3037	.	C	T	1801	PASS	50	1	0	"0,0,19,31"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	6597	.	ATG	A	142	PASS	123	0.04878	25	"24,93,5,1"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6333_6334delTG	p.Asn2111fs	6333/21291	6333/21291	2111/7096	2111	7096		",A"	del2111	ATG6597A	del2111	ORF1AB:DEL2111	2111	ORF1a	del2111	ORF1A:DEL2111	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	6696	.	C	CT	134	PASS	89	0.05618	4	"29,55,3,2"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	7773	.	T	C	638	PASS	107	0.242991	4	"46,35,18,8"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7508T>C	p.Leu2503Pro	7508/21291	7508/21291	2503/7096	2503	7096		",C"	L2503P	T7773C	L2503P	ORF1AB:L2503P	2503	ORF1a	L2503P	ORF1A:L2503P	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	7924	.	TG	T	835	PASS	107	0.252336	2	"37,43,10,17"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7660delG	p.Ala2554fs	7660/21291	7660/21291	2554/7096	2554	7096		",T"	del2554	TG7924T	del2554	ORF1AB:DEL2554	2554	ORF1a	del2554	ORF1A:DEL2554	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	8034	.	TG	T	830	PASS	99	0.282828	13	"39,32,9,19"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7770delG	p.Met2590fs	7770/21291	7770/21291	2590/7096	2590	7096		",T"	del2590	TG8034T	del2590	ORF1AB:DEL2590	2590	ORF1a	del2590	ORF1A:DEL2590	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	8084	.	G	A	674	PASS	96	0.270833	4	"35,35,10,16"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7819G>A	p.Glu2607Lys	7819/21291	7819/21291	2607/7096	2607	7096		",A"	E2607K	G8084A	E2607K	ORF1AB:E2607K	2607	ORF1a	E2607K	ORF1A:E2607K	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	8376	.	CA	C	61	PASS	18	0.111111	0	"1,15,0,2"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	9526	.	G	T	357	PASS	12	0.833333	3	"1,1,2,8"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	10682	.	G	T	2167	PASS	388	0.244845	56	"99,194,59,36"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10417G>T	p.Ala3473Ser	10417/21291	10417/21291	3473/7096	3473	7096		",T"	A3473S	G10682T	A3473S	ORF1AB:A3473S	3473	ORF1a	A3473S	ORF1A:A3473S	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	11497	.	C	T	2119	PASS	58	1	0	"0,0,29,29"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	12436	.	T	C	12977	PASS	374	0.997326	4	"0,1,228,145"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	12990	.	T	C	66	PASS	1096	0.010036	7	"760,323,10,1"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12725T>C	p.Val4242Ala	12725/21291	12725/21291	4242/7096	4242	7096		",C"	V4242A	T12990C	V4242A	ORF1AB:V4242A	4242	ORF1a	V4242A	ORF1A:V4242A	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	13933	.	T	C	2174	PASS	585	0.17094	0	"188,297,37,63"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13669T>C	p.Phe4557Leu	13669/21291	13669/21291	4557/7096	4557	7096		",C"	F4557L	T13933C	F4557L	ORF1AB:F4557L	156	ORF1b	F156L	ORF1B:F156L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	13993	.	G	T	9706	PASS	547	0.579525	10	"55,173,99,218"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	14120	.	C	T	3430	PASS	450	0.302222	0	"15,298,5,131"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13856C>T	p.Pro4619Leu	13856/21291	13856/21291	4619/7096	4619	7096		",T"	P4619L	C14120T	P4619L	ORF1AB:P4619L	218	ORF1b	P218L	ORF1B:P218L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	14534	.	G	T	1065	PASS	427	0.126464	0	"368,4,54,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14270G>T	p.Arg4757Ile	14270/21291	14270/21291	4757/7096	4757	7096		",T"	R4757I	G14534T	R4757I	ORF1AB:R4757I	356	ORF1b	R356I	ORF1B:R356I	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	14670	.	C	CA	482	PASS	684	0.02924	1	"546,123,16,4"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14409dupA	p.Pro4804fs	14410/21291	14410/21291	4804/7096	4804	7096		"INFO_REALIGN_3_PRIME,CA"	del4804	C14670CA	del4804	ORF1AB:DEL4804	403	ORF1b	del403	ORF1B:DEL403	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	15168	.	G	A	101	PASS	661	0.030257	33	"213,428,0,20"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	15245	.	TA	T	194	PASS	765	0.013072	33	"133,621,7,3"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14986delA	p.Thr4996fs	14986/21291	14986/21291	4996/7096	4996	7096		"INFO_REALIGN_3_PRIME,T"	del4996	TA15245T	del4996	ORF1AB:DEL4996	595	ORF1b	del595	ORF1B:DEL595	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	15267	.	AG	A	1419	PASS	670	0.08806	39	"118,495,1,58"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15004delG	p.Glu5002fs	15004/21291	15004/21291	5002/7096	5002	7096		",A"	del5002	AG15267A	del5002	ORF1AB:DEL5002	601	ORF1b	del601	ORF1B:DEL601	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	15324	.	C	T	315	PASS	384	0.052083	20	"68,296,9,11"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	15766	.	G	T	818	PASS	62	0.451613	0	"8,26,6,22"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	15908	.	G	GCA	51	PASS	31	0.129032	0	"1,27,0,4"	TRUE	GCA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15644_15645insCA	p.Asp5216fs	15645/21291	15645/21291	5215/7096	5215	7096		",GCA"	del5216	G15908GCA	del5216	ORF1AB:DEL5216	815	ORF1b	del815	ORF1B:DEL815	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	16889	.	A	G	23254	PASS	620	0.996774	0	"0,1,251,367"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	17019	.	G	T	14949	PASS	424	0.992925	0	"0,2,49,372"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	17266	.	G	T	85	PASS	15	0.2	2	"7,5,1,2"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17002G>T	p.Asp5668Tyr	17002/21291	17002/21291	5668/7096	5668	7096		",T"	D5668Y	G17266T	D5668Y	ORF1AB:D5668Y	1267	ORF1b	D1267Y	ORF1B:D1267Y	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	17590	.	G	T	4937	PASS	366	0.464481	13	"148,46,144,26"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17326G>T	p.Val5776Leu	17326/21291	17326/21291	5776/7096	5776	7096		",T"	V5776L	G17590T	V5776L	ORF1AB:V5776L	1375	ORF1b	V1375L	ORF1B:V1375L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	17957	.	G	T	7859	PASS	523	0.50478	18	1.21138E+11	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17693G>T	p.Cys5898Phe	17693/21291	17693/21291	5898/7096	5898	7096		",T"	C5898F	G17957T	C5898F	ORF1AB:C5898F	1497	ORF1b	C1497F	ORF1B:C1497F	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	18289	.	CG	C	771	PASS	224	0.120536	12	"79,122,16,11"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18026delG	p.Arg6009fs	18026/21291	18026/21291	6009/7096	6009	7096		",C"	del6009	CG18289C	del6009	ORF1AB:DEL6009	1608	ORF1b	del1608	ORF1B:DEL1608	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	18422	.	CTAA	C	541	PASS	164	0.109756	2	"84,62,9,9"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18164_18166delATA	p.Asn6055del	18164/21291	18164/21291	6055/7096	6055	7096		"INFO_REALIGN_3_PRIME,C"	del6055	CTAA18422C	del6055	ORF1AB:DEL6055	1654	ORF1b	del1654	ORF1B:DEL1654	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	18877	.	C	T	1352	PASS	43	0.930233	2	"1,2,9,31"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	19197	.	T	G	206	PASS	42	0.214286	29	"33,0,5,4"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18933T>G	p.Asn6311Lys	18933/21291	18933/21291	6311/7096	6311	7096		",G"	N6311K	T19197G	N6311K	ORF1AB:N6311K	1910	ORF1b	N1910K	ORF1B:N1910K	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	21638	.	C	T	378	PASS	361	0.066482	20	"90,245,13,11"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.76C>T	p.Pro26Ser	76/3822	76/3822	26/1273	26	1273		",T"	P26S	C21638T	P26S	S:P26S	26	S	P26S	S:P26S	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	21968	.	T	G	612	PASS	116	0.215517	4	"46,45,10,15"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.406T>G	p.Cys136Gly	406/3822	406/3822	136/1273	136	1273		",G"	C136G	T21968G	C136G	S:C136G	136	S	C136G	S:C136G	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	22024	.	AAGTG	A	987	PASS	106	0.283019	1	"27,49,12,18"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.466_469delGAGT	p.Glu156fs	466/3822	466/3822	156/1273	156	1273		"INFO_REALIGN_3_PRIME,A"	del156	AAGTG22024A	del156	S:DEL156	156	S	del156	S:DEL156	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	22344	.	G	A	337	PASS	16	0.625	2	"4,2,8,2"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.782G>A	p.Gly261Asp	782/3822	782/3822	261/1273	261	1273		",A"	G261D	G22344A	G261D	S:G261D	261	S	G261D	S:G261D	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	22722	.	TA	T	62	PASS	25	0.08	0	"16,7,2,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1163delA	p.Asn388fs	1163/3822	1163/3822	388/1273	388	1273		"INFO_REALIGN_3_PRIME,T"	del388	TA22722T	del388	S:DEL388	388	S	del388	S:DEL388	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	22992	.	G	A	613	PASS	25	0.84	12	"3,1,4,17"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	23164	.	T	TA	199	PASS	22	0.272727	4	"10,6,2,4"	TRUE	TA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1607dupA	p.Asn536fs	1608/3822	1608/3822	536/1273	536	1273		"INFO_REALIGN_3_PRIME,TA"	del536	T23164TA	del536	S:DEL536	536	S	del536	S:DEL536	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	23403	.	A	G	697	PASS	19	1	0	"0,0,6,13"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	23832	.	G	A	193	PASS	47	0.212766	0	"36,1,10,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2270G>A	p.Gly757Asp	2270/3822	2270/3822	757/1273	757	1273		",A"	G757D	G23832A	G757D	S:G757D	757	S	G757D	S:G757D	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	23850	.	T	A	464	PASS	69	0.26087	2	"47,4,18,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2288T>A	p.Leu763*	2288/3822	2288/3822	763/1273	763	1273		",A"	L763*	T23850A	L763*	S:L763*	763	S	L763*	S:L763*	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	23958	.	G	GT	446	PASS	72	0.208333	1	"40,17,10,5"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	24534	.	T	C	3513	PASS	580	0.246552	2	"267,170,92,51"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2972T>C	p.Val991Ala	2972/3822	2972/3822	991/1273	991	1273		",C"	V991A	T24534C	V991A	S:V991A	991	S	V991A	S:V991A	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	24926	.	G	T	4064	PASS	764	0.225131	28	"296,293,62,110"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3364G>T	p.Val1122Leu	3364/3822	3364/3822	1122/1273	1122	1273		",T"	V1122L	G24926T	V1122L	S:V1122L	1122	S	V1122L	S:V1122L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	25563	.	G	T	9632	PASS	277	0.98556	16	"3,0,77,196"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	25710	.	C	T	5946	PASS	178	0.938202	31	"9,2,48,119"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	26299	.	CT	C	471	PASS	1000	0.022	38	"529,456,3,19"	TRUE	C	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.60delT	p.Ala22fs	60/228	60/228	20/75	20	75		"INFO_REALIGN_3_PRIME,C"	del22	CT26299C	del22	E:DEL22	22	E	del22	E:DEL22	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	26654	.	G	GT	47	PASS	713	0.004208	10	"327,394,3,0"	TRUE	GT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.137dupT	p.Leu46fs	138/669	138/669	46/222	46	222		"INFO_REALIGN_3_PRIME,GT"	del46	G26654GT	del46	M:DEL46	46	M	del46	M:DEL46	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	26735	.	C	T	16550	PASS	655	0.761832	1	53102183316	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	26876	.	T	C	16919	PASS	614	0.820847	31	9100109395	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	26894	.	C	T	1022	PASS	506	0.108696	51	"84,367,26,29"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.372C>T	p.Leu124Leu	372/669	372/669	124/222	124	222		",T"	L124L	C26894T	L124L	M:L124L	124	M	L124L	M:L124L	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	27434	.	C	T	108	PASS	210	0.038095	12	"74,128,0,8"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	27572	.	GCACTCAATTTGCTTTTGCTTGTCCTGACGGCGTAAAACACGTCTAT	G	1001	PASS	149	0.201342	5	"82,38,17,13"	TRUE	G	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.182_227delCTCAATTTGCTTTTGCTTGTCCTGACGGCGTAAAACACGTCTATCA	p.Thr61fs	182/366	182/366	61/121	61	121		"INFO_REALIGN_3_PRIME,G"	del61	GCACTCAATTTGCTTTTGCTTGTCCTGACGGCGTAAAACACGTCTAT27572G	del61	ORF7A:DEL61	61	ORF7a	del61	ORF7A:DEL61	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	28022	.	T	C	1649	PASS	319	0.206897	10	"142,111,45,21"	FALSE	C	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.129T>C	p.Ser43Ser	129/366	129/366	43/121	43	121		",C"	S43S	T28022C	S43S	ORF8:S43S	43	ORF8	S43S	ORF8:S43S	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	28140	.	TG	T	2526	PASS	337	0.255193	2	"173,79,62,24"	TRUE	T	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.248delG	p.Cys83fs	248/366	248/366	83/121	83	121		",T"	del83	TG28140T	del83	ORF8:DEL83	83	ORF8	del83	ORF8:DEL83	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	28556	.	CG	C	1227	PASS	777	0.06435	78	"339,393,4,46"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.284delG	p.Arg95fs	284/1260	284/1260	95/419	95	419		",C"	del95	CG28556C	del95	N:DEL95	95	N	del95	N:DEL95	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BET38-3	NC_045512.2	28975	.	G	C	13535	PASS	398	0.98995	0	"0,0,126,268"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BET38-3	BETTEMBOURG	2020-12-17T00:00:00Z	32.19175	33.96333333	To be done	NA	2020-12-17
BLEE36-1	NC_045512.2	241	.	C	T	49314	PASS	3113	0.996788	0	"3,0,3103,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	802	.	A	C	169	PASS	3311	0.010571	0	"3264,0,35,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	815	.	C	T	8762	PASS	3377	0.132958	0	"2923,0,449,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.550C>T	p.Arg184Cys	550/21291	550/21291	184/7096	184	7096		",T"	R184C	C815T	R184C	ORF1AB:R184C	184	ORF1a	R184C	ORF1A:R184C	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	1391	.	T	A	5013	PASS	3931	0.084202	0	"3599,0,331,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1126T>A	p.Ser376Thr	1126/21291	1126/21291	376/7096	376	7096		",A"	S376T	T1391A	S376T	ORF1AB:S376T	376	ORF1a	S376T	ORF1A:S376T	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	1483	.	T	A	13136	PASS	4159	0.159413	0	"3492,0,663,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1218T>A	p.Phe406Leu	1218/21291	1218/21291	406/7096	406	7096		",A"	F406L	T1483A	F406L	ORF1AB:F406L	406	ORF1a	F406L	ORF1A:F406L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	1513	.	C	T	15061	PASS	4856	0.162479	0	"4050,0,789,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1248C>T	p.Cys416Cys	1248/21291	1248/21291	416/7096	416	7096		",T"	C416C	C1513T	C416C	ORF1AB:C416C	416	ORF1a	C416C	ORF1A:C416C	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	2568	.	A	G	8073	PASS	2134	0.195408	0	"1713,0,417,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2303A>G	p.Gln768Arg	2303/21291	2303/21291	768/7096	768	7096		",G"	Q768R	A2568G	Q768R	ORF1AB:Q768R	768	ORF1a	Q768R	ORF1A:Q768R	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	2856	.	T	C	316	PASS	3814	0.015469	0	"3748,0,59,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2591T>C	p.Leu864Pro	2591/21291	2591/21291	864/7096	864	7096		",C"	L864P	T2856C	L864P	ORF1AB:L864P	864	ORF1a	L864P	ORF1A:L864P	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	2886	.	T	C	408	PASS	3961	0.022469	0	"3860,0,89,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2621T>C	p.Val874Ala	2621/21291	2621/21291	874/7096	874	7096		",C"	V874A	T2886C	V874A	ORF1AB:V874A	874	ORF1a	V874A	ORF1A:V874A	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	3037	.	C	T	49314	PASS	2956	0.996955	2147483647	"0,0,2947,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	3592	.	T	C	272	PASS	135	0.111111	0	"118,0,15,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	3602	.	C	T	3499	PASS	164	0.695122	0	"50,0,114,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	3743	.	C	T	648	PASS	232	0.133621	0	"201,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3478C>T	p.His1160Tyr	3478/21291	3478/21291	1160/7096	1160	7096		",T"	H1160Y	C3743T	H1160Y	ORF1AB:H1160Y	1160	ORF1a	H1160Y	ORF1A:H1160Y	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	4353	.	A	G	2481	PASS	205	0.44878	0	"112,0,92,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4088A>G	p.Glu1363Gly	4088/21291	4088/21291	1363/7096	1363	7096		",G"	E1363G	A4353G	E1363G	ORF1AB:E1363G	1363	ORF1a	E1363G	ORF1A:E1363G	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	5224	.	TA	T	74	PASS	2647	0.002267	0	"2639,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4964delA	p.Lys1655fs	4964/21291	4964/21291	1655/7096	1655	7096		"INFO_REALIGN_3_PRIME,T"	del1655	TA5224T	del1655	ORF1AB:DEL1655	1655	ORF1a	del1655	ORF1A:DEL1655	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	5629	.	G	T	3564	PASS	303	0.442244	0	"169,0,134,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	6286	.	C	T	7827	PASS	1171	0.283518	0	"837,0,332,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	6422	.	G	C	4998	PASS	1034	0.229207	0	"797,0,237,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6157G>C	p.Glu2053Gln	6157/21291	6157/21291	2053/7096	2053	7096		",C"	E2053Q	G6422C	E2053Q	ORF1AB:E2053Q	2053	ORF1a	E2053Q	ORF1A:E2053Q	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	6696	.	C	CT	2632	PASS	264	0.310606	0	"182,0,82,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	6941	.	C	T	5304	PASS	352	0.528409	0	"166,0,186,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	7246	.	GT	G	3030	PASS	399	0.250627	0	"304,0,100,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6986delT	p.Leu2329fs	6986/21291	6986/21291	2329/7096	2329	7096		"INFO_REALIGN_3_PRIME,G"	del2329	GT7246G	del2329	ORF1AB:DEL2329	2329	ORF1a	del2329	ORF1A:DEL2329	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	7273	.	GT	G	74	PASS	354	0.011299	0	"355,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7013delT	p.Phe2338fs	7013/21291	7013/21291	2338/7096	2338	7096		"INFO_REALIGN_3_PRIME,G"	del2338	GT7273G	del2338	ORF1AB:DEL2338	2338	ORF1a	del2338	ORF1A:DEL2338	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	7690	.	A	G	2115	PASS	1030	0.116505	0	"909,0,120,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7425A>G	p.Leu2475Leu	7425/21291	7425/21291	2475/7096	2475	7096		",G"	L2475L	A7690G	L2475L	ORF1AB:L2475L	2475	ORF1a	L2475L	ORF1A:L2475L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	7772	.	C	T	389	PASS	661	0.043873	0	"630,0,29,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7507C>T	p.Leu2503Phe	7507/21291	7507/21291	2503/7096	2503	7096		",T"	L2503F	C7772T	L2503F	ORF1AB:L2503F	2503	ORF1a	L2503F	ORF1A:L2503F	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	8145	.	A	G	9402	PASS	696	0.511494	0	"336,0,356,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7880A>G	p.Asp2627Gly	7880/21291	7880/21291	2627/7096	2627	7096		",G"	D2627G	A8145G	D2627G	ORF1AB:D2627G	2627	ORF1a	D2627G	ORF1A:D2627G	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	8983	.	T	G	5386	PASS	920	0.257609	0	"682,0,237,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	9003	.	G	T	4958	PASS	956	0.243724	0	"720,0,233,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8738G>T	p.Cys2913Phe	8738/21291	8738/21291	2913/7096	2913	7096		",T"	C2913F	G9003T	C2913F	ORF1AB:C2913F	2913	ORF1a	C2913F	ORF1A:C2913F	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	9526	.	G	T	1087	PASS	1673	0.059773	0	"1569,0,100,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	9860	.	T	C	18845	PASS	1515	0.455446	0	"822,0,690,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9595T>C	p.Leu3199Leu	9595/21291	9595/21291	3199/7096	3199	7096		",C"	L3199L	T9860C	L3199L	ORF1AB:L3199L	3199	ORF1a	L3199L	ORF1A:L3199L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	9911	.	TA	T	6327	PASS	2290	0.110917	0	"2057,0,254,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9647delA	p.Tyr3216fs	9647/21291	9647/21291	3216/7096	3216	7096		",T"	del3216	TA9911T	del3216	ORF1AB:DEL3216	3216	ORF1a	del3216	ORF1A:DEL3216	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	10025	.	C	CA	9099	PASS	3544	0.095372	0	"3206,0,338,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9763dupA	p.Thr3255fs	9764/21291	9764/21291	3255/7096	3255	7096		"INFO_REALIGN_3_PRIME,CA"	del3255	C10025CA	del3255	ORF1AB:DEL3255	3255	ORF1a	del3255	ORF1A:DEL3255	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	10029	.	C	A	93	PASS	3481	0.00948	0	"3446,0,33,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9764C>A	p.Thr3255Asn	9764/21291	9764/21291	3255/7096	3255	7096		",A"	T3255N	C10029A	T3255N	ORF1AB:T3255N	3255	ORF1a	T3255N	ORF1A:T3255N	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	10523	.	G	C	11324	PASS	3800	0.152632	0	"3216,0,580,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10258G>C	p.Val3420Leu	10258/21291	10258/21291	3420/7096	3420	7096		",C"	V3420L	G10523C	V3420L	ORF1AB:V3420L	3420	ORF1a	V3420L	ORF1A:V3420L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	10604	.	C	A	7530	PASS	2425	0.157113	0	"2039,0,381,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10339C>A	p.Pro3447Thr	10339/21291	10339/21291	3447/7096	3447	7096		",A"	P3447T	C10604A	P3447T	ORF1AB:P3447T	3447	ORF1a	P3447T	ORF1A:P3447T	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11061	.	A	G	181	PASS	2360	0.013559	0	"2324,0,32,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10796A>G	p.Gln3599Arg	10796/21291	10796/21291	3599/7096	3599	7096		",G"	Q3599R	A11061G	Q3599R	ORF1AB:Q3599R	3599	ORF1a	Q3599R	ORF1A:Q3599R	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11074	.	C	CT	3605	PASS	2558	0.087568	0	"2330,0,224,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817dupT	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,CT"	del3606	C11074CT	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11074	.	CT	C	74	PASS	2558	0.005473	0	"2544,0,14,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11082	.	TG	T	508	PASS	2763	0.010134	0	"2736,0,28,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11083	.	G	T	4396	PASS	2771	0.102129	0	"2457,0,283,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11162	.	CA	C	10172	PASS	2447	0.148345	0	"2084,0,363,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10898delA	p.His3633fs	10898/21291	10898/21291	3633/7096	3633	7096		",C"	del3633	CA11162C	del3633	ORF1AB:DEL3633	3633	ORF1a	del3633	ORF1A:DEL3633	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11422	.	TA	T	16586	PASS	3727	0.149987	0	"3212,0,559,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11160delA	p.Val3721fs	11160/21291	11160/21291	3720/7096	3720	7096		"INFO_REALIGN_3_PRIME,T"	del3721	TA11422T	del3721	ORF1AB:DEL3721	3721	ORF1a	del3721	ORF1A:DEL3721	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11497	.	C	T	9750	PASS	3513	0.145175	0	"2988,0,510,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	11521	.	GT	G	85	PASS	3220	0.002174	0	"3230,0,7,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11261delT	p.Leu3754fs	11261/21291	11261/21291	3754/7096	3754	7096		"INFO_REALIGN_3_PRIME,G"	del3754	GT11521G	del3754	ORF1AB:DEL3754	3754	ORF1a	del3754	ORF1A:DEL3754	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	12333	.	CA	C	876	PASS	1550	0.025161	0	"1511,0,39,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12072delA	p.Val4025fs	12072/21291	12072/21291	4024/7096	4024	7096		"INFO_REALIGN_3_PRIME,C"	del4025	CA12333C	del4025	ORF1AB:DEL4025	4025	ORF1a	del4025	ORF1A:DEL4025	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	12891	.	TG	T	59	PASS	4060	0.001232	0	"4055,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12628delG	p.Glu4210fs	12628/21291	12628/21291	4210/7096	4210	7096		"INFO_REALIGN_3_PRIME,T"	del4210	TG12891T	del4210	ORF1AB:DEL4210	4210	ORF1a	del4210	ORF1A:DEL4210	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	13123	.	TG	T	55	PASS	5671	0.001058	0	"5736,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	13200	.	C	T	462	PASS	5227	0.016644	0	"5119,0,87,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12935C>T	p.Pro4312Leu	12935/21291	12935/21291	4312/7096	4312	7096		",T"	P4312L	C13200T	P4312L	ORF1AB:P4312L	4312	ORF1a	P4312L	ORF1A:P4312L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	13993	.	G	T	8825	PASS	3326	0.1362	0	"2872,0,453,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	14408	.	C	T	1766	PASS	53	1	2147483647	"0,0,53,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	14414	.	G	T	370	PASS	55	0.272727	0	"40,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14150G>T	p.Ser4717Ile	14150/21291	14150/21291	4717/7096	4717	7096		",T"	S4717I	G14414T	S4717I	ORF1AB:S4717I	316	ORF1b	S316I	ORF1B:S316I	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	14429	.	T	G	241	PASS	61	0.213115	0	"48,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14165T>G	p.Val4722Gly	14165/21291	14165/21291	4722/7096	4722	7096		",G"	V4722G	T14429G	V4722G	ORF1AB:V4722G	321	ORF1b	V321G	ORF1B:V321G	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	15324	.	C	T	20013	PASS	1736	0.433756	0	"979,0,753,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	15766	.	G	T	441	PASS	1389	0.033117	0	"1342,0,46,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	16145	.	T	G	218	PASS	101	0.148515	0	"86,0,15,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15881T>G	p.Met5294Arg	15881/21291	15881/21291	5294/7096	5294	7096		",G"	M5294R	T16145G	M5294R	ORF1AB:M5294R	893	ORF1b	M893R	ORF1B:M893R	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	16597	.	AT	A	73	PASS	6052	0.001157	0	"6051,0,7,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16337delT	p.Leu5446fs	16337/21291	16337/21291	5446/7096	5446	7096		"INFO_REALIGN_3_PRIME,A"	del5446	AT16597A	del5446	ORF1AB:DEL5446	1045	ORF1b	del1045	ORF1B:DEL1045	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	16837	.	GA	G	84	PASS	5206	0.001537	0	"5207,0,8,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	17019	.	G	T	193	PASS	2458	0.010985	0	"2431,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	17104	.	C	T	2733	PASS	305	0.337705	0	"201,0,103,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	17654	.	A	G	200	PASS	71	0.140845	0	"61,0,10,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17390A>G	p.Lys5797Arg	17390/21291	17390/21291	5797/7096	5797	7096		",G"	K5797R	A17654G	K5797R	ORF1AB:K5797R	1396	ORF1b	K1396R	ORF1B:K1396R	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	18877	.	C	T	28848	PASS	3009	0.368229	0	"1892,0,1108,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	18990	.	TA	T	59	PASS	4041	0.001237	0	"4048,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18729delA	p.Ala6244fs	18729/21291	18729/21291	6243/7096	6243	7096		"INFO_REALIGN_3_PRIME,T"	del6244	TA18990T	del6244	ORF1AB:DEL6244	1843	ORF1b	del1843	ORF1B:DEL1843	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	19157	.	A	G	16992	PASS	3737	0.207653	0	"2947,0,776,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18893A>G	p.His6298Arg	18893/21291	18893/21291	6298/7096	6298	7096		",G"	H6298R	A19157G	H6298R	ORF1AB:H6298R	1897	ORF1b	H1897R	ORF1B:H1897R	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	21638	.	C	T	3298	PASS	93	1	2147483647	"0,0,93,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.76C>T	p.Pro26Ser	76/3822	76/3822	26/1273	26	1273		",T"	P26S	C21638T	P26S	S:P26S	26	S	P26S	S:P26S	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	22277	.	CA	C	1453	PASS	51	0.764706	0	"12,0,39,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.718delA	p.Thr240fs	718/3822	718/3822	240/1273	240	1273		"INFO_REALIGN_3_PRIME,C"	del240	CA22277C	del240	S:DEL240	240	S	del240	S:DEL240	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	22488	.	A	G	561	PASS	25	0.72	0	"7,0,18,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.926A>G	p.Glu309Gly	926/3822	926/3822	309/1273	309	1273		",G"	E309G	A22488G	E309G	S:E309G	309	S	E309G	S:E309G	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	22868	.	TG	T	478	PASS	138	0.130435	0	"123,0,18,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1308delG	p.Trp436fs	1308/3822	1308/3822	436/1273	436	1273		"INFO_REALIGN_3_PRIME,T"	del436	TG22868T	del436	S:DEL436	436	S	del436	S:DEL436	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	22992	.	G	A	1672	PASS	165	0.406061	0	"98,0,67,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	23030	.	T	C	819	PASS	138	0.268116	0	"101,0,37,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1468T>C	p.Phe490Leu	1468/3822	1468/3822	490/1273	490	1273		",C"	F490L	T23030C	F490L	S:F490L	490	S	F490L	S:F490L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	23403	.	A	G	6028	PASS	177	1	2147483647	"0,0,177,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	23405	.	G	T	3632	PASS	176	0.710227	0	"51,0,125,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1843G>T	p.Val615Phe	1843/3822	1843/3822	615/1273	615	1273		",T"	V615F	G23405T	V615F	S:V615F	615	S	V615F	S:V615F	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	23627	.	A	G	5370	PASS	155	1	2147483647	"0,0,155,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2065A>G	p.Ser689Gly	2065/3822	2065/3822	689/1273	689	1273		",G"	S689G	A23627G	S689G	S:S689G	689	S	S689G	S:S689G	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	24349	.	T	C	318	PASS	311	0.067524	0	"289,0,21,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2787T>C	p.Ser929Ser	2787/3822	2787/3822	929/1273	929	1273		",C"	S929S	T24349C	S929S	S:S929S	929	S	S929S	S:S929S	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	25563	.	G	T	4349	PASS	144	0.881944	0	"16,0,127,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	25710	.	C	T	5536	PASS	200	0.865	0	"27,0,173,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	25906	.	G	C	308	PASS	311	0.073955	0	"287,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	25996	.	G	T	517	PASS	349	0.094556	0	"316,0,33,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	26062	.	G	T	3374	PASS	308	0.412338	0	"180,0,127,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	26163	.	T	C	13140	PASS	708	0.610169	0	"276,0,432,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.771T>C	p.Asn257Asn	771/828	771/828	257/275	257	275		",C"	N257N	T26163C	N257N	ORF3A:N257N	257	ORF3a	N257N	ORF3A:N257N	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	26735	.	C	T	29497	PASS	1132	0.811837	0	"211,0,919,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	26801	.	C	T	993	PASS	1070	0.064486	0	"996,0,69,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>T	p.Leu93Leu	279/669	279/669	93/222	93	222		",T"	L93L	C26801T	L93L	M:L93L	93	M	L93L	M:L93L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	26876	.	T	C	11994	PASS	738	0.573171	0	"313,0,423,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	26951	.	G	T	1726	PASS	522	0.159004	0	"438,0,83,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	26972	.	T	C	1659	PASS	598	0.14214	0	"512,0,85,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	27145	.	C	T	1284	PASS	625	0.1152	0	"553,0,72,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.623C>T	p.Thr208Ile	623/669	623/669	208/222	208	222		",T"	T208I	C27145T	T208I	M:T208I	208	M	T208I	M:T208I	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	27800	.	C	A	15453	PASS	1727	0.354372	0	"1111,0,612,0"	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	27870	.	G	T	1403	PASS	1939	0.050026	0	"1842,0,97,0"	FALSE	T	stop_gained	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.115G>T	p.Glu39*	115/132	115/132	39/43	39	43		",T"	E39*	G27870T	E39*	ORF7B:E39*	39	ORF7b	E39*	ORF7B:E39*	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	27877	.	G	T	11275	PASS	1955	0.254731	0	"1452,0,498,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.122G>T	p.Cys41Phe	122/132	122/132	41/43	41	43		",T"	C41F	G27877T	C41F	ORF7B:C41F	41	ORF7b	C41F	ORF7B:C41F	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	27914	.	A	T	12102	PASS	1941	0.255538	0	"1441,0,496,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.21A>T	p.Leu7Phe	21/366	21/366	7/121	7	121		",T"	L7F	A27914T	L7F	ORF8:L7F	7	ORF8	L7F	ORF8:L7F	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	27944	.	C	T	2667	PASS	1709	0.095377	0	"1542,0,163,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28214	.	C	CT	9171	PASS	992	0.293347	0	"700,0,291,0"	TRUE	CT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.326dupT	p.Leu109fs	327/366	327/366	109/121	109	121		"INFO_REALIGN_3_PRIME,CT"	del109	C28214CT	del109	ORF8:DEL109	109	ORF8	del109	ORF8:DEL109	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28254	.	A	C	381	PASS	1006	0.047714	0	"956,0,48,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28378	.	G	T	22003	PASS	3732	0.255359	0	"2777,0,953,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28651	.	C	T	28742	PASS	4629	0.263124	0	"3401,0,1218,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28776	.	CA	C	418	PASS	7214	0.00402	0	"7185,0,29,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28798	.	G	A	21919	PASS	7382	0.149282	0	"6270,0,1102,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28869	.	C	T	49314	PASS	7002	0.29106	0	"4946,0,2038,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28932	.	C	T	20893	PASS	6985	0.156192	0	"5869,0,1091,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28975	.	G	C	49314	PASS	6587	0.397753	0	"3952,0,2620,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	28987	.	CCAA	C	283	PASS	6075	0.003128	0	"6094,0,19,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	29051	.	C	CA	24123	PASS	5283	0.160893	0	"4432,0,850,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BLEE36-1	NC_045512.2	29057	.	C	A	68	PASS	5219	0.006706	0	"5180,0,35,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.784C>A	p.Arg262Ser	784/1260	784/1260	262/419	262	419		",A"	R262S	C29057A	R262S	N:R262S	262	N	R262S	N:R262S	BLEE36-1	BLEESBRUCK	2020-11-29T00:00:00Z	31.38	33.23	x	1022021	2020-11-29
BOEV34	NC_045512.2	241	.	C	T	9165	PASS	266	0.996241	2147483647	"0,0,265,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	335	.	C	T	8342	PASS	244	1	2147483647	"0,0,244,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	584	.	C	A	169	PASS	230	0.073913	0	"213,0,17,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.319C>A	p.Leu107Ile	319/21291	319/21291	107/7096	107	7096		",A"	L107I	C584A	L107I	ORF1AB:L107I	107	ORF1a	L107I	ORF1A:L107I	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	4984	.	A	T	148	PASS	10	0.5	0	"5,0,5,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4719A>T	p.Thr1573Thr	4719/21291	4719/21291	1573/7096	1573	7096		",T"	T1573T	A4984T	T1573T	ORF1AB:T1573T	1573	ORF1a	T1573T	ORF1A:T1573T	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	5814	.	G	T	310	PASS	31	0.387097	0	"19,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5549G>T	p.Gly1850Val	5549/21291	5549/21291	1850/7096	1850	7096		",T"	G1850V	G5814T	G1850V	ORF1AB:G1850V	1850	ORF1a	G1850V	ORF1A:G1850V	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	6696	.	C	CT	286	PASS	48	0.1875	0	"39,0,9,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	6941	.	C	T	2786	PASS	82	1	2147483647	"0,0,82,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	7638	.	T	C	100	PASS	53	0.132075	0	"46,0,7,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7373T>C	p.Phe2458Ser	7373/21291	7373/21291	2458/7096	2458	7096		",C"	F2458S	T7638C	F2458S	ORF1AB:F2458S	2458	ORF1a	F2458S	ORF1A:F2458S	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	8606	.	CT	C	1427	PASS	44	0.931818	0	"3,0,41,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8346delT	p.Phe2782fs	8346/21291	8346/21291	2782/7096	2782	7096		"INFO_REALIGN_3_PRIME,C"	del2782	CT8606C	del2782	ORF1AB:DEL2782	2782	ORF1a	del2782	ORF1A:DEL2782	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	9119	.	A	T	1426	PASS	41	1	2147483647	"0,0,41,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8854A>T	p.Thr2952Ser	8854/21291	8854/21291	2952/7096	2952	7096		",T"	T2952S	A9119T	T2952S	ORF1AB:T2952S	2952	ORF1a	T2952S	ORF1A:T2952S	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	11132	.	G	T	107	PASS	179	0.061453	0	"168,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10867G>T	p.Ala3623Ser	10867/21291	10867/21291	3623/7096	3623	7096		",T"	A3623S	G11132T	A3623S	ORF1AB:A3623S	3623	ORF1a	A3623S	ORF1A:A3623S	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	14000	.	TA	T	5640	PASS	468	0.376068	0	"291,0,176,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13741delA	p.Thr4581fs	13741/21291	13741/21291	4581/7096	4581	7096		"INFO_REALIGN_3_PRIME,T"	del4581	TA14000T	del4581	ORF1AB:DEL4581	180	ORF1b	del180	ORF1B:DEL180	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	14110	.	C	CA	3315	PASS	197	0.502538	0	"95,0,99,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13849dupA	p.Thr4617fs	13850/21291	13850/21291	4617/7096	4617	7096		"INFO_REALIGN_3_PRIME,CA"	del4617	C14110CA	del4617	ORF1AB:DEL4617	216	ORF1b	del216	ORF1B:DEL216	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	14110	.	C	CG	44	PASS	197	0.010152	0	"95,0,2,0"	TRUE	CG	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13846_13847insG	p.Gln4616fs	13847/21291	13847/21291	4616/7096	4616	7096		",CG"	del4616	C14110CG	del4616	ORF1AB:DEL4616	215	ORF1b	del215	ORF1B:DEL215	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	15324	.	C	T	1464	PASS	50	0.92	0	"4,0,46,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	16044	.	A	T	167	PASS	61	0.180328	0	"50,0,11,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15780A>T	p.Pro5260Pro	15780/21291	15780/21291	5260/7096	5260	7096		",T"	P5260P	A16044T	P5260P	ORF1AB:P5260P	859	ORF1b	P859P	ORF1B:P859P	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	16809	.	TA	T	42	PASS	251	0.007968	0	"250,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16548delA	p.Val5517fs	16548/21291	16548/21291	5516/7096	5516	7096		"INFO_REALIGN_3_PRIME,T"	del5517	TA16809T	del5517	ORF1AB:DEL5517	1116	ORF1b	del1116	ORF1B:DEL1116	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	16889	.	A	G	2915	PASS	201	0.497512	0	"100,0,100,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	17019	.	G	T	889	PASS	67	0.477612	0	"35,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	17615	.	A	G	2813	PASS	159	0.63522	0	"58,0,101,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	18857	.	A	G	2259	PASS	70	0.971429	0	"1,0,68,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18593A>G	p.Asp6198Gly	18593/21291	18593/21291	6198/7096	6198	7096		",G"	D6198G	A18857G	D6198G	ORF1AB:D6198G	1797	ORF1b	D1797G	ORF1B:D1797G	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	21586	.	G	T	694	PASS	21	0.952381	0	"1,0,20,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.24G>T	p.Leu8Phe	24/3822	24/3822	8/1273	8	1273		",T"	L8F	G21586T	L8F	S:L8F	8	S	L8F	S:L8F	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	21855	.	C	T	489	PASS	14	1	2147483647	"0,0,14,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	25317	.	C	T	3718	PASS	121	1	2147483647	"0,0,121,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	25422	.	TG	T	49	PASS	108	0.018519	0	"106,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.32delG	p.Gly11fs	32/828	32/828	11/275	11	275		"INFO_REALIGN_3_PRIME,T"	del11	TG25422T	del11	ORF3A:DEL11	11	ORF3a	del11	ORF3A:DEL11	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	25505	.	A	G	3432	PASS	95	1	2147483647	"0,0,95,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	26324	.	TG	T	42	PASS	258	0.007752	0	"257,0,2,0"	TRUE	T	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.81delG	p.Leu27fs	81/228	81/228	27/75	27	75		",T"	del27	TG26324T	del27	E:DEL27	27	E	del27	E:DEL27	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	27881	.	C	T	6441	PASS	607	0.410214	0	"357,0,249,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28514	.	G	T	6505	PASS	1557	0.19589	0	"1251,0,305,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.241G>T	p.Asp81Tyr	241/1260	241/1260	81/419	81	419		",T"	D81Y	G28514T	D81Y	N:D81Y	81	N	D81Y	N:D81Y	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28651	.	C	T	8252	PASS	2084	0.192898	0	"1675,0,402,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28851	.	G	T	12548	PASS	3184	0.190327	0	"2572,0,606,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.578G>T	p.Ser193Ile	578/1260	578/1260	193/419	193	419		",T"	S193I	G28851T	S193I	N:S193I	193	N	S193I	N:S193I	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28869	.	C	T	12613	PASS	3130	0.196486	0	"2507,0,615,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28882	.	G	T	33182	PASS	3179	0.424033	0	"1827,0,1348,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>T	p.Arg203Ser	609/1260	609/1260	203/419	203	419		",T"	R203S	G28882T	R203S	N:R203S	203	N	R203S	N:R203S	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28909	.	C	A	13183	PASS	3134	0.207084	0	"2483,0,649,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.636C>A	p.Gly212Gly	636/1260	636/1260	212/419	212	419		",A"	G212G	C28909A	G212G	N:G212G	212	N	G212G	N:G212G	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28932	.	C	T	49314	PASS	3142	0.640038	0	"1122,0,2011,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28975	.	G	C	10444	PASS	2953	0.178463	0	"2424,0,527,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	28987	.	CCAA	C	121	PASS	2783	0.002875	0	"2787,0,8,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	29051	.	CA	C	46	PASS	2510	0.001594	0	"2507,0,4,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783delA	p.Lys261fs	783/1260	783/1260	261/419	261	419		"INFO_REALIGN_3_PRIME,C"	del261	CA29051C	del261	N:DEL261	261	N	del261	N:DEL261	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
BOEV34	NC_045512.2	29122	.	AG	A	8240	PASS	1648	0.182646	0	"1353,0,301,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.851delG	p.Gly284fs	851/1260	851/1260	284/419	284	419		"INFO_REALIGN_3_PRIME,A"	del284	AG29122A	del284	N:DEL284	284	N	del284	N:DEL284	BOEV34	BOEVANGE-SUR-ATTERT	2020-11-18T00:00:00Z	32.50075	34.17	x	1022021	2020-11-18
ECH35-2	NC_045512.2	199	.	GT	G	74	PASS	730	0.005479	0	"737,0,4,0"	TRUE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-66delT						NA	66	",G"	del	GT199G	del	ORF1AB:DEL	NA	NA	del	NA:DEL	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	241	.	C	T	28621	PASS	851	0.994125	2147483647	"0,0,846,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	335	.	C	T	11718	PASS	882	0.475057	0	"462,0,419,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	2518	.	G	T	7245	PASS	398	0.640703	0	"141,0,255,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2253G>T	p.Val751Val	2253/21291	2253/21291	751/7096	751	7096		",T"	V751V	G2518T	V751V	ORF1AB:V751V	751	ORF1a	V751V	ORF1A:V751V	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	2701	.	C	T	4904	PASS	707	0.29703	0	"497,0,210,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2436C>T	p.Thr812Thr	2436/21291	2436/21291	812/7096	812	7096		",T"	T812T	C2701T	T812T	ORF1AB:T812T	812	ORF1a	T812T	ORF1A:T812T	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	3037	.	C	T	21095	PASS	616	0.996753	2147483647	"0,0,614,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	4893	.	C	T	3583	PASS	700	0.225714	0	"540,0,158,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4628C>T	p.Thr1543Ile	4628/21291	4628/21291	1543/7096	1543	7096		",T"	T1543I	C4893T	T1543I	ORF1AB:T1543I	1543	ORF1a	T1543I	ORF1A:T1543I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	4928	.	A	G	1583	PASS	702	0.121083	0	"616,0,85,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4663A>G	p.Asn1555Asp	4663/21291	4663/21291	1555/7096	1555	7096		",G"	N1555D	A4928G	N1555D	ORF1AB:N1555D	1555	ORF1a	N1555D	ORF1A:N1555D	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	5123	.	G	GT	4926	PASS	934	0.178801	0	"786,0,167,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4862dupT	p.Leu1621fs	4863/21291	4863/21291	1621/7096	1621	7096		"INFO_REALIGN_3_PRIME,GT"	del1621	G5123GT	del1621	ORF1AB:DEL1621	1621	ORF1a	del1621	ORF1A:DEL1621	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	5439	.	T	C	180	PASS	458	0.034934	0	"441,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5174T>C	p.Leu1725Ser	5174/21291	5174/21291	1725/7096	1725	7096		",C"	L1725S	T5439C	L1725S	ORF1AB:L1725S	1725	ORF1a	L1725S	ORF1A:L1725S	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	7767	.	T	C	2652	PASS	74	1	2147483647	"0,0,74,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7502T>C	p.Ile2501Thr	7502/21291	7502/21291	2501/7096	2501	7096		",C"	I2501T	T7767C	I2501T	ORF1AB:I2501T	2501	ORF1a	I2501T	ORF1A:I2501T	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	8047	.	C	T	3130	PASS	94	0.989362	2147483647	"0,0,93,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7782C>T	p.Tyr2594Tyr	7782/21291	7782/21291	2594/7096	2594	7096		",T"	Y2594Y	C8047T	Y2594Y	ORF1AB:Y2594Y	2594	ORF1a	Y2594Y	ORF1A:Y2594Y	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	11146	.	G	T	9096	PASS	273	0.992674	2147483647	"0,0,271,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10881G>T	p.Met3627Ile	10881/21291	10881/21291	3627/7096	3627	7096		",T"	M3627I	G11146T	M3627I	ORF1AB:M3627I	3627	ORF1a	M3627I	ORF1A:M3627I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	11357	.	A	G	11385	PASS	342	0.991228	2147483647	"0,0,339,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11092A>G	p.Arg3698Gly	11092/21291	11092/21291	3698/7096	3698	7096		",G"	R3698G	A11357G	R3698G	ORF1AB:R3698G	3698	ORF1a	R3698G	ORF1A:R3698G	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	12988	.	G	T	9378	PASS	338	0.843195	0	"51,0,285,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	13471	.	G	GT	6287	PASS	981	0.215087	0	"776,0,211,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13210dupT	p.Cys4404fs	13211/21291	13211/21291	4404/7096	4404	7096		"INFO_REALIGN_3_PRIME,GT"	del4404	G13471GT	del4404	ORF1AB:DEL4404	3	ORF1b	del3	ORF1B:DEL3	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	13471	.	G	T	161	PASS	988	0.031377	0	"954,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13207G>T	p.Val4403Phe	13207/21291	13207/21291	4403/7096	4403	7096		",T"	V4403F	G13471T	V4403F	ORF1AB:V4403F	2	ORF1b	V2F	ORF1B:V2F	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	13517	.	C	T	2567	PASS	1281	0.113973	0	"1134,0,146,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	13820	.	T	C	334	PASS	2015	0.023325	0	"1965,0,47,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13556T>C	p.Leu4519Pro	13556/21291	13556/21291	4519/7096	4519	7096		",C"	L4519P	T13820C	L4519P	ORF1AB:L4519P	118	ORF1b	L118P	ORF1B:L118P	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	14625	.	C	CT	10571	PASS	1290	0.260465	0	"953,0,336,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14365dupT	p.Ser4789fs	14366/21291	14366/21291	4789/7096	4789	7096		"INFO_REALIGN_3_PRIME,CT"	del4789	C14625CT	del4789	ORF1AB:DEL4789	388	ORF1b	del388	ORF1B:DEL388	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	14872	.	A	C	14087	PASS	2310	0.2671	0	"1685,0,617,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14608A>C	p.Lys4870Gln	14608/21291	14608/21291	4870/7096	4870	7096		",C"	K4870Q	A14872C	K4870Q	ORF1AB:K4870Q	469	ORF1b	K469Q	ORF1B:K469Q	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	16140	.	A	G	1555	PASS	614	0.144951	0	"524,0,89,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15876A>G	p.Leu5292Leu	15876/21291	15876/21291	5292/7096	5292	7096		",G"	L5292L	A16140G	L5292L	ORF1AB:L5292L	891	ORF1b	L891L	ORF1B:L891L	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	17104	.	C	T	713	PASS	22	1	2147483647	"0,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	18028	.	G	T	8597	PASS	260	0.996154	2147483647	"0,0,259,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17764G>T	p.Ala5922Ser	17764/21291	17764/21291	5922/7096	5922	7096		",T"	A5922S	G18028T	A5922S	ORF1AB:A5922S	1521	ORF1b	A1521S	ORF1B:A1521S	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	19246	.	A	G	2785	PASS	1071	0.149393	0	"910,0,160,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18982A>G	p.Thr6328Ala	18982/21291	18982/21291	6328/7096	6328	7096		",G"	T6328A	A19246G	T6328A	ORF1AB:T6328A	1927	ORF1b	T1927A	ORF1B:T1927A	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	19328	.	C	T	5517	PASS	1409	0.195884	0	"1129,0,276,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19064C>T	p.Ala6355Val	19064/21291	19064/21291	6355/7096	6355	7096		",T"	A6355V	C19328T	A6355V	ORF1AB:A6355V	1954	ORF1b	A1954V	ORF1B:A1954V	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	19335	.	TA	T	9428	PASS	1387	0.222062	0	"1086,0,308,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19075delA	p.Ser6359fs	19075/21291	19075/21291	6359/7096	6359	7096		"INFO_REALIGN_3_PRIME,T"	del6359	TA19335T	del6359	ORF1AB:DEL6359	1958	ORF1b	del1958	ORF1B:DEL1958	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	19389	.	T	C	7363	PASS	1388	0.238473	0	"1056,0,331,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19125T>C	p.Ser6375Ser	19125/21291	19125/21291	6375/7096	6375	7096		",C"	S6375S	T19389C	S6375S	ORF1AB:S6375S	1974	ORF1b	S1974S	ORF1B:S1974S	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	20405	.	CT	C	51	PASS	628	0.004777	0	"625,0,3,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20145delT	p.Phe6715fs	20145/21291	20145/21291	6715/7096	6715	7096		"INFO_REALIGN_3_PRIME,C"	del6715	CT20405C	del6715	ORF1AB:DEL6715	2314	ORF1b	del2314	ORF1B:DEL2314	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	20451	.	C	T	24505	PASS	1091	0.707608	0	"318,0,772,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20187C>T	p.Asn6729Asn	20187/21291	20187/21291	6729/7096	6729	7096		",T"	N6729N	C20451T	N6729N	ORF1AB:N6729N	2328	ORF1b	N2328N	ORF1B:N2328N	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	20762	.	C	T	49314	PASS	2531	0.695377	0	"768,0,1760,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20498C>T	p.Thr6833Ile	20498/21291	20498/21291	6833/7096	6833	7096		",T"	T6833I	C20762T	T6833I	ORF1AB:T6833I	2432	ORF1b	T2432I	ORF1B:T2432I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	21764	.	ATACATG	A	987	PASS	29	0.965517	0	"2,0,28,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	23403	.	A	G	627	PASS	23	0.956522	2147483647	"0,0,22,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	25593	.	G	T	3879	PASS	114	1	2147483647	"0,0,114,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	25907	.	G	A	9070	PASS	271	0.99631	2147483647	"0,0,270,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.515G>A	p.Gly172Asp	515/828	515/828	172/275	172	275		",A"	G172D	G25907A	G172D	ORF3A:G172D	172	ORF3a	G172D	ORF3A:G172D	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	26408	.	CT	C	116	PASS	3097	0.002906	0	"3085,0,9,0"	TRUE	C	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.169delT	p.Tyr57fs	169/228	169/228	57/75	57	75		"INFO_REALIGN_3_PRIME,C"	del57	CT26408C	del57	E:DEL57	57	E	del57	E:DEL57	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	26735	.	C	T	42050	PASS	2353	0.607735	0	"918,0,1430,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	26876	.	T	C	14142	PASS	821	0.594397	0	"331,0,488,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	26951	.	G	T	262	PASS	18	0.5	0	"9,0,9,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	26972	.	T	C	341	PASS	26	0.5	0	"13,0,13,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	27800	.	C	A	37238	PASS	1559	0.757537	0	"375,0,1181,0"	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	27944	.	C	T	150	PASS	1184	0.02027	0	"1156,0,24,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	27972	.	C	T	7460	PASS	960	0.307292	0	"663,0,295,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	28048	.	G	T	570	PASS	228	0.122807	0	"200,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	28380	.	G	A	98	PASS	121	0.07438	0	"110,0,9,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.107G>A	p.Arg36Gln	107/1260	107/1260	36/419	36	419		",A"	R36Q	G28380A	R36Q	N:R36Q	36	N	R36Q	N:R36Q	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	28487	.	G	A	97	PASS	1303	0.014582	0	"1276,0,19,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.214G>A	p.Val72Ile	214/1260	214/1260	72/419	72	419		",A"	V72I	G28487A	V72I	N:V72I	72	N	V72I	N:V72I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	28798	.	G	A	49314	PASS	3988	0.524574	0	"1888,0,2092,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	28975	.	G	C	43763	PASS	3359	0.473057	0	"1763,0,1589,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
ECH35-2	NC_045512.2	28987	.	CCAA	C	82	PASS	3100	0.001935	0	"3113,0,6,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	ECH35-2	ECHTERNACH	2020-11-24T00:00:00Z	31.98875	33.15333333	x	1022021	2020-11-24
GRE35-2	NC_045512.2	241	.	C	T	49314	PASS	2017	0.997025	2147483647	"0,0,2011,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	445	.	T	C	15880	PASS	2208	0.330163	0	"1474,0,729,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	802	.	A	C	238	PASS	3017	0.014584	0	"2957,0,44,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	1131	.	A	G	9841	PASS	4115	0.144593	0	"3506,0,595,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.866A>G	p.Glu289Gly	866/21291	866/21291	289/7096	289	7096		",G"	E289G	A1131G	E289G	ORF1AB:E289G	289	ORF1a	E289G	ORF1A:E289G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	1136	.	A	G	10970	PASS	4011	0.144353	0	"3428,0,579,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.871A>G	p.Lys291Glu	871/21291	871/21291	291/7096	291	7096		",G"	K291E	A1136G	K291E	ORF1AB:K291E	291	ORF1a	K291E	ORF1A:K291E	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	1701	.	C	CT	16044	PASS	3309	0.165911	0	"2759,0,549,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1441dupT	p.Ser481fs	1442/21291	1442/21291	481/7096	481	7096		"INFO_REALIGN_3_PRIME,CT"	del481	C1701CT	del481	ORF1AB:DEL481	481	ORF1a	del481	ORF1A:DEL481	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	1707	.	C	T	235	PASS	3188	0.019762	0	"3116,0,63,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1442C>T	p.Ser481Phe	1442/21291	1442/21291	481/7096	481	7096		",T"	S481F	C1707T	S481F	ORF1AB:S481F	481	ORF1a	S481F	ORF1A:S481F	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	1807	.	A	G	9918	PASS	2702	0.170244	0	"2240,0,460,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1542A>G	p.Gly514Gly	1542/21291	1542/21291	514/7096	514	7096		",G"	G514G	A1807G	G514G	ORF1AB:G514G	514	ORF1a	G514G	ORF1A:G514G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	2799	.	T	C	6689	PASS	2214	0.151762	0	"1870,0,336,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2534T>C	p.Leu845Pro	2534/21291	2534/21291	845/7096	845	7096		",C"	L845P	T2799C	L845P	ORF1AB:L845P	845	ORF1a	L845P	ORF1A:L845P	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	2800	.	T	C	6621	PASS	2215	0.153047	0	"1869,0,339,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2535T>C	p.Leu845Leu	2535/21291	2535/21291	845/7096	845	7096		",C"	L845L	T2800C	L845L	ORF1AB:L845L	845	ORF1a	L845L	ORF1A:L845L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	3037	.	C	T	49314	PASS	1742	0.997704	2147483647	"0,0,1738,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	3509	.	G	A	3493	PASS	177	0.661017	0	"60,0,117,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3244G>A	p.Ala1082Thr	3244/21291	3244/21291	1082/7096	1082	7096		",A"	A1082T	G3509A	A1082T	ORF1AB:A1082T	1082	ORF1a	A1082T	ORF1A:A1082T	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	3722	.	AT	A	65	PASS	190	0.015789	0	"187,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3462delT	p.Phe1154fs	3462/21291	3462/21291	1154/7096	1154	7096		"INFO_REALIGN_3_PRIME,A"	del1154	AT3722A	del1154	ORF1AB:DEL1154	1154	ORF1a	del1154	ORF1A:DEL1154	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	3875	.	GCT	G	460	PASS	113	0.141593	0	"97,0,16,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3611_3612delCT	p.Ala1204fs	3611/21291	3611/21291	1204/7096	1204	7096		",G"	del1204	GCT3875G	del1204	ORF1AB:DEL1204	1204	ORF1a	del1204	ORF1A:DEL1204	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	4296	.	C	T	599	PASS	487	0.073922	0	"451,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4031C>T	p.Thr1344Ile	4031/21291	4031/21291	1344/7096	1344	7096		",T"	T1344I	C4296T	T1344I	ORF1AB:T1344I	1344	ORF1a	T1344I	ORF1A:T1344I	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	4312	.	TA	T	101	PASS	451	0.011086	0	"476,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4051delA	p.Ser1351fs	4051/21291	4051/21291	1351/7096	1351	7096		"INFO_REALIGN_3_PRIME,T"	del1351	TA4312T	del1351	ORF1AB:DEL1351	1351	ORF1a	del1351	ORF1A:DEL1351	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	4543	.	C	T	707	PASS	667	0.08096	0	"612,0,54,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	4587	.	TA	T	3548	PASS	751	0.159787	0	"631,0,120,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4325delA	p.Asn1442fs	4325/21291	4325/21291	1442/7096	1442	7096		"INFO_REALIGN_3_PRIME,T"	del1442	TA4587T	del1442	ORF1AB:DEL1442	1442	ORF1a	del1442	ORF1A:DEL1442	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	4638	.	A	AT	2161	PASS	644	0.122671	0	"566,0,79,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4376dupT	p.Leu1459fs	4377/21291	4377/21291	1459/7096	1459	7096		"INFO_REALIGN_3_PRIME,AT"	del1459	A4638AT	del1459	ORF1AB:DEL1459	1459	ORF1a	del1459	ORF1A:DEL1459	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	5187	.	G	GT	4442	PASS	1181	0.132938	0	"1026,0,157,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4926dupT	p.Leu1643fs	4927/21291	4927/21291	1643/7096	1643	7096		"INFO_REALIGN_3_PRIME,GT"	del1643	G5187GT	del1643	ORF1AB:DEL1643	1643	ORF1a	del1643	ORF1A:DEL1643	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	5629	.	G	T	2464	PASS	1430	0.097203	0	"1290,0,139,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	5895	.	TA	T	3213	PASS	1181	0.098222	0	"1069,0,116,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5634delA	p.Lys1878fs	5634/21291	5634/21291	1878/7096	1878	7096		"INFO_REALIGN_3_PRIME,T"	del1878	TA5895T	del1878	ORF1AB:DEL1878	1878	ORF1a	del1878	ORF1A:DEL1878	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	6286	.	C	T	15132	PASS	618	0.762136	0	"145,0,471,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	6930	.	A	AT	3319	PASS	1544	0.082254	0	"1426,0,127,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6670dupT	p.Ser2224fs	6671/21291	6671/21291	2224/7096	2224	7096		"INFO_REALIGN_3_PRIME,AT"	del2224	A6930AT	del2224	ORF1AB:DEL2224	2224	ORF1a	del2224	ORF1A:DEL2224	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	7756	.	G	T	5872	PASS	692	0.33526	0	"459,0,232,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7491G>T	p.Lys2497Asn	7491/21291	7491/21291	2497/7096	2497	7096		",T"	K2497N	G7756T	K2497N	ORF1AB:K2497N	2497	ORF1a	K2497N	ORF1A:K2497N	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	7974	.	T	C	7824	PASS	865	0.358382	0	"550,0,310,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7709T>C	p.Leu2570Pro	7709/21291	7709/21291	2570/7096	2570	7096		",C"	L2570P	T7974C	L2570P	ORF1AB:L2570P	2570	ORF1a	L2570P	ORF1A:L2570P	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	8051	.	A	G	7721	PASS	884	0.343891	0	"575,0,304,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7786A>G	p.Asn2596Asp	7786/21291	7786/21291	2596/7096	2596	7096		",G"	N2596D	A8051G	N2596D	ORF1AB:N2596D	2596	ORF1a	N2596D	ORF1A:N2596D	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	8237	.	T	C	349	PASS	1027	0.036027	0	"989,0,37,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7972T>C	p.Ser2658Pro	7972/21291	7972/21291	2658/7096	2658	7096		",C"	S2658P	T8237C	S2658P	ORF1AB:S2658P	2658	ORF1a	S2658P	ORF1A:S2658P	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	8376	.	CA	C	1440	PASS	623	0.086677	0	"569,0,54,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	8669	.	T	C	1349	PASS	594	0.114478	0	"524,0,68,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8404T>C	p.Phe2802Leu	8404/21291	8404/21291	2802/7096	2802	7096		",C"	F2802L	T8669C	F2802L	ORF1AB:F2802L	2802	ORF1a	F2802L	ORF1A:F2802L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	9468	.	GA	G	1703	PASS	1875	0.0384	0	"1808,0,72,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9205delA	p.Arg3069fs	9205/21291	9205/21291	3069/7096	3069	7096		"INFO_REALIGN_3_PRIME,G"	del3069	GA9468G	del3069	ORF1AB:DEL3069	3069	ORF1a	del3069	ORF1A:DEL3069	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	9475	.	T	C	613	PASS	1787	0.039172	0	"1716,0,70,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9210T>C	p.Ala3070Ala	9210/21291	9210/21291	3070/7096	3070	7096		",C"	A3070A	T9475C	A3070A	ORF1AB:A3070A	3070	ORF1a	A3070A	ORF1A:A3070A	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	9526	.	G	T	10478	PASS	2252	0.218917	0	"1756,0,493,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	9541	.	C	T	42244	PASS	2304	0.612413	0	"890,0,1411,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9276C>T	p.Leu3092Leu	9276/21291	9276/21291	3092/7096	3092	7096		",T"	L3092L	C9541T	L3092L	ORF1AB:L3092L	3092	ORF1a	L3092L	ORF1A:L3092L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	10010	.	CT	C	50	PASS	3065	0.001305	0	"3062,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9748delT	p.Tyr3250fs	9748/21291	9748/21291	3250/7096	3250	7096		"INFO_REALIGN_3_PRIME,C"	del3250	CT10010C	del3250	ORF1AB:DEL3250	3250	ORF1a	del3250	ORF1A:DEL3250	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	10259	.	C	T	6776	PASS	3258	0.122468	0	"2854,0,399,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9994C>T	p.Gln3332*	9994/21291	9994/21291	3332/7096	3332	7096		",T"	Q3332*	C10259T	Q3332*	ORF1AB:Q3332*	3332	ORF1a	Q3332*	ORF1A:Q3332*	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	11082	.	TG	T	118	PASS	1320	0.006061	0	"1312,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	11083	.	G	T	1946	PASS	1326	0.101056	0	"1182,0,134,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	11292	.	G	GT	5423	PASS	1304	0.147239	0	"1116,0,192,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11031dupT	p.Lys3678fs	11032/21291	11032/21291	3678/7096	3678	7096		"INFO_REALIGN_3_PRIME,GT"	del3678	G11292GT	del3678	ORF1AB:DEL3678	3678	ORF1a	del3678	ORF1A:DEL3678	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	13019	.	C	T	11352	PASS	3869	0.146549	0	"3292,0,567,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12754C>T	p.Leu4252Leu	12754/21291	12754/21291	4252/7096	4252	7096		",T"	L4252L	C13019T	L4252L	ORF1AB:L4252L	4252	ORF1a	L4252L	ORF1A:L4252L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	13541	.	CT	C	2356	PASS	2559	0.038687	0	"2461,0,99,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13281delT	p.Phe4427fs	13281/21291	13281/21291	4427/7096	4427	7096		"INFO_REALIGN_3_PRIME,C"	del4427	CT13541C	del4427	ORF1AB:DEL4427	26	ORF1b	del26	ORF1B:DEL26	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	15165	.	A	G	72	PASS	2319	0.011212	0	"2285,0,26,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14901A>G	p.Leu4967Leu	14901/21291	14901/21291	4967/7096	4967	7096		",G"	L4967L	A15165G	L4967L	ORF1AB:L4967L	566	ORF1b	L566L	ORF1B:L566L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	15515	.	G	C	1492	PASS	493	0.146045	0	"420,0,72,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15251G>C	p.Ser5084Thr	15251/21291	15251/21291	5084/7096	5084	7096		",C"	S5084T	G15515C	S5084T	ORF1AB:S5084T	683	ORF1b	S683T	ORF1B:S683T	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	15683	.	A	T	1013	PASS	425	0.129412	0	"370,0,55,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15419A>T	p.Tyr5140Phe	15419/21291	15419/21291	5140/7096	5140	7096		",T"	Y5140F	A15683T	Y5140F	ORF1AB:Y5140F	739	ORF1b	Y739F	ORF1B:Y739F	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	15740	.	A	G	1234	PASS	479	0.139875	0	"412,0,67,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15476A>G	p.Asn5159Ser	15476/21291	15476/21291	5159/7096	5159	7096		",G"	N5159S	A15740G	N5159S	ORF1AB:N5159S	758	ORF1b	N758S	ORF1B:N758S	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	15766	.	G	T	643	PASS	524	0.082061	0	"481,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	15965	.	GT	G	413	PASS	73	0.191781	0	"59,0,14,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15705delT	p.Phe5235fs	15705/21291	15705/21291	5235/7096	5235	7096		"INFO_REALIGN_3_PRIME,G"	del5235	GT15965G	del5235	ORF1AB:DEL5235	834	ORF1b	del834	ORF1B:DEL834	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	16396	.	G	T	4123	PASS	3300	0.083636	0	"3023,0,276,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16132G>T	p.Gly5378Cys	16132/21291	16132/21291	5378/7096	5378	7096		",T"	G5378C	G16396T	G5378C	ORF1AB:G5378C	977	ORF1b	G977C	ORF1B:G977C	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	16499	.	A	G	5276	PASS	4177	0.078765	0	"3842,0,329,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16235A>G	p.Gln5412Arg	16235/21291	16235/21291	5412/7096	5412	7096		",G"	Q5412R	A16499G	Q5412R	ORF1AB:Q5412R	1011	ORF1b	Q1011R	ORF1B:Q1011R	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	16632	.	T	C	2344	PASS	5718	0.041798	0	"5462,0,239,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16368T>C	p.Leu5456Leu	16368/21291	16368/21291	5456/7096	5456	7096		",C"	L5456L	T16632C	L5456L	ORF1AB:L5456L	1055	ORF1b	L1055L	ORF1B:L1055L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	16650	.	CA	C	12688	PASS	5604	0.082263	0	"5143,0,461,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16389delA	p.Ala5464fs	16389/21291	16389/21291	5463/7096	5463	7096		"INFO_REALIGN_3_PRIME,C"	del5464	CA16650C	del5464	ORF1AB:DEL5464	1063	ORF1b	del1063	ORF1B:DEL1063	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	16801	.	A	G	339	PASS	5361	0.013057	0	"5281,0,70,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16537A>G	p.Lys5513Glu	16537/21291	16537/21291	5513/7096	5513	7096		",G"	K5513E	A16801G	K5513E	ORF1AB:K5513E	1112	ORF1b	K1112E	ORF1B:K1112E	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	16837	.	GA	G	73	PASS	4795	0.00146	0	"4799,0,7,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	16889	.	A	G	20900	PASS	4381	0.207487	0	"3464,0,909,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	17019	.	G	T	8950	PASS	2077	0.194511	0	"1672,0,404,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	17416	.	A	G	284	PASS	214	0.107477	0	"191,0,23,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17152A>G	p.Lys5718Glu	17152/21291	17152/21291	5718/7096	5718	7096		",G"	K5718E	A17416G	K5718E	ORF1AB:K5718E	1317	ORF1b	K1317E	ORF1B:K1317E	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	17977	.	C	T	2475	PASS	3372	0.06554	0	"3137,0,221,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17713C>T	p.Leu5905Phe	17713/21291	17713/21291	5905/7096	5905	7096		",T"	L5905F	C17977T	L5905F	ORF1AB:L5905F	1504	ORF1b	L1504F	ORF1B:L1504F	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	18877	.	C	T	22976	PASS	3519	0.26769	0	"2570,0,942,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	18891	.	G	A	7499	PASS	3725	0.111678	0	"3305,0,416,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18627G>A	p.Glu6209Glu	18627/21291	18627/21291	6209/7096	6209	7096		",A"	E6209E	G18891A	E6209E	ORF1AB:E6209E	1808	ORF1b	E1808E	ORF1B:E1808E	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	18927	.	T	C	3339	PASS	4716	0.052587	0	"4461,0,248,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18663T>C	p.Tyr6221Tyr	18663/21291	18663/21291	6221/7096	6221	7096		",C"	Y6221Y	T18927C	Y6221Y	ORF1AB:Y6221Y	1820	ORF1b	Y1820Y	ORF1B:Y1820Y	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	19392	.	A	G	154	PASS	3395	0.00972	0	"3350,0,33,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19128A>G	p.Pro6376Pro	19128/21291	19128/21291	6376/7096	6376	7096		",G"	P6376P	A19392G	P6376P	ORF1AB:P6376P	1975	ORF1b	P1975P	ORF1B:P1975P	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	19399	.	T	C	414	PASS	3124	0.024968	0	"3038,0,78,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19135T>C	p.Ser6379Pro	19135/21291	19135/21291	6379/7096	6379	7096		",C"	S6379P	T19399C	S6379P	ORF1AB:S6379P	1978	ORF1b	S1978P	ORF1B:S1978P	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	19622	.	GT	G	50	PASS	2956	0.001353	0	"3003,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19361delT	p.Leu6454fs	19361/21291	19361/21291	6454/7096	6454	7096		"INFO_REALIGN_3_PRIME,G"	del6454	GT19622G	del6454	ORF1AB:DEL6454	2053	ORF1b	del2053	ORF1B:DEL2053	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	19892	.	A	G	4752	PASS	1760	0.157386	0	"1474,0,277,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19628A>G	p.Asp6543Gly	19628/21291	19628/21291	6543/7096	6543	7096		",G"	D6543G	A19892G	D6543G	ORF1AB:D6543G	2142	ORF1b	D2142G	ORF1B:D2142G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	20009	.	A	G	68	PASS	220	0.027273	0	"214,0,6,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19745A>G	p.Gln6582Arg	19745/21291	19745/21291	6582/7096	6582	7096		",G"	Q6582R	A20009G	Q6582R	ORF1AB:Q6582R	2181	ORF1b	Q2181R	ORF1B:Q2181R	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	20336	.	A	T	1009	PASS	300	0.176667	0	"247,0,53,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20072A>T	p.Asp6691Val	20072/21291	20072/21291	6691/7096	6691	7096		",T"	D6691V	A20336T	D6691V	ORF1AB:D6691V	2290	ORF1b	D2290V	ORF1B:D2290V	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	20400	.	A	G	2931	PASS	1400	0.132857	0	"1206,0,186,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20136A>G	p.Glu6712Glu	20136/21291	20136/21291	6712/7096	6712	7096		",G"	E6712E	A20400G	E6712E	ORF1AB:E6712E	2311	ORF1b	E2311E	ORF1B:E2311E	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	20428	.	C	T	15823	PASS	1865	0.342091	0	"1221,0,638,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20164C>T	p.Pro6722Ser	20164/21291	20164/21291	6722/7096	6722	7096		",T"	P6722S	C20428T	P6722S	ORF1AB:P6722S	2321	ORF1b	P2321S	ORF1B:P2321S	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	20445	.	TA	T	4748	PASS	2298	0.079199	0	"2121,0,182,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20186delA	p.Asn6729fs	20186/21291	20186/21291	6729/7096	6729	7096		"INFO_REALIGN_3_PRIME,T"	del6729	TA20445T	del6729	ORF1AB:DEL6729	2328	ORF1b	del2328	ORF1B:DEL2328	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	20726	.	A	G	7905	PASS	3846	0.110764	0	"3417,0,426,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20462A>G	p.Glu6821Gly	20462/21291	20462/21291	6821/7096	6821	7096		",G"	E6821G	A20726G	E6821G	ORF1AB:E6821G	2420	ORF1b	E2420G	ORF1B:E2420G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	20742	.	A	C	49314	PASS	3796	0.504742	0	"1874,0,1916,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21207	.	C	T	5183	PASS	2230	0.129148	0	"1936,0,288,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20943C>T	p.Leu6981Leu	20943/21291	20943/21291	6981/7096	6981	7096		",T"	L6981L	C21207T	L6981L	ORF1AB:L6981L	2580	ORF1b	L2580L	ORF1B:L2580L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21255	.	G	C	35028	PASS	3130	0.41853	0	"1807,0,1310,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21297	.	CA	C	14180	PASS	3409	0.14315	0	"2921,0,488,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21036delA	p.Lys7012fs	21036/21291	21036/21291	7012/7096	7012	7096		"INFO_REALIGN_3_PRIME,C"	del7012	CA21297C	del7012	ORF1AB:DEL7012	2611	ORF1b	del2611	ORF1B:DEL2611	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21575	.	C	T	4025	PASS	2337	0.108258	0	"2080,0,253,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21597	.	C	T	5283	PASS	2377	0.121161	0	"2087,0,288,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.35C>T	p.Ser12Phe	35/3822	35/3822	12/1273	12	1273		",T"	S12F	C21597T	S12F	S:S12F	12	S	S12F	S:S12F	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21662	.	CGTG	C	5144	PASS	1583	0.116867	0	"1398,0,185,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.104_106delGTG	p.Gly35del	104/3822	104/3822	35/1273	35	1273		"INFO_REALIGN_3_PRIME,C"	del35	CGTG21662C	del35	S:DEL35	35	S	del35	S:DEL35	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21698	.	T	C	1194	PASS	1125	0.073778	0	"1040,0,83,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.136T>C	p.Ser46Pro	136/3822	136/3822	46/1273	46	1273		",C"	S46P	T21698C	S46P	S:S46P	46	S	S46P	S:S46P	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21885	.	C	G	3494	PASS	1116	0.16129	0	"933,0,180,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.323C>G	p.Thr108Ser	323/3822	323/3822	108/1273	108	1273		",G"	T108S	C21885G	T108S	S:T108S	108	S	T108S	S:T108S	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	21928	.	C	T	1106	PASS	1084	0.073801	0	"1000,0,80,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.366C>T	p.Asn122Asn	366/3822	366/3822	122/1273	122	1273		",T"	N122N	C21928T	N122N	S:N122N	122	S	N122N	S:N122N	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	22227	.	C	T	7613	PASS	428	0.665888	0	"140,0,285,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	22273	.	G	GT	1068	PASS	197	0.182741	0	"166,0,36,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.714dupT	p.Gln239fs	715/3822	715/3822	239/1273	239	1273		"INFO_REALIGN_3_PRIME,GT"	del239	G22273GT	del239	S:DEL239	239	S	del239	S:DEL239	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	22751	.	G	T	698	PASS	259	0.135135	0	"224,0,35,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1189G>T	p.Ala397Ser	1189/3822	1189/3822	397/1273	397	1273		",T"	A397S	G22751T	A397S	S:A397S	397	S	A397S	S:A397S	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	23181	.	A	T	1165	PASS	399	0.152882	0	"338,0,61,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1619A>T	p.Asn540Ile	1619/3822	1619/3822	540/1273	540	1273		",T"	N540I	A23181T	N540I	S:N540I	540	S	N540I	S:N540I	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	23403	.	A	G	6618	PASS	197	0.994924	2147483647	"0,0,196,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	23465	.	GT	G	50	PASS	99	0.020202	0	"97,0,2,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1906delT	p.Tyr636fs	1906/3822	1906/3822	636/1273	636	1273		"INFO_REALIGN_3_PRIME,G"	del636	GT23465G	del636	S:DEL636	636	S	del636	S:DEL636	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	23873	.	G	T	559	PASS	459	0.082789	0	"420,0,38,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2311G>T	p.Ala771Ser	2311/3822	2311/3822	771/1273	771	1273		",T"	A771S	G23873T	A771S	S:A771S	771	S	A771S	S:A771S	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	24027	.	T	C	1057	PASS	386	0.150259	0	"327,0,58,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2465T>C	p.Leu822Pro	2465/3822	2465/3822	822/1273	822	1273		",C"	L822P	T24027C	L822P	S:L822P	822	S	L822P	S:L822P	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	24495	.	A	T	691	PASS	641	0.071763	0	"593,0,46,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2933A>T	p.Asn978Ile	2933/3822	2933/3822	978/1273	978	1273		",T"	N978I	A24495T	N978I	S:N978I	978	S	N978I	S:N978I	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	24971	.	G	GT	2718	PASS	1255	0.078884	0	"1165,0,99,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3412dupT	p.Tyr1138fs	3413/3822	3413/3822	1138/1273	1138	1273		"INFO_REALIGN_3_PRIME,GT"	del1138	G24971GT	del1138	S:DEL1138	1138	S	del1138	S:DEL1138	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25191	.	TA	T	3303	PASS	2635	0.050474	0	"2545,0,133,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3633delA	p.Lys1211fs	3633/3822	3633/3822	1211/1273	1211	1273		"INFO_REALIGN_3_PRIME,T"	del1211	TA25191T	del1211	S:DEL1211	1211	S	del1211	S:DEL1211	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25225	.	A	C	105	PASS	2837	0.015157	0	"2782,0,43,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25240	.	C	A	150	PASS	2961	0.019588	0	"2896,0,58,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25247	.	A	T	146	PASS	3101	0.019671	0	"3032,0,61,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25254	.	C	A	121	PASS	3270	0.016514	0	"3212,0,54,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25256	.	A	T	79	PASS	3280	0.014024	0	"3232,0,46,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3694A>T	p.Ile1232Phe	3694/3822	3694/3822	1232/1273	1232	1273		",T"	I1232F	A25256T	I1232F	S:I1232F	1232	S	I1232F	S:I1232F	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25271	.	A	T	89	PASS	3136	0.014349	0	"3087,0,45,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3709A>T	p.Met1237Leu	3709/3822	3709/3822	1237/1273	1237	1273		",T"	M1237L	A25271T	M1237L	S:M1237L	1237	S	M1237L	S:M1237L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25277	.	A	T	181	PASS	3089	0.026546	0	"2967,0,82,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25280	.	T	G	87	PASS	3152	0.018084	0	"3087,0,57,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25296	.	A	C	255	PASS	3190	0.03511	0	"3003,0,112,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25301	.	T	G	226	PASS	3148	0.030496	0	"3051,0,96,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25312	.	T	G	139	PASS	3233	0.024745	0	"3148,0,80,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25314	.	G	T	90	PASS	3217	0.02207	0	"3120,0,71,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25324	.	C	A	1172	PASS	3256	0.064496	0	"3042,0,210,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25327	.	A	T	239	PASS	3232	0.028775	0	"3138,0,93,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25331	.	G	T	150	PASS	3190	0.030721	0	"3066,0,98,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25334	.	G	T	91	PASS	3173	0.027734	0	"3016,0,88,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25336	.	A	C	454	PASS	3197	0.050047	0	"3019,0,160,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25563	.	G	T	5955	PASS	2415	0.123395	0	"2117,0,298,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	25710	.	C	T	3538	PASS	1254	0.138756	0	"1079,0,174,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	26042	.	C	T	5383	PASS	444	0.457207	0	"241,0,203,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.650C>T	p.Thr217Ile	650/828	650/828	217/275	217	275		",T"	T217I	C26042T	T217I	ORF3A:T217I	217	ORF3a	T217I	ORF3A:T217I	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	26408	.	CT	C	51	PASS	3921	0.001275	0	"3916,0,5,0"	TRUE	C	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.169delT	p.Tyr57fs	169/228	169/228	57/75	57	75		"INFO_REALIGN_3_PRIME,C"	del57	CT26408C	del57	E:DEL57	57	E	del57	E:DEL57	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	26775	.	G	A	3629	PASS	2700	0.083704	0	"2473,0,226,0"	FALSE	A	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.253G>A	p.Ala85Thr	253/669	253/669	85/222	85	222		",A"	A85T	G26775A	A85T	M:A85T	85	M	A85T	M:A85T	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	26801	.	C	G	30513	PASS	2298	0.466057	0	"1227,0,1071,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	27679	.	C	CT	15513	PASS	3780	0.138624	0	"3251,0,524,0"	TRUE	CT	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.289dupT	p.Tyr97fs	290/366	290/366	97/121	97	121		"INFO_REALIGN_3_PRIME,CT"	del97	C27679CT	del97	ORF7A:DEL97	97	ORF7a	del97	ORF7A:DEL97	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	27922	.	T	C	17310	PASS	2947	0.24771	0	"2211,0,730,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	27944	.	C	T	46322	PASS	2439	0.621566	0	"920,0,1516,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28249	.	A	G	3057	PASS	438	0.289954	0	"311,0,127,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.356A>G	p.Asp119Gly	356/366	356/366	119/121	119	121		",G"	D119G	A28249G	D119G	ORF8:D119G	119	ORF8	D119G	ORF8:D119G	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28254	.	A	C	366	PASS	481	0.089397	0	"434,0,43,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28396	.	GC	G	116	PASS	2566	0.003118	0	"2627,0,8,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.127delC	p.Gln43fs	127/1260	127/1260	43/419	43	419		"INFO_REALIGN_3_PRIME,G"	del43	GC28396G	del43	N:DEL43	43	N	del43	N:DEL43	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28473	.	C	A	1167	PASS	4210	0.032067	0	"4071,0,135,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.200C>A	p.Pro67His	200/1260	200/1260	67/419	67	419		",A"	P67H	C28473A	P67H	N:P67H	67	N	P67H	N:P67H	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28776	.	CA	C	67	PASS	7499	0.000933	0	"7492,0,7,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28853	.	T	C	1665	PASS	7254	0.035015	0	"6973,0,254,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.580T>C	p.Ser194Pro	580/1260	580/1260	194/419	194	419		",C"	S194P	T28853C	S194P	N:S194P	194	N	S194P	N:S194P	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28881	.	G	A	15136	PASS	6884	0.126235	0	"6002,0,869,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28882	.	G	A	14102	PASS	6893	0.125635	0	"6008,0,866,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28883	.	G	C	15452	PASS	6881	0.128179	0	"5978,0,882,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28932	.	C	T	49314	PASS	6935	0.773901	0	"1551,0,5367,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28975	.	G	C	6966	PASS	6383	0.074886	0	"5897,0,478,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	28987	.	CCAA	C	422	PASS	5910	0.004399	0	"5923,0,26,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	29127	.	AT	A	57	PASS	3392	0.001474	0	"3390,0,5,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.858delT	p.Phe286fs	858/1260	858/1260	286/419	286	419		"INFO_REALIGN_3_PRIME,A"	del286	AT29127A	del286	N:DEL286	286	N	del286	N:DEL286	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE35-2	NC_045512.2	29195	.	GC	G	56	PASS	1324	0.003021	0	"1328,0,4,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.927delC	p.Ser310fs	927/1260	927/1260	309/419	309	419		"INFO_REALIGN_3_PRIME,G"	del310	GC29195G	del310	N:DEL310	310	N	del310	N:DEL310	GRE35-2	GREVENMACHER	2020-11-24T00:00:00Z	30.56033333	32.99666667	x	1022021	2020-11-24
GRE36-1	NC_045512.2	202	.	T	C	11516	PASS	3728	0.159603	0	"3126,0,595,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-64T>C						NA	64	",C"		T202C		NA	NA	NA		NA	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	241	.	C	T	49314	PASS	4292	0.997437	0	"2,0,4281,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	262	.	TA	T	59	PASS	4284	0.001167	0	"4303,0,5,0"	TRUE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-3delA						NA	3	",T"	del	TA262T	del	ORF1AB:DEL	NA	NA	del	NA:DEL	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	335	.	C	T	11430	PASS	4449	0.137109	0	"3829,0,610,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	434	.	GA	G	230	PASS	4890	0.003476	0	"4895,0,17,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	445	.	T	C	49314	PASS	5050	0.854653	0	"727,0,4316,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	649	.	TA	T	72	PASS	4356	0.001377	0	"4363,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.387delA	p.Gly130fs	387/21291	387/21291	129/7096	129	7096		"INFO_REALIGN_3_PRIME,T"	del130	TA649T	del130	ORF1AB:DEL130	130	ORF1a	del130	ORF1A:DEL130	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	736	.	T	C	306	PASS	4349	0.012417	0	"4292,0,54,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.471T>C	p.Phe157Phe	471/21291	471/21291	157/7096	157	7096		",C"	F157F	T736C	F157F	ORF1AB:F157F	157	ORF1a	F157F	ORF1A:F157F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	1459	.	TA	T	48	PASS	3361	0.00119	0	"3359,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1196delA	p.Lys399fs	1196/21291	1196/21291	399/7096	399	7096		"INFO_REALIGN_3_PRIME,T"	del399	TA1459T	del399	ORF1AB:DEL399	399	ORF1a	del399	ORF1A:DEL399	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	1806	.	GA	G	21878	PASS	3839	0.195103	0	"3096,0,749,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1545delA	p.Ala516fs	1545/21291	1545/21291	515/7096	515	7096		"INFO_REALIGN_3_PRIME,G"	del516	GA1806G	del516	ORF1AB:DEL516	516	ORF1a	del516	ORF1A:DEL516	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	2428	.	TA	T	50	PASS	897	0.003344	0	"894,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2166delA	p.Lys722fs	2166/21291	2166/21291	722/7096	722	7096		"INFO_REALIGN_3_PRIME,T"	del722	TA2428T	del722	ORF1AB:DEL722	722	ORF1a	del722	ORF1A:DEL722	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	3036	.	TC	T	8024	PASS	3108	0.103925	0	"2827,0,323,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	3037	.	C	T	49314	PASS	3150	0.894603	0	"3,0,2818,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	3196	.	A	G	2262	PASS	958	0.123173	0	"840,0,118,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2931A>G	p.Glu977Glu	2931/21291	2931/21291	977/7096	977	7096		",G"	E977E	A3196G	E977E	ORF1AB:E977E	977	ORF1a	E977E	ORF1A:E977E	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	3465	.	A	T	530	PASS	94	0.255319	0	"70,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3200A>T	p.His1067Leu	3200/21291	3200/21291	1067/7096	1067	7096		",T"	H1067L	A3465T	H1067L	ORF1AB:H1067L	1067	ORF1a	H1067L	ORF1A:H1067L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	3509	.	G	A	1687	PASS	79	0.721519	0	"21,0,57,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3244G>A	p.Ala1082Thr	3244/21291	3244/21291	1082/7096	1082	7096		",A"	A1082T	G3509A	A1082T	ORF1AB:A1082T	1082	ORF1a	A1082T	ORF1A:A1082T	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	3602	.	C	T	435	PASS	95	0.221053	0	"73,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	4136	.	G	T	409	PASS	64	0.265625	0	"46,0,17,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3871G>T	p.Val1291Phe	3871/21291	3871/21291	1291/7096	1291	7096		",T"	V1291F	G4136T	V1291F	ORF1AB:V1291F	1291	ORF1a	V1291F	ORF1A:V1291F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	4429	.	A	G	1470	PASS	637	0.156986	0	"533,0,100,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4164A>G	p.Leu1388Leu	4164/21291	4164/21291	1388/7096	1388	7096		",G"	L1388L	A4429G	L1388L	ORF1AB:L1388L	1388	ORF1a	L1388L	ORF1A:L1388L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	4764	.	A	AT	2609	PASS	1403	0.06985	0	"1305,0,98,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4503dupT	p.Ile1502fs	4504/21291	4504/21291	1502/7096	1502	7096		"INFO_REALIGN_3_PRIME,AT"	del1502	A4764AT	del1502	ORF1AB:DEL1502	1502	ORF1a	del1502	ORF1A:DEL1502	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	4807	.	G	C	682	PASS	1713	0.04495	0	"1630,0,77,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4542G>C	p.Trp1514Cys	4542/21291	4542/21291	1514/7096	1514	7096		",C"	W1514C	G4807C	W1514C	ORF1AB:W1514C	1514	ORF1a	W1514C	ORF1A:W1514C	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	4905	.	A	C	196	PASS	1855	0.018868	0	"1819,0,35,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4640A>C	p.Asp1547Ala	4640/21291	4640/21291	1547/7096	1547	7096		",C"	D1547A	A4905C	D1547A	ORF1AB:D1547A	1547	ORF1a	D1547A	ORF1A:D1547A	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	5427	.	CA	C	487	PASS	1452	0.119835	0	"1345,0,174,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5163delA	p.Val1722fs	5163/21291	5163/21291	1721/7096	1721	7096		",C"	del1722	CA5427C	del1722	ORF1AB:DEL1722	1722	ORF1a	del1722	ORF1A:DEL1722	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	5428	.	AG	A	59	PASS	1441	0.022207	0	"1420,0,32,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5164delG	p.Val1722fs	5164/21291	5164/21291	1722/7096	1722	7096		",A"	del1722	AG5428A	del1722	ORF1AB:DEL1722	1722	ORF1a	del1722	ORF1A:DEL1722	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	5429	.	G	T	357	PASS	1446	0.122407	0	"1236,0,177,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5164G>T	p.Val1722Leu	5164/21291	5164/21291	1722/7096	1722	7096		",T"	V1722L	G5429T	V1722L	ORF1AB:V1722L	1722	ORF1a	V1722L	ORF1A:V1722L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	5629	.	G	T	5821	PASS	166	0.993976	2147483647	"0,0,165,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	6231	.	CT	C	91	PASS	592	0.069257	0	"555,0,41,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5967delT	p.Ile1990fs	5967/21291	5967/21291	1989/7096	1989	7096		",C"	del1990	CT6231C	del1990	ORF1AB:DEL1990	1990	ORF1a	del1990	ORF1A:DEL1990	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	6241	.	GCA	G	1715	PASS	578	0.141869	0	"511,0,82,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5977_5978delCA	p.His1993fs	5977/21291	5977/21291	1993/7096	1993	7096		",G"	del1993	GCA6241G	del1993	ORF1AB:DEL1993	1993	ORF1a	del1993	ORF1A:DEL1993	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	6245	.	G	T	1216	PASS	572	0.148601	0	"484,0,85,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5980G>T	p.Val1994Phe	5980/21291	5980/21291	1994/7096	1994	7096		",T"	V1994F	G6245T	V1994F	ORF1AB:V1994F	1994	ORF1a	V1994F	ORF1A:V1994F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	6286	.	C	T	15401	PASS	591	0.803723	0	"116,0,475,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	6335	.	T	C	2224	PASS	596	0.17953	0	"489,0,107,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6070T>C	p.Ser2024Pro	6070/21291	6070/21291	2024/7096	2024	7096		",C"	S2024P	T6335C	S2024P	ORF1AB:S2024P	2024	ORF1a	S2024P	ORF1A:S2024P	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	6556	.	T	C	2533	PASS	968	0.153926	0	"814,0,149,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6291T>C	p.Ala2097Ala	6291/21291	6291/21291	2097/7096	2097	7096		",C"	A2097A	T6556C	A2097A	ORF1AB:A2097A	2097	ORF1a	A2097A	ORF1A:A2097A	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	6696	.	C	CT	5299	PASS	583	0.284734	0	"417,0,166,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	6701	.	C	T	96	PASS	580	0.037931	0	"558,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	7306	.	G	T	387	PASS	74	0.243243	0	"56,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7041G>T	p.Met2347Ile	7041/21291	7041/21291	2347/7096	2347	7096		",T"	M2347I	G7306T	M2347I	ORF1AB:M2347I	2347	ORF1a	M2347I	ORF1A:M2347I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	7461	.	A	G	398	PASS	78	0.217949	0	"61,0,17,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7196A>G	p.His2399Arg	7196/21291	7196/21291	2399/7096	2399	7096		",G"	H2399R	A7461G	H2399R	ORF1AB:H2399R	2399	ORF1a	H2399R	ORF1A:H2399R	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	9314	.	G	GT	4534	PASS	1071	0.145658	0	"916,0,156,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9053dupT	p.Cys3019fs	9054/21291	9054/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,GT"	del3019	G9314GT	del3019	ORF1AB:DEL3019	3019	ORF1a	del3019	ORF1A:DEL3019	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	9406	.	A	G	9248	PASS	2209	0.21005	0	"1738,0,464,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9141A>G	p.Ile3047Met	9141/21291	9141/21291	3047/7096	3047	7096		",G"	I3047M	A9406G	I3047M	ORF1AB:I3047M	3047	ORF1a	I3047M	ORF1A:I3047M	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	9541	.	C	T	49314	PASS	2456	0.981678	0	"33,0,2411,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9276C>T	p.Leu3092Leu	9276/21291	9276/21291	3092/7096	3092	7096		",T"	L3092L	C9541T	L3092L	ORF1AB:L3092L	3092	ORF1a	L3092L	ORF1A:L3092L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	10475	.	C	T	30238	PASS	1488	0.675403	0	"479,0,1005,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10210C>T	p.Leu3404Phe	10210/21291	10210/21291	3404/7096	3404	7096		",T"	L3404F	C10475T	L3404F	ORF1AB:L3404F	3404	ORF1a	L3404F	ORF1A:L3404F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	10795	.	T	C	470	PASS	1054	0.047438	0	"1000,0,50,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10530T>C	p.Val3510Val	10530/21291	10530/21291	3510/7096	3510	7096		",C"	V3510V	T10795C	V3510V	ORF1AB:V3510V	3510	ORF1a	V3510V	ORF1A:V3510V	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	11074	.	CT	C	2337	PASS	1367	0.100951	0	"1229,0,138,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	12988	.	G	T	25208	PASS	3116	0.325096	0	"2097,0,1013,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	13123	.	TG	T	63	PASS	4167	0.00144	0	"4214,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	13517	.	C	T	9612	PASS	2540	0.179921	0	"2076,0,457,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	14408	.	C	T	493	PASS	14	1	2147483647	"0,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	14818	.	C	T	10165	PASS	2564	0.182137	0	"2088,0,467,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14554C>T	p.Leu4852Leu	14554/21291	14554/21291	4852/7096	4852	7096		",T"	L4852L	C14818T	L4852L	ORF1AB:L4852L	451	ORF1b	L451L	ORF1B:L451L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	14837	.	T	C	372	PASS	2762	0.019189	0	"2708,0,53,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14573T>C	p.Ile4858Thr	14573/21291	14573/21291	4858/7096	4858	7096		",C"	I4858T	T14837C	I4858T	ORF1AB:I4858T	457	ORF1b	I457T	ORF1B:I457T	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	15324	.	C	T	654	PASS	801	0.069913	0	"745,0,56,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	15379	.	A	G	1819	PASS	493	0.184584	0	"398,0,91,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15115A>G	p.Ser5039Gly	15115/21291	15115/21291	5039/7096	5039	7096		",G"	S5039G	A15379G	S5039G	ORF1AB:S5039G	638	ORF1b	S638G	ORF1B:S638G	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	15653	.	A	T	1290	PASS	591	0.145516	0	"504,0,86,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15389A>T	p.Asp5130Val	15389/21291	15389/21291	5130/7096	5130	7096		",T"	D5130V	A15653T	D5130V	ORF1AB:D5130V	729	ORF1b	D729V	ORF1B:D729V	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	15766	.	G	T	975	PASS	633	0.093207	0	"574,0,59,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	15830	.	CA	C	2025	PASS	553	0.126582	0	"483,0,70,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15570delA	p.Lys5190fs	15570/21291	15570/21291	5190/7096	5190	7096		"INFO_REALIGN_3_PRIME,C"	del5190	CA15830C	del5190	ORF1AB:DEL5190	789	ORF1b	del789	ORF1B:DEL789	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	15900	.	TAA	T	48	PASS	286	0.059441	0	"275,0,17,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15638_15639delAA	p.Lys5213fs	15638/21291	15638/21291	5213/7096	5213	7096		"INFO_REALIGN_3_PRIME,T"	del5213	TAA15900T	del5213	ORF1AB:DEL5213	812	ORF1b	del812	ORF1B:DEL812	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	16889	.	A	G	12231	PASS	4274	0.143893	0	"3645,0,615,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	17019	.	G	T	5203	PASS	2210	0.123077	0	"1936,0,272,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	17104	.	C	T	137	PASS	228	0.048246	0	"217,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	17529	.	TA	T	750	PASS	2504	0.014776	0	"2467,0,37,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17266delA	p.Ile5756fs	17266/21291	17266/21291	5756/7096	5756	7096		",T"	del5756	TA17529T	del5756	ORF1AB:DEL5756	1355	ORF1b	del1355	ORF1B:DEL1355	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	17813	.	TG	T	57	PASS	4555	0.001098	0	"4574,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17552delG	p.Gly5851fs	17552/21291	17552/21291	5851/7096	5851	7096		"INFO_REALIGN_3_PRIME,T"	del5851	TG17813T	del5851	ORF1AB:DEL5851	1450	ORF1b	del1450	ORF1B:DEL1450	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	18028	.	G	T	8760	PASS	3909	0.129445	0	"3400,0,506,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17764G>T	p.Ala5922Ser	17764/21291	17764/21291	5922/7096	5922	7096		",T"	A5922S	G18028T	A5922S	ORF1AB:A5922S	1521	ORF1b	A1521S	ORF1B:A1521S	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	18119	.	T	C	100	PASS	2724	0.009178	0	"2696,0,25,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17855T>C	p.Leu5952Pro	17855/21291	17855/21291	5952/7096	5952	7096		",C"	L5952P	T18119C	L5952P	ORF1AB:L5952P	1551	ORF1b	L1551P	ORF1B:L1551P	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	18877	.	C	T	8535	PASS	4376	0.108775	0	"3896,0,476,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	19292	.	G	A	420	PASS	5067	0.012828	0	"4997,0,65,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19028G>A	p.Ser6343Asn	19028/21291	19028/21291	6343/7096	6343	7096		",A"	S6343N	G19292A	S6343N	ORF1AB:S6343N	1942	ORF1b	S1942N	ORF1B:S1942N	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	19392	.	A	G	68	PASS	4318	0.006253	0	"4285,0,27,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19128A>G	p.Pro6376Pro	19128/21291	19128/21291	6376/7096	6376	7096		",G"	P6376P	A19392G	P6376P	ORF1AB:P6376P	1975	ORF1b	P1975P	ORF1B:P1975P	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	19760	.	C	T	280	PASS	3417	0.01434	0	"3360,0,49,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19496C>T	p.Thr6499Ile	19496/21291	19496/21291	6499/7096	6499	7096		",T"	T6499I	C19760T	T6499I	ORF1AB:T6499I	2098	ORF1b	T2098I	ORF1B:T2098I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	20698	.	CT	C	59	PASS	4102	0.001219	0	"4099,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20437delT	p.Tyr6813fs	20437/21291	20437/21291	6813/7096	6813	7096		"INFO_REALIGN_3_PRIME,C"	del6813	CT20698C	del6813	ORF1AB:DEL6813	2412	ORF1b	del2412	ORF1B:DEL2412	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	20948	.	A	G	8201	PASS	3358	0.135497	0	"2894,0,455,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20684A>G	p.Asp6895Gly	20684/21291	20684/21291	6895/7096	6895	7096		",G"	D6895G	A20948G	D6895G	ORF1AB:D6895G	2494	ORF1b	D2494G	ORF1B:D2494G	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	21255	.	G	C	49314	PASS	1538	0.997399	2147483647	"0,0,1534,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	21710	.	T	C	71	PASS	1239	0.011299	0	"1224,0,14,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.148T>C	p.Ser50Pro	148/3822	148/3822	50/1273	50	1273		",C"	S50P	T21710C	S50P	S:S50P	50	S	S50P	S:S50P	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	21817	.	A	AT	7530	PASS	1761	0.150483	0	"1501,0,265,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.258dupT	p.Asn87fs	259/3822	259/3822	87/1273	87	1273		"INFO_REALIGN_3_PRIME,AT"	del87	A21817AT	del87	S:DEL87	87	S	del87	S:DEL87	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	21928	.	C	T	18803	PASS	1722	0.415215	0	"1005,0,715,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.366C>T	p.Asn122Asn	366/3822	366/3822	122/1273	122	1273		",T"	N122N	C21928T	N122N	S:N122N	122	S	N122N	S:N122N	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	22019	.	A	T	4039	PASS	1595	0.132288	0	"1383,0,211,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.457A>T	p.Met153Leu	457/3822	457/3822	153/1273	153	1273		",T"	M153L	A22019T	M153L	S:M153L	153	S	M153L	S:M153L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	22062	.	C	CT	5871	PASS	1447	0.138217	0	"1247,0,200,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.504dupT	p.Glu169fs	505/3822	505/3822	169/1273	169	1273		"INFO_REALIGN_3_PRIME,CT"	del169	C22062CT	del169	S:DEL169	169	S	del169	S:DEL169	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	22087	.	T	C	4005	PASS	1402	0.154779	0	"1182,0,217,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.525T>C	p.Phe175Phe	525/3822	525/3822	175/1273	175	1273		",C"	F175F	T22087C	F175F	S:F175F	175	S	F175F	S:F175F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	22135	.	A	T	2435	PASS	1299	0.122402	0	"1138,0,159,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.573A>T	p.Glu191Asp	573/3822	573/3822	191/1273	191	1273		",T"	E191D	A22135T	E191D	S:E191D	191	S	E191D	S:E191D	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	22227	.	C	T	12379	PASS	730	0.634247	0	"265,0,463,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	22255	.	A	G	2230	PASS	487	0.193018	0	"392,0,94,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.693A>G	p.Ile231Met	693/3822	693/3822	231/1273	231	1273		",G"	I231M	A22255G	I231M	S:I231M	231	S	I231M	S:I231M	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	22759	.	A	T	1236	PASS	448	0.142857	0	"384,0,64,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1197A>T	p.Ser399Ser	1197/3822	1197/3822	399/1273	399	1273		",T"	S399S	A22759T	S399S	S:S399S	399	S	S399S	S:S399S	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	22992	.	G	A	3595	PASS	665	0.240602	0	"504,0,160,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	23143	.	TA	T	2076	PASS	598	0.123746	0	"524,0,74,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1586delA	p.Lys529fs	1586/3822	1586/3822	529/1273	529	1273		"INFO_REALIGN_3_PRIME,T"	del529	TA23143T	del529	S:DEL529	529	S	del529	S:DEL529	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	23393	.	C	T	1707	PASS	576	0.15625	0	"484,0,90,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1831C>T	p.Leu611Phe	1831/3822	1831/3822	611/1273	611	1273		",T"	L611F	C23393T	L611F	S:L611F	611	S	L611F	S:L611F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	23403	.	A	G	19863	PASS	585	0.998291	2147483647	"0,0,584,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	23518	.	G	A	2693	PASS	557	0.236984	0	"421,0,132,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1956G>A	p.Gly652Gly	1956/3822	1956/3822	652/1273	652	1273		",A"	G652G	G23518A	G652G	S:G652G	652	S	G652G	S:G652G	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	23873	.	G	T	660	PASS	650	0.072308	0	"602,0,47,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2311G>T	p.Ala771Ser	2311/3822	2311/3822	771/1273	771	1273		",T"	A771S	G23873T	A771S	S:A771S	771	S	A771S	S:A771S	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	23958	.	G	GT	457	PASS	423	0.044917	0	"410,0,19,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	24452	.	A	T	2342	PASS	1026	0.128655	0	"892,0,132,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2890A>T	p.Lys964*	2890/3822	2890/3822	964/1273	964	1273		",T"	K964*	A24452T	K964*	S:K964*	964	S	K964*	S:K964*	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	24506	.	T	G	3430	PASS	982	0.164969	0	"819,0,162,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	24914	.	G	C	4215	PASS	1211	0.178365	0	"993,0,216,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25049	.	G	T	6949	PASS	2314	0.149092	0	"1965,0,345,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3487G>T	p.Asp1163Tyr	3487/3822	3487/3822	1163/1273	1163	1273		",T"	D1163Y	G25049T	D1163Y	S:D1163Y	1163	S	D1163Y	S:D1163Y	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25092	.	T	C	663	PASS	2010	0.031841	0	"1944,0,64,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3530T>C	p.Val1177Ala	3530/3822	3530/3822	1177/1273	1177	1273		",C"	V1177A	T25092C	V1177A	S:V1177A	1177	S	V1177A	S:V1177A	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25100	.	CA	C	12025	PASS	1895	0.208971	0	"1499,0,396,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3543delA	p.Glu1182fs	3543/3822	3543/3822	1181/1273	1181	1273		"INFO_REALIGN_3_PRIME,C"	del1182	CA25100C	del1182	S:DEL1182	1182	S	del1182	S:DEL1182	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25194	.	AAT	A	614	PASS	1673	0.18948	0	"1522,0,317,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3633_3634delAT	p.Trp1212fs	3633/3822	3633/3822	1211/1273	1211	1273		",A"	del1212	AAT25194A	del1212	S:DEL1212	1212	S	del1212	S:DEL1212	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25195	.	ATG	A	99	PASS	1544	0.055052	0	"1588,0,85,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3634_3635delTG	p.Trp1212fs	3634/3822	3634/3822	1212/1273	1212	1273		",A"	del1212	ATG25195A	del1212	S:DEL1212	1212	S	del1212	S:DEL1212	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25196	.	TG	T	405	PASS	1499	0.016011	0	"1520,0,24,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3636delG	p.Trp1212fs	3636/3822	3636/3822	1212/1273	1212	1273		"INFO_REALIGN_3_PRIME,T"	del1212	TG25196T	del1212	S:DEL1212	1212	S	del1212	S:DEL1212	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25225	.	A	C	102	PASS	1763	0.018151	0	"1727,0,32,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25240	.	C	A	95	PASS	1848	0.021104	0	"1808,0,39,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25247	.	A	T	93	PASS	1930	0.020207	0	"1888,0,39,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25258	.	T	C	14718	PASS	2058	0.308552	0	"1411,0,635,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3696T>C	p.Ile1232Ile	3696/3822	3696/3822	1232/1273	1232	1273		",C"	I1232I	T25258C	I1232I	S:I1232I	1232	S	I1232I	S:I1232I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25277	.	A	T	84	PASS	1919	0.022929	0	"1856,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25286	.	A	T	84	PASS	2034	0.02409	0	"1962,0,49,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25296	.	A	C	157	PASS	2008	0.034363	0	"1885,0,69,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25296	.	A	T	85	PASS	2008	0.026892	0	"1885,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25301	.	T	G	147	PASS	2003	0.030454	0	"1940,0,61,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25312	.	T	G	102	PASS	2053	0.026303	0	"1997,0,54,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25314	.	G	T	201	PASS	2074	0.035198	0	"1990,0,73,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25317	.	C	T	10010	PASS	2089	0.257061	0	"1534,0,537,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25324	.	C	A	843	PASS	2079	0.068783	0	"1932,0,143,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25327	.	A	T	90	PASS	2080	0.023077	0	"2032,0,48,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25331	.	G	T	105	PASS	2055	0.031144	0	"1974,0,64,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25336	.	A	C	317	PASS	2049	0.051245	0	"1931,0,105,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25505	.	A	G	9745	PASS	1546	0.278137	0	"1114,0,430,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25729	.	T	G	1100	PASS	1003	0.069791	0	"930,0,70,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.337T>G	p.Tyr113Asp	337/828	337/828	113/275	113	275		",G"	Y113D	T25729G	Y113D	ORF3A:Y113D	113	ORF3a	Y113D	ORF3A:Y113D	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25750	.	T	C	592	PASS	815	0.06135	0	"764,0,50,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.358T>C	p.Phe120Leu	358/828	358/828	120/275	120	275		",C"	F120L	T25750C	F120L	ORF3A:F120L	120	ORF3a	F120L	ORF3A:F120L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	25886	.	C	T	1615	PASS	688	0.122093	0	"604,0,84,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	26042	.	C	T	19333	PASS	676	0.902367	0	"64,0,610,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.650C>T	p.Thr217Ile	650/828	650/828	217/275	217	275		",T"	T217I	C26042T	T217I	ORF3A:T217I	217	ORF3a	T217I	ORF3A:T217I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	26459	.	A	G	17524	PASS	6001	0.159973	0	"5028,0,960,0"	FALSE	G	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.215A>G	p.Asp72Gly	215/228	215/228	72/75	72	75		",G"	D72G	A26459G	D72G	E:D72G	72	E	D72G	E:D72G	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	26735	.	C	T	6447	PASS	3770	0.104244	0	"3369,0,393,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	26801	.	C	G	49314	PASS	3149	0.732614	0	"839,0,2307,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	26836	.	G	A	861	PASS	2215	0.034312	0	"2136,0,76,0"	FALSE	A	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.314G>A	p.Arg105His	314/669	314/669	105/222	105	222		",A"	R105H	G26836A	R105H	M:R105H	105	M	R105H	M:R105H	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	26876	.	T	C	2298	PASS	1395	0.098208	0	"1255,0,137,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	27822	.	AT	A	50	PASS	3019	0.001325	0	"3015,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.69delT	p.Met24fs	69/132	69/132	23/43	23	43		"INFO_REALIGN_3_PRIME,A"	del24	AT27822A	del24	ORF7B:DEL24	24	ORF7b	del24	ORF7B:DEL24	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	27944	.	C	T	49314	PASS	2488	0.798231	0	"500,0,1986,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28254	.	A	C	488	PASS	965	0.058031	0	"907,0,56,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28270	.	TA	T	2685	PASS	1858	0.064586	0	"1738,0,120,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28280	.	G	C	1588	PASS	1987	0.062406	0	"1860,0,124,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28281	.	A	T	1760	PASS	2030	0.061576	0	"1904,0,125,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28282	.	T	A	1591	PASS	2069	0.063316	0	"1937,0,131,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28514	.	GA	G	1796	PASS	5847	0.015906	0	"5782,0,93,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.242delA	p.Asp81fs	242/1260	242/1260	81/419	81	419		",G"	del81	GA28514G	del81	N:DEL81	81	N	del81	N:DEL81	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28603	.	C	T	4594	PASS	5055	0.065282	0	"4711,0,330,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.330C>T	p.Phe110Phe	330/1260	330/1260	110/419	110	419		",T"	F110F	C28603T	F110F	N:F110F	110	N	F110F	N:F110F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28651	.	C	T	8636	PASS	5202	0.099193	0	"4676,0,516,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28785	.	T	C	334	PASS	7949	0.013461	0	"7822,0,107,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.512T>C	p.Phe171Ser	512/1260	512/1260	171/419	171	419		",C"	F171S	T28785C	F171S	N:F171S	171	N	F171S	N:F171S	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28798	.	G	A	15742	PASS	7994	0.111333	0	"7090,0,890,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28869	.	C	T	12149	PASS	7593	0.100619	0	"6812,0,764,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28881	.	G	A	38393	PASS	7293	0.237488	0	"5550,0,1732,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28882	.	G	A	36380	PASS	7310	0.234884	0	"5555,0,1717,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28883	.	G	C	39509	PASS	7283	0.239187	0	"5516,0,1742,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28932	.	C	T	49314	PASS	7468	0.434387	0	"4201,0,3244,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28975	.	G	C	10126	PASS	7090	0.098025	0	"6384,0,695,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28977	.	C	T	38978	PASS	6773	0.244057	0	"5107,0,1653,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28978	.	T	A	38479	PASS	6782	0.243881	0	"5119,0,1654,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	28987	.	CCAA	C	495	PASS	6494	0.00462	0	"6507,0,30,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	29051	.	C	CA	19556	PASS	5960	0.120134	0	"5244,0,716,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE36-1	NC_045512.2	29114	.	CA	C	14791	PASS	4225	0.122604	0	"3708,0,518,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.844delA	p.Thr282fs	844/1260	844/1260	282/419	282	419		"INFO_REALIGN_3_PRIME,C"	del282	CA29114C	del282	N:DEL282	282	N	del282	N:DEL282	GRE36-1	GREVENMACHER	2020-11-30T00:00:00Z	31.077	33.94	x	1022021	2020-11-30
GRE37-1	NC_045512.2	241	.	C	T	16065	PASS	461	0.995662	2147483647	"0,0,459,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	569	.	G	A	13632	PASS	384	1	2147483647	"0,0,384,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.304G>A	p.Glu102Lys	304/21291	304/21291	102/7096	102	7096		",A"	E102K	G569A	E102K	ORF1AB:E102K	102	ORF1a	E102K	ORF1A:E102K	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	571	.	G	A	12661	PASS	378	0.997355	2147483647	"0,0,377,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	724	.	T	C	4109	PASS	3319	0.081049	0	"3044,0,269,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.459T>C	p.Pro153Pro	459/21291	459/21291	153/7096	153	7096		",C"	P153P	T724C	P153P	ORF1AB:P153P	153	ORF1a	P153P	ORF1A:P153P	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	802	.	A	C	223	PASS	3133	0.013725	0	"3078,0,43,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	823	.	C	T	15080	PASS	3530	0.191218	0	"2850,0,675,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	913	.	C	T	19074	PASS	4318	0.205419	0	"3410,0,887,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	1430	.	AATG	A	4486	PASS	1891	0.088842	0	"1726,0,168,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1167_1169delTGA	p.Asn389_Glu390delinsLys	1167/21291	1167/21291	389/7096	389	7096		"INFO_REALIGN_3_PRIME,A"	indel	AATG1430A	NA	NA	NA	ORF1a	NA	NA	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	1459	.	TA	T	45	PASS	1391	0.002157	0	"1393,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1196delA	p.Lys399fs	1196/21291	1196/21291	399/7096	399	7096		"INFO_REALIGN_3_PRIME,T"	del399	TA1459T	del399	ORF1AB:DEL399	399	ORF1a	del399	ORF1A:DEL399	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	1673	.	A	G	311	PASS	1192	0.03104	0	"1154,0,37,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1408A>G	p.Asn470Asp	1408/21291	1408/21291	470/7096	470	7096		",G"	N470D	A1673G	N470D	ORF1AB:N470D	470	ORF1a	N470D	ORF1A:N470D	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	1813	.	T	TA	29943	PASS	986	0.925963	0	"73,0,913,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1554dupA	p.Gly519fs	1555/21291	1555/21291	519/7096	519	7096		"INFO_REALIGN_3_PRIME,TA"	del519	T1813TA	del519	ORF1AB:DEL519	519	ORF1a	del519	ORF1A:DEL519	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	3037	.	C	T	2062	PASS	58	1	2147483647	"0,0,58,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	4543	.	C	T	25779	PASS	957	0.836991	0	"154,0,801,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	5393	.	T	C	6369	PASS	414	0.536232	0	"192,0,222,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5128T>C	p.Phe1710Leu	5128/21291	5128/21291	1710/7096	1710	7096		",C"	F1710L	T5393C	F1710L	ORF1AB:F1710L	1710	ORF1a	F1710L	ORF1A:F1710L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	5629	.	G	T	15089	PASS	426	0.997653	0	"1,0,425,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	6582	.	C	T	2597	PASS	440	0.268182	0	"322,0,118,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6317C>T	p.Thr2106Ile	6317/21291	6317/21291	2106/7096	2106	7096		",T"	T2106I	C6582T	T2106I	ORF1AB:T2106I	2106	ORF1a	T2106I	ORF1A:T2106I	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	6941	.	C	T	6133	PASS	748	0.326203	0	"502,0,244,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	7942	.	T	C	8255	PASS	1211	0.289843	0	"858,0,351,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7677T>C	p.Val2559Val	7677/21291	7677/21291	2559/7096	2559	7096		",C"	V2559V	T7942C	V2559V	ORF1AB:V2559V	2559	ORF1a	V2559V	ORF1A:V2559V	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	9139	.	T	C	6161	PASS	1010	0.282178	0	"721,0,285,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8874T>C	p.Asp2958Asp	8874/21291	8874/21291	2958/7096	2958	7096		",C"	D2958D	T9139C	D2958D	ORF1AB:D2958D	2958	ORF1a	D2958D	ORF1A:D2958D	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	9526	.	G	T	295	PASS	1511	0.025811	0	"1472,0,39,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	9541	.	C	T	44722	PASS	1446	0.923236	0	"106,0,1335,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9276C>T	p.Leu3092Leu	9276/21291	9276/21291	3092/7096	3092	7096		",T"	L3092L	C9541T	L3092L	ORF1AB:L3092L	3092	ORF1a	L3092L	ORF1A:L3092L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	10527	.	C	CT	1944	PASS	2756	0.031567	0	"2669,0,87,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10267dupT	p.Cys3423fs	10268/21291	10268/21291	3423/7096	3423	7096		"INFO_REALIGN_3_PRIME,CT"	del3423	C10527CT	del3423	ORF1AB:DEL3423	3423	ORF1a	del3423	ORF1A:DEL3423	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	10664	.	GT	G	47	PASS	896	0.003348	0	"932,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10403delT	p.Leu3468fs	10403/21291	10403/21291	3468/7096	3468	7096		"INFO_REALIGN_3_PRIME,G"	del3468	GT10664G	del3468	ORF1AB:DEL3468	3468	ORF1a	del3468	ORF1A:DEL3468	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	10924	.	AT	A	56	PASS	420	0.007143	0	"419,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10662delT	p.Phe3554fs	10662/21291	10662/21291	3554/7096	3554	7096		"INFO_REALIGN_3_PRIME,A"	del3554	AT10924A	del3554	ORF1AB:DEL3554	3554	ORF1a	del3554	ORF1A:DEL3554	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	12583	.	TA	T	51	PASS	2326	0.00172	0	"2337,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12322delA	p.Ile4108fs	12322/21291	12322/21291	4108/7096	4108	7096		"INFO_REALIGN_3_PRIME,T"	del4108	TA12583T	del4108	ORF1AB:DEL4108	4108	ORF1a	del4108	ORF1A:DEL4108	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	12805	.	T	C	8612	PASS	1990	0.21005	0	"1569,0,418,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12540T>C	p.Phe4180Phe	12540/21291	12540/21291	4180/7096	4180	7096		",C"	F4180F	T12805C	F4180F	ORF1AB:F4180F	4180	ORF1a	F4180F	ORF1A:F4180F	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	13517	.	C	T	23956	PASS	2093	0.430005	0	"1186,0,900,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	13940	.	A	G	7397	PASS	2588	0.153014	0	"2185,0,396,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13676A>G	p.Glu4559Gly	13676/21291	13676/21291	4559/7096	4559	7096		",G"	E4559G	A13940G	E4559G	ORF1AB:E4559G	158	ORF1b	E158G	ORF1B:E158G	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	13993	.	G	T	5519	PASS	2094	0.135626	0	"1806,0,284,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	14676	.	C	T	34916	PASS	2672	0.467066	0	"1414,0,1248,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	14764	.	T	C	775	PASS	3593	0.026719	0	"3490,0,96,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14500T>C	p.Phe4834Leu	14500/21291	14500/21291	4834/7096	4834	7096		",C"	F4834L	T14764C	F4834L	ORF1AB:F4834L	433	ORF1b	F433L	ORF1B:F433L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	15279	.	C	T	23349	PASS	1596	0.518797	0	"767,0,828,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	15717	.	TGAC	T	351	PASS	86	0.139535	0	"74,0,12,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15456_15458delCGA	p.Asp5153del	15456/21291	15456/21291	5152/7096	5152	7096		"INFO_REALIGN_3_PRIME,T"	del5153	TGAC15717T	del5153	ORF1AB:DEL5153	752	ORF1b	del752	ORF1B:DEL752	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	15766	.	G	T	1771	PASS	140	0.435714	0	"79,0,61,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	15805	.	CA	C	516	PASS	151	0.119205	0	"133,0,18,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15545delA	p.Asn5182fs	15545/21291	15545/21291	5182/7096	5182	7096		"INFO_REALIGN_3_PRIME,C"	del5182	CA15805C	del5182	ORF1AB:DEL5182	781	ORF1b	del781	ORF1B:DEL781	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	16068	.	G	T	1127	PASS	171	0.28655	0	"122,0,49,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15804G>T	p.Glu5268Asp	15804/21291	15804/21291	5268/7096	5268	7096		",T"	E5268D	G16068T	E5268D	ORF1AB:E5268D	867	ORF1b	E867D	ORF1B:E867D	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	16354	.	A	G	71	PASS	1475	0.012203	0	"1455,0,18,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16090A>G	p.Lys5364Glu	16090/21291	16090/21291	5364/7096	5364	7096		",G"	K5364E	A16354G	K5364E	ORF1AB:K5364E	963	ORF1b	K963E	ORF1B:K963E	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	16497	.	A	G	116	PASS	1743	0.014917	0	"1713,0,26,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16233A>G	p.Gly5411Gly	16233/21291	16233/21291	5411/7096	5411	7096		",G"	G5411G	A16497G	G5411G	ORF1AB:G5411G	1010	ORF1b	G1010G	ORF1B:G1010G	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	17346	.	A	G	514	PASS	38	0.447368	0	"21,0,17,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17082A>G	p.Ile5694Met	17082/21291	17082/21291	5694/7096	5694	7096		",G"	I5694M	A17346G	I5694M	ORF1AB:I5694M	1293	ORF1b	I1293M	ORF1B:I1293M	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	18060	.	CT	C	73	PASS	795	0.005031	0	"791,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17799delT	p.Phe5933fs	17799/21291	17799/21291	5933/7096	5933	7096		"INFO_REALIGN_3_PRIME,C"	del5933	CT18060C	del5933	ORF1AB:DEL5933	1532	ORF1b	del1532	ORF1B:DEL1532	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	18877	.	C	T	245	PASS	34	0.294118	0	"24,0,10,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	20440	.	A	T	8084	PASS	571	0.49387	0	"289,0,282,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20176A>T	p.Thr6726Ser	20176/21291	20176/21291	6726/7096	6726	7096		",T"	T6726S	A20440T	T6726S	ORF1AB:T6726S	2325	ORF1b	T2325S	ORF1B:T2325S	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	20464	.	G	T	9228	PASS	690	0.482609	0	"355,0,333,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20200G>T	p.Asp6734Tyr	20200/21291	20200/21291	6734/7096	6734	7096		",T"	D6734Y	G20464T	D6734Y	ORF1AB:D6734Y	2333	ORF1b	D2333Y	ORF1B:D2333Y	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	21095	.	A	C	2543	PASS	978	0.237219	0	"739,0,232,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20831A>C	p.Lys6944Thr	20831/21291	20831/21291	6944/7096	6944	7096		",C"	K6944T	A21095C	K6944T	ORF1AB:K6944T	2543	ORF1b	K2543T	ORF1B:K2543T	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	21097	.	GA	G	2564	PASS	953	0.238195	0	"748,0,227,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20834delA	p.Glu6945fs	20834/21291	20834/21291	6945/7096	6945	7096		",G"	del6945	GA21097G	del6945	ORF1AB:DEL6945	2544	ORF1b	del2544	ORF1B:DEL2544	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	21101	.	G	T	1584	PASS	942	0.239915	0	"714,0,226,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20837G>T	p.Gly6946Val	20837/21291	20837/21291	6946/7096	6946	7096		",T"	G6946V	G21101T	G6946V	ORF1AB:G6946V	2545	ORF1b	G2545V	ORF1B:G2545V	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	21222	.	A	T	27751	PASS	818	0.991443	0	"4,0,811,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	21255	.	G	C	33220	PASS	965	0.994819	0	"1,0,960,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	22022	.	G	A	6307	PASS	180	1	2147483647	"0,0,180,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.460G>A	p.Glu154Lys	460/3822	460/3822	154/1273	154	1273		",A"	E154K	G22022A	E154K	S:E154K	154	S	E154K	S:E154K	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	23164	.	TA	T	930	PASS	38	0.684211	0	"12,0,26,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1607delA	p.Asn536fs	1607/3822	1607/3822	536/1273	536	1273		"INFO_REALIGN_3_PRIME,T"	del536	TA23164T	del536	S:DEL536	536	S	del536	S:DEL536	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	23403	.	A	G	2487	PASS	74	1	2147483647	"0,0,74,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	25563	.	G	T	2783	PASS	135	0.666667	0	"45,0,90,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	25710	.	C	T	5443	PASS	284	0.640845	0	"102,0,182,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	25886	.	C	T	3494	PASS	414	0.323671	0	"280,0,134,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	26368	.	T	C	19710	PASS	1715	0.433236	0	"966,0,743,0"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.124T>C	p.Tyr42His	124/228	124/228	42/75	42	75		",C"	Y42H	T26368C	Y42H	E:Y42H	42	E	Y42H	E:Y42H	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	26735	.	C	T	49314	PASS	1637	0.989615	0	"16,0,1620,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	26801	.	C	G	223	PASS	1305	0.02069	0	"1278,0,27,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	26876	.	T	C	19666	PASS	633	0.92575	0	"46,0,586,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	27944	.	C	T	6921	PASS	394	0.581218	0	"165,0,229,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28254	.	A	C	329	PASS	751	0.046605	0	"715,0,35,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28383	.	CA	C	47	PASS	2678	0.001494	0	"2674,0,4,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.114delA	p.Lys38fs	114/1260	114/1260	38/419	38	419		"INFO_REALIGN_3_PRIME,C"	del38	CA28383C	del38	N:DEL38	38	N	del38	N:DEL38	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28879	.	T	C	24783	PASS	5470	0.22596	0	"4222,0,1236,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.606T>C	p.Ser202Ser	606/1260	606/1260	202/419	202	419		",C"	S202S	T28879C	S202S	N:S202S	202	N	S202S	N:S202S	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28881	.	G	A	40098	PASS	5232	0.321483	0	"3530,0,1682,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28882	.	G	A	39452	PASS	5237	0.318503	0	"3543,0,1668,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28883	.	G	C	42485	PASS	5230	0.323136	0	"3531,0,1690,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28932	.	C	T	49314	PASS	5306	0.428383	0	"3016,0,2273,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28975	.	G	C	17654	PASS	4972	0.185237	0	"4041,0,921,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28977	.	C	T	45558	PASS	4724	0.36685	0	"2979,0,1733,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28978	.	T	A	45870	PASS	4726	0.366906	0	"2986,0,1734,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE37-1	NC_045512.2	28987	.	CCAA	C	435	PASS	4494	0.005563	0	"4502,0,25,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	GRE37-1	GREVENMACHER	2020-12-06T00:00:00Z	32.0715	33.62	x	1022021	2020-12-06
GRE49-1	NC_045512.2	174	.	G	A	2995	PASS	495	0.246465	0	"354,18,117,5"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-92G>A						NA	92	",A"		G174A		NA	NA	NA		NA	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	241	.	C	T	22751	PASS	636	1	0	"0,0,443,193"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	335	.	C	T	17327	PASS	616	0.826299	7	"53,54,213,296"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	360	.	G	A	2377	PASS	603	0.172471	0	"224,275,47,57"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.95G>A	p.Gly32Glu	95/21291	95/21291	32/7096	32	7096		",A"	G32E	G360A	G32E	ORF1AB:G32E	32	ORF1a	G32E	ORF1A:G32E	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	514	.	TGTTATG	T	3125	PASS	632	0.161392	0	"260,270,50,52"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.253_258delATGGTT	p.Met85_Val86del	253/21291	253/21291	85/7096	85	7096		"INFO_REALIGN_3_PRIME,T"	del85/86	TGTTATG514T	del85/86	ORF1AB:DEL85/86	85/86	ORF1a	del85/86	ORF1A:DEL85/86	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	518	.	A	G	104	PASS	615	0.021138	5	"246,254,4,9"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.253A>G	p.Met85Val	253/21291	253/21291	85/7096	85	7096		",G"	M85V	A518G	M85V	ORF1AB:M85V	85	ORF1a	M85V	ORF1A:M85V	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	742	.	A	C	12309	PASS	456	0.789474	8	"10,86,60,300"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.477A>C	p.Glu159Asp	477/21291	477/21291	159/7096	159	7096		",C"	E159D	A742C	E159D	ORF1AB:E159D	159	ORF1a	E159D	ORF1A:E159D	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	1190	.	C	T	1824	PASS	111	0.558559	56	"42,7,26,36"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.925C>T	p.Pro309Ser	925/21291	925/21291	309/7096	309	7096		",T"	P309S	C1190T	P309S	ORF1AB:P309S	309	ORF1a	P309S	ORF1A:P309S	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	1349	.	CA	C	37	PASS	371	0.005391	3	"265,105,1,1"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1088delA	p.Asn363fs	1088/21291	1088/21291	363/7096	363	7096		"INFO_REALIGN_3_PRIME,C"	del363	CA1349C	del363	ORF1AB:DEL363	363	ORF1a	del363	ORF1A:DEL363	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	1449	.	C	T	2276	PASS	439	0.205011	0	"174,173,46,44"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1184C>T	p.Thr395Ile	1184/21291	1184/21291	395/7096	395	7096		",T"	T395I	C1449T	T395I	ORF1AB:T395I	395	ORF1a	T395I	ORF1A:T395I	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	1926	.	C	T	2508	PASS	468	0.213675	9	"61,307,10,90"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1661C>T	p.Thr554Ile	1661/21291	1661/21291	554/7096	554	7096		",T"	T554I	C1926T	T554I	ORF1AB:T554I	554	ORF1a	T554I	ORF1A:T554I	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	3037	.	C	T	1668	PASS	45	1	0	"0,0,16,29"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	3412	.	T	A	341	PASS	10	1	0	"0,0,4,6"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3147T>A	p.Ala1049Ala	3147/21291	3147/21291	1049/7096	1049	7096		",A"	A1049A	T3412A	A1049A	ORF1AB:A1049A	1049	ORF1a	A1049A	ORF1A:A1049A	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	4984	.	A	T	1266	PASS	33	1	0	"0,0,16,17"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4719A>T	p.Thr1573Thr	4719/21291	4719/21291	1573/7096	1573	7096		",T"	T1573T	A4984T	T1573T	ORF1AB:T1573T	1573	ORF1a	T1573T	ORF1A:T1573T	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	6463	.	GAA	G	2454	PASS	211	0.350711	1	"55,82,32,42"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6201_6202delAA	p.Lys2067fs	6201/21291	6201/21291	2067/7096	2067	7096		"INFO_REALIGN_3_PRIME,G"	del2067	GAA6463G	del2067	ORF1AB:DEL2067	2067	ORF1a	del2067	ORF1A:DEL2067	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	6696	.	C	CT	110	PASS	59	0.067797	2	"13,43,0,4"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	6883	.	C	T	216	PASS	21	0.333333	9	"12,2,3,4"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6618C>T	p.Val2206Val	6618/21291	6618/21291	2206/7096	2206	7096		",T"	V2206V	C6883T	V2206V	ORF1AB:V2206V	2206	ORF1a	V2206V	ORF1A:V2206V	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	6941	.	C	T	1077	PASS	29	1	0	"0,0,8,21"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	7034	.	T	G	390	PASS	29	0.448276	2	"3,13,1,12"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6769T>G	p.Leu2257Val	6769/21291	6769/21291	2257/7096	2257	7096		",G"	L2257V	T7034G	L2257V	ORF1AB:L2257V	2257	ORF1a	L2257V	ORF1A:L2257V	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	7984	.	T	C	1002	PASS	58	0.534483	2	"17,10,17,14"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7719T>C	p.Asp2573Asp	7719/21291	7719/21291	2573/7096	2573	7096		",C"	D2573D	T7984C	D2573D	ORF1AB:D2573D	2573	ORF1a	D2573D	ORF1A:D2573D	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	8056	.	G	GT	242	PASS	50	0.16	0	"24,19,5,3"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7795dupT	p.Ser2599fs	7796/21291	7796/21291	2599/7096	2599	7096		"INFO_REALIGN_3_PRIME,GT"	del2599	G8056GT	del2599	ORF1AB:DEL2599	2599	ORF1a	del2599	ORF1A:DEL2599	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	9291	.	A	C	139	PASS	16	0.3125	0	"7,4,3,2"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9026A>C	p.Asp3009Ala	9026/21291	9026/21291	3009/7096	3009	7096		",C"	D3009A	A9291C	D3009A	ORF1AB:D3009A	3009	ORF1a	D3009A	ORF1A:D3009A	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	13258	.	T	C	11938	PASS	333	0.996997	3	"0,1,184,148"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12993T>C	p.Arg4331Arg	12993/21291	12993/21291	4331/7096	4331	7096		",C"	R4331R	T13258C	R4331R	ORF1AB:R4331R	4331	ORF1a	R4331R	ORF1A:R4331R	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	14595	.	TA	T	38	PASS	401	0.004988	7	"358,41,1,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14333delA	p.Asn4778fs	14333/21291	14333/21291	4778/7096	4778	7096		"INFO_REALIGN_3_PRIME,T"	del4778	TA14595T	del4778	ORF1AB:DEL4778	377	ORF1b	del377	ORF1B:DEL377	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	15168	.	G	A	95	PASS	365	0.038356	29	"140,209,0,14"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	15173	.	C	A	62	PASS	368	0.032609	23	"139,215,0,12"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14909C>A	p.Ser4970*	14909/21291	14909/21291	4970/7096	4970	7096		",A"	S4970*	C15173A	S4970*	ORF1AB:S4970*	569	ORF1b	S569*	ORF1B:S569*	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	15278	.	A	C	61	PASS	325	0.027692	6	"60,252,0,9"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15014A>C	p.His5005Pro	15014/21291	15014/21291	5005/7096	5005	7096		",C"	H5005P	A15278C	H5005P	ORF1AB:H5005P	604	ORF1b	H604P	ORF1B:H604P	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	15324	.	C	T	6381	PASS	209	0.894737	75	"17,5,33,154"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	15766	.	G	T	664	PASS	59	0.38983	1	"9,27,7,16"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	16315	.	TGTAAATGCTG	T	3452	PASS	456	0.254386	0	"303,40,104,12"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16052_16061delGTAAATGCTG	p.Cys5351fs	16052/21291	16052/21291	5351/7096	5351	7096		",T"	del5351	TGTAAATGCTG16315T	del5351	ORF1AB:DEL5351	950	ORF1b	del950	ORF1B:DEL950	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	16476	.	TTTTCCA	T	3867	PASS	563	0.21492	2	"258,184,75,46"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16215_16220delTCCATT	p.Phe5405_Pro5406del	16215/21291	16215/21291	5405/7096	5405	7096		"INFO_REALIGN_3_PRIME,T"	del5405/5406	TTTTCCA16476T	del5405/5406	ORF1AB:DEL5405/5406	1004/1005	ORF1b	del1004/1005	ORF1B:DEL1004/1005	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	16575	.	C	T	23975	PASS	653	0.996937	0	"0,0,293,358"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16311C>T	p.Asp5437Asp	16311/21291	16311/21291	5437/7096	5437	7096		",T"	D5437D	C16575T	D5437D	ORF1AB:D5437D	1036	ORF1b	D1036D	ORF1B:D1036D	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	17346	.	A	G	265	PASS	29	0.310345	6	"8,12,1,8"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17082A>G	p.Ile5694Met	17082/21291	17082/21291	5694/7096	5694	7096		",G"	I5694M	A17346G	I5694M	ORF1AB:I5694M	1293	ORF1b	I1293M	ORF1B:I1293M	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	19524	.	C	T	386	PASS	10	1	0	"0,0,7,3"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	19741	.	G	A	421	PASS	11	1	0	"0,0,4,7"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19477G>A	p.Glu6493Lys	19477/21291	19477/21291	6493/7096	6493	7096		",A"	E6493K	G19741A	E6493K	ORF1AB:E6493K	2092	ORF1b	E2092K	ORF1B:E2092K	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	25480	.	C	T	2800	PASS	213	0.455399	2	"48,68,36,61"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.88C>T	p.Arg30Cys	88/828	88/828	30/275	30	275		",T"	R30C	C25480T	R30C	ORF3A:R30C	30	ORF3a	R30C	ORF3A:R30C	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	25505	.	A	G	6537	PASS	190	0.963158	36	"7,0,53,130"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	25906	.	G	C	467	PASS	42	0.380952	6	"10,16,10,6"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	25996	.	G	T	544	PASS	43	0.44186	6	"9,15,11,8"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	26128	.	A	T	272	PASS	296	0.060811	9	"250,28,14,4"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.736A>T	p.Ile246Phe	736/828	736/828	246/275	246	275		",T"	I246F	A26128T	I246F	ORF3A:I246F	246	ORF3a	I246F	ORF3A:I246F	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	26160	.	TAATCCAGTA	T	219	PASS	351	0.025641	12	"283,59,5,4"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.770_778delATCCAGTAA	p.Asn257_Val259del	770/828	770/828	257/275	257	275		"INFO_REALIGN_3_PRIME,T"	del257/259	TAATCCAGTA26160T	del257/259	ORF3A:DEL257/259	257/259	ORF3a	del257/259	ORF3A:DEL257/259	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	26213	.	CT	C	58	PASS	378	0.007937	12	"235,141,0,3"	TRUE	C	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.824delT	p.Leu275fs	824/828	824/828	275/275	275	275		"INFO_REALIGN_3_PRIME,C"	del275	CT26213C	del275	ORF3A:DEL275	275	ORF3a	del275	ORF3A:DEL275	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	26461	.	C	T	6393	PASS	443	0.485327	7	1.281E+11	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.217C>T	p.Leu73Phe	217/228	217/228	73/75	73	75		",T"	L73F	C26461T	L73F	E:L73F	73	E	L73F	E:L73F	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	27106	.	CA	C	1035	PASS	161	0.21118	0	"66,61,17,17"	TRUE	C	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.585delA	p.Tyr196fs	585/669	585/669	195/222	195	222		",C"	del196	CA27106C	del196	M:DEL196	196	M	del196	M:DEL196	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	27263	.	CTTTTAAAGTTTCCATTTGGAATCTTGA	C	485	PASS	131	0.122137	33	"66,49,16,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.65_91delTTAAAGTTTCCATTTGGAATCTTGATT	p.Phe22_Asp30del	65/186	65/186	22/61	22	61		"INFO_REALIGN_3_PRIME,C"	del22/30	CTTTTAAAGTTTCCATTTGGAATCTTGA27263C	del22/30	ORF6:DEL22/30	22/30	ORF6	del22/30	ORF6:DEL22/30	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	27312	.	T	TA	379	PASS	141	0.099291	13	"83,44,5,9"	TRUE	TA	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.116dupA	p.Asn39fs	117/186	117/186	39/61	39	61		"INFO_REALIGN_3_PRIME,TA"	del39	T27312TA	del39	ORF6:DEL39	39	ORF6	del39	ORF6:DEL39	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	27384	.	T	C	3821	PASS	180	0.638889	48	"12,53,59,56"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.183T>C	p.Asp61Asp	183/186	183/186	61/61	61	61		",C"	D61D	T27384C	D61D	ORF6:D61D	61	ORF6	D61D	ORF6:D61D	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	27972	.	C	T	1093	PASS	209	0.205742	53	"61,105,33,10"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28048	.	G	T	1807	PASS	208	0.3125	13	"82,61,47,18"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28097	.	A	G	1824	PASS	200	0.34	2	"92,40,44,24"	FALSE	G	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.204A>G	p.Lys68Lys	204/366	204/366	68/121	68	121		",G"	K68K	A28097G	K68K	ORF8:K68K	68	ORF8	K68K	ORF8:K68K	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28111	.	A	G	1930	PASS	212	0.334906	15	"107,34,43,28"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28270	.	TA	T	643	PASS	253	0.12253	0	"113,109,16,15"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28280	.	G	C	506	PASS	266	0.112782	2	"133,102,15,15"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28281	.	A	T	510	PASS	266	0.112782	2	"133,102,15,15"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28282	.	T	A	542	PASS	271	0.121771	3	"133,105,16,17"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28292	.	CA	C	62	PASS	295	0.010169	5	"178,114,3,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.23delA	p.Asn8fs	23/1260	23/1260	8/419	8	419		"INFO_REALIGN_3_PRIME,C"	del8	CA28292C	del8	N:DEL8	8	N	del8	N:DEL8	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28651	.	C	T	15861	PASS	462	0.969697	39	"0,14,228,220"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	28869	.	C	T	15846	PASS	440	0.993182	6	"2,0,211,226"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
GRE49-1	NC_045512.2	29114	.	C	A	2449	PASS	317	0.312303	1	"37,180,15,84"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.841C>A	p.Gln281Lys	841/1260	841/1260	281/419	281	419		",A"	Q281K	C29114A	Q281K	N:Q281K	281	N	Q281K	N:Q281K	GRE49-1	GREVENMACHER	2021-03-01T00:00:00Z	31.918	34.93666667	To be done	NA	2021-03-01
HES29	NC_045512.2	91	.	G	A	11227	PASS	538	0.684015	0	"170,0,368,0"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-175G>A						NA	175	",A"		G91A		NA	NA	NA		NA	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	126	.	A	G	115	PASS	1231	0.009748	0	"1218,0,12,0"	FALSE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-140A>G						NA	140	",G"		A126G		NA	NA	NA		NA	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	241	.	C	T	49314	PASS	2911	0.998969	2147483647	"0,0,2908,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	1911	.	C	T	22573	PASS	1220	0.601639	0	"486,0,734,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1646C>T	p.Ser549Phe	1646/21291	1646/21291	549/7096	549	7096		",T"	S549F	C1911T	S549F	ORF1AB:S549F	549	ORF1a	S549F	ORF1A:S549F	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	2683	.	G	T	7950	PASS	553	0.493671	0	"278,0,273,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2418G>T	p.Met806Ile	2418/21291	2418/21291	806/7096	806	7096		",T"	M806I	G2683T	M806I	ORF1AB:M806I	806	ORF1a	M806I	ORF1A:M806I	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	3037	.	C	T	19451	PASS	555	1	2147483647	"0,0,555,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	4886	.	C	T	392	PASS	160	0.1125	0	"142,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4621C>T	p.Pro1541Ser	4621/21291	4621/21291	1541/7096	1541	7096		",T"	P1541S	C4886T	P1541S	ORF1AB:P1541S	1541	ORF1a	P1541S	ORF1A:P1541S	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	5572	.	G	A	2714	PASS	115	0.730435	0	"31,0,84,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5307G>A	p.Met1769Ile	5307/21291	5307/21291	1769/7096	1769	7096		",A"	M1769I	G5572A	M1769I	ORF1AB:M1769I	1769	ORF1a	M1769I	ORF1A:M1769I	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	5859	.	A	G	63	PASS	104	0.038462	0	"100,0,4,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5594A>G	p.Asp1865Gly	5594/21291	5594/21291	1865/7096	1865	7096		",G"	D1865G	A5859G	D1865G	ORF1AB:D1865G	1865	ORF1a	D1865G	ORF1A:D1865G	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	5988	.	CAG	C	43	PASS	221	0.00905	0	"219,0,2,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5726_5727delAG	p.Glu1909fs	5726/21291	5726/21291	1909/7096	1909	7096		"INFO_REALIGN_3_PRIME,C"	del1909	CAG5988C	del1909	ORF1AB:DEL1909	1909	ORF1a	del1909	ORF1A:DEL1909	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	6366	.	A	T	2923	PASS	190	0.521053	0	"91,0,99,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6101A>T	p.Gln2034Leu	6101/21291	6101/21291	2034/7096	2034	7096		",T"	Q2034L	A6366T	Q2034L	ORF1AB:Q2034L	2034	ORF1a	Q2034L	ORF1A:Q2034L	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	6730	.	C	T	2110	PASS	135	0.525926	0	"63,0,71,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6465C>T	p.Asn2155Asn	6465/21291	6465/21291	2155/7096	2155	7096		",T"	N2155N	C6730T	N2155N	ORF1AB:N2155N	2155	ORF1a	N2155N	ORF1A:N2155N	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	6941	.	C	T	3441	PASS	211	0.545024	0	"96,0,115,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	7394	.	A	T	609	PASS	55	0.436364	0	"31,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7129A>T	p.Ile2377Phe	7129/21291	7129/21291	2377/7096	2377	7096		",T"	I2377F	A7394T	I2377F	ORF1AB:I2377F	2377	ORF1a	I2377F	ORF1A:I2377F	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	9440	.	T	G	15333	PASS	441	0.997732	0	"1,0,440,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9175T>G	p.Cys3059Gly	9175/21291	9175/21291	3059/7096	3059	7096		",G"	C3059G	T9440G	C3059G	ORF1AB:C3059G	3059	ORF1a	C3059G	ORF1A:C3059G	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	9627	.	CT	C	73	PASS	719	0.008345	0	"713,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9368delT	p.Leu3123fs	9368/21291	9368/21291	3123/7096	3123	7096		"INFO_REALIGN_3_PRIME,C"	del3123	CT9627C	del3123	ORF1AB:DEL3123	3123	ORF1a	del3123	ORF1A:DEL3123	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	11381	.	A	G	7287	PASS	206	1	2147483647	"0,0,206,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11116A>G	p.Arg3706Gly	11116/21291	11116/21291	3706/7096	3706	7096		",G"	R3706G	A11381G	R3706G	ORF1AB:R3706G	3706	ORF1a	R3706G	ORF1A:R3706G	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	11410	.	G	A	6603	PASS	186	1	2147483647	"0,0,186,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11145G>A	p.Leu3715Leu	11145/21291	11145/21291	3715/7096	3715	7096		",A"	L3715L	G11410A	L3715L	ORF1AB:L3715L	3715	ORF1a	L3715L	ORF1A:L3715L	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	11485	.	TA	T	6043	PASS	181	0.994475	0	"6,0,180,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11221delA	p.Thr3741fs	11221/21291	11221/21291	3741/7096	3741	7096		",T"	del3741	TA11485T	del3741	ORF1AB:DEL3741	3741	ORF1a	del3741	ORF1A:DEL3741	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	12237	.	TTG	T	4152	PASS	452	0.298673	0	"320,0,135,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11973_11974delTG	p.Phe3991fs	11973/21291	11973/21291	3991/7096	3991	7096		",T"	del3991	TTG12237T	del3991	ORF1AB:DEL3991	3991	ORF1a	del3991	ORF1A:DEL3991	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	12756	.	C	T	5400	PASS	1012	0.226285	0	"782,0,229,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12491C>T	p.Thr4164Ile	12491/21291	12491/21291	4164/7096	4164	7096		",T"	T4164I	C12756T	T4164I	ORF1AB:T4164I	4164	ORF1a	T4164I	ORF1A:T4164I	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	13993	.	G	T	7452	PASS	1408	0.215909	0	"1104,0,304,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	14015	.	T	C	402	PASS	1267	0.03236	0	"1225,0,41,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13751T>C	p.Phe4584Ser	13751/21291	13751/21291	4584/7096	4584	7096		",C"	F4584S	T14015C	F4584S	ORF1AB:F4584S	183	ORF1b	F183S	ORF1B:F183S	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	14408	.	C	T	665	PASS	18	1	2147483647	"0,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	14457	.	A	T	283	PASS	19	0.473684	0	"10,0,9,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14193A>T	p.Pro4731Pro	14193/21291	14193/21291	4731/7096	4731	7096		",T"	P4731P	A14457T	P4731P	ORF1AB:P4731P	330	ORF1b	P330P	ORF1B:P330P	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	15062	.	A	G	167	PASS	2685	0.008939	0	"2656,0,24,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14798A>G	p.Gln4933Arg	14798/21291	14798/21291	4933/7096	4933	7096		",G"	Q4933R	A15062G	Q4933R	ORF1AB:Q4933R	532	ORF1b	Q532R	ORF1B:Q532R	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	15308	.	A	C	1168	PASS	682	0.085044	0	"624,0,58,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15044A>C	p.Asp5015Ala	15044/21291	15044/21291	5015/7096	5015	7096		",C"	D5015A	A15308C	D5015A	ORF1AB:D5015A	614	ORF1b	D614A	ORF1B:D614A	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	15324	.	C	T	980	PASS	415	0.118072	0	"366,0,49,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	15766	.	G	T	428	PASS	24	0.583333	0	"10,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	16889	.	A	G	30470	PASS	843	1	2147483647	"0,0,843,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	17019	.	G	T	13801	PASS	388	1	2147483647	"0,0,388,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	17440	.	C	T	4770	PASS	151	0.907285	0	"14,0,137,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17176C>T	p.Pro5726Ser	17176/21291	17176/21291	5726/7096	5726	7096		",T"	P5726S	C17440T	P5726S	ORF1AB:P5726S	1325	ORF1b	P1325S	ORF1B:P1325S	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	17441	.	C	T	4770	PASS	152	0.907895	0	"14,0,138,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17177C>T	p.Pro5726Leu	17177/21291	17177/21291	5726/7096	5726	7096		",T"	P5726L	C17441T	P5726L	ORF1AB:P5726L	1325	ORF1b	P1325L	ORF1B:P1325L	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	17809	.	AT	A	50	PASS	749	0.004005	0	"747,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17549delT	p.Leu5850fs	17549/21291	17549/21291	5850/7096	5850	7096		"INFO_REALIGN_3_PRIME,A"	del5850	AT17809A	del5850	ORF1AB:DEL5850	1449	ORF1b	del1449	ORF1B:DEL1449	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	17994	.	A	T	26174	PASS	736	0.998641	0	"1,0,735,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17730A>T	p.Gln5910His	17730/21291	17730/21291	5910/7096	5910	7096		",T"	Q5910H	A17994T	Q5910H	ORF1AB:Q5910H	1509	ORF1b	Q1509H	ORF1B:Q1509H	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	18227	.	A	G	1405	PASS	312	0.205128	0	"247,0,64,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17963A>G	p.Asn5988Ser	17963/21291	17963/21291	5988/7096	5988	7096		",G"	N5988S	A18227G	N5988S	ORF1AB:N5988S	1587	ORF1b	N1587S	ORF1B:N1587S	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	18368	.	G	GT	1995	PASS	186	0.33871	0	"124,0,63,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18109dupT	p.Ser6037fs	18110/21291	18110/21291	6037/7096	6037	7096		"INFO_REALIGN_3_PRIME,GT"	del6037	G18368GT	del6037	ORF1AB:DEL6037	1636	ORF1b	del1636	ORF1B:DEL1636	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	18393	.	TGCTGTACCTACAGGTTATG	T	1444	PASS	191	0.225131	0	"159,0,43,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18130_18148delGCTGTACCTACAGGTTATG	p.Ala6044fs	18130/21291	18130/21291	6044/7096	6044	7096		",T"	del6044	TGCTGTACCTACAGGTTATG18393T	del6044	ORF1AB:DEL6044	1643	ORF1b	del1643	ORF1B:DEL1643	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	18877	.	C	T	378	PASS	19	0.631579	0	"7,0,12,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	19488	.	C	T	8553	PASS	1063	0.301976	0	"742,0,321,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19224C>T	p.Val6408Val	19224/21291	19224/21291	6408/7096	6408	7096		",T"	V6408V	C19488T	V6408V	ORF1AB:V6408V	2007	ORF1b	V2007V	ORF1B:V2007V	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	19983	.	C	T	2068	PASS	222	0.490991	0	"113,0,109,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19719C>T	p.Val6573Val	19719/21291	19719/21291	6573/7096	6573	7096		",T"	V6573V	C19983T	V6573V	ORF1AB:V6573V	2172	ORF1b	V2172V	ORF1B:V2172V	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	20885	.	A	G	9930	PASS	649	0.516179	0	"313,0,335,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20621A>G	p.Lys6874Arg	20621/21291	20621/21291	6874/7096	6874	7096		",G"	K6874R	A20885G	K6874R	ORF1AB:K6874R	2473	ORF1b	K2473R	ORF1B:K2473R	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	23403	.	A	G	3743	PASS	109	1	2147483647	"0,0,109,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	25587	.	C	T	600	PASS	17	1	2147483647	"0,0,17,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.195C>T	p.Leu65Leu	195/828	195/828	65/275	65	275		",T"	L65L	C25587T	L65L	ORF3A:L65L	65	ORF3a	L65L	ORF3A:L65L	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	25776	.	G	T	776	PASS	21	1	2147483647	"0,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.384G>T	p.Trp128Cys	384/828	384/828	128/275	128	275		",T"	W128C	G25776T	W128C	ORF3A:W128C	128	ORF3a	W128C	ORF3A:W128C	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	27575	.	C	T	77	PASS	576	0.015625	0	"567,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.182C>T	p.Thr61Ile	182/366	182/366	61/121	61	121		",T"	T61I	C27575T	T61I	ORF7A:T61I	61	ORF7a	T61I	ORF7A:T61I	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	27585	.	T	C	141	PASS	576	0.022569	0	"563,0,13,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.192T>C	p.Ala64Ala	192/366	192/366	64/121	64	121		",C"	A64A	T27585C	A64A	ORF7A:A64A	64	ORF7a	A64A	ORF7A:A64A	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	27973	.	A	G	10373	PASS	293	1	2147483647	"0,0,293,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.80A>G	p.Gln27Arg	80/366	80/366	27/121	27	121		",G"	Q27R	A27973G	Q27R	ORF8:Q27R	27	ORF8	Q27R	ORF8:Q27R	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	28603	.	C	T	46768	PASS	2474	0.617219	0	"940,0,1527,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.330C>T	p.Phe110Phe	330/1260	330/1260	110/419	110	419		",T"	F110F	C28603T	F110F	N:F110F	110	N	F110F	N:F110F	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	28881	.	G	A	49314	PASS	3727	0.615508	0	"1427,0,2294,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	28882	.	G	A	49314	PASS	3757	0.608997	0	"1460,0,2288,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	28883	.	G	C	49314	PASS	3772	0.613468	0	"1453,0,2314,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	28975	.	G	C	32074	PASS	3739	0.322546	0	"2531,0,1206,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	28987	.	CCAA	C	229	PASS	3429	0.004083	0	"3432,0,14,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES29	NC_045512.2	29067	.	CTAAAGCATACAATG	C	66	PASS	2994	0.00167	0	"2989,0,5,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.798_811delAGCATACAATGTAA	p.Lys266fs	798/1260	798/1260	266/419	266	419		"INFO_REALIGN_3_PRIME,C"	del266	CTAAAGCATACAATG29067C	del266	N:DEL266	266	N	del266	N:DEL266	HES29	HESPERANGE	2020-10-14T00:00:00Z	30.979	33.75	x	14122020	2020-10-14
HES30	NC_045512.2	91	.	G	A	8520	PASS	555	0.52973	0	"261,0,294,0"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-175G>A						NA	175	",A"		G91A		NA	NA	NA		NA	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	241	.	C	T	49314	PASS	2799	0.999285	2147483647	"0,0,2797,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	335	.	C	T	42204	PASS	2970	0.478788	0	"1544,0,1422,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	983	.	T	C	268	PASS	2149	0.014891	0	"2114,0,32,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.718T>C	p.Trp240Arg	718/21291	718/21291	240/7096	240	7096		",C"	W240R	T983C	W240R	ORF1AB:W240R	240	ORF1a	W240R	ORF1A:W240R	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	1206	.	A	C	14726	PASS	2176	0.277114	0	"1572,0,603,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.941A>C	p.Gln314Pro	941/21291	941/21291	314/7096	314	7096		",C"	Q314P	A1206C	Q314P	ORF1AB:Q314P	314	ORF1a	Q314P	ORF1A:Q314P	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	1334	.	T	C	574	PASS	2170	0.021198	0	"2123,0,46,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1069T>C	p.Cys357Arg	1069/21291	1069/21291	357/7096	357	7096		",C"	C357R	T1334C	C357R	ORF1AB:C357R	357	ORF1a	C357R	ORF1A:C357R	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	2375	.	A	G	1080	PASS	104	0.403846	0	"62,0,42,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2110A>G	p.Asn704Asp	2110/21291	2110/21291	704/7096	704	7096		",G"	N704D	A2375G	N704D	ORF1AB:N704D	704	ORF1a	N704D	ORF1A:N704D	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	3037	.	C	T	41722	PASS	1187	0.99663	0	"1,0,1183,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	4543	.	C	T	623	PASS	17	1	2147483647	"0,0,17,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	5599	.	AT	A	48	PASS	94	0.021277	0	"94,0,2,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5337delT	p.Phe1779fs	5337/21291	5337/21291	1779/7096	1779	7096		"INFO_REALIGN_3_PRIME,A"	del1779	AT5599A	del1779	ORF1AB:DEL1779	1779	ORF1a	del1779	ORF1A:DEL1779	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	5629	.	G	T	3397	PASS	94	1	2147483647	"0,0,94,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	6286	.	C	T	6438	PASS	177	1	2147483647	"0,0,177,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	6941	.	C	T	4581	PASS	277	0.555957	0	"123,0,154,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	9526	.	G	T	30923	PASS	891	0.997755	2147483647	"0,0,889,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	13488	.	A	G	5960	PASS	927	0.252427	0	"692,0,234,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13224A>G	p.Ala4408Ala	13224/21291	13224/21291	4408/7096	4408	7096		",G"	A4408A	A13488G	A4408A	ORF1AB:A4408A	7	ORF1b	A7A	ORF1B:A7A	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	13501	.	C	T	309	PASS	705	0.035461	0	"680,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13237C>T	p.Pro4413Ser	13237/21291	13237/21291	4413/7096	4413	7096		",T"	P4413S	C13501T	P4413S	ORF1AB:P4413S	12	ORF1b	P12S	ORF1B:P12S	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	16324	.	T	C	154	PASS	850	0.016471	0	"836,0,14,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16060T>C	p.Cys5354Arg	16060/21291	16060/21291	5354/7096	5354	7096		",C"	C5354R	T16324C	C5354R	ORF1AB:C5354R	953	ORF1b	C953R	ORF1B:C953R	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	17571	.	T	A	120	PASS	802	0.013716	0	"789,0,11,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17307T>A	p.Pro5769Pro	17307/21291	17307/21291	5769/7096	5769	7096		",A"	P5769P	T17571A	P5769P	ORF1AB:P5769P	1368	ORF1b	P1368P	ORF1B:P1368P	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	17809	.	AT	A	1244	PASS	1518	0.034256	0	"1468,0,52,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17549delT	p.Leu5850fs	17549/21291	17549/21291	5850/7096	5850	7096		"INFO_REALIGN_3_PRIME,A"	del5850	AT17809A	del5850	ORF1AB:DEL5850	1449	ORF1b	del1449	ORF1B:DEL1449	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	18877	.	C	T	363	PASS	10	1	2147483647	"0,0,10,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	20620	.	A	G	244	PASS	1276	0.015674	0	"1255,0,20,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20356A>G	p.Lys6786Glu	20356/21291	20356/21291	6786/7096	6786	7096		",G"	K6786E	A20620G	K6786E	ORF1AB:K6786E	2385	ORF1b	K2385E	ORF1B:K2385E	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	20635	.	GA	G	14253	PASS	1323	0.321995	0	"907,0,426,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20374delA	p.Thr6792fs	20374/21291	20374/21291	6792/7096	6792	7096		"INFO_REALIGN_3_PRIME,G"	del6792	GA20635G	del6792	ORF1AB:DEL6792	2391	ORF1b	del2391	ORF1B:DEL2391	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	21101	.	G	GT	4073	PASS	552	0.288043	0	"395,0,159,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843dupT	p.Thr6949fs	20844/21291	20844/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,GT"	del6949	G21101GT	del6949	ORF1AB:DEL6949	2548	ORF1b	del2548	ORF1B:DEL2548	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	21108	.	C	T	92	PASS	515	0.027184	0	"501,0,14,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20844C>T	p.Phe6948Phe	20844/21291	20844/21291	6948/7096	6948	7096		",T"	F6948F	C21108T	F6948F	ORF1AB:F6948F	2547	ORF1b	F2547F	ORF1B:F2547F	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	22992	.	G	A	878	PASS	261	0.16092	0	"218,0,42,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	23403	.	A	G	7189	PASS	206	1	2147483647	"0,0,206,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25216	.	A	T	86	PASS	399	0.032581	0	"385,0,13,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25244	.	G	T	121	PASS	445	0.042697	0	"426,0,19,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25247	.	A	T	97	PASS	445	0.040449	0	"426,0,18,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25254	.	C	A	115	PASS	467	0.042827	0	"445,0,20,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25277	.	A	T	201	PASS	446	0.069507	0	"411,0,31,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25286	.	A	T	113	PASS	449	0.053452	0	"419,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25296	.	A	C	232	PASS	445	0.085393	0	"384,0,38,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25296	.	A	T	94	PASS	445	0.051685	0	"384,0,23,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25314	.	G	T	69	PASS	461	0.047722	0	"438,0,22,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25323	.	G	C	117	PASS	459	0.061002	0	"424,0,28,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25324	.	C	A	1158	PASS	465	0.212903	0	"366,0,99,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25331	.	G	T	94	PASS	465	0.058065	0	"431,0,27,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25334	.	G	C	84	PASS	462	0.056277	0	"422,0,26,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25336	.	A	C	470	PASS	469	0.140725	0	"403,0,66,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	25337	.	G	C	221	PASS	441	0.097506	0	"397,0,43,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	26735	.	C	T	2364	PASS	674	0.15727	0	"568,0,106,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	26801	.	C	G	16375	PASS	683	0.7306	0	"183,0,499,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	26876	.	T	C	4941	PASS	439	0.400911	0	"262,0,176,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	27434	.	C	T	612	PASS	462	0.069264	0	"429,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	28254	.	A	C	261	PASS	1838	0.018498	0	"1802,0,34,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	28651	.	C	T	9506	PASS	3314	0.133977	0	"2869,0,444,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	28869	.	C	T	8968	PASS	4439	0.104753	0	"3964,0,465,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	28932	.	C	T	49314	PASS	4365	0.46575	0	"2329,0,2033,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	28975	.	G	C	47844	PASS	3979	0.42096	0	"2302,0,1675,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	28987	.	CCAA	C	265	PASS	3654	0.004379	0	"3655,0,16,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES30	NC_045512.2	29014	.	TA	T	47	PASS	3638	0.0011	0	"3634,0,4,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.743delA	p.Lys248fs	743/1260	743/1260	248/419	248	419		"INFO_REALIGN_3_PRIME,T"	del248	TA29014T	del248	N:DEL248	248	N	del248	N:DEL248	HES30	HESPERANGE	2020-10-20T00:00:00Z	29.934	33.39666667	x	14122020	2020-10-20
HES32	NC_045512.2	91	.	G	A	2190	PASS	573	0.165794	0	"476,0,95,0"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-175G>A						NA	175	",A"		G91A		NA	NA	NA		NA	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	241	.	C	T	49314	PASS	2667	0.9985	0	"2,0,2663,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	335	.	C	T	14644	PASS	2807	0.209476	0	"2217,0,588,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	445	.	T	C	17054	PASS	3178	0.235053	0	"2428,0,747,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	457	.	T	C	6769	PASS	3258	0.100061	0	"2931,0,326,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.192T>C	p.Leu64Leu	192/21291	192/21291	64/7096	64	7096		",C"	L64L	T457C	L64L	ORF1AB:L64L	64	ORF1a	L64L	ORF1A:L64L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	1113	.	C	T	4095	PASS	1108	0.159747	0	"931,0,177,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.848C>T	p.Thr283Ile	848/21291	848/21291	283/7096	283	7096		",T"	T283I	C1113T	T283I	ORF1AB:T283I	283	ORF1a	T283I	ORF1A:T283I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	1383	.	G	T	838	PASS	1496	0.042781	0	"1432,0,64,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1118G>T	p.Cys373Phe	1118/21291	1118/21291	373/7096	373	7096		",T"	C373F	G1383T	C373F	ORF1AB:C373F	373	ORF1a	C373F	ORF1A:C373F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	1437	.	C	T	782	PASS	1667	0.034193	0	"1609,0,57,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1172C>T	p.Ser391Phe	1172/21291	1172/21291	391/7096	391	7096		",T"	S391F	C1437T	S391F	ORF1AB:S391F	391	ORF1a	S391F	ORF1A:S391F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	1513	.	C	T	4872	PASS	1958	0.123085	0	"1711,0,241,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1248C>T	p.Cys416Cys	1248/21291	1248/21291	416/7096	416	7096		",T"	C416C	C1513T	C416C	ORF1AB:C416C	416	ORF1a	C416C	ORF1A:C416C	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	1929	.	C	A	4526	PASS	1550	0.132903	0	"1344,0,206,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1664C>A	p.Ala555Asp	1664/21291	1664/21291	555/7096	555	7096		",A"	A555D	C1929A	A555D	ORF1AB:A555D	555	ORF1a	A555D	ORF1A:A555D	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	2815	.	TA	T	2014	PASS	1254	0.061404	0	"1177,0,77,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2553delA	p.Val852fs	2553/21291	2553/21291	851/7096	851	7096		"INFO_REALIGN_3_PRIME,T"	del852	TA2815T	del852	ORF1AB:DEL852	852	ORF1a	del852	ORF1A:DEL852	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	3037	.	C	T	34629	PASS	996	0.998996	0	"1,0,995,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	3602	.	C	T	238	PASS	49	0.183673	0	"40,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	4040	.	A	G	718	PASS	161	0.186335	0	"131,0,30,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	4543	.	C	T	187	PASS	18	0.388889	0	"11,0,7,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	4984	.	A	T	2135	PASS	867	0.11534	0	"767,0,100,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4719A>T	p.Thr1573Thr	4719/21291	4719/21291	1573/7096	1573	7096		",T"	T1573T	A4984T	T1573T	ORF1AB:T1573T	1573	ORF1a	T1573T	ORF1A:T1573T	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	5224	.	TAA	T	1320	PASS	1213	0.046167	0	"1156,0,56,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4963_4964delAA	p.Lys1655fs	4963/21291	4963/21291	1655/7096	1655	7096		"INFO_REALIGN_3_PRIME,T"	del1655	TAA5224T	del1655	ORF1AB:DEL1655	1655	ORF1a	del1655	ORF1A:DEL1655	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	5497	.	CA	C	952	PASS	613	0.058728	0	"577,0,36,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5236delA	p.Arg1746fs	5236/21291	5236/21291	1746/7096	1746	7096		"INFO_REALIGN_3_PRIME,C"	del1746	CA5497C	del1746	ORF1AB:DEL1746	1746	ORF1a	del1746	ORF1A:DEL1746	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	5629	.	G	T	4710	PASS	294	0.537415	0	"136,0,158,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	5826	.	CA	C	550	PASS	219	0.091324	0	"199,0,20,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5564delA	p.Lys1855fs	5564/21291	5564/21291	1855/7096	1855	7096		"INFO_REALIGN_3_PRIME,C"	del1855	CA5826C	del1855	ORF1AB:DEL1855	1855	ORF1a	del1855	ORF1A:DEL1855	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	6197	.	T	C	663	PASS	630	0.060317	0	"591,0,38,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5932T>C	p.Ser1978Pro	5932/21291	5932/21291	1978/7096	1978	7096		",C"	S1978P	T6197C	S1978P	ORF1AB:S1978P	1978	ORF1a	S1978P	ORF1A:S1978P	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	6286	.	C	T	2316	PASS	721	0.148405	0	"613,0,107,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	6366	.	A	T	1011	PASS	712	0.074438	0	"657,0,53,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6101A>T	p.Gln2034Leu	6101/21291	6101/21291	2034/7096	2034	7096		",T"	Q2034L	A6366T	Q2034L	ORF1AB:Q2034L	2034	ORF1a	Q2034L	ORF1A:Q2034L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	6504	.	C	T	1367	PASS	594	0.114478	0	"525,0,68,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6239C>T	p.Ala2080Val	6239/21291	6239/21291	2080/7096	2080	7096		",T"	A2080V	C6504T	A2080V	ORF1AB:A2080V	2080	ORF1a	A2080V	ORF1A:A2080V	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	6696	.	C	CT	662	PASS	214	0.107477	0	"191,0,23,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	7594	.	C	CT	164	PASS	104	0.057692	0	"98,0,6,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7333dupT	p.Cys2445fs	7334/21291	7334/21291	2445/7096	2445	7096		"INFO_REALIGN_3_PRIME,CT"	del2445	C7594CT	del2445	ORF1AB:DEL2445	2445	ORF1a	del2445	ORF1A:DEL2445	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	7936	.	G	T	1094	PASS	181	0.243094	0	"137,0,44,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7671G>T	p.Ala2557Ala	7671/21291	7671/21291	2557/7096	2557	7096		",T"	A2557A	G7936T	A2557A	ORF1AB:A2557A	2557	ORF1a	A2557A	ORF1A:A2557A	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	8035	.	GT	G	1387	PASS	172	0.25	0	"129,0,43,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7773delT	p.Phe2591fs	7773/21291	7773/21291	2591/7096	2591	7096		"INFO_REALIGN_3_PRIME,G"	del2591	GT8035G	del2591	ORF1AB:DEL2591	2591	ORF1a	del2591	ORF1A:DEL2591	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	8784	.	A	G	183	PASS	255	0.047059	0	"242,0,12,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8519A>G	p.Gln2840Arg	8519/21291	8519/21291	2840/7096	2840	7096		",G"	Q2840R	A8784G	Q2840R	ORF1AB:Q2840R	2840	ORF1a	Q2840R	ORF1A:Q2840R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	8872	.	G	C	603	PASS	209	0.129187	0	"182,0,27,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8607G>C	p.Leu2869Phe	8607/21291	8607/21291	2869/7096	2869	7096		",C"	L2869F	G8872C	L2869F	ORF1AB:L2869F	2869	ORF1a	L2869F	ORF1A:L2869F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	8905	.	C	CT	146	PASS	172	0.034884	0	"166,0,6,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8645dupT	p.Leu2882fs	8646/21291	8646/21291	2882/7096	2882	7096		"INFO_REALIGN_3_PRIME,CT"	del2882	C8905CT	del2882	ORF1AB:DEL2882	2882	ORF1a	del2882	ORF1A:DEL2882	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	9440	.	T	G	990	PASS	1858	0.036598	0	"1788,0,68,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9175T>G	p.Cys3059Gly	9175/21291	9175/21291	3059/7096	3059	7096		",G"	C3059G	T9440G	C3059G	ORF1AB:C3059G	3059	ORF1a	C3059G	ORF1A:C3059G	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	9526	.	G	T	32823	PASS	2413	0.474099	0	"1269,0,1144,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	9772	.	TG	T	7932	PASS	2844	0.109353	0	"2534,0,311,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9508delG	p.Val3170fs	9508/21291	9508/21291	3170/7096	3170	7096		",T"	del3170	TG9772T	del3170	ORF1AB:DEL3170	3170	ORF1a	del3170	ORF1A:DEL3170	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	9948	.	A	T	2616	PASS	1866	0.081458	0	"1714,0,152,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9683A>T	p.Glu3228Val	9683/21291	9683/21291	3228/7096	3228	7096		",T"	E3228V	A9948T	E3228V	ORF1AB:E3228V	3228	ORF1a	E3228V	ORF1A:E3228V	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	10043	.	G	C	774	PASS	1309	0.040489	0	"1256,0,53,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9778G>C	p.Ala3260Pro	9778/21291	9778/21291	3260/7096	3260	7096		",C"	A3260P	G10043C	A3260P	ORF1AB:A3260P	3260	ORF1a	A3260P	ORF1A:A3260P	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	10605	.	CT	C	1269	PASS	669	0.074738	0	"619,0,50,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10344delT	p.Phe3448fs	10344/21291	10344/21291	3448/7096	3448	7096		"INFO_REALIGN_3_PRIME,C"	del3448	CT10605C	del3448	ORF1AB:DEL3448	3448	ORF1a	del3448	ORF1A:DEL3448	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	10795	.	T	C	145	PASS	641	0.023401	0	"626,0,15,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10530T>C	p.Val3510Val	10530/21291	10530/21291	3510/7096	3510	7096		",C"	V3510V	T10795C	V3510V	ORF1AB:V3510V	3510	ORF1a	V3510V	ORF1A:V3510V	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	11075	.	T	C	479	PASS	593	0.062395	0	"552,0,37,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10810T>C	p.Phe3604Leu	10810/21291	10810/21291	3604/7096	3604	7096		",C"	F3604L	T11075C	F3604L	ORF1AB:F3604L	3604	ORF1a	F3604L	ORF1A:F3604L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	11083	.	G	T	474	PASS	676	0.053254	0	"640,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	11350	.	G	T	978	PASS	278	0.154676	0	"235,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11085G>T	p.Met3695Ile	11085/21291	11085/21291	3695/7096	3695	7096		",T"	M3695I	G11350T	M3695I	ORF1AB:M3695I	3695	ORF1a	M3695I	ORF1A:M3695I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	11456	.	A	T	1590	PASS	290	0.224138	0	"225,0,65,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11191A>T	p.Ile3731Phe	11191/21291	11191/21291	3731/7096	3731	7096		",T"	I3731F	A11456T	I3731F	ORF1AB:I3731F	3731	ORF1a	I3731F	ORF1A:I3731F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	11497	.	C	T	3389	PASS	259	0.451737	0	"141,0,117,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	11747	.	C	T	308	PASS	118	0.118644	0	"104,0,14,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11482C>T	p.Leu3828Leu	11482/21291	11482/21291	3828/7096	3828	7096		",T"	L3828L	C11747T	L3828L	ORF1AB:L3828L	3828	ORF1a	L3828L	ORF1A:L3828L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	12876	.	CTA	C	930	PASS	1673	0.025105	0	"1631,0,42,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12613_12614delAT	p.Ile4205fs	12613/21291	12613/21291	4205/7096	4205	7096		"INFO_REALIGN_3_PRIME,C"	del4205	CTA12876C	del4205	ORF1AB:DEL4205	4205	ORF1a	del4205	ORF1A:DEL4205	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	12880	.	C	T	503	PASS	1744	0.023509	0	"1701,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12615C>T	p.Ile4205Ile	12615/21291	12615/21291	4205/7096	4205	7096		",T"	I4205I	C12880T	I4205I	ORF1AB:I4205I	4205	ORF1a	I4205I	ORF1A:I4205I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	12900	.	CT	C	929	PASS	1602	0.024969	0	"1562,0,40,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12637delT	p.Cys4213fs	12637/21291	12637/21291	4213/7096	4213	7096		"INFO_REALIGN_3_PRIME,C"	del4213	CT12900C	del4213	ORF1AB:DEL4213	4213	ORF1a	del4213	ORF1A:DEL4213	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	13123	.	T	C	10143	PASS	2637	0.175958	0	"2171,0,464,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12858T>C	p.Ser4286Ser	12858/21291	12858/21291	4286/7096	4286	7096		",C"	S4286S	T13123C	S4286S	ORF1AB:S4286S	4286	ORF1a	S4286S	ORF1A:S4286S	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	13993	.	G	T	8776	PASS	515	0.563107	0	"225,0,290,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	14408	.	C	T	369	PASS	10	1	2147483647	"0,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	15237	.	C	T	2985	PASS	912	0.151316	0	"772,0,138,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14973C>T	p.His4991His	14973/21291	14973/21291	4991/7096	4991	7096		",T"	H4991H	C15237T	H4991H	ORF1AB:H4991H	590	ORF1b	H590H	ORF1B:H590H	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	15324	.	C	T	834	PASS	407	0.100737	0	"366,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	15638	.	GA	G	1448	PASS	300	0.163333	0	"252,0,49,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15377delA	p.Asn5126fs	15377/21291	15377/21291	5126/7096	5126	7096		"INFO_REALIGN_3_PRIME,G"	del5126	GA15638G	del5126	ORF1AB:DEL5126	725	ORF1b	del725	ORF1B:DEL725	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	15766	.	G	T	2385	PASS	285	0.308772	0	"197,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	15906	.	G	T	91	PASS	110	0.045455	0	"105,0,5,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15642G>T	p.Gln5214His	15642/21291	15642/21291	5214/7096	5214	7096		",T"	Q5214H	G15906T	Q5214H	ORF1AB:Q5214H	813	ORF1b	Q813H	ORF1B:Q813H	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	16376	.	CG	C	55	PASS	2226	0.001797	0	"2222,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16113delG	p.Tyr5372fs	16113/21291	16113/21291	5371/7096	5371	7096		",C"	del5372	CG16376C	del5372	ORF1AB:DEL5372	971	ORF1b	del971	ORF1B:DEL971	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	16769	.	GA	G	8858	PASS	3047	0.103052	0	"2733,0,314,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16508delA	p.Asn5503fs	16508/21291	16508/21291	5503/7096	5503	7096		"INFO_REALIGN_3_PRIME,G"	del5503	GA16769G	del5503	ORF1AB:DEL5503	1102	ORF1b	del1102	ORF1B:DEL1102	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	16795	.	G	T	29794	PASS	3344	0.331041	0	"2233,0,1107,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16531G>T	p.Val5511Leu	16531/21291	16531/21291	5511/7096	5511	7096		",T"	V5511L	G16795T	V5511L	ORF1AB:V5511L	1110	ORF1b	V1110L	ORF1B:V1110L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	16837	.	GA	G	58	PASS	2832	0.001766	0	"2831,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	16889	.	A	G	13478	PASS	2583	0.209446	0	"2041,0,541,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	17019	.	G	T	4831	PASS	1212	0.172442	0	"1003,0,209,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	17874	.	C	T	22462	PASS	2060	0.393204	0	"1248,0,810,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17610C>T	p.Phe5870Phe	17610/21291	17610/21291	5870/7096	5870	7096		",T"	F5870F	C17874T	F5870F	ORF1AB:F5870F	1469	ORF1b	F1469F	ORF1B:F1469F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	18659	.	GTT	G	231	PASS	867	0.012687	0	"856,0,11,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18396_18397delTT	p.Cys6132fs	18396/21291	18396/21291	6132/7096	6132	7096		",G"	del6132	GTT18659G	del6132	ORF1AB:DEL6132	1731	ORF1b	del1731	ORF1B:DEL1731	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	18782	.	GT	G	51	PASS	2270	0.001762	0	"2270,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18522delT	p.Phe6174fs	18522/21291	18522/21291	6174/7096	6174	7096		"INFO_REALIGN_3_PRIME,G"	del6174	GT18782G	del6174	ORF1AB:DEL6174	1773	ORF1b	del1773	ORF1B:DEL1773	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	18875	.	G	T	4571	PASS	2848	0.086025	0	"2602,0,245,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18611G>T	p.Cys6204Phe	18611/21291	18611/21291	6204/7096	6204	7096		",T"	C6204F	G18875T	C6204F	ORF1AB:C6204F	1803	ORF1b	C1803F	ORF1B:C1803F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	18877	.	C	T	42127	PASS	2764	0.51013	0	"1354,0,1410,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	18949	.	A	G	377	PASS	3687	0.010849	0	"3646,0,40,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18685A>G	p.Lys6229Glu	18685/21291	18685/21291	6229/7096	6229	7096		",G"	K6229E	A18949G	K6229E	ORF1AB:K6229E	1828	ORF1b	K1828E	ORF1B:K1828E	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	19260	.	TA	T	63	PASS	2967	0.001685	0	"2962,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18998delA	p.Asn6333fs	18998/21291	18998/21291	6333/7096	6333	7096		"INFO_REALIGN_3_PRIME,T"	del6333	TA19260T	del6333	ORF1AB:DEL6333	1932	ORF1b	del1932	ORF1B:DEL1932	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	19524	.	C	T	1909	PASS	1112	0.091727	0	"1009,0,102,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	19868	.	CTG	C	53	PASS	740	0.004054	0	"737,0,3,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19607_19608delTG	p.Val6536fs	19607/21291	19607/21291	6536/7096	6536	7096		"INFO_REALIGN_3_PRIME,C"	del6536	CTG19868C	del6536	ORF1AB:DEL6536	2135	ORF1b	del2135	ORF1B:DEL2135	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	20009	.	A	G	141	PASS	119	0.067227	0	"111,0,8,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19745A>G	p.Gln6582Arg	19745/21291	19745/21291	6582/7096	6582	7096		",G"	Q6582R	A20009G	Q6582R	ORF1AB:Q6582R	2181	ORF1b	Q2181R	ORF1B:Q2181R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	21066	.	TA	T	74	PASS	1316	0.003799	0	"1311,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20807delA	p.Asn6936fs	20807/21291	20807/21291	6936/7096	6936	7096		"INFO_REALIGN_3_PRIME,T"	del6936	TA21066T	del6936	ORF1AB:DEL6936	2535	ORF1b	del2535	ORF1B:DEL2535	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	21133	.	CA	C	3120	PASS	1192	0.098154	0	"1075,0,117,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20873delA	p.Lys6958fs	20873/21291	20873/21291	6958/7096	6958	7096		"INFO_REALIGN_3_PRIME,C"	del6958	CA21133C	del6958	ORF1AB:DEL6958	2557	ORF1b	del2557	ORF1B:DEL2557	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	21255	.	G	C	10232	PASS	1411	0.2764	0	"1019,0,390,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	21550	.	A	G	114	PASS	1049	0.012393	0	"1036,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21286A>G	p.Asn7096Asp	21286/21291	21286/21291	7096/7096	7096	7096		",G"	N7096D	A21550G	N7096D	ORF1AB:N7096D	2695	ORF1b	N2695D	ORF1B:N2695D	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	21855	.	C	T	1310	PASS	86	0.511628	0	"42,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	22227	.	C	T	282	PASS	32	0.375	0	"20,0,12,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	22587	.	TTA	T	57	PASS	24	0.083333	0	"22,0,2,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1026_1027delTA	p.Phe342fs	1026/3822	1026/3822	342/1273	342	1273		",T"	del342	TTA22587T	del342	S:DEL342	342	S	del342	S:DEL342	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	22706	.	G	T	238	PASS	106	0.103774	0	"95,0,11,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1144G>T	p.Val382Leu	1144/3822	1144/3822	382/1273	382	1273		",T"	V382L	G22706T	V382L	S:V382L	382	S	V382L	S:V382L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	22992	.	G	A	2611	PASS	180	0.494444	0	"91,0,89,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	23029	.	C	CT	562	PASS	171	0.111111	0	"152,0,19,0"	TRUE	CT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1470dupT	p.Pro491fs	1471/3822	1471/3822	491/1273	491	1273		"INFO_REALIGN_3_PRIME,CT"	del491	C23029CT	del491	S:DEL491	491	S	del491	S:DEL491	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	23125	.	A	G	265	PASS	220	0.077273	0	"203,0,17,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1563A>G	p.Pro521Pro	1563/3822	1563/3822	521/1273	521	1273		",G"	P521P	A23125G	P521P	S:P521P	521	S	P521P	S:P521P	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	23183	.	TTCAACTTCAATGGTTTA	T	146	PASS	271	0.02214	0	"266,0,6,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1622_1638delTCAACTTCAATGGTTTA	p.Phe541fs	1622/3822	1622/3822	541/1273	541	1273		",T"	del541	TTCAACTTCAATGGTTTA23183T	del541	S:DEL541	541	S	del541	S:DEL541	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	23403	.	A	G	15087	PASS	432	1	2147483647	"0,0,432,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	23958	.	G	GT	527	PASS	226	0.088496	0	"212,0,20,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25015	.	G	A	398	PASS	676	0.035503	0	"652,0,24,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3453G>A	p.Glu1151Glu	3453/3822	3453/3822	1151/1273	1151	1273		",A"	E1151E	G25015A	E1151E	S:E1151E	1151	S	E1151E	S:E1151E	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25047	.	C	G	1072	PASS	870	0.074713	0	"804,0,65,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3485C>G	p.Pro1162Arg	3485/3822	3485/3822	1162/1273	1162	1273		",G"	P1162R	C25047G	P1162R	S:P1162R	1162	S	P1162R	S:P1162R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25126	.	G	A	605	PASS	653	0.05513	0	"614,0,36,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3564G>A	p.Glu1188Glu	3564/3822	3564/3822	1188/1273	1188	1273		",A"	E1188E	G25126A	E1188E	S:E1188E	1188	S	E1188E	S:E1188E	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25191	.	TA	T	2144	PASS	679	0.113402	0	"614,0,77,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3633delA	p.Lys1211fs	3633/3822	3633/3822	1211/1273	1211	1273		"INFO_REALIGN_3_PRIME,T"	del1211	TA25191T	del1211	S:DEL1211	1211	S	del1211	S:DEL1211	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25216	.	A	T	120	PASS	611	0.032733	0	"588,0,20,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25240	.	C	A	187	PASS	630	0.047619	0	"599,0,30,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25247	.	A	T	119	PASS	653	0.035222	0	"628,0,23,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25254	.	C	A	141	PASS	693	0.037518	0	"665,0,26,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25273	.	G	C	92	PASS	669	0.032885	0	"642,0,22,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25277	.	A	T	171	PASS	660	0.05	0	"620,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25286	.	A	T	239	PASS	682	0.060117	0	"632,0,41,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25296	.	A	C	344	PASS	674	0.078635	0	"592,0,53,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25296	.	A	T	101	PASS	674	0.040059	0	"592,0,27,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25312	.	T	G	100	PASS	674	0.038576	0	"647,0,26,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25317	.	C	T	1068	PASS	677	0.110783	0	"600,0,75,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25323	.	G	C	182	PASS	659	0.062215	0	"611,0,41,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25324	.	C	A	1217	PASS	662	0.173716	0	"547,0,115,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25327	.	A	T	119	PASS	669	0.050822	0	"635,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25331	.	G	T	104	PASS	668	0.049401	0	"628,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25334	.	G	C	243	PASS	665	0.076692	0	"599,0,51,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25336	.	A	C	677	PASS	669	0.136024	0	"578,0,91,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25337	.	G	C	327	PASS	642	0.0919	0	"582,0,59,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25505	.	A	G	3743	PASS	642	0.235202	0	"491,0,151,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25563	.	G	T	6981	PASS	660	0.374242	0	"413,0,247,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25587	.	C	T	658	PASS	710	0.056338	0	"670,0,40,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.195C>T	p.Leu65Leu	195/828	195/828	65/275	65	275		",T"	L65L	C25587T	L65L	ORF3A:L65L	65	ORF3a	L65L	ORF3A:L65L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25710	.	C	T	6808	PASS	566	0.425795	0	"325,0,241,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25776	.	G	T	1925	PASS	409	0.198044	0	"328,0,81,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.384G>T	p.Trp128Cys	384/828	384/828	128/275	128	275		",T"	W128C	G25776T	W128C	ORF3A:W128C	128	ORF3a	W128C	ORF3A:W128C	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25906	.	G	C	745	PASS	422	0.094787	0	"381,0,40,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	25996	.	G	T	986	PASS	445	0.105618	0	"398,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	26157	.	TGTTAATCCAGTA	T	1371	PASS	815	0.068712	0	"759,0,56,0"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.766_777delGTTAATCCAGTA	p.Val256_Val259del	766/828	766/828	256/275	256	275		",T"	del256/259	TGTTAATCCAGTA26157T	del256/259	ORF3A:DEL256/259	256/259	ORF3a	del256/259	ORF3A:DEL256/259	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	26478	.	CTAAA	C	2786	PASS	1565	0.066454	0	"1461,0,104,0"	TRUE	C	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-44_-41delTAAA						NA	44	",C"	del	CTAAA26478C	del	M:DEL	NA	M	del	M:DEL	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	26482	.	A	C	99	PASS	1626	0.009225	0	"1507,0,15,0"	FALSE	C	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-41A>C						NA	41	",C"		A26482C		NA	NA	M		NA	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	26735	.	C	T	17710	PASS	1080	0.537963	0	"498,0,581,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	26801	.	C	G	8484	PASS	932	0.328326	0	"626,0,306,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	26876	.	T	C	6446	PASS	468	0.485043	0	"241,0,227,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	27246	.	A	T	111	PASS	490	0.018367	0	"481,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.45A>T	p.Leu15Phe	45/186	45/186	15/61	15	61		",T"	L15F	A27246T	L15F	ORF6:L15F	15	ORF6	L15F	ORF6:L15F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	27249	.	A	G	745	PASS	496	0.078629	0	"457,0,39,0"	FALSE	G	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.48A>G	p.Leu16Leu	48/186	48/186	16/61	16	61		",G"	L16L	A27249G	L16L	ORF6:L16L	16	ORF6	L16L	ORF6:L16L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	27401	.	T	C	3114	PASS	925	0.147027	0	"789,0,136,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.8T>C	p.Ile3Thr	8/366	8/366	3/121	3	121		",C"	I3T	T27401C	I3T	ORF7A:I3T	3	ORF7a	I3T	ORF7A:I3T	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	27434	.	C	T	3761	PASS	1088	0.157169	0	"917,0,171,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	27639	.	T	C	2624	PASS	1682	0.08918	0	"1532,0,150,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.246T>C	p.Val82Val	246/366	246/366	82/121	82	121		",C"	V82V	T27639C	V82V	ORF7A:V82V	82	ORF7a	V82V	ORF7A:V82V	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	27944	.	C	T	3417	PASS	1282	0.127145	0	"1118,0,163,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28254	.	A	C	152	PASS	537	0.027933	0	"520,0,15,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28361	.	G	C	700	PASS	1506	0.037849	0	"1448,0,57,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.88G>C	p.Gly30Arg	88/1260	88/1260	30/419	30	419		",C"	G30R	G28361C	G30R	N:G30R	30	N	G30R	N:G30R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28395	.	G	A	7869	PASS	1414	0.229844	0	"1088,0,325,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.122G>A	p.Arg41Gln	122/1260	122/1260	41/419	41	419		",A"	R41Q	G28395A	R41Q	N:R41Q	41	N	R41Q	N:R41Q	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28603	.	C	T	8390	PASS	2078	0.174206	0	"1710,0,362,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.330C>T	p.Phe110Phe	330/1260	330/1260	110/419	110	419		",T"	F110F	C28603T	F110F	N:F110F	110	N	F110F	N:F110F	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28645	.	T	C	211	PASS	1849	0.017847	0	"1816,0,33,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.372T>C	p.Gly124Gly	372/1260	372/1260	124/419	124	419		",C"	G124G	T28645C	G124G	N:G124G	124	N	G124G	N:G124G	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28651	.	C	T	6176	PASS	1923	0.147166	0	"1639,0,283,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28869	.	C	T	7197	PASS	2380	0.140336	0	"2045,0,334,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28881	.	G	A	2455	PASS	2259	0.069057	0	"2102,0,156,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28882	.	G	A	2237	PASS	2292	0.066754	0	"2137,0,153,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28883	.	G	C	2460	PASS	2288	0.067308	0	"2133,0,154,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28887	.	C	T	4348	PASS	2246	0.108192	0	"1999,0,243,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28918	.	TG	T	5266	PASS	2250	0.098667	0	"2028,0,222,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.646delG	p.Asp216fs	646/1260	646/1260	216/419	216	419		",T"	del216	TG28918T	del216	N:DEL216	216	N	del216	N:DEL216	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28932	.	C	T	15101	PASS	2238	0.269437	0	"1633,0,603,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28960	.	G	T	1912	PASS	2113	0.054425	0	"1998,0,115,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.687G>T	p.Gln229His	687/1260	687/1260	229/419	229	419		",T"	Q229H	G28960T	Q229H	N:Q229H	229	N	Q229H	N:Q229H	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28975	.	G	C	24321	PASS	2125	0.402824	0	"1093,0,856,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES32	NC_045512.2	28975	.	G	T	49314	PASS	2125	0.082824	0	"1093,0,176,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>T	p.Met234Ile	702/1260	702/1260	234/419	234	419		",T"	M234I	G28975T	M234I	N:M234I	234	N	M234I	N:M234I	HES32	HESPERANGE	2020-11-01T00:00:00Z	30.397	34.35666667	x	14122020	2020-11-01
HES34	NC_045512.2	148	.	T	C	166	PASS	973	0.021583	0	"949,0,21,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-118T>C						NA	118	",C"		T148C		NA	NA	NA		NA	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	241	.	C	T	49314	PASS	1573	0.996821	2147483647	"0,0,1568,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	335	.	C	T	2975	PASS	1608	0.110697	0	"1427,0,178,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	445	.	T	C	8168	PASS	1848	0.249459	0	"1376,0,461,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	593	.	C	T	10683	PASS	1546	0.282665	0	"1107,0,437,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	823	.	C	T	3927	PASS	872	0.211009	0	"685,0,184,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	1181	.	G	T	5036	PASS	363	0.490358	0	"185,0,178,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.916G>T	p.Val306Phe	916/21291	916/21291	306/7096	306	7096		",T"	V306F	G1181T	V306F	ORF1AB:V306F	306	ORF1a	V306F	ORF1A:V306F	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	2463	.	TA	T	680	PASS	266	0.097744	0	"240,0,26,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2202delA	p.Ala735fs	2202/21291	2202/21291	734/7096	734	7096		"INFO_REALIGN_3_PRIME,T"	del735	TA2463T	del735	ORF1AB:DEL735	735	ORF1a	del735	ORF1A:DEL735	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	2907	.	A	G	1628	PASS	741	0.145749	0	"631,0,108,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2642A>G	p.Lys881Arg	2642/21291	2642/21291	881/7096	881	7096		",G"	K881R	A2907G	K881R	ORF1AB:K881R	881	ORF1a	K881R	ORF1A:K881R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	3037	.	C	T	17716	PASS	534	0.992509	0	"1,0,530,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	3592	.	T	C	68	PASS	13	0.230769	0	"9,0,3,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	4543	.	C	T	2143	PASS	124	0.58871	0	"51,0,73,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	4960	.	G	T	149	PASS	144	0.0625	0	"135,0,9,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4695G>T	p.Val1565Val	4695/21291	4695/21291	1565/7096	1565	7096		",T"	V1565V	G4960T	V1565V	ORF1AB:V1565V	1565	ORF1a	V1565V	ORF1A:V1565V	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	5629	.	G	T	2023	PASS	57	1	2147483647	"0,0,57,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	5656	.	A	G	770	PASS	58	0.482759	0	"30,0,28,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5391A>G	p.Leu1797Leu	5391/21291	5391/21291	1797/7096	1797	7096		",G"	L1797L	A5656G	L1797L	ORF1AB:L1797L	1797	ORF1a	L1797L	ORF1A:L1797L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	5907	.	CT	C	194	PASS	34	0.176471	0	"28,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5644delT	p.Tyr1882fs	5644/21291	5644/21291	1882/7096	1882	7096		"INFO_REALIGN_3_PRIME,C"	del1882	CT5907C	del1882	ORF1AB:DEL1882	1882	ORF1a	del1882	ORF1A:DEL1882	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	6130	.	TA	T	58	PASS	37	0.054054	0	"35,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5868delA	p.Val1957fs	5868/21291	5868/21291	1956/7096	1956	7096		"INFO_REALIGN_3_PRIME,T"	del1957	TA6130T	del1957	ORF1AB:DEL1957	1957	ORF1a	del1957	ORF1A:DEL1957	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	6286	.	C	T	452	PASS	42	0.404762	0	"24,0,17,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	8638	.	A	G	99	PASS	49	0.142857	0	"42,0,7,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8373A>G	p.Thr2791Thr	8373/21291	8373/21291	2791/7096	2791	7096		",G"	T2791T	A8638G	T2791T	ORF1AB:T2791T	2791	ORF1a	T2791T	ORF1A:T2791T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	9060	.	ATT	A	751	PASS	300	0.1	0	"271,0,30,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8796_8797delTT	p.Tyr2932fs	8796/21291	8796/21291	2932/7096	2932	7096		",A"	del2932	ATT9060A	del2932	ORF1AB:DEL2932	2932	ORF1a	del2932	ORF1A:DEL2932	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	9526	.	G	T	5062	PASS	434	0.453917	0	"234,0,197,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	11074	.	C	CT	88	PASS	389	0.020566	0	"381,0,8,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817dupT	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,CT"	del3606	C11074CT	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	11074	.	CT	C	1247	PASS	389	0.167095	0	"324,0,65,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	11075	.	T	C	1077	PASS	390	0.184615	0	"252,0,72,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10810T>C	p.Phe3604Leu	10810/21291	10810/21291	3604/7096	3604	7096		",C"	F3604L	T11075C	F3604L	ORF1AB:F3604L	3604	ORF1a	F3604L	ORF1A:F3604L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	11096	.	TTTTTACC	T	1802	PASS	431	0.143852	0	"369,0,62,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10836_10842delACCTTTT	p.Pro3613fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,T"	del3613	TTTTTACC11096T	del3613	ORF1AB:DEL3613	3613	ORF1a	del3613	ORF1A:DEL3613	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	11497	.	C	T	6831	PASS	429	0.564103	0	"186,0,242,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	11521	.	GT	G	876	PASS	380	0.089474	0	"347,0,34,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11261delT	p.Leu3754fs	11261/21291	11261/21291	3754/7096	3754	7096		"INFO_REALIGN_3_PRIME,G"	del3754	GT11521G	del3754	ORF1AB:DEL3754	3754	ORF1a	del3754	ORF1A:DEL3754	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	11567	.	A	AT	2167	PASS	347	0.207493	0	"276,0,72,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11306dupT	p.Phe3770fs	11307/21291	11307/21291	3769/7096	3769	7096		"INFO_REALIGN_3_PRIME,AT"	del3770	A11567AT	del3770	ORF1AB:DEL3770	3770	ORF1a	del3770	ORF1A:DEL3770	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	12436	.	T	C	2619	PASS	143	0.629371	0	"52,0,90,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	13258	.	T	C	5026	PASS	1119	0.238606	0	"847,0,267,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12993T>C	p.Arg4331Arg	12993/21291	12993/21291	4331/7096	4331	7096		",C"	R4331R	T13258C	R4331R	ORF1AB:R4331R	4331	ORF1a	R4331R	ORF1A:R4331R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	13334	.	G	A	2467	PASS	805	0.161491	0	"672,0,130,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13069G>A	p.Ala4357Thr	13069/21291	13069/21291	4357/7096	4357	7096		",A"	A4357T	G13334A	A4357T	ORF1AB:A4357T	4357	ORF1a	A4357T	ORF1A:A4357T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	13933	.	T	C	2488	PASS	207	0.458937	0	"111,0,95,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13669T>C	p.Phe4557Leu	13669/21291	13669/21291	4557/7096	4557	7096		",C"	F4557L	T13933C	F4557L	ORF1AB:F4557L	156	ORF1b	F156L	ORF1B:F156L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	13993	.	G	T	2244	PASS	169	0.497041	0	"85,0,84,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	15270	.	A	G	1280	PASS	308	0.211039	0	"239,0,65,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15006A>G	p.Glu5002Glu	15006/21291	15006/21291	5002/7096	5002	7096		",G"	E5002E	A15270G	E5002E	ORF1AB:E5002E	601	ORF1b	E601E	ORF1B:E601E	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	15324	.	C	T	2072	PASS	184	0.418478	0	"107,0,77,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	15766	.	G	T	3456	PASS	143	0.783217	0	"31,0,112,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	16012	.	CG	C	167	PASS	23	0.26087	0	"17,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15750delG	p.Phe5251fs	15750/21291	15750/21291	5250/7096	5250	7096		"INFO_REALIGN_3_PRIME,C"	del5251	CG16012C	del5251	ORF1AB:DEL5251	850	ORF1b	del850	ORF1B:DEL850	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	16508	.	G	GT	3189	PASS	1586	0.078815	0	"1473,0,125,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16247dupT	p.Leu5416fs	16248/21291	16248/21291	5416/7096	5416	7096		"INFO_REALIGN_3_PRIME,GT"	del5416	G16508GT	del5416	ORF1AB:DEL5416	1015	ORF1b	del1015	ORF1B:DEL1015	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	16889	.	A	G	23753	PASS	1702	0.489424	0	"861,0,833,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	16916	.	T	C	514	PASS	1525	0.039344	0	"1461,0,60,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16652T>C	p.Leu5551Pro	16652/21291	16652/21291	5551/7096	5551	7096		",C"	L5551P	T16916C	L5551P	ORF1AB:L5551P	1150	ORF1b	L1150P	ORF1B:L1150P	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	16920	.	A	G	1506	PASS	1559	0.067351	0	"1450,0,105,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16656A>G	p.Thr5552Thr	16656/21291	16656/21291	5552/7096	5552	7096		",G"	T5552T	A16920G	T5552T	ORF1AB:T5552T	1151	ORF1b	T1151T	ORF1B:T1151T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	17019	.	G	T	9275	PASS	842	0.414489	0	"490,0,349,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	17059	.	C	CA	1724	PASS	637	0.095761	0	"577,0,61,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799dupA	p.Tyr5601fs	16800/21291	16800/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,CA"	del5601	C17059CA	del5601	ORF1AB:DEL5601	1200	ORF1b	del1200	ORF1B:DEL1200	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	18877	.	C	T	29473	PASS	883	0.98641	0	"11,0,871,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	19343	.	CT	C	1184	PASS	971	0.048404	0	"924,0,47,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19083delT	p.Phe6361fs	19083/21291	19083/21291	6361/7096	6361	7096		"INFO_REALIGN_3_PRIME,C"	del6361	CT19343C	del6361	ORF1AB:DEL6361	1960	ORF1b	del1960	ORF1B:DEL1960	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	19718	.	CA	C	3412	PASS	397	0.279597	0	"286,0,111,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19458delA	p.Val6487fs	19458/21291	19458/21291	6486/7096	6486	7096		"INFO_REALIGN_3_PRIME,C"	del6487	CA19718C	del6487	ORF1AB:DEL6487	2086	ORF1b	del2086	ORF1B:DEL2086	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	20604	.	A	T	1516	PASS	608	0.128289	0	"530,0,78,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20340A>T	p.Ser6780Ser	20340/21291	20340/21291	6780/7096	6780	7096		",T"	S6780S	A20604T	S6780S	ORF1AB:S6780S	2379	ORF1b	S2379S	ORF1B:S2379S	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	20742	.	A	C	1832	PASS	750	0.141333	0	"643,0,106,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	21575	.	C	T	915	PASS	357	0.148459	0	"301,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	21671	.	T	C	152	PASS	350	0.042857	0	"334,0,15,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.109T>C	p.Tyr37His	109/3822	109/3822	37/1273	37	1273		",C"	Y37H	T21671C	Y37H	S:Y37H	37	S	Y37H	S:Y37H	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	21855	.	C	T	1560	PASS	326	0.226994	0	"250,0,74,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	22227	.	C	T	285	PASS	114	0.157895	0	"96,0,18,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	22992	.	G	A	847	PASS	66	0.454545	0	"36,0,30,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	23334	.	CT	C	126	PASS	94	0.053191	0	"89,0,5,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1776delT	p.Phe592fs	1776/3822	1776/3822	592/1273	592	1273		"INFO_REALIGN_3_PRIME,C"	del592	CT23334C	del592	S:DEL592	592	S	del592	S:DEL592	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	23403	.	A	G	2691	PASS	82	1	2147483647	"0,0,82,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	23929	.	CA	C	268	PASS	70	0.128571	0	"61,0,9,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2371delA	p.Thr791fs	2371/3822	2371/3822	791/1273	791	1273		"INFO_REALIGN_3_PRIME,C"	del791	CA23929C	del791	S:DEL791	791	S	del791	S:DEL791	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	24817	.	A	G	635	PASS	248	0.145161	0	"211,0,36,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3255A>G	p.Gly1085Gly	3255/3822	3255/3822	1085/1273	1085	1273		",G"	G1085G	A24817G	G1085G	S:G1085G	1085	S	G1085G	S:G1085G	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25047	.	C	G	683	PASS	1073	0.062442	0	"1002,0,67,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3485C>G	p.Pro1162Arg	3485/3822	3485/3822	1162/1273	1162	1273		",G"	P1162R	C25047G	P1162R	S:P1162R	1162	S	P1162R	S:P1162R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25126	.	G	A	3306	PASS	893	0.178052	0	"731,0,159,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3564G>A	p.Glu1188Glu	3564/3822	3564/3822	1188/1273	1188	1273		",A"	E1188E	G25126A	E1188E	S:E1188E	1188	S	E1188E	S:E1188E	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25247	.	A	T	99	PASS	1147	0.027899	0	"1112,0,32,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25277	.	A	T	86	PASS	1165	0.028326	0	"1116,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25289	.	T	G	78	PASS	1182	0.026227	0	"1147,0,31,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25296	.	A	C	159	PASS	1198	0.042571	0	"1120,0,51,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25301	.	T	G	107	PASS	1181	0.034716	0	"1138,0,41,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25312	.	T	G	106	PASS	1220	0.032787	0	"1177,0,40,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25324	.	C	A	399	PASS	1249	0.060849	0	"1171,0,76,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25327	.	A	T	75	PASS	1224	0.026144	0	"1192,0,32,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25331	.	G	T	99	PASS	1213	0.037098	0	"1162,0,45,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25336	.	A	C	204	PASS	1201	0.052456	0	"1128,0,63,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25461	.	T	C	576	PASS	1148	0.047909	0	"1090,0,55,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.69T>C	p.Ala23Ala	69/828	69/828	23/275	23	275		",C"	A23A	T25461C	A23A	ORF3A:A23A	23	ORF3a	A23A	ORF3A:A23A	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25505	.	A	G	4203	PASS	990	0.208081	0	"783,0,206,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25563	.	G	T	14828	PASS	938	0.553305	0	"416,0,519,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25710	.	C	T	10933	PASS	612	0.612745	0	"235,0,375,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25906	.	G	C	192	PASS	261	0.068966	0	"242,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25907	.	G	T	1027	PASS	264	0.200758	0	"211,0,53,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.515G>T	p.Gly172Val	515/828	515/828	172/275	172	275		",T"	G172V	G25907T	G172V	ORF3A:G172V	172	ORF3a	G172V	ORF3A:G172V	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	25996	.	G	T	235	PASS	279	0.064516	0	"261,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	26062	.	G	T	730	PASS	201	0.199005	0	"160,0,40,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	26192	.	C	T	4092	PASS	836	0.229665	0	"641,0,192,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.800C>T	p.Pro267Leu	800/828	800/828	267/275	267	275		",T"	P267L	C26192T	P267L	ORF3A:P267L	267	ORF3a	P267L	ORF3A:P267L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	26530	.	A	G	9163	PASS	1656	0.256643	0	"1229,0,425,0"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.8A>G	p.Asp3Gly	8/669	8/669	3/222	3	222		",G"	D3G	A26530G	D3G	M:D3G	3	M	D3G	M:D3G	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	26654	.	G	GT	74	PASS	1353	0.003695	0	"1356,0,5,0"	TRUE	GT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.137dupT	p.Leu46fs	138/669	138/669	46/222	46	222		"INFO_REALIGN_3_PRIME,GT"	del46	G26654GT	del46	M:DEL46	46	M	del46	M:DEL46	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	26735	.	C	T	16581	PASS	1158	0.518998	0	"554,0,601,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	26801	.	C	G	2573	PASS	1023	0.131965	0	"888,0,135,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	26876	.	T	C	7763	PASS	527	0.529412	0	"246,0,279,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	27481	.	C	CT	2000	PASS	1192	0.066275	0	"1113,0,79,0"	TRUE	CT	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.92dupT	p.Leu31fs	93/366	93/366	31/121	31	121		"INFO_REALIGN_3_PRIME,CT"	del31	C27481CT	del31	ORF7A:DEL31	31	ORF7a	del31	ORF7A:DEL31	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	27707	.	C	T	2968	PASS	1643	0.120511	0	"1434,0,198,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	27922	.	T	C	1265	PASS	1293	0.068059	0	"1205,0,88,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	27944	.	C	T	4273	PASS	1107	0.185185	0	"901,0,205,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	27970	.	C	A	94	PASS	895	0.015642	0	"812,0,14,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	27970	.	C	T	1079	PASS	895	0.077095	0	"812,0,69,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>T	p.Thr26Ile	77/366	77/366	26/121	26	121		",T"	T26I	C27970T	T26I	ORF8:T26I	26	ORF8	T26I	ORF8:T26I	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28004	.	T	C	278	PASS	552	0.059783	0	"515,0,33,0"	FALSE	C	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.111T>C	p.Cys37Cys	111/366	111/366	37/121	37	121		",C"	C37C	T28004C	C37C	ORF8:C37C	37	ORF8	C37C	ORF8:C37C	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28133	.	A	T	818	PASS	185	0.194595	0	"149,0,36,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28307	.	G	T	129	PASS	486	0.034979	0	"469,0,17,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.34G>T	p.Ala12Ser	34/1260	34/1260	12/419	12	419		",T"	A12S	G28307T	A12S	N:A12S	12	N	A12S	N:A12S	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28384	.	A	T	171	PASS	634	0.0347	0	"612,0,22,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28438	.	T	C	114	PASS	1086	0.022099	0	"1057,0,24,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.165T>C	p.Ala55Ala	165/1260	165/1260	55/419	55	419		",C"	A55A	T28438C	A55A	N:A55A	55	N	A55A	N:A55A	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28651	.	C	T	7509	PASS	2135	0.179391	0	"1750,0,383,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28696	.	AC	A	3501	PASS	2724	0.055433	0	"2593,0,151,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.425delC	p.Pro142fs	425/1260	425/1260	142/419	142	419		"INFO_REALIGN_3_PRIME,A"	del142	AC28696A	del142	N:DEL142	142	N	del142	N:DEL142	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28772	.	T	C	4283	PASS	3374	0.086544	0	"3074,0,292,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.499T>C	p.Leu167Leu	499/1260	499/1260	167/419	167	419		",C"	L167L	T28772C	L167L	N:L167L	167	N	L167L	N:L167L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28776	.	CA	C	410	PASS	3354	0.007156	0	"3330,0,24,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28855	.	A	C	4855	PASS	3123	0.105027	0	"2784,0,328,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28869	.	C	T	9819	PASS	3059	0.169009	0	"2535,0,517,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28881	.	G	A	3899	PASS	2906	0.095664	0	"2617,0,278,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28882	.	G	A	3368	PASS	2933	0.093761	0	"2636,0,275,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28883	.	G	C	3898	PASS	2933	0.095806	0	"2644,0,281,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28932	.	C	T	7108	PASS	2905	0.14389	0	"2479,0,418,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28933	.	T	C	1197	PASS	2902	0.050655	0	"2740,0,147,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.660T>C	p.Ala220Ala	660/1260	660/1260	220/419	220	419		",C"	A220A	T28933C	A220A	N:A220A	220	N	A220A	N:A220A	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28975	.	G	C	45472	PASS	2740	0.563139	0	"1194,0,1543,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	28987	.	CCAA	C	184	PASS	2526	0.004355	0	"2523,0,11,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	29095	.	C	T	2904	PASS	1783	0.097588	0	"1604,0,174,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.822C>T	p.Phe274Phe	822/1260	822/1260	274/419	274	419		",T"	F274F	C29095T	F274F	N:F274F	274	N	F274F	N:F274F	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES34	NC_045512.2	29121	.	A	G	569	PASS	1370	0.045985	0	"1298,0,63,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.848A>G	p.Gln283Arg	848/1260	848/1260	283/419	283	419		",G"	Q283R	A29121G	Q283R	N:Q283R	283	N	Q283R	N:Q283R	HES34	HESPERANGE	2020-11-18T00:00:00Z	30.336	32.48333333	x	1022021	2020-11-18
HES35	NC_045512.2	241	.	C	T	49314	PASS	2080	0.997115	0	"2,0,2074,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	445	.	T	C	13289	PASS	2405	0.279418	0	"1715,0,672,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	593	.	C	T	5813	PASS	1883	0.15401	0	"1590,0,290,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	1514	.	C	T	3464	PASS	1239	0.160613	0	"1033,0,199,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1249C>T	p.His417Tyr	1249/21291	1249/21291	417/7096	417	7096		",T"	H417Y	C1514T	H417Y	ORF1AB:H417Y	417	ORF1a	H417Y	ORF1A:H417Y	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	2521	.	A	G	1348	PASS	721	0.137309	0	"622,0,99,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2256A>G	p.Leu752Leu	2256/21291	2256/21291	752/7096	752	7096		",G"	L752L	A2521G	L752L	ORF1AB:L752L	752	ORF1a	L752L	ORF1A:L752L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	2578	.	T	G	1984	PASS	785	0.145223	0	"666,0,114,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2313T>G	p.Ser771Arg	2313/21291	2313/21291	771/7096	771	7096		",G"	S771R	T2578G	S771R	ORF1AB:S771R	771	ORF1a	S771R	ORF1A:S771R	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	2728	.	A	G	123	PASS	1269	0.016548	0	"1244,0,21,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2463A>G	p.Thr821Thr	2463/21291	2463/21291	821/7096	821	7096		",G"	T821T	A2728G	T821T	ORF1AB:T821T	821	ORF1a	T821T	ORF1A:T821T	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	2855	.	C	T	3199	PASS	1328	0.138554	0	"1137,0,184,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2590C>T	p.Leu864Phe	2590/21291	2590/21291	864/7096	864	7096		",T"	L864F	C2855T	L864F	ORF1AB:L864F	864	ORF1a	L864F	ORF1A:L864F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	3037	.	C	T	30167	PASS	884	0.998869	2147483647	"0,0,883,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	3088	.	T	C	811	PASS	892	0.08296	0	"816,0,74,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2823T>C	p.Phe941Phe	2823/21291	2823/21291	941/7096	941	7096		",C"	F941F	T3088C	F941F	ORF1AB:F941F	941	ORF1a	F941F	ORF1A:F941F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	3602	.	C	T	180	PASS	16	0.375	0	"10,0,6,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	4174	.	TA	T	51	PASS	57	0.035088	0	"55,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3914delA	p.Lys1305fs	3914/21291	3914/21291	1305/7096	1305	7096		"INFO_REALIGN_3_PRIME,T"	del1305	TA4174T	del1305	ORF1AB:DEL1305	1305	ORF1a	del1305	ORF1A:DEL1305	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	4543	.	C	T	312	PASS	142	0.133803	0	"123,0,19,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	4711	.	TG	T	704	PASS	248	0.116935	0	"219,0,29,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4447delG	p.Val1483fs	4447/21291	4447/21291	1483/7096	1483	7096		",T"	del1483	TG4711T	del1483	ORF1AB:DEL1483	1483	ORF1a	del1483	ORF1A:DEL1483	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	4758	.	A	G	597	PASS	382	0.091623	0	"346,0,35,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4493A>G	p.Glu1498Gly	4493/21291	4493/21291	1498/7096	1498	7096		",G"	E1498G	A4758G	E1498G	ORF1AB:E1498G	1498	ORF1a	E1498G	ORF1A:E1498G	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	4764	.	A	AT	1416	PASS	402	0.121891	0	"353,0,49,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4503dupT	p.Ile1502fs	4504/21291	4504/21291	1502/7096	1502	7096		"INFO_REALIGN_3_PRIME,AT"	del1502	A4764AT	del1502	ORF1AB:DEL1502	1502	ORF1a	del1502	ORF1A:DEL1502	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	5012	.	G	T	2255	PASS	652	0.177914	0	"536,0,116,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4747G>T	p.Val1583Phe	4747/21291	4747/21291	1583/7096	1583	7096		",T"	V1583F	G5012T	V1583F	ORF1AB:V1583F	1583	ORF1a	V1583F	ORF1A:V1583F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	5071	.	T	C	2612	PASS	769	0.182055	0	"627,0,140,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4806T>C	p.Ala1602Ala	4806/21291	4806/21291	1602/7096	1602	7096		",C"	A1602A	T5071C	A1602A	ORF1AB:A1602A	1602	ORF1a	A1602A	ORF1A:A1602A	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	5379	.	G	T	284	PASS	540	0.048148	0	"513,0,26,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5114G>T	p.Gly1705Val	5114/21291	5114/21291	1705/7096	1705	7096		",T"	G1705V	G5379T	G1705V	ORF1AB:G1705V	1705	ORF1a	G1705V	ORF1A:G1705V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	5622	.	CT	C	45	PASS	179	0.011173	0	"177,0,2,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5359delT	p.Cys1787fs	5359/21291	5359/21291	1787/7096	1787	7096		"INFO_REALIGN_3_PRIME,C"	del1787	CT5622C	del1787	ORF1AB:DEL1787	1787	ORF1a	del1787	ORF1A:DEL1787	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	5629	.	G	T	928	PASS	189	0.232804	0	"144,0,44,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	5884	.	C	T	116	PASS	201	0.049751	0	"191,0,10,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	5947	.	TA	T	47	PASS	249	0.048193	0	"237,0,12,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5684delA	p.Lys1895fs	5684/21291	5684/21291	1895/7096	1895	7096		"INFO_REALIGN_3_PRIME,T"	del1895	TA5947T	del1895	ORF1AB:DEL1895	1895	ORF1a	del1895	ORF1A:DEL1895	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	5950	.	G	T	724	PASS	255	0.184314	0	"208,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5685G>T	p.Lys1895Asn	5685/21291	5685/21291	1895/7096	1895	7096		",T"	K1895N	G5950T	K1895N	ORF1AB:K1895N	1895	ORF1a	K1895N	ORF1A:K1895N	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	6198	.	C	CT	1267	PASS	283	0.151943	0	"240,0,43,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5937dupT	p.Lys1980fs	5938/21291	5938/21291	1980/7096	1980	7096		"INFO_REALIGN_3_PRIME,CT"	del1980	C6198CT	del1980	ORF1AB:DEL1980	1980	ORF1a	del1980	ORF1A:DEL1980	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	6335	.	T	C	415	PASS	322	0.080745	0	"296,0,26,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6070T>C	p.Ser2024Pro	6070/21291	6070/21291	2024/7096	2024	7096		",C"	S2024P	T6335C	S2024P	ORF1AB:S2024P	2024	ORF1a	S2024P	ORF1A:S2024P	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	6555	.	C	T	376	PASS	406	0.071429	0	"376,0,29,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	6582	.	C	T	784	PASS	385	0.109091	0	"343,0,42,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6317C>T	p.Thr2106Ile	6317/21291	6317/21291	2106/7096	2106	7096		",T"	T2106I	C6582T	T2106I	ORF1AB:T2106I	2106	ORF1a	T2106I	ORF1A:T2106I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	6696	.	C	T	703	PASS	230	0.178261	0	"187,0,41,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	6941	.	C	T	6630	PASS	354	0.638418	0	"127,0,226,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	7420	.	C	T	462	PASS	75	0.266667	0	"55,0,20,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7155C>T	p.Ile2385Ile	7155/21291	7155/21291	2385/7096	2385	7096		",T"	I2385I	C7420T	I2385I	ORF1AB:I2385I	2385	ORF1a	I2385I	ORF1A:I2385I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	7579	.	T	C	814	PASS	222	0.18018	0	"182,0,40,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7314T>C	p.Ala2438Ala	7314/21291	7314/21291	2438/7096	2438	7096		",C"	A2438A	T7579C	A2438A	ORF1AB:A2438A	2438	ORF1a	A2438A	ORF1A:A2438A	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	7926	.	CA	C	3860	PASS	711	0.182841	0	"581,0,130,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7665delA	p.Lys2555fs	7665/21291	7665/21291	2555/7096	2555	7096		"INFO_REALIGN_3_PRIME,C"	del2555	CA7926C	del2555	ORF1AB:DEL2555	2555	ORF1a	del2555	ORF1A:DEL2555	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	7942	.	T	C	2573	PASS	730	0.187671	0	"590,0,137,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7677T>C	p.Val2559Val	7677/21291	7677/21291	2559/7096	2559	7096		",C"	V2559V	T7942C	V2559V	ORF1AB:V2559V	2559	ORF1a	V2559V	ORF1A:V2559V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	8092	.	CA	C	3107	PASS	641	0.160686	0	"538,0,103,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7831delA	p.Thr2611fs	7831/21291	7831/21291	2611/7096	2611	7096		"INFO_REALIGN_3_PRIME,C"	del2611	CA8092C	del2611	ORF1AB:DEL2611	2611	ORF1a	del2611	ORF1A:DEL2611	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	8154	.	T	C	72	PASS	561	0.02139	0	"547,0,12,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7889T>C	p.Leu2630Ser	7889/21291	7889/21291	2630/7096	2630	7096		",C"	L2630S	T8154C	L2630S	ORF1AB:L2630S	2630	ORF1a	L2630S	ORF1A:L2630S	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	8395	.	T	C	491	PASS	169	0.136095	0	"146,0,23,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8130T>C	p.Ala2710Ala	8130/21291	8130/21291	2710/7096	2710	7096		",C"	A2710A	T8395C	A2710A	ORF1AB:A2710A	2710	ORF1a	A2710A	ORF1A:A2710A	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	9105	.	G	GT	2258	PASS	587	0.132879	0	"509,0,78,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8843dupT	p.Leu2948fs	8844/21291	8844/21291	2948/7096	2948	7096		"INFO_REALIGN_3_PRIME,GT"	del2948	G9105GT	del2948	ORF1AB:DEL2948	2948	ORF1a	del2948	ORF1A:DEL2948	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	9526	.	G	T	5637	PASS	477	0.457023	0	"258,0,218,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	9860	.	T	C	535	PASS	395	0.098734	0	"353,0,39,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9595T>C	p.Leu3199Leu	9595/21291	9595/21291	3199/7096	3199	7096		",C"	L3199L	T9860C	L3199L	ORF1AB:L3199L	3199	ORF1a	L3199L	ORF1A:L3199L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	11074	.	CT	C	64	PASS	787	0.010165	0	"779,0,8,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	11095	.	C	CT	972	PASS	895	0.04581	0	"854,0,41,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835dupT	p.Leu3612fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,CT"	del3612	C11095CT	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	11497	.	C	T	7510	PASS	970	0.319588	0	"657,0,310,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	11557	.	G	T	2552	PASS	814	0.162162	0	"682,0,132,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11292G>T	p.Glu3764Asp	11292/21291	11292/21291	3764/7096	3764	7096		",T"	E3764D	G11557T	E3764D	ORF1AB:E3764D	3764	ORF1a	E3764D	ORF1A:E3764D	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	12297	.	A	C	1581	PASS	571	0.155867	0	"482,0,89,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12032A>C	p.Gln4011Pro	12032/21291	12032/21291	4011/7096	4011	7096		",C"	Q4011P	A12297C	Q4011P	ORF1AB:Q4011P	4011	ORF1a	Q4011P	ORF1A:Q4011P	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	12473	.	C	T	4074	PASS	1018	0.19057	0	"823,0,194,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12208C>T	p.Leu4070Leu	12208/21291	12208/21291	4070/7096	4070	7096		",T"	L4070L	C12473T	L4070L	ORF1AB:L4070L	4070	ORF1a	L4070L	ORF1A:L4070L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	12941	.	A	G	94	PASS	2123	0.010363	0	"2100,0,22,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12676A>G	p.Lys4226Glu	12676/21291	12676/21291	4226/7096	4226	7096		",G"	K4226E	A12941G	K4226E	ORF1AB:K4226E	4226	ORF1a	K4226E	ORF1A:K4226E	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	13410	.	G	T	619	PASS	2654	0.025245	0	"2586,0,67,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13145G>T	p.Ser4382Ile	13145/21291	13145/21291	4382/7096	4382	7096		",T"	S4382I	G13410T	S4382I	ORF1AB:S4382I	4382	ORF1a	S4382I	ORF1A:S4382I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	13459	.	GT	G	46	PASS	2490	0.001606	0	"2511,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13199delT	p.Leu4400fs	13199/21291	13199/21291	4400/7096	4400	7096		"INFO_REALIGN_3_PRIME,G"	del4400	GT13459G	del4400	ORF1AB:DEL4400	4400	ORF1a	del4400	ORF1A:DEL4400	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	13541	.	C	CT	1072	PASS	1689	0.027827	0	"1640,0,47,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13281dupT	p.Asp4428fs	13282/21291	13282/21291	4428/7096	4428	7096		"INFO_REALIGN_3_PRIME,CT"	del4428	C13541CT	del4428	ORF1AB:DEL4428	27	ORF1b	del27	ORF1B:DEL27	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	13822	.	G	T	1482	PASS	1674	0.07049	0	"1553,0,118,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13558G>T	p.Val4520Phe	13558/21291	13558/21291	4520/7096	4520	7096		",T"	V4520F	G13822T	V4520F	ORF1AB:V4520F	119	ORF1b	V119F	ORF1B:V119F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	13940	.	A	G	2846	PASS	1414	0.121641	0	"1238,0,172,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13676A>G	p.Glu4559Gly	13676/21291	13676/21291	4559/7096	4559	7096		",G"	E4559G	A13940G	E4559G	ORF1AB:E4559G	158	ORF1b	E158G	ORF1B:E158G	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	13993	.	G	T	18707	PASS	1138	0.575571	0	"483,0,655,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	14408	.	C	T	554	PASS	15	1	2147483647	"0,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	15324	.	C	T	3812	PASS	584	0.27226	0	"424,0,159,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	15559	.	C	CT	1239	PASS	370	0.116216	0	"327,0,43,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15299dupT	p.Leu5100fs	15300/21291	15300/21291	5100/7096	5100	7096		"INFO_REALIGN_3_PRIME,CT"	del5100	C15559CT	del5100	ORF1AB:DEL5100	699	ORF1b	del699	ORF1B:DEL699	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	15579	.	C	T	920	PASS	375	0.133333	0	"325,0,50,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	15766	.	G	T	2931	PASS	365	0.328767	0	"243,0,120,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	15910	.	G	T	352	PASS	131	0.137405	0	"113,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15646G>T	p.Asp5216Tyr	15646/21291	15646/21291	5216/7096	5216	7096		",T"	D5216Y	G15910T	D5216Y	ORF1AB:D5216Y	815	ORF1b	D815Y	ORF1B:D815Y	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	16809	.	TA	T	5998	PASS	2988	0.075636	0	"2769,0,226,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16548delA	p.Val5517fs	16548/21291	16548/21291	5516/7096	5516	7096		"INFO_REALIGN_3_PRIME,T"	del5517	TA16809T	del5517	ORF1AB:DEL5517	1116	ORF1b	del1116	ORF1B:DEL1116	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	16837	.	GA	G	45	PASS	2597	0.00154	0	"2597,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	16889	.	A	G	11166	PASS	2336	0.214469	0	"1833,0,501,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	16912	.	G	T	9601	PASS	2139	0.207574	0	"1695,0,444,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	17019	.	G	T	5975	PASS	1178	0.22326	0	"912,0,263,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	17352	.	C	T	384	PASS	56	0.285714	0	"39,0,16,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17088C>T	p.Val5696Val	17088/21291	17088/21291	5696/7096	5696	7096		",T"	V5696V	C17352T	V5696V	ORF1AB:V5696V	1295	ORF1b	V1295V	ORF1B:V1295V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	17405	.	G	A	131	PASS	63	0.111111	0	"55,0,7,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17141G>A	p.Arg5714Lys	17141/21291	17141/21291	5714/7096	5714	7096		",A"	R5714K	G17405A	R5714K	ORF1AB:R5714K	1313	ORF1b	R1313K	ORF1B:R1313K	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	17738	.	C	T	167	PASS	1285	0.02179	0	"1253,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17474C>T	p.Thr5825Ile	17474/21291	17474/21291	5825/7096	5825	7096		",T"	T5825I	C17738T	T5825I	ORF1AB:T5825I	1424	ORF1b	T1424I	ORF1B:T1424I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	17764	.	G	A	257	PASS	1387	0.026676	0	"1346,0,37,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17500G>A	p.Val5834Ile	17500/21291	17500/21291	5834/7096	5834	7096		",A"	V5834I	G17764A	V5834I	ORF1AB:V5834I	1433	ORF1b	V1433I	ORF1B:V1433I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	17766	.	CT	C	45	PASS	1400	0.002143	0	"1397,0,3,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17505delT	p.Phe5835fs	17505/21291	17505/21291	5835/7096	5835	7096		"INFO_REALIGN_3_PRIME,C"	del5835	CT17766C	del5835	ORF1AB:DEL5835	1434	ORF1b	del1434	ORF1B:DEL1434	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	17776	.	C	T	5402	PASS	1339	0.199403	0	"1067,0,267,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17512C>T	p.Pro5838Ser	17512/21291	17512/21291	5838/7096	5838	7096		",T"	P5838S	C17776T	P5838S	ORF1AB:P5838S	1437	ORF1b	P1437S	ORF1B:P1437S	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	17826	.	T	A	7251	PASS	1442	0.227462	0	"1112,0,328,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17562T>A	p.Thr5854Thr	17562/21291	17562/21291	5854/7096	5854	7096		",A"	T5854T	T17826A	T5854T	ORF1AB:T5854T	1453	ORF1b	T1453T	ORF1B:T1453T	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	18138	.	CA	C	133	PASS	808	0.008663	0	"801,0,7,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17878delA	p.Thr5960fs	17878/21291	17878/21291	5960/7096	5960	7096		"INFO_REALIGN_3_PRIME,C"	del5960	CA18138C	del5960	ORF1AB:DEL5960	1559	ORF1b	del1559	ORF1B:DEL1559	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	18368	.	GT	G	704	PASS	121	0.190083	0	"98,0,23,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18109delT	p.Ser6037fs	18109/21291	18109/21291	6037/7096	6037	7096		"INFO_REALIGN_3_PRIME,G"	del6037	GT18368G	del6037	ORF1AB:DEL6037	1636	ORF1b	del1636	ORF1B:DEL1636	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	18637	.	A	G	741	PASS	322	0.118012	0	"284,0,38,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18373A>G	p.Lys6125Glu	18373/21291	18373/21291	6125/7096	6125	7096		",G"	K6125E	A18637G	K6125E	ORF1AB:K6125E	1724	ORF1b	K1724E	ORF1B:K1724E	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	18877	.	C	T	13661	PASS	1354	0.384047	0	"834,0,520,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	19020	.	A	G	7815	PASS	1897	0.198208	0	"1515,0,376,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18756A>G	p.Pro6252Pro	18756/21291	18756/21291	6252/7096	6252	7096		",G"	P6252P	A19020G	P6252P	ORF1AB:P6252P	1851	ORF1b	P1851P	ORF1B:P1851P	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	19113	.	CA	C	11242	PASS	1790	0.205028	0	"1423,0,367,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18852delA	p.Ala6285fs	18852/21291	18852/21291	6284/7096	6284	7096		"INFO_REALIGN_3_PRIME,C"	del6285	CA19113C	del6285	ORF1AB:DEL6285	1884	ORF1b	del1884	ORF1B:DEL1884	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	19524	.	C	T	2784	PASS	1449	0.115942	0	"1278,0,168,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	20397	.	G	T	2024	PASS	462	0.19697	0	"370,0,91,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20133G>T	p.Lys6711Asn	20133/21291	20133/21291	6711/7096	6711	7096		",T"	K6711N	G20397T	K6711N	ORF1AB:K6711N	2310	ORF1b	K2310N	ORF1B:K2310N	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	20560	.	G	GT	2008	PASS	1138	0.066784	0	"1068,0,76,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20299dupT	p.Ser6767fs	20300/21291	20300/21291	6767/7096	6767	7096		"INFO_REALIGN_3_PRIME,GT"	del6767	G20560GT	del6767	ORF1AB:DEL6767	2366	ORF1b	del2366	ORF1B:DEL2366	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	20742	.	A	C	6787	PASS	1543	0.211925	0	"1213,0,327,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	20963	.	A	G	116	PASS	1107	0.02168	0	"1080,0,24,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20699A>G	p.Asp6900Gly	20699/21291	20699/21291	6900/7096	6900	7096		",G"	D6900G	A20963G	D6900G	ORF1AB:D6900G	2499	ORF1b	D2499G	ORF1B:D2499G	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	21255	.	G	C	5845	PASS	387	0.51938	0	"185,0,201,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	21614	.	C	T	1011	PASS	446	0.132287	0	"387,0,59,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.52C>T	p.Leu18Phe	52/3822	52/3822	18/1273	18	1273		",T"	L18F	C21614T	L18F	S:L18F	18	S	L18F	S:L18F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	21682	.	CA	C	643	PASS	334	0.07485	0	"309,0,25,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.123delA	p.Val42fs	123/3822	123/3822	41/1273	41	1273		"INFO_REALIGN_3_PRIME,C"	del42	CA21682C	del42	S:DEL42	42	S	del42	S:DEL42	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	21683	.	A	G	432	PASS	334	0.077844	0	"283,0,26,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.121A>G	p.Lys41Glu	121/3822	121/3822	41/1273	41	1273		",G"	K41E	A21683G	K41E	S:K41E	41	S	K41E	S:K41E	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	21855	.	C	T	816	PASS	456	0.098684	0	"411,0,45,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	21980	.	TTTTTGGGTG	T	954	PASS	398	0.090452	0	"362,0,36,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.422_430delTGGGTGTTT	p.Leu141_Val143del	422/3822	422/3822	141/1273	141	1273		"INFO_REALIGN_3_PRIME,T"	del141/143	TTTTTGGGTG21980T	del141/143	S:DEL141/143	141/143	S	del141/143	S:DEL141/143	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	22000	.	CA	C	1435	PASS	417	0.127098	0	"364,0,53,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.443delA	p.Asn148fs	443/3822	443/3822	148/1273	148	1273		"INFO_REALIGN_3_PRIME,C"	del148	CA22000C	del148	S:DEL148	148	S	del148	S:DEL148	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	22227	.	C	T	1089	PASS	226	0.243363	0	"169,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	22772	.	G	T	181	PASS	131	0.091603	0	"119,0,12,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1210G>T	p.Gly404Cys	1210/3822	1210/3822	404/1273	404	1273		",T"	G404C	G22772T	G404C	S:G404C	404	S	G404C	S:G404C	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	22992	.	G	A	1999	PASS	199	0.386935	0	"122,0,77,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	23257	.	T	TG	277	PASS	133	0.075188	0	"123,0,10,0"	TRUE	TG	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1697dupG	p.Arg567fs	1698/3822	1698/3822	566/1273	566	1273		"INFO_REALIGN_3_PRIME,TG"	del567	T23257TG	del567	S:DEL567	567	S	del567	S:DEL567	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	23403	.	A	G	4412	PASS	130	1	2147483647	"0,0,130,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	23427	.	T	C	1633	PASS	106	0.528302	0	"50,0,56,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1865T>C	p.Val622Ala	1865/3822	1865/3822	622/1273	622	1273		",C"	V622A	T23427C	V622A	S:V622A	622	S	V622A	S:V622A	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	24517	.	CA	C	89	PASS	306	0.013072	0	"302,0,4,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2958delA	p.Val987fs	2958/3822	2958/3822	986/1273	986	1273		"INFO_REALIGN_3_PRIME,C"	del987	CA24517C	del987	S:DEL987	987	S	del987	S:DEL987	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25273	.	G	T	1907	PASS	822	0.178832	0	"667,0,147,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>T	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",T"	M1237I	G25273T	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25276	.	C	T	2368	PASS	804	0.190299	0	"646,0,153,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3714C>T	p.Thr1238Thr	3714/3822	3714/3822	1238/1273	1238	1273		",T"	T1238T	C25276T	T1238T	S:T1238T	1238	S	T1238T	S:T1238T	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25301	.	T	G	88	PASS	801	0.034956	0	"773,0,28,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25312	.	T	G	104	PASS	832	0.03726	0	"798,0,31,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25317	.	C	T	1905	PASS	865	0.143353	0	"737,0,124,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25324	.	C	A	385	PASS	862	0.073086	0	"799,0,63,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25336	.	A	C	216	PASS	822	0.065693	0	"761,0,54,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25505	.	A	G	2293	PASS	632	0.186709	0	"513,0,118,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25563	.	G	T	10912	PASS	610	0.603279	0	"242,0,368,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25710	.	C	T	7570	PASS	461	0.557484	0	"202,0,257,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25826	.	A	T	607	PASS	164	0.195122	0	"132,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.434A>T	p.Tyr145Phe	434/828	434/828	145/275	145	275		",T"	Y145F	A25826T	Y145F	ORF3A:Y145F	145	ORF3a	Y145F	ORF3A:Y145F	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	25906	.	G	C	78	PASS	183	0.038251	0	"174,0,7,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26211	.	G	T	2991	PASS	1186	0.13575	0	"1023,0,161,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.819G>T	p.Val273Val	819/828	819/828	273/275	273	275		",T"	V273V	G26211T	V273V	ORF3A:V273V	273	ORF3a	V273V	ORF3A:V273V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26270	.	C	T	2512	PASS	1249	0.116093	0	"1102,0,145,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.26C>T	p.Thr9Ile	26/228	26/228	9/75	9	75		",T"	T9I	C26270T	T9I	E:T9I	9	E	T9I	E:T9I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26325	.	GC	G	5708	PASS	1489	0.141706	0	"1305,0,211,0"	TRUE	G	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.82delC	p.Leu28fs	82/228	82/228	28/75	28	75		",G"	del28	GC26325G	del28	E:DEL28	28	E	del28	E:DEL28	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26353	.	CT	C	6481	PASS	1635	0.138838	0	"1408,0,227,0"	TRUE	C	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.111delT	p.Arg38fs	111/228	111/228	37/75	37	75		"INFO_REALIGN_3_PRIME,C"	del38	CT26353C	del38	E:DEL38	38	E	del38	E:DEL38	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26534	.	C	T	4017	PASS	2039	0.129475	0	"1771,0,264,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.12C>T	p.Ser4Ser	12/669	12/669	4/222	4	222		",T"	S4S	C26534T	S4S	M:S4S	4	M	S4S	M:S4S	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26735	.	C	T	22715	PASS	1565	0.509904	0	"765,0,798,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26746	.	G	T	2422	PASS	1549	0.098773	0	"1395,0,153,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.224G>T	p.Trp75Leu	224/669	224/669	75/222	75	222		",T"	W75L	G26746T	W75L	M:W75L	75	M	W75L	M:W75L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26801	.	C	G	353	PASS	1374	0.028384	0	"1332,0,39,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26861	.	T	C	74	PASS	826	0.013317	0	"814,0,11,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.339T>C	p.Asn113Asn	339/669	339/669	113/222	113	222		",C"	N113N	T26861C	N113N	M:N113N	113	M	N113N	M:N113N	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	26876	.	T	C	8792	PASS	755	0.433113	0	"428,0,327,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	27131	.	CTATAAAT	C	98	PASS	662	0.007553	0	"657,0,5,0"	TRUE	C	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.612_618delTAAATTA	p.Tyr204fs	612/669	612/669	204/222	204	222		"INFO_REALIGN_3_PRIME,C"	del204	CTATAAAT27131C	del204	M:DEL204	204	M	del204	M:DEL204	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	27317	.	A	AT	53	PASS	1491	0.007378	0	"1500,0,11,0"	TRUE	AT	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.119dupT	p.Leu40fs	120/186	120/186	40/61	40	61		"INFO_REALIGN_3_PRIME,AT"	del40	A27317AT	del40	ORF6:DEL40	40	ORF6	del40	ORF6:DEL40	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	27389	.	C	T	1611	PASS	1477	0.072444	0	"1366,0,107,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding		c.-5C>T						NA	5	",T"		C27389T		NA	NA	ORF7a		NA	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	27922	.	T	C	3684	PASS	1473	0.13442	0	"1275,0,198,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	27944	.	C	T	278	PASS	1288	0.03028	0	"1246,0,39,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	27972	.	C	T	313	PASS	1107	0.033424	0	"1064,0,37,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28048	.	G	T	702	PASS	700	0.068571	0	"652,0,48,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28111	.	A	G	797	PASS	787	0.076239	0	"723,0,60,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28270	.	TA	T	4128	PASS	1025	0.167805	0	"853,0,172,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28280	.	G	C	2966	PASS	1023	0.1652	0	"852,0,169,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28281	.	A	T	3158	PASS	1027	0.167478	0	"855,0,172,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28282	.	T	A	2903	PASS	1041	0.166186	0	"867,0,173,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28403	.	G	C	288	PASS	1437	0.027836	0	"1393,0,40,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.130G>C	p.Gly44Arg	130/1260	130/1260	44/419	44	419		",C"	G44R	G28403C	G44R	N:G44R	44	N	G44R	N:G44R	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28556	.	CG	C	3727	PASS	2193	0.070679	0	"2039,0,155,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.284delG	p.Arg95fs	284/1260	284/1260	95/419	95	419		",C"	del95	CG28556C	del95	N:DEL95	95	N	del95	N:DEL95	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28651	.	C	T	7052	PASS	1940	0.185567	0	"1574,0,360,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28869	.	C	T	10627	PASS	2710	0.197786	0	"2171,0,536,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28881	.	G	A	9383	PASS	2585	0.19265	0	"2076,0,498,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28882	.	G	A	8997	PASS	2598	0.188607	0	"2087,0,490,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28883	.	G	C	9608	PASS	2594	0.191981	0	"2092,0,498,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28902	.	TG	T	3691	PASS	2616	0.056575	0	"2478,0,148,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.631delG	p.Ala211fs	631/1260	631/1260	211/419	211	419		"INFO_REALIGN_3_PRIME,T"	del211	TG28902T	del211	N:DEL211	211	N	del211	N:DEL211	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28932	.	C	T	4526	PASS	2593	0.109911	0	"2305,0,285,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28957	.	C	T	9550	PASS	2535	0.188166	0	"2048,0,477,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28975	.	G	C	29031	PASS	2474	0.435732	0	"1393,0,1078,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	28987	.	CCAA	C	168	PASS	2280	0.004386	0	"2283,0,10,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES35	NC_045512.2	29167	.	C	A	1261	PASS	723	0.109267	0	"643,0,79,0"	FALSE	A	stop_gained	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.894C>A	p.Tyr298*	894/1260	894/1260	298/419	298	419		",A"	Y298*	C29167A	Y298*	N:Y298*	298	N	Y298*	N:Y298*	HES35	HESPERANGE	2020-11-24T00:00:00Z	30.95375	34.49333333	x	1022021	2020-11-24
HES36	NC_045512.2	204	.	G	T	5585	PASS	3249	0.0988	0	"2926,0,321,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	222	.	C	T	19599	PASS	3532	0.240657	0	"2672,0,850,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-44C>T						NA	44	",T"		C222T		NA	NA	NA		NA	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	241	.	C	T	49314	PASS	3792	0.998154	0	"2,0,3785,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	335	.	C	T	8864	PASS	3837	0.123795	0	"3352,0,475,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	434	.	GA	G	50	PASS	4109	0.001217	0	"4122,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	445	.	T	C	49314	PASS	4228	0.560312	0	"1844,0,2369,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	569	.	G	A	6972	PASS	3802	0.103367	0	"3405,0,393,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.304G>A	p.Glu102Lys	304/21291	304/21291	102/7096	102	7096		",A"	E102K	G569A	E102K	ORF1AB:E102K	102	ORF1a	E102K	ORF1A:E102K	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	571	.	G	A	6852	PASS	3761	0.103696	0	"3365,0,390,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	593	.	C	T	18882	PASS	3385	0.242836	0	"2559,0,822,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	802	.	A	C	198	PASS	2992	0.013703	0	"2937,0,41,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	898	.	T	G	10051	PASS	2193	0.220702	0	"1705,0,484,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.633T>G	p.Ala211Ala	633/21291	633/21291	211/7096	211	7096		",G"	A211A	T898G	A211A	ORF1AB:A211A	211	ORF1a	A211A	ORF1A:A211A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	1405	.	T	G	3790	PASS	2644	0.086989	0	"2413,0,230,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1140T>G	p.Pro380Pro	1140/21291	1140/21291	380/7096	380	7096		",G"	P380P	T1405G	P380P	ORF1AB:P380P	380	ORF1a	P380P	ORF1A:P380P	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	1513	.	C	T	4379	PASS	3533	0.089159	0	"3199,0,315,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1248C>T	p.Cys416Cys	1248/21291	1248/21291	416/7096	416	7096		",T"	C416C	C1513T	C416C	ORF1AB:C416C	416	ORF1a	C416C	ORF1A:C416C	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	1589	.	G	A	20171	PASS	3989	0.226373	0	"3077,0,903,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1324G>A	p.Gly442Ser	1324/21291	1324/21291	442/7096	442	7096		",A"	G442S	G1589A	G442S	ORF1AB:G442S	442	ORF1a	G442S	ORF1A:G442S	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	1931	.	CA	C	10209	PASS	2928	0.123292	0	"2567,0,361,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1670delA	p.Asn557fs	1670/21291	1670/21291	557/7096	557	7096		"INFO_REALIGN_3_PRIME,C"	del557	CA1931C	del557	ORF1AB:DEL557	557	ORF1a	del557	ORF1A:DEL557	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	2539	.	GA	G	6118	PASS	1615	0.131889	0	"1403,0,213,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2278delA	p.Thr760fs	2278/21291	2278/21291	760/7096	760	7096		"INFO_REALIGN_3_PRIME,G"	del760	GA2539G	del760	ORF1AB:DEL760	760	ORF1a	del760	ORF1A:DEL760	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	3037	.	C	T	49314	PASS	2277	0.996926	2147483647	"0,0,2270,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	3852	.	A	G	384	PASS	149	0.127517	0	"130,0,19,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3587A>G	p.Glu1196Gly	3587/21291	3587/21291	1196/7096	1196	7096		",G"	E1196G	A3852G	E1196G	ORF1AB:E1196G	1196	ORF1a	E1196G	ORF1A:E1196G	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	3939	.	GA	G	47	PASS	120	0.016667	0	"118,0,2,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3678delA	p.Lys1226fs	3678/21291	3678/21291	1226/7096	1226	7096		"INFO_REALIGN_3_PRIME,G"	del1226	GA3939G	del1226	ORF1AB:DEL1226	1226	ORF1a	del1226	ORF1A:DEL1226	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	3963	.	A	G	960	PASS	134	0.298507	0	"94,0,40,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3698A>G	p.Lys1233Arg	3698/21291	3698/21291	1233/7096	1233	7096		",G"	K1233R	A3963G	K1233R	ORF1AB:K1233R	1233	ORF1a	K1233R	ORF1A:K1233R	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	4254	.	C	CG	411	PASS	230	0.065217	0	"215,0,15,0"	TRUE	CG	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3992dupG	p.Gln1332fs	3993/21291	3993/21291	1331/7096	1331	7096		"INFO_REALIGN_3_PRIME,CG"	del1332	C4254CG	del1332	ORF1AB:DEL1332	1332	ORF1a	del1332	ORF1A:DEL1332	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	5085	.	TA	T	7636	PASS	1575	0.168889	0	"1316,0,266,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4824delA	p.Lys1608fs	4824/21291	4824/21291	1608/7096	1608	7096		"INFO_REALIGN_3_PRIME,T"	del1608	TA5085T	del1608	ORF1AB:DEL1608	1608	ORF1a	del1608	ORF1A:DEL1608	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	5284	.	C	T	5877	PASS	1386	0.202742	0	"1100,0,281,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5019C>T	p.Asn1673Asn	5019/21291	5019/21291	1673/7096	1673	7096		",T"	N1673N	C5284T	N1673N	ORF1AB:N1673N	1673	ORF1a	N1673N	ORF1A:N1673N	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	6286	.	C	T	5375	PASS	364	0.527473	0	"171,0,192,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	6374	.	GA	G	2160	PASS	370	0.227027	0	"287,0,84,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6110delA	p.Asp2037fs	6110/21291	6110/21291	2037/7096	2037	7096		",G"	del2037	GA6374G	del2037	ORF1AB:DEL2037	2037	ORF1a	del2037	ORF1A:DEL2037	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	6550	.	A	G	1139	PASS	649	0.103236	0	"582,0,67,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6285A>G	p.Leu2095Leu	6285/21291	6285/21291	2095/7096	2095	7096		",G"	L2095L	A6550G	L2095L	ORF1AB:L2095L	2095	ORF1a	L2095L	ORF1A:L2095L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	6696	.	C	CT	212	PASS	353	0.025496	0	"344,0,9,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	7441	.	T	C	421	PASS	97	0.206186	0	"77,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7176T>C	p.Tyr2392Tyr	7176/21291	7176/21291	2392/7096	2392	7096		",C"	Y2392Y	T7441C	Y2392Y	ORF1AB:Y2392Y	2392	ORF1a	Y2392Y	ORF1A:Y2392Y	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	7442	.	G	T	443	PASS	97	0.206186	0	"77,0,20,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7177G>T	p.Val2393Leu	7177/21291	7177/21291	2393/7096	2393	7096		",T"	V2393L	G7442T	V2393L	ORF1AB:V2393L	2393	ORF1a	V2393L	ORF1A:V2393L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	7457	.	G	C	605	PASS	93	0.258065	0	"69,0,24,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7192G>C	p.Val2398Leu	7192/21291	7192/21291	2398/7096	2398	7096		",C"	V2398L	G7457C	V2398L	ORF1AB:V2398L	2398	ORF1a	V2398L	ORF1A:V2398L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	7605	.	TAC	T	716	PASS	710	0.039437	0	"682,0,28,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7344_7345delCA	p.His2448fs	7344/21291	7344/21291	2448/7096	2448	7096		"INFO_REALIGN_3_PRIME,T"	del2448	TAC7605T	del2448	ORF1AB:DEL2448	2448	ORF1a	del2448	ORF1A:DEL2448	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	7874	.	C	T	3032	PASS	1462	0.129275	0	"1265,0,189,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7609C>T	p.Pro2537Ser	7609/21291	7609/21291	2537/7096	2537	7096		",T"	P2537S	C7874T	P2537S	ORF1AB:P2537S	2537	ORF1a	P2537S	ORF1A:P2537S	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	8143	.	A	G	5680	PASS	1416	0.194915	0	"1137,0,276,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7878A>G	p.Leu2626Leu	7878/21291	7878/21291	2626/7096	2626	7096		",G"	L2626L	A8143G	L2626L	ORF1AB:L2626L	2626	ORF1a	L2626L	ORF1A:L2626L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	8627	.	TA	T	1314	PASS	206	0.237864	0	"157,0,49,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8363delA	p.Tyr2788fs	8363/21291	8363/21291	2788/7096	2788	7096		",T"	del2788	TA8627T	del2788	ORF1AB:DEL2788	2788	ORF1a	del2788	ORF1A:DEL2788	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	9550	.	AC	A	54	PASS	2344	0.001706	0	"2457,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9287delC	p.Pro3096fs	9287/21291	9287/21291	3096/7096	3096	7096		"INFO_REALIGN_3_PRIME,A"	del3096	AC9550A	del3096	ORF1AB:DEL3096	3096	ORF1a	del3096	ORF1A:DEL3096	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	9711	.	C	A	78	PASS	2563	0.008584	0	"2538,0,22,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9446C>A	p.Ser3149Tyr	9446/21291	9446/21291	3149/7096	3149	7096		",A"	S3149Y	C9711A	S3149Y	ORF1AB:S3149Y	3149	ORF1a	S3149Y	ORF1A:S3149Y	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	10008	.	T	C	3130	PASS	2279	0.098728	0	"2042,0,225,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9743T>C	p.Val3248Ala	9743/21291	9743/21291	3248/7096	3248	7096		",C"	V3248A	T10008C	V3248A	ORF1AB:V3248A	3248	ORF1a	V3248A	ORF1A:V3248A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	11095	.	CT	C	51	PASS	1735	0.002305	0	"1731,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835delT	p.Leu3612fs	10835/21291	10835/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,C"	del3612	CT11095C	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	11557	.	G	T	10948	PASS	1658	0.285283	0	"1185,0,473,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11292G>T	p.Glu3764Asp	11292/21291	11292/21291	3764/7096	3764	7096		",T"	E3764D	G11557T	E3764D	ORF1AB:E3764D	3764	ORF1a	E3764D	ORF1A:E3764D	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	11747	.	C	T	9317	PASS	623	0.544141	0	"284,0,339,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11482C>T	p.Leu3828Leu	11482/21291	11482/21291	3828/7096	3828	7096		",T"	L3828L	C11747T	L3828L	ORF1AB:L3828L	3828	ORF1a	L3828L	ORF1A:L3828L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	12513	.	C	T	13120	PASS	2040	0.281373	0	"1458,0,574,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12248C>T	p.Thr4083Met	12248/21291	12248/21291	4083/7096	4083	7096		",T"	T4083M	C12513T	T4083M	ORF1AB:T4083M	4083	ORF1a	T4083M	ORF1A:T4083M	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	12892	.	GGAAC	G	459	PASS	3604	0.072974	0	"3344,0,263,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12628_12631delGAAC	p.Glu4210fs	12628/21291	12628/21291	4210/7096	4210	7096		",G"	del4210	GGAAC12892G	del4210	ORF1AB:DEL4210	4210	ORF1a	del4210	ORF1A:DEL4210	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	12893	.	GAACC	G	292	PASS	3603	0.037469	0	"3477,0,135,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12630_12633delACCA	p.Glu4210fs	12630/21291	12630/21291	4210/7096	4210	7096		"INFO_REALIGN_3_PRIME,G"	del4210	GAACC12893G	del4210	ORF1AB:DEL4210	4210	ORF1a	del4210	ORF1A:DEL4210	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	12893	.	G	A	206	PASS	3612	0.043189	0	"3183,0,156,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12628G>A	p.Glu4210Lys	12628/21291	12628/21291	4210/7096	4210	7096		",A"	E4210K	G12893A	E4210K	ORF1AB:E4210K	4210	ORF1a	E4210K	ORF1A:E4210K	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	13337	.	A	G	100	PASS	4234	0.008266	0	"4193,0,35,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13072A>G	p.Asn4358Asp	13072/21291	13072/21291	4358/7096	4358	7096		",G"	N4358D	A13337G	N4358D	ORF1AB:N4358D	4358	ORF1a	N4358D	ORF1A:N4358D	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	13459	.	GT	G	52	PASS	3684	0.001357	0	"3730,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13199delT	p.Leu4400fs	13199/21291	13199/21291	4400/7096	4400	7096		"INFO_REALIGN_3_PRIME,G"	del4400	GT13459G	del4400	ORF1AB:DEL4400	4400	ORF1a	del4400	ORF1A:DEL4400	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	13517	.	C	T	2357	PASS	3150	0.059048	0	"2956,0,186,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	14000	.	TA	T	13856	PASS	2407	0.198172	0	"1934,0,477,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13741delA	p.Thr4581fs	13741/21291	13741/21291	4581/7096	4581	7096		"INFO_REALIGN_3_PRIME,T"	del4581	TA14000T	del4581	ORF1AB:DEL4581	180	ORF1b	del180	ORF1B:DEL180	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	14408	.	C	T	798	PASS	23	1	2147483647	"0,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	14540	.	G	GT	174	PASS	445	0.017978	0	"437,0,8,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14280dupT	p.Lys4761fs	14281/21291	14281/21291	4761/7096	4761	7096		"INFO_REALIGN_3_PRIME,GT"	del4761	G14540GT	del4761	ORF1AB:DEL4761	360	ORF1b	del360	ORF1B:DEL360	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	15237	.	C	T	12045	PASS	1747	0.279908	0	"1254,0,489,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14973C>T	p.His4991His	14973/21291	14973/21291	4991/7096	4991	7096		",T"	H4991H	C15237T	H4991H	ORF1AB:H4991H	590	ORF1b	H590H	ORF1B:H590H	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	15295	.	T	C	132	PASS	1066	0.016886	0	"1047,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15031T>C	p.Tyr5011His	15031/21291	15031/21291	5011/7096	5011	7096		",C"	Y5011H	T15295C	Y5011H	ORF1AB:Y5011H	610	ORF1b	Y610H	ORF1B:Y610H	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	15324	.	C	T	1613	PASS	993	0.104733	0	"887,0,104,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	15651	.	T	C	165	PASS	907	0.031974	0	"876,0,29,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15387T>C	p.Val5129Val	15387/21291	15387/21291	5129/7096	5129	7096		",C"	V5129V	T15651C	V5129V	ORF1AB:V5129V	728	ORF1b	V728V	ORF1B:V728V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	15766	.	G	T	290	PASS	943	0.032874	0	"910,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	15843	.	T	C	1303	PASS	734	0.103542	0	"657,0,76,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15579T>C	p.Thr5193Thr	15579/21291	15579/21291	5193/7096	5193	7096		",C"	T5193T	T15843C	T5193T	ORF1AB:T5193T	792	ORF1b	T792T	ORF1B:T792T	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	15873	.	A	AT	1508	PASS	519	0.104046	0	"468,0,54,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15613dupT	p.Cys5205fs	15614/21291	15614/21291	5205/7096	5205	7096		"INFO_REALIGN_3_PRIME,AT"	del5205	A15873AT	del5205	ORF1AB:DEL5205	804	ORF1b	del804	ORF1B:DEL804	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	16475	.	GT	G	10970	PASS	3537	0.112525	0	"3213,0,398,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16215delT	p.Pro5406fs	16215/21291	16215/21291	5405/7096	5405	7096		"INFO_REALIGN_3_PRIME,G"	del5406	GT16475G	del5406	ORF1AB:DEL5406	1005	ORF1b	del1005	ORF1B:DEL1005	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	16735	.	TG	T	17288	PASS	4900	0.123878	0	"4299,0,607,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16474delG	p.Glu5492fs	16474/21291	16474/21291	5492/7096	5492	7096		"INFO_REALIGN_3_PRIME,T"	del5492	TG16735T	del5492	ORF1AB:DEL5492	1091	ORF1b	del1091	ORF1B:DEL1091	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	16795	.	G	T	17270	PASS	4894	0.174295	0	"4038,0,853,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16531G>T	p.Val5511Leu	16531/21291	16531/21291	5511/7096	5511	7096		",T"	V5511L	G16795T	V5511L	ORF1AB:V5511L	1110	ORF1b	V1110L	ORF1B:V1110L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	17019	.	G	GT	249	PASS	1973	0.007096	0	"1965,0,14,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16759dupT	p.Ser5587fs	16760/21291	16760/21291	5587/7096	5587	7096		"INFO_REALIGN_3_PRIME,GT"	del5587	G17019GT	del5587	ORF1AB:DEL5587	1186	ORF1b	del1186	ORF1B:DEL1186	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	17019	.	G	T	207	PASS	1979	0.015664	0	"1948,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	17304	.	C	T	1379	PASS	238	0.252101	0	"177,0,60,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17040C>T	p.Val5680Val	17040/21291	17040/21291	5680/7096	5680	7096		",T"	V5680V	C17304T	V5680V	ORF1AB:V5680V	1279	ORF1b	V1279V	ORF1B:V1279V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	17322	.	A	G	97	PASS	246	0.044715	0	"235,0,11,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17058A>G	p.Ala5686Ala	17058/21291	17058/21291	5686/7096	5686	7096		",G"	A5686A	A17322G	A5686A	ORF1AB:A5686A	1285	ORF1b	A1285A	ORF1B:A1285A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	17518	.	C	T	26065	PASS	1474	0.597693	0	"587,0,881,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17254C>T	p.Leu5752Phe	17254/21291	17254/21291	5752/7096	5752	7096		",T"	L5752F	C17518T	L5752F	ORF1AB:L5752F	1351	ORF1b	L1351F	ORF1B:L1351F	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	17713	.	A	G	101	PASS	2348	0.011925	0	"2316,0,28,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17449A>G	p.Ile5817Val	17449/21291	17449/21291	5817/7096	5817	7096		",G"	I5817V	A17713G	I5817V	ORF1AB:I5817V	1416	ORF1b	I1416V	ORF1B:I1416V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	18287	.	T	C	70	PASS	447	0.022371	0	"435,0,10,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18023T>C	p.Val6008Ala	18023/21291	18023/21291	6008/7096	6008	7096		",C"	V6008A	T18287C	V6008A	ORF1AB:V6008A	1607	ORF1b	V1607A	ORF1B:V1607A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	18333	.	A	G	1413	PASS	365	0.183562	0	"298,0,67,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18069A>G	p.Arg6023Arg	18069/21291	18069/21291	6023/7096	6023	7096		",G"	R6023R	A18333G	R6023R	ORF1AB:R6023R	1622	ORF1b	R1622R	ORF1B:R1622R	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	18747	.	C	T	14734	PASS	1988	0.299799	0	"1386,0,596,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18483C>T	p.Val6161Val	18483/21291	18483/21291	6161/7096	6161	7096		",T"	V6161V	C18747T	V6161V	ORF1AB:V6161V	1760	ORF1b	V1760V	ORF1B:V1760V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	18877	.	C	T	98	PASS	2075	0.01012	0	"2050,0,21,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	19149	.	T	C	292	PASS	2501	0.023591	0	"2437,0,59,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18885T>C	p.Tyr6295Tyr	18885/21291	18885/21291	6295/7096	6295	7096		",C"	Y6295Y	T19149C	Y6295Y	ORF1AB:Y6295Y	1894	ORF1b	Y1894Y	ORF1B:Y1894Y	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	19304	.	A	T	13886	PASS	2714	0.23213	0	"2084,0,630,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19040A>T	p.Asn6347Ile	19040/21291	19040/21291	6347/7096	6347	7096		",T"	N6347I	A19304T	N6347I	ORF1AB:N6347I	1946	ORF1b	N1946I	ORF1B:N1946I	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	19317	.	CCA	C	52	PASS	2769	0.001445	0	"2768,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19059_19060delAC	p.Pro6354fs	19059/21291	19059/21291	6353/7096	6353	7096		"INFO_REALIGN_3_PRIME,C"	del6354	CCA19317C	del6354	ORF1AB:DEL6354	1953	ORF1b	del1953	ORF1B:DEL1953	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	19711	.	G	GT	11101	PASS	2030	0.183251	0	"1658,0,372,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19450dupT	p.Tyr6484fs	19451/21291	19451/21291	6484/7096	6484	7096		"INFO_REALIGN_3_PRIME,GT"	del6484	G19711GT	del6484	ORF1AB:DEL6484	2083	ORF1b	del2083	ORF1B:DEL2083	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	20661	.	T	C	16026	PASS	2591	0.270166	0	"1886,0,700,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20397T>C	p.Ser6799Ser	20397/21291	20397/21291	6799/7096	6799	7096		",C"	S6799S	T20661C	S6799S	ORF1AB:S6799S	2398	ORF1b	S2398S	ORF1B:S2398S	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	21145	.	C	T	12829	PASS	1894	0.297782	0	"1323,0,564,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20881C>T	p.Leu6961Phe	20881/21291	20881/21291	6961/7096	6961	7096		",T"	L6961F	C21145T	L6961F	ORF1AB:L6961F	2560	ORF1b	L2560F	ORF1B:L2560F	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	21222	.	A	T	10582	PASS	1735	0.261095	0	"1279,0,453,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	21251	.	A	G	150	PASS	2098	0.016683	0	"2059,0,35,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20987A>G	p.Asn6996Ser	20987/21291	20987/21291	6996/7096	6996	7096		",G"	N6996S	A21251G	N6996S	ORF1AB:N6996S	2595	ORF1b	N2595S	ORF1B:N2595S	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	21255	.	G	C	47684	PASS	2086	0.741611	0	"531,0,1547,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	21829	.	T	TG	5596	PASS	1471	0.135282	0	"1272,0,199,0"	TRUE	TG	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.268dupG	p.Val90fs	269/3822	269/3822	90/1273	90	1273		"INFO_REALIGN_3_PRIME,TG"	del90	T21829TG	del90	S:DEL90	90	S	del90	S:DEL90	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	21904	.	C	A	26042	PASS	1720	0.55	0	"772,0,946,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.342C>A	p.Thr114Thr	342/3822	342/3822	114/1273	114	1273		",A"	T114T	C21904A	T114T	S:T114T	114	S	T114T	S:T114T	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22009	.	CA	C	5565	PASS	1534	0.129726	0	"1335,0,199,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.451delA	p.Ser151fs	451/3822	451/3822	151/1273	151	1273		"INFO_REALIGN_3_PRIME,C"	del151	CA22009C	del151	S:DEL151	151	S	del151	S:DEL151	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22083	.	C	CT	4665	PASS	1264	0.130538	0	"1099,0,165,0"	TRUE	CT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.525dupT	p.Leu176fs	526/3822	526/3822	176/1273	176	1273		"INFO_REALIGN_3_PRIME,CT"	del176	C22083CT	del176	S:DEL176	176	S	del176	S:DEL176	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22114	.	T	TA	4059	PASS	1250	0.1168	0	"1128,0,146,0"	TRUE	TA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.554dupA	p.Asn185fs	555/3822	555/3822	185/1273	185	1273		"INFO_REALIGN_3_PRIME,TA"	del185	T22114TA	del185	S:DEL185	185	S	del185	S:DEL185	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22218	.	G	T	964	PASS	806	0.084367	0	"738,0,68,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.656G>T	p.Gly219Val	656/3822	656/3822	219/1273	219	1273		",T"	G219V	G22218T	G219V	S:G219V	219	S	G219V	S:G219V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22227	.	C	T	5327	PASS	700	0.347143	0	"454,0,243,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22591	.	C	T	104	PASS	56	0.089286	0	"51,0,5,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1029C>T	p.Asn343Asn	1029/3822	1029/3822	343/1273	343	1273		",T"	N343N	C22591T	N343N	S:N343N	343	S	N343N	S:N343N	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22879	.	C	A	948	PASS	724	0.098066	0	"652,0,71,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1317C>A	p.Asn439Lys	1317/3822	1317/3822	439/1273	439	1273		",A"	N439K	C22879A	N439K	S:N439K	439	S	N439K	S:N439K	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22962	.	A	G	72	PASS	914	0.012035	0	"900,0,11,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1400A>G	p.Asp467Gly	1400/3822	1400/3822	467/1273	467	1273		",G"	D467G	A22962G	D467G	S:D467G	467	S	D467G	S:D467G	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	22992	.	G	A	4126	PASS	1008	0.199405	0	"801,0,201,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	23403	.	A	G	26341	PASS	778	0.998715	2147483647	"0,0,777,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	23695	.	T	C	2040	PASS	649	0.164869	0	"539,0,107,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2133T>C	p.Ser711Ser	2133/3822	2133/3822	711/1273	711	1273		",C"	S711S	T23695C	S711S	S:S711S	711	S	S711S	S:S711S	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	24253	.	A	G	1143	PASS	806	0.088089	0	"731,0,71,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2691A>G	p.Pro897Pro	2691/3822	2691/3822	897/1273	897	1273		",G"	P897P	A24253G	P897P	S:P897P	897	S	P897P	S:P897P	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	24367	.	AG	A	2306	PASS	1086	0.088398	0	"991,0,96,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2806delG	p.Asp936fs	2806/3822	2806/3822	936/1273	936	1273		",A"	del936	AG24367A	del936	S:DEL936	936	S	del936	S:DEL936	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	24536	.	CA	C	753	PASS	1248	0.026442	0	"1215,0,33,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2977delA	p.Ile993fs	2977/3822	2977/3822	993/1273	993	1273		"INFO_REALIGN_3_PRIME,C"	del993	CA24536C	del993	S:DEL993	993	S	del993	S:DEL993	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25026	.	AT	A	2096	PASS	1805	0.048753	0	"1719,0,88,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3468delT	p.Phe1156fs	3468/3822	3468/3822	1156/1273	1156	1273		"INFO_REALIGN_3_PRIME,A"	del1156	AT25026A	del1156	S:DEL1156	1156	S	del1156	S:DEL1156	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25240	.	C	A	68	PASS	1814	0.018192	0	"1776,0,33,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25254	.	C	A	78	PASS	2021	0.017318	0	"1984,0,35,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25276	.	C	T	2771	PASS	1966	0.11648	0	"1724,0,229,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3714C>T	p.Thr1238Thr	3714/3822	3714/3822	1238/1273	1238	1273		",T"	T1238T	C25276T	T1238T	S:T1238T	1238	S	T1238T	S:T1238T	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25277	.	A	T	76	PASS	1981	0.021201	0	"1919,0,42,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25280	.	T	G	91	PASS	2002	0.021978	0	"1951,0,44,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25296	.	A	C	274	PASS	2019	0.044081	0	"1888,0,89,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25301	.	T	G	131	PASS	2000	0.0295	0	"1940,0,59,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25312	.	T	G	73	PASS	2072	0.024131	0	"2019,0,50,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25314	.	G	T	101	PASS	2074	0.026519	0	"2006,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25324	.	C	A	926	PASS	2124	0.072505	0	"1969,0,154,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25327	.	A	T	126	PASS	2105	0.026128	0	"2048,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25331	.	G	T	121	PASS	2090	0.032536	0	"1996,0,68,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25336	.	A	C	346	PASS	2076	0.05395	0	"1955,0,112,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25563	.	G	T	4539	PASS	1646	0.141555	0	"1413,0,233,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25593	.	G	T	5915	PASS	1774	0.171364	0	"1467,0,304,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25710	.	C	T	2993	PASS	1011	0.152324	0	"854,0,154,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25844	.	C	T	625	PASS	589	0.064516	0	"548,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.452C>T	p.Thr151Ile	452/828	452/828	151/275	151	275		",T"	T151I	C25844T	T151I	ORF3A:T151I	151	ORF3a	T151I	ORF3A:T151I	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25906	.	G	C	495	PASS	641	0.063963	0	"598,0,41,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	25996	.	G	T	614	PASS	683	0.062958	0	"640,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26277	.	G	A	328	PASS	2498	0.020416	0	"2445,0,51,0"	FALSE	A	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.33G>A	p.Thr11Thr	33/228	33/228	11/75	11	75		",A"	T11T	G26277A	T11T	E:T11T	11	E	T11T	E:T11T	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26309	.	C	T	7284	PASS	2486	0.160499	0	"2084,0,399,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.65C>T	p.Ala22Val	65/228	65/228	22/75	22	75		",T"	A22V	C26309T	A22V	E:A22V	22	E	A22V	E:A22V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26430	.	TA	T	51	PASS	4016	0.001245	0	"4036,0,5,0"	TRUE	T	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.191delA	p.Asn64fs	191/228	191/228	64/75	64	75		"INFO_REALIGN_3_PRIME,T"	del64	TA26430T	del64	E:DEL64	64	E	del64	E:DEL64	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26509	.	CT	C	124	PASS	4142	0.002173	0	"4133,0,9,0"	TRUE	C	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-13delT						NA	13	",C"	del	CT26509C	del	M:DEL	NA	M	del	M:DEL	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26561	.	TA	T	52	PASS	3719	0.001344	0	"3715,0,5,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.44delA	p.Lys15fs	44/669	44/669	15/222	15	222		"INFO_REALIGN_3_PRIME,T"	del15	TA26561T	del15	M:DEL15	15	M	del15	M:DEL15	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26735	.	C	T	49314	PASS	3616	0.645741	0	"1279,0,2335,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26801	.	C	G	91	PASS	2671	0.008237	0	"2649,0,22,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26866	.	A	G	9933	PASS	1348	0.307864	0	"932,0,415,0"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.344A>G	p.Glu115Gly	344/669	344/669	115/222	115	222		",G"	E115G	A26866G	E115G	M:E115G	115	M	E115G	M:E115G	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	26876	.	T	C	23560	PASS	1218	0.646141	0	"429,0,787,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	27240	.	G	A	1588	PASS	1073	0.095061	0	"966,0,102,0"	FALSE	A	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.39G>A	p.Glu13Glu	39/186	39/186	13/61	13	61		",A"	E13E	G27240A	E13E	ORF6:E13E	13	ORF6	E13E	ORF6:E13E	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	27605	.	TA	T	51	PASS	4814	0.001039	0	"4818,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.216delA	p.Lys72fs	216/366	216/366	72/121	72	121		"INFO_REALIGN_3_PRIME,T"	del72	TA27605T	del72	ORF7A:DEL72	72	ORF7a	del72	ORF7A:DEL72	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	27707	.	C	T	21777	PASS	4915	0.213835	0	"3849,0,1051,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	27791	.	CT	C	76	PASS	4216	0.00166	0	"4210,0,7,0"	TRUE	C	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.41delT	p.Leu14fs	41/132	41/132	14/43	14	43		"INFO_REALIGN_3_PRIME,C"	del14	CT27791C	del14	ORF7B:DEL14	14	ORF7b	del14	ORF7B:DEL14	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	27944	.	C	T	15193	PASS	3292	0.20808	0	"2595,0,685,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	27994	.	A	C	1208	PASS	2080	0.047115	0	"1981,0,98,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.101A>C	p.Asp34Ala	101/366	101/366	34/121	34	121		",C"	D34A	A27994C	D34A	ORF8:D34A	34	ORF8	D34A	ORF8:D34A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28254	.	A	C	290	PASS	1055	0.036967	0	"1014,0,39,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28286	.	G	A	931	PASS	1742	0.055109	0	"1640,0,96,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.13G>A	p.Gly5Arg	13/1260	13/1260	5/419	5	419		",A"	G5R	G28286A	G5R	N:G5R	5	N	G5R	N:G5R	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28378	.	G	T	12384	PASS	2806	0.208482	0	"2218,0,585,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28776	.	CA	C	58	PASS	5788	0.001037	0	"5782,0,6,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28855	.	A	C	19960	PASS	5502	0.178481	0	"4512,0,982,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28881	.	G	A	49314	PASS	4954	0.482035	0	"2548,0,2388,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28882	.	G	A	49314	PASS	4960	0.479435	0	"2556,0,2378,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28883	.	G	C	49314	PASS	4980	0.485542	0	"2545,0,2418,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28887	.	C	T	7569	PASS	5041	0.098195	0	"4534,0,495,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28932	.	C	T	32222	PASS	5315	0.269614	0	"3872,0,1433,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28975	.	G	C	20476	PASS	5116	0.192924	0	"4119,0,987,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES36	NC_045512.2	28987	.	CCAA	C	405	PASS	4764	0.005038	0	"4774,0,24,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	HES36	HESPERANGE	2020-11-30T00:00:00Z	30.8655	32.59666667	x	1022021	2020-11-30
HES41	NC_045512.2	241	.	C	T	49314	PASS	1680	0.998214	2147483647	"0,0,1677,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	802	.	A	C	158	PASS	2583	0.012776	0	"2536,0,33,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	823	.	C	T	44363	PASS	2748	0.548035	0	"1240,0,1506,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	913	.	C	T	49314	PASS	2822	0.997165	0	"4,0,2814,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	1445	.	A	G	2177	PASS	2819	0.070238	0	"2610,0,198,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1180A>G	p.Lys394Glu	1180/21291	1180/21291	394/7096	394	7096		",G"	K394E	A1445G	K394E	ORF1AB:K394E	394	ORF1a	K394E	ORF1A:K394E	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	1467	.	GTC	G	106	PASS	2789	0.004303	0	"2781,0,12,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1203_1204delTC	p.Arg402fs	1203/21291	1203/21291	401/7096	401	7096		",G"	del402	GTC1467G	del402	ORF1AB:DEL402	402	ORF1a	del402	ORF1A:DEL402	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	1468	.	TCG	T	24417	PASS	2764	0.302822	0	"1957,0,837,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1205_1206delGC	p.Arg402fs	1205/21291	1205/21291	402/7096	402	7096		"INFO_REALIGN_3_PRIME,T"	del402	TCG1468T	del402	ORF1AB:DEL402	402	ORF1a	del402	ORF1A:DEL402	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	1470	.	G	A	92	PASS	2784	0.012213	0	"1898,0,34,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1205G>A	p.Arg402His	1205/21291	1205/21291	402/7096	402	7096		",A"	R402H	G1470A	R402H	ORF1AB:R402H	402	ORF1a	R402H	ORF1A:R402H	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	2453	.	C	T	12280	PASS	918	0.481481	0	"472,0,442,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2188C>T	p.Leu730Phe	2188/21291	2188/21291	730/7096	730	7096		",T"	L730F	C2453T	L730F	ORF1AB:L730F	730	ORF1a	L730F	ORF1A:L730F	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	2593	.	T	C	82	PASS	1599	0.009381	0	"1582,0,15,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2328T>C	p.Ala776Ala	2328/21291	2328/21291	776/7096	776	7096		",C"	A776A	T2593C	A776A	ORF1AB:A776A	776	ORF1a	A776A	ORF1A:A776A	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	2974	.	T	C	246	PASS	2515	0.016302	0	"2472,0,41,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2709T>C	p.Ala903Ala	2709/21291	2709/21291	903/7096	903	7096		",C"	A903A	T2974C	A903A	ORF1AB:A903A	903	ORF1a	A903A	ORF1A:A903A	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	3037	.	C	T	49314	PASS	2096	0.997615	2147483647	"0,0,2091,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	3140	.	C	T	519	PASS	1424	0.041433	0	"1358,0,59,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2875C>T	p.Pro959Ser	2875/21291	2875/21291	959/7096	959	7096		",T"	P959S	C3140T	P959S	ORF1AB:P959S	959	ORF1a	P959S	ORF1A:P959S	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	3267	.	C	T	1308	PASS	283	0.226148	0	"219,0,64,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	3575	.	G	GT	1568	PASS	279	0.197133	0	"226,0,55,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3314dupT	p.Leu1105fs	3315/21291	3315/21291	1105/7096	1105	7096		"INFO_REALIGN_3_PRIME,GT"	del1105	G3575GT	del1105	ORF1AB:DEL1105	1105	ORF1a	del1105	ORF1A:DEL1105	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	3602	.	C	T	2029	PASS	301	0.302326	0	"210,0,91,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	4040	.	A	G	354	PASS	70	0.228571	0	"54,0,16,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	4207	.	G	A	141	PASS	360	0.036111	0	"346,0,13,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3942G>A	p.Ala1314Ala	3942/21291	3942/21291	1314/7096	1314	7096		",A"	A1314A	G4207A	A1314A	ORF1AB:A1314A	1314	ORF1a	A1314A	ORF1A:A1314A	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	4522	.	T	C	1509	PASS	755	0.161589	0	"628,0,122,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4257T>C	p.Gly1419Gly	4257/21291	4257/21291	1419/7096	1419	7096		",C"	G1419G	T4522C	G1419G	ORF1AB:G1419G	1419	ORF1a	G1419G	ORF1A:G1419G	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	4548	.	A	G	2186	PASS	819	0.142857	0	"699,0,117,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4283A>G	p.Lys1428Arg	4283/21291	4283/21291	1428/7096	1428	7096		",G"	K1428R	A4548G	K1428R	ORF1AB:K1428R	1428	ORF1a	K1428R	ORF1A:K1428R	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	4623	.	T	C	75	PASS	781	0.015365	0	"767,0,12,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4358T>C	p.Val1453Ala	4358/21291	4358/21291	1453/7096	1453	7096		",C"	V1453A	T4623C	V1453A	ORF1AB:V1453A	1453	ORF1a	V1453A	ORF1A:V1453A	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	4724	.	A	G	2034	PASS	950	0.117895	0	"837,0,112,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4459A>G	p.Asn1487Asp	4459/21291	4459/21291	1487/7096	1487	7096		",G"	N1487D	A4724G	N1487D	ORF1AB:N1487D	1487	ORF1a	N1487D	ORF1A:N1487D	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	4950	.	T	C	170	PASS	1119	0.021448	0	"1094,0,24,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4685T>C	p.Leu1562Ser	4685/21291	4685/21291	1562/7096	1562	7096		",C"	L1562S	T4950C	L1562S	ORF1AB:L1562S	1562	ORF1a	L1562S	ORF1A:L1562S	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5175	.	C	T	13094	PASS	1379	0.37636	0	"857,0,519,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4910C>T	p.Thr1637Ile	4910/21291	4910/21291	1637/7096	1637	7096		",T"	T1637I	C5175T	T1637I	ORF1AB:T1637I	1637	ORF1a	T1637I	ORF1A:T1637I	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5365	.	C	T	10704	PASS	1215	0.352263	0	"783,0,428,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5100C>T	p.Tyr1700Tyr	5100/21291	5100/21291	1700/7096	1700	7096		",T"	Y1700Y	C5365T	Y1700Y	ORF1AB:Y1700Y	1700	ORF1a	Y1700Y	ORF1A:Y1700Y	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5388	.	C	A	4363	PASS	1223	0.17498	0	"1008,0,214,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5420	.	A	T	200	PASS	1296	0.020833	0	"1269,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5155A>T	p.Asn1719Tyr	5155/21291	5155/21291	1719/7096	1719	7096		",T"	N1719Y	A5420T	N1719Y	ORF1AB:N1719Y	1719	ORF1a	N1719Y	ORF1A:N1719Y	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5573	.	T	C	5673	PASS	550	0.387273	0	"336,0,213,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5308T>C	p.Tyr1770His	5308/21291	5308/21291	1770/7096	1770	7096		",C"	Y1770H	T5573C	Y1770H	ORF1AB:Y1770H	1770	ORF1a	Y1770H	ORF1A:Y1770H	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5884	.	C	T	5045	PASS	661	0.308623	0	"456,0,204,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5895	.	TA	T	4531	PASS	618	0.2411	0	"470,0,149,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5634delA	p.Lys1878fs	5634/21291	5634/21291	1878/7096	1878	7096		"INFO_REALIGN_3_PRIME,T"	del1878	TA5895T	del1878	ORF1AB:DEL1878	1878	ORF1a	del1878	ORF1A:DEL1878	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5956	.	C	T	859	PASS	688	0.079942	0	"632,0,55,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5691C>T	p.Asp1897Asp	5691/21291	5691/21291	1897/7096	1897	7096		",T"	D1897D	C5956T	D1897D	ORF1AB:D1897D	1897	ORF1a	D1897D	ORF1A:D1897D	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	5986	.	C	T	3178	PASS	836	0.17823	0	"687,0,149,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5721C>T	p.Phe1907Phe	5721/21291	5721/21291	1907/7096	1907	7096		",T"	F1907F	C5986T	F1907F	ORF1AB:F1907F	1907	ORF1a	F1907F	ORF1A:F1907F	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	6286	.	C	T	2705	PASS	863	0.162225	0	"719,0,140,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	6319	.	A	G	186	PASS	868	0.025346	0	"845,0,22,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6054A>G	p.Pro2018Pro	6054/21291	6054/21291	2018/7096	2018	7096		",G"	P2018P	A6319G	P2018P	ORF1AB:P2018P	2018	ORF1a	P2018P	ORF1A:P2018P	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	6374	.	G	T	6098	PASS	871	0.293915	0	"615,0,256,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6109G>T	p.Asp2037Tyr	6109/21291	6109/21291	2037/7096	2037	7096		",T"	D2037Y	G6374T	D2037Y	ORF1AB:D2037Y	2037	ORF1a	D2037Y	ORF1A:D2037Y	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	6941	.	C	T	10552	PASS	561	0.632799	0	"205,0,355,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	8878	.	C	T	173	PASS	495	0.036364	0	"477,0,18,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8613C>T	p.Gly2871Gly	8613/21291	8613/21291	2871/7096	2871	7096		",T"	G2871G	C8878T	G2871G	ORF1AB:G2871G	2871	ORF1a	G2871G	ORF1A:G2871G	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	8927	.	G	GT	568	PASS	571	0.042032	0	"549,0,24,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8667dupT	p.Ser2890fs	8668/21291	8668/21291	2890/7096	2890	7096		"INFO_REALIGN_3_PRIME,GT"	del2890	G8927GT	del2890	ORF1AB:DEL2890	2890	ORF1a	del2890	ORF1A:DEL2890	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	10046	.	G	GT	20299	PASS	2446	0.265331	0	"1797,0,649,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9785dupT	p.Leu3262fs	9786/21291	9786/21291	3262/7096	3262	7096		"INFO_REALIGN_3_PRIME,GT"	del3262	G10046GT	del3262	ORF1AB:DEL3262	3262	ORF1a	del3262	ORF1A:DEL3262	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	10046	.	G	T	82	PASS	2446	0.014309	0	"2408,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9781G>T	p.Val3261Phe	9781/21291	9781/21291	3261/7096	3261	7096		",T"	V3261F	G10046T	V3261F	ORF1AB:V3261F	3261	ORF1a	V3261F	ORF1A:V3261F	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	10401	.	C	A	70	PASS	3008	0.008311	0	"2979,0,25,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10136C>A	p.Ala3379Asp	10136/21291	10136/21291	3379/7096	3379	7096		",A"	A3379D	C10401A	A3379D	ORF1AB:A3379D	3379	ORF1a	A3379D	ORF1A:A3379D	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	10620	.	A	G	12304	PASS	1939	0.274884	0	"1399,0,533,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10355A>G	p.Gln3452Arg	10355/21291	10355/21291	3452/7096	3452	7096		",G"	Q3452R	A10620G	Q3452R	ORF1AB:Q3452R	3452	ORF1a	Q3452R	ORF1A:Q3452R	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	11192	.	T	C	1352	PASS	1239	0.081517	0	"1133,0,101,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10927T>C	p.Ser3643Pro	10927/21291	10927/21291	3643/7096	3643	7096		",C"	S3643P	T11192C	S3643P	ORF1AB:S3643P	3643	ORF1a	S3643P	ORF1A:S3643P	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	12988	.	G	T	49314	PASS	3604	0.652886	0	"1244,0,2353,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	13123	.	TG	T	147	PASS	4826	0.002487	0	"4873,0,12,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	14408	.	C	T	526	PASS	15	1	2147483647	"0,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	15144	.	T	C	194	PASS	1426	0.02244	0	"1387,0,32,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14880T>C	p.Asn4960Asn	14880/21291	14880/21291	4960/7096	4960	7096		",C"	N4960N	T15144C	N4960N	ORF1AB:N4960N	559	ORF1b	N559N	ORF1B:N559N	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	15324	.	C	T	10716	PASS	603	0.618574	0	"229,0,373,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	15598	.	G	A	4963	PASS	510	0.37451	0	"319,0,191,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15334G>A	p.Val5112Ile	15334/21291	15334/21291	5112/7096	5112	7096		",A"	V5112I	G15598A	V5112I	ORF1AB:V5112I	711	ORF1b	V711I	ORF1B:V711I	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	15963	.	C	T	356	PASS	39	0.384615	0	"24,0,15,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15699C>T	p.Gly5233Gly	15699/21291	15699/21291	5233/7096	5233	7096		",T"	G5233G	C15963T	G5233G	ORF1AB:G5233G	832	ORF1b	G832G	ORF1B:G832G	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	16170	.	T	C	318	PASS	35	0.342857	0	"23,0,12,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15906T>C	p.Asp5302Asp	15906/21291	15906/21291	5302/7096	5302	7096		",C"	D5302D	T16170C	D5302D	ORF1AB:D5302D	901	ORF1b	D901D	ORF1B:D901D	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	16567	.	A	G	627	PASS	3049	0.029846	0	"2946,0,91,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16303A>G	p.Thr5435Ala	16303/21291	16303/21291	5435/7096	5435	7096		",G"	T5435A	A16567G	T5435A	ORF1AB:T5435A	1034	ORF1b	T1034A	ORF1B:T1034A	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	16810	.	A	G	87	PASS	3092	0.008085	0	"3059,0,25,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16546A>G	p.Lys5516Glu	16546/21291	16546/21291	5516/7096	5516	7096		",G"	K5516E	A16810G	K5516E	ORF1AB:K5516E	1115	ORF1b	K1115E	ORF1B:K1115E	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	16910	.	T	C	9588	PASS	2313	0.184609	0	"1884,0,427,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16646T>C	p.Phe5549Ser	16646/21291	16646/21291	5549/7096	5549	7096		",C"	F5549S	T16910C	F5549S	ORF1AB:F5549S	1148	ORF1b	F1148S	ORF1B:F1148S	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	17300	.	A	G	1367	PASS	82	0.573171	0	"35,0,47,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17036A>G	p.Tyr5679Cys	17036/21291	17036/21291	5679/7096	5679	7096		",G"	Y5679C	A17300G	Y5679C	ORF1AB:Y5679C	1278	ORF1b	Y1278C	ORF1B:Y1278C	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	19081	.	TG	T	46	PASS	3775	0.00106	0	"3801,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18819delG	p.Trp6273fs	18819/21291	18819/21291	6273/7096	6273	7096		"INFO_REALIGN_3_PRIME,T"	del6273	TG19081T	del6273	ORF1AB:DEL6273	1872	ORF1b	del1872	ORF1B:DEL1872	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	19398	.	G	T	7878	PASS	2214	0.168022	0	"1842,0,372,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19134G>T	p.Glu6378Asp	19134/21291	19134/21291	6378/7096	6378	7096		",T"	E6378D	G19398T	E6378D	ORF1AB:E6378D	1977	ORF1b	E1977D	ORF1B:E1977D	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	19524	.	C	T	20747	PASS	1452	0.500689	0	"722,0,727,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	20703	.	CA	C	34683	PASS	3241	0.329528	0	"2173,0,1068,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20443delA	p.Met6815fs	20443/21291	20443/21291	6815/7096	6815	7096		"INFO_REALIGN_3_PRIME,C"	del6815	CA20703C	del6815	ORF1AB:DEL6815	2414	ORF1b	del2414	ORF1B:DEL2414	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	20980	.	G	T	95	PASS	2198	0.010009	0	"2176,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20716G>T	p.Asp6906Tyr	20716/21291	20716/21291	6906/7096	6906	7096		",T"	D6906Y	G20980T	D6906Y	ORF1AB:D6906Y	2505	ORF1b	D2505Y	ORF1B:D2505Y	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	21222	.	A	T	43438	PASS	1282	0.99376	0	"4,0,1274,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	21255	.	G	C	49314	PASS	1503	0.997339	2147483647	"0,0,1499,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	23248	.	C	T	4318	PASS	188	0.718085	0	"53,0,135,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1686C>T	p.Phe562Phe	1686/3822	1686/3822	562/1273	562	1273		",T"	F562F	C23248T	F562F	S:F562F	562	S	F562F	S:F562F	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	23403	.	A	G	8513	PASS	248	0.991935	2147483647	"0,0,246,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	23687	.	A	G	813	PASS	287	0.135889	0	"247,0,39,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2125A>G	p.Asn709Asp	2125/3822	2125/3822	709/1273	709	1273		",G"	N709D	A23687G	N709D	S:N709D	709	S	N709D	S:N709D	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	25810	.	C	T	2468	PASS	271	0.354244	0	"171,0,96,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.418C>T	p.Leu140Phe	418/828	418/828	140/275	140	275		",T"	L140F	C25810T	L140F	ORF3A:L140F	140	ORF3a	L140F	ORF3A:L140F	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	25889	.	C	T	5769	PASS	308	0.662338	0	"102,0,204,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.497C>T	p.Ser166Leu	497/828	497/828	166/275	166	275		",T"	S166L	C25889T	S166L	ORF3A:S166L	166	ORF3a	S166L	ORF3A:S166L	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	26801	.	C	G	6664	PASS	190	1	2147483647	"0,0,190,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	26941	.	T	C	1119	PASS	133	0.338346	0	"88,0,45,0"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.419T>C	p.Ile140Thr	419/669	419/669	140/222	140	222		",C"	I140T	T26941C	I140T	M:I140T	140	M	I140T	M:I140T	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	27237	.	A	G	5241	PASS	639	0.323944	0	"432,0,207,0"	FALSE	G	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.36A>G	p.Ala12Ala	36/186	36/186	12/61	12	61		",G"	A12A	A27237G	A12A	ORF6:A12A	12	ORF6	A12A	ORF6:A12A	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	27944	.	C	T	7606	PASS	1885	0.190981	0	"1517,0,360,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	27972	.	C	T	17429	PASS	1674	0.388889	0	"1022,0,651,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28048	.	G	T	5500	PASS	1164	0.208763	0	"920,0,243,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28111	.	A	G	4276	PASS	1359	0.172921	0	"1121,0,235,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28270	.	TA	T	9829	PASS	1495	0.266221	0	"1097,0,398,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28280	.	G	C	8488	PASS	1417	0.282992	0	"1010,0,401,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28281	.	A	T	8330	PASS	1433	0.277739	0	"1034,0,398,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28282	.	T	A	8648	PASS	1459	0.288554	0	"1037,0,421,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28651	.	C	T	37691	PASS	4498	0.330814	0	"3001,0,1488,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28733	.	A	G	416	PASS	6451	0.012091	0	"6364,0,78,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.460A>G	p.Asn154Asp	460/1260	460/1260	154/419	154	419		",G"	N154D	A28733G	N154D	N:N154D	154	N	N154D	N:N154D	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28776	.	CA	C	56	PASS	6727	0.000892	0	"6721,0,6,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28869	.	C	T	49314	PASS	6320	0.338766	0	"4162,0,2141,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28881	.	G	A	37636	PASS	5982	0.275493	0	"4317,0,1648,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28882	.	G	A	36393	PASS	6000	0.273667	0	"4337,0,1642,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28883	.	G	C	38913	PASS	5996	0.278019	0	"4310,0,1667,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28975	.	G	C	49314	PASS	5935	0.33631	0	"3932,0,1996,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28977	.	C	T	48260	PASS	5847	0.329742	0	"3908,0,1928,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28981	.	TA	T	53	PASS	5652	0.000885	0	"5728,0,5,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.711delA	p.Gly238fs	711/1260	711/1260	237/419	237	419		"INFO_REALIGN_3_PRIME,T"	del238	TA28981T	del238	N:DEL238	238	N	del238	N:DEL238	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	28987	.	CCAA	C	714	PASS	5480	0.007117	0	"5470,0,39,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
HES41	NC_045512.2	29051	.	CA	C	59	PASS	4899	0.001225	0	"4893,0,6,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783delA	p.Lys261fs	783/1260	783/1260	261/419	261	419		"INFO_REALIGN_3_PRIME,C"	del261	CA29051C	del261	N:DEL261	261	N	del261	N:DEL261	HES41	HESPERANGE	2021-01-07T00:00:00Z	32.4785	34.11333333	x	1022021	2021-01-07
MER31	NC_045512.2	241	.	C	T	49314	PASS	2591	0.998456	0	"1,0,2587,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	315	.	G	GT	8603	PASS	2521	0.115827	0	"2230,0,292,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.53dupT	p.Leu18fs	54/21291	54/21291	18/7096	18	7096		"INFO_REALIGN_3_PRIME,GT"	del18	G315GT	del18	ORF1AB:DEL18	18	ORF1a	del18	ORF1A:DEL18	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	327	.	T	C	118	PASS	2715	0.006998	0	"2696,0,19,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.62T>C	p.Leu21Ser	62/21291	62/21291	21/7096	21	7096		",C"	L21S	T327C	L21S	ORF1AB:L21S	21	ORF1a	L21S	ORF1A:L21S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	335	.	C	T	5152	PASS	2694	0.097624	0	"2429,0,263,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	445	.	T	C	47207	PASS	3172	0.511665	0	"1547,0,1623,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	507	.	ATGGTCATGTTATGGT	A	6865	PASS	3089	0.080932	0	"2839,0,250,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.245_259delGTCATGTTATGGTTG	p.Gly82_Val86del	245/21291	245/21291	82/7096	82	7096		"INFO_REALIGN_3_PRIME,A"	del82/86	ATGGTCATGTTATGGT507A	del82/86	ORF1AB:DEL82/86	82/86	ORF1a	del82/86	ORF1A:DEL82/86	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	739	.	A	G	902	PASS	3182	0.023256	0	"3104,0,74,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.474A>G	p.Gln158Gln	474/21291	474/21291	158/7096	158	7096		",G"	Q158Q	A739G	Q158Q	ORF1AB:Q158Q	158	ORF1a	Q158Q	ORF1A:Q158Q	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	816	.	G	T	1556	PASS	2351	0.044662	0	"2242,0,105,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.551G>T	p.Arg184Leu	551/21291	551/21291	184/7096	184	7096		",T"	R184L	G816T	R184L	ORF1AB:R184L	184	ORF1a	R184L	ORF1A:R184L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	997	.	T	C	89	PASS	2109	0.009483	0	"2089,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.732T>C	p.Arg244Arg	732/21291	732/21291	244/7096	244	7096		",C"	R244R	T997C	R244R	ORF1AB:R244R	244	ORF1a	R244R	ORF1A:R244R	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	1475	.	A	G	682	PASS	1531	0.033965	0	"1477,0,52,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1210A>G	p.Ile404Val	1210/21291	1210/21291	404/7096	404	7096		",G"	I404V	A1475G	I404V	ORF1AB:I404V	404	ORF1a	I404V	ORF1A:I404V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	1513	.	C	T	4230	PASS	1717	0.131043	0	"1488,0,225,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1248C>T	p.Cys416Cys	1248/21291	1248/21291	416/7096	416	7096		",T"	C416C	C1513T	C416C	ORF1AB:C416C	416	ORF1a	C416C	ORF1A:C416C	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	2416	.	C	T	698	PASS	257	0.120623	0	"226,0,31,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	2570	.	C	T	1840	PASS	682	0.1261	0	"596,0,86,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2305C>T	p.Pro769Ser	2305/21291	2305/21291	769/7096	769	7096		",T"	P769S	C2570T	P769S	ORF1AB:P769S	769	ORF1a	P769S	ORF1A:P769S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	3037	.	C	T	43538	PASS	1241	0.999194	2147483647	"0,0,1240,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	3228	.	T	C	378	PASS	152	0.118421	0	"134,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2963T>C	p.Val988Ala	2963/21291	2963/21291	988/7096	988	7096		",C"	V988A	T3228C	V988A	ORF1AB:V988A	988	ORF1a	V988A	ORF1A:V988A	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	3602	.	C	T	471	PASS	77	0.233766	0	"59,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	3682	.	T	C	131	PASS	141	0.049645	0	"134,0,7,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3417T>C	p.Asn1139Asn	3417/21291	3417/21291	1139/7096	1139	7096		",C"	N1139N	T3682C	N1139N	ORF1AB:N1139N	1139	ORF1a	N1139N	ORF1A:N1139N	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	4040	.	A	G	565	PASS	294	0.095238	0	"266,0,28,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	4290	.	CA	C	124	PASS	155	0.032258	0	"150,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4028delA	p.Lys1343fs	4028/21291	4028/21291	1343/7096	1343	7096		"INFO_REALIGN_3_PRIME,C"	del1343	CA4290C	del1343	ORF1AB:DEL1343	1343	ORF1a	del1343	ORF1A:DEL1343	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	4303	.	T	TA	66	PASS	139	0.021583	0	"136,0,3,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4043dupA	p.Cys1349fs	4044/21291	4044/21291	1348/7096	1348	7096		"INFO_REALIGN_3_PRIME,TA"	del1349	T4303TA	del1349	ORF1AB:DEL1349	1349	ORF1a	del1349	ORF1A:DEL1349	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	4312	.	TA	T	190	PASS	113	0.061947	0	"116,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4051delA	p.Ser1351fs	4051/21291	4051/21291	1351/7096	1351	7096		"INFO_REALIGN_3_PRIME,T"	del1351	TA4312T	del1351	ORF1AB:DEL1351	1351	ORF1a	del1351	ORF1A:DEL1351	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	4412	.	G	T	244	PASS	81	0.135802	0	"70,0,11,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4147G>T	p.Glu1383*	4147/21291	4147/21291	1383/7096	1383	7096		",T"	E1383*	G4412T	E1383*	ORF1AB:E1383*	1383	ORF1a	E1383*	ORF1A:E1383*	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	4543	.	C	T	625	PASS	92	0.271739	0	"67,0,25,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	4546	.	TA	T	281	PASS	95	0.105263	0	"85,0,10,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4285delA	p.Thr1429fs	4285/21291	4285/21291	1429/7096	1429	7096		"INFO_REALIGN_3_PRIME,T"	del1429	TA4546T	del1429	ORF1AB:DEL1429	1429	ORF1a	del1429	ORF1A:DEL1429	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	4927	.	C	T	752	PASS	592	0.070946	0	"549,0,42,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4662C>T	p.Asp1554Asp	4662/21291	4662/21291	1554/7096	1554	7096		",T"	D1554D	C4927T	D1554D	ORF1AB:D1554D	1554	ORF1a	D1554D	ORF1A:D1554D	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	5837	.	G	T	897	PASS	207	0.188406	0	"168,0,39,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5572G>T	p.Glu1858*	5572/21291	5572/21291	1858/7096	1858	7096		",T"	E1858*	G5837T	E1858*	ORF1AB:E1858*	1858	ORF1a	E1858*	ORF1A:E1858*	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	5884	.	C	T	159	PASS	273	0.043956	0	"261,0,12,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	5950	.	G	T	3074	PASS	341	0.328446	0	"228,0,112,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5685G>T	p.Lys1895Asn	5685/21291	5685/21291	1895/7096	1895	7096		",T"	K1895N	G5950T	K1895N	ORF1AB:K1895N	1895	ORF1a	K1895N	ORF1A:K1895N	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	6139	.	AT	A	728	PASS	269	0.100372	0	"242,0,27,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5879delT	p.Phe1960fs	5879/21291	5879/21291	1960/7096	1960	7096		"INFO_REALIGN_3_PRIME,A"	del1960	AT6139A	del1960	ORF1AB:DEL1960	1960	ORF1a	del1960	ORF1A:DEL1960	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	6286	.	C	T	2416	PASS	418	0.23445	0	"320,0,98,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	6336	.	C	T	610	PASS	386	0.085492	0	"352,0,33,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6071C>T	p.Ser2024Leu	6071/21291	6071/21291	2024/7096	2024	7096		",T"	S2024L	C6336T	S2024L	ORF1AB:S2024L	2024	ORF1a	S2024L	ORF1A:S2024L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	6422	.	GA	G	834	PASS	375	0.082667	0	"344,0,31,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6161delA	p.Asn2054fs	6161/21291	6161/21291	2054/7096	2054	7096		"INFO_REALIGN_3_PRIME,G"	del2054	GA6422G	del2054	ORF1AB:DEL2054	2054	ORF1a	del2054	ORF1A:DEL2054	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	6423	.	A	G	985	PASS	378	0.124339	0	"300,0,47,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6158A>G	p.Glu2053Gly	6158/21291	6158/21291	2053/7096	2053	7096		",G"	E2053G	A6423G	E2053G	ORF1AB:E2053G	2053	ORF1a	E2053G	ORF1A:E2053G	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	6516	.	TA	T	793	PASS	480	0.064583	0	"451,0,31,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6256delA	p.Ile2086fs	6256/21291	6256/21291	2086/7096	2086	7096		"INFO_REALIGN_3_PRIME,T"	del2086	TA6516T	del2086	ORF1AB:DEL2086	2086	ORF1a	del2086	ORF1A:DEL2086	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	6696	.	C	CT	830	PASS	225	0.124444	0	"197,0,28,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	6941	.	C	T	3724	PASS	332	0.415663	0	"194,0,138,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	7014	.	TAG	T	744	PASS	332	0.084337	0	"309,0,28,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6750_6751delAG	p.Gly2251fs	6750/21291	6750/21291	2250/7096	2250	7096		",T"	del2251	TAG7014T	del2251	ORF1AB:DEL2251	2251	ORF1a	del2251	ORF1A:DEL2251	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	7777	.	C	CT	742	PASS	222	0.112613	0	"197,0,25,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7515dupT	p.Asp2506fs	7516/21291	7516/21291	2506/7096	2506	7096		"INFO_REALIGN_3_PRIME,CT"	del2506	C7777CT	del2506	ORF1AB:DEL2506	2506	ORF1a	del2506	ORF1A:DEL2506	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	8376	.	CA	C	96	PASS	489	0.010225	0	"484,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	8462	.	G	T	909	PASS	577	0.090121	0	"525,0,52,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8197G>T	p.Ala2733Ser	8197/21291	8197/21291	2733/7096	2733	7096		",T"	A2733S	G8462T	A2733S	ORF1AB:A2733S	2733	ORF1a	A2733S	ORF1A:A2733S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	8983	.	T	G	687	PASS	253	0.12253	0	"222,0,31,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	9102	.	A	G	632	PASS	201	0.139303	0	"173,0,28,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8837A>G	p.Glu2946Gly	8837/21291	8837/21291	2946/7096	2946	7096		",G"	E2946G	A9102G	E2946G	ORF1AB:E2946G	2946	ORF1a	E2946G	ORF1A:E2946G	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	9267	.	G	T	1481	PASS	547	0.124314	0	"478,0,68,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9002G>T	p.Ser3001Ile	9002/21291	9002/21291	3001/7096	3001	7096		",T"	S3001I	G9267T	S3001I	ORF1AB:S3001I	3001	ORF1a	S3001I	ORF1A:S3001I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	9406	.	A	G	289	PASS	2307	0.013871	0	"2273,0,32,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9141A>G	p.Ile3047Met	9141/21291	9141/21291	3047/7096	3047	7096		",G"	I3047M	A9406G	I3047M	ORF1AB:I3047M	3047	ORF1a	I3047M	ORF1A:I3047M	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	9526	.	G	T	28430	PASS	2665	0.393246	0	"1615,0,1048,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	9536	.	G	T	4131	PASS	2834	0.080805	0	"2604,0,229,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9271G>T	p.Val3091Leu	9271/21291	9271/21291	3091/7096	3091	7096		",T"	V3091L	G9536T	V3091L	ORF1AB:V3091L	3091	ORF1a	V3091L	ORF1A:V3091L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	9895	.	T	A	320	PASS	2656	0.014307	0	"2617,0,38,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9630T>A	p.Leu3210Leu	9630/21291	9630/21291	3210/7096	3210	7096		",A"	L3210L	T9895A	L3210L	ORF1AB:L3210L	3210	ORF1a	L3210L	ORF1A:L3210L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	10044	.	CTG	C	2775	PASS	1524	0.082021	0	"1399,0,125,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9781_9782delGT	p.Val3261fs	9781/21291	9781/21291	3261/7096	3261	7096		"INFO_REALIGN_3_PRIME,C"	del3261	CTG10044C	del3261	ORF1AB:DEL3261	3261	ORF1a	del3261	ORF1A:DEL3261	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	10448	.	C	T	363	PASS	674	0.038576	0	"647,0,26,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10183C>T	p.Pro3395Ser	10183/21291	10183/21291	3395/7096	3395	7096		",T"	P3395S	C10448T	P3395S	ORF1AB:P3395S	3395	ORF1a	P3395S	ORF1A:P3395S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	10605	.	C	CT	1031	PASS	666	0.058559	0	"627,0,39,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10344dupT	p.Val3449fs	10345/21291	10345/21291	3449/7096	3449	7096		"INFO_REALIGN_3_PRIME,CT"	del3449	C10605CT	del3449	ORF1AB:DEL3449	3449	ORF1a	del3449	ORF1A:DEL3449	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	10658	.	G	A	698	PASS	598	0.070234	0	"554,0,42,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10393G>A	p.Val3465Ile	10393/21291	10393/21291	3465/7096	3465	7096		",A"	V3465I	G10658A	V3465I	ORF1AB:V3465I	3465	ORF1a	V3465I	ORF1A:V3465I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	11081	.	TTGTATG	T	301	PASS	667	0.02099	0	"660,0,14,0"	TRUE	T	stop_gained&disruptive_inframe_deletion	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817_10822delTGTATG	p.Leu3606_Glu3608delinsTer	10817/21291	10817/21291	3606/7096	3606	7096		",T"	indel	TTGTATG11081T	NA	NA	NA	ORF1a	NA	NA	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	11224	.	CTA	C	60	PASS	434	0.006912	0	"431,0,3,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10963_10964delAT	p.Met3655fs	10963/21291	10963/21291	3655/7096	3655	7096		"INFO_REALIGN_3_PRIME,C"	del3655	CTA11224C	del3655	ORF1AB:DEL3655	3655	ORF1a	del3655	ORF1A:DEL3655	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	12150	.	A	T	470	PASS	130	0.153846	0	"110,0,20,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11885A>T	p.Glu3962Val	11885/21291	11885/21291	3962/7096	3962	7096		",T"	E3962V	A12150T	E3962V	ORF1AB:E3962V	3962	ORF1a	E3962V	ORF1A:E3962V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	12789	.	CA	C	84	PASS	1691	0.013601	0	"1668,0,23,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12527delA	p.Lys4176fs	12527/21291	12527/21291	4176/7096	4176	7096		"INFO_REALIGN_3_PRIME,C"	del4176	CA12789C	del4176	ORF1AB:DEL4176	4176	ORF1a	del4176	ORF1A:DEL4176	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	13123	.	TG	T	111	PASS	3701	0.002432	0	"3751,0,9,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	13458	.	C	T	1836	PASS	2410	0.049793	0	"2287,0,120,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13193C>T	p.Ser4398Leu	13193/21291	13193/21291	4398/7096	4398	7096		",T"	S4398L	C13458T	S4398L	ORF1AB:S4398L	4398	ORF1a	S4398L	ORF1A:S4398L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	13566	.	A	G	1239	PASS	1270	0.055906	0	"1197,0,71,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13302A>G	p.Val4434Val	13302/21291	13302/21291	4434/7096	4434	7096		",G"	V4434V	A13566G	V4434V	ORF1AB:V4434V	33	ORF1b	V33V	ORF1B:V33V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	13571	.	G	GT	2494	PASS	1266	0.07346	0	"1187,0,93,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13311dupT	p.Ala4438fs	13312/21291	13312/21291	4438/7096	4438	7096		"INFO_REALIGN_3_PRIME,GT"	del4438	G13571GT	del4438	ORF1AB:DEL4438	37	ORF1b	del37	ORF1B:DEL37	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	13915	.	A	G	2186	PASS	1405	0.088256	0	"1279,0,124,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13651A>G	p.Lys4551Glu	13651/21291	13651/21291	4551/7096	4551	7096		",G"	K4551E	A13915G	K4551E	ORF1AB:K4551E	150	ORF1b	K150E	ORF1B:K150E	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	13933	.	T	C	2365	PASS	1251	0.097522	0	"1126,0,122,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13669T>C	p.Phe4557Leu	13669/21291	13669/21291	4557/7096	4557	7096		",C"	F4557L	T13933C	F4557L	ORF1AB:F4557L	156	ORF1b	F156L	ORF1B:F156L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	13993	.	G	T	3793	PASS	1027	0.167478	0	"853,0,172,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	14093	.	A	AT	1666	PASS	579	0.100173	0	"534,0,58,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13832dupT	p.Gly4612fs	13833/21291	13833/21291	4611/7096	4611	7096		"INFO_REALIGN_3_PRIME,AT"	del4612	A14093AT	del4612	ORF1AB:DEL4612	211	ORF1b	del211	ORF1B:DEL211	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	14408	.	C	T	1121	PASS	31	1	2147483647	"0,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	14414	.	G	GT	90	PASS	32	0.09375	0	"29,0,3,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14154dupT	p.Gly4719fs	14155/21291	14155/21291	4719/7096	4719	7096		"INFO_REALIGN_3_PRIME,GT"	del4719	G14414GT	del4719	ORF1AB:DEL4719	318	ORF1b	del318	ORF1B:DEL318	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	14500	.	G	T	728	PASS	207	0.270531	0	"151,0,56,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14236G>T	p.Val4746Leu	14236/21291	14236/21291	4746/7096	4746	7096		",T"	V4746L	G14500T	V4746L	ORF1AB:V4746L	345	ORF1b	V345L	ORF1B:V345L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	14513	.	A	T	361	PASS	268	0.070896	0	"249,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14249A>T	p.Asp4750Val	14249/21291	14249/21291	4750/7096	4750	7096		",T"	D4750V	A14513T	D4750V	ORF1AB:D4750V	349	ORF1b	D349V	ORF1B:D349V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	14688	.	CA	C	2208	PASS	1303	0.063699	0	"1220,0,83,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14427delA	p.Asp4810fs	14427/21291	14427/21291	4809/7096	4809	7096		"INFO_REALIGN_3_PRIME,C"	del4810	CA14688C	del4810	ORF1AB:DEL4810	409	ORF1b	del409	ORF1B:DEL409	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15157	.	CA	C	7068	PASS	1710	0.146784	0	"1459,0,251,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14898delA	p.Lys4966fs	14898/21291	14898/21291	4966/7096	4966	7096		"INFO_REALIGN_3_PRIME,C"	del4966	CA15157C	del4966	ORF1AB:DEL4966	565	ORF1b	del565	ORF1B:DEL565	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15262	.	G	C	1345	PASS	1332	0.063814	0	"1245,0,85,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14998G>C	p.Asp5000His	14998/21291	14998/21291	5000/7096	5000	7096		",C"	D5000H	G15262C	D5000H	ORF1AB:D5000H	599	ORF1b	D599H	ORF1B:D599H	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15311	.	G	T	381	PASS	859	0.030268	0	"833,0,26,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15047G>T	p.Arg5016Ile	15047/21291	15047/21291	5016/7096	5016	7096		",T"	R5016I	G15311T	R5016I	ORF1AB:R5016I	615	ORF1b	R615I	ORF1B:R615I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15324	.	C	T	7486	PASS	747	0.366801	0	"472,0,274,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15559	.	C	T	595	PASS	518	0.07722	0	"478,0,40,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15295C>T	p.Leu5099Phe	15295/21291	15295/21291	5099/7096	5099	7096		",T"	L5099F	C15559T	L5099F	ORF1AB:L5099F	698	ORF1b	L698F	ORF1B:L698F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15640	.	A	G	614	PASS	525	0.070476	0	"488,0,37,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15376A>G	p.Asn5126Asp	15376/21291	15376/21291	5126/7096	5126	7096		",G"	N5126D	A15640G	N5126D	ORF1AB:N5126D	725	ORF1b	N725D	ORF1B:N725D	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15720	.	C	T	766	PASS	439	0.093394	0	"398,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15456C>T	p.Asp5152Asp	15456/21291	15456/21291	5152/7096	5152	7096		",T"	D5152D	C15720T	D5152D	ORF1AB:D5152D	751	ORF1b	D751D	ORF1B:D751D	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15738	.	C	T	1897	PASS	449	0.178174	0	"367,0,80,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15474C>T	p.Phe5158Phe	15474/21291	15474/21291	5158/7096	5158	7096		",T"	F5158F	C15738T	F5158F	ORF1AB:F5158F	757	ORF1b	F757F	ORF1B:F757F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15766	.	G	T	3228	PASS	452	0.280973	0	"324,0,127,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	15965	.	G	GT	117	PASS	49	0.081633	0	"45,0,4,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15705dupT	p.Val5236fs	15706/21291	15706/21291	5236/7096	5236	7096		"INFO_REALIGN_3_PRIME,GT"	del5236	G15965GT	del5236	ORF1AB:DEL5236	835	ORF1b	del835	ORF1B:DEL835	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16117	.	G	T	146	PASS	111	0.081081	0	"101,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15853G>T	p.Asp5285Tyr	15853/21291	15853/21291	5285/7096	5285	7096		",T"	D5285Y	G16117T	D5285Y	ORF1AB:D5285Y	884	ORF1b	D884Y	ORF1B:D884Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16332	.	C	T	2486	PASS	1858	0.073197	0	"1721,0,136,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16068C>T	p.Asp5356Asp	16068/21291	16068/21291	5356/7096	5356	7096		",T"	D5356D	C16332T	D5356D	ORF1AB:D5356D	955	ORF1b	D955D	ORF1B:D955D	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16551	.	C	CT	7589	PASS	3929	0.070501	0	"3652,0,277,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16290dupT	p.Asn5431fs	16291/21291	16291/21291	5431/7096	5431	7096		"INFO_REALIGN_3_PRIME,CT"	del5431	C16551CT	del5431	ORF1AB:DEL5431	1030	ORF1b	del1030	ORF1B:DEL1030	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16635	.	T	C	468	PASS	4084	0.013957	0	"4024,0,57,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16371T>C	p.Phe5457Phe	16371/21291	16371/21291	5457/7096	5457	7096		",C"	F5457F	T16635C	F5457F	ORF1AB:F5457F	1056	ORF1b	F1056F	ORF1B:F1056F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16795	.	G	T	9935	PASS	3864	0.123965	0	"3385,0,479,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16531G>T	p.Val5511Leu	16531/21291	16531/21291	5511/7096	5511	7096		",T"	V5511L	G16795T	V5511L	ORF1AB:V5511L	1110	ORF1b	V1110L	ORF1B:V1110L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16837	.	GA	G	54	PASS	3338	0.001498	0	"3342,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16887	.	C	T	2598	PASS	2972	0.053836	0	"2812,0,160,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16623C>T	p.Tyr5541Tyr	16623/21291	16623/21291	5541/7096	5541	7096		",T"	Y5541Y	C16887T	Y5541Y	ORF1AB:Y5541Y	1140	ORF1b	Y1140Y	ORF1B:Y1140Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16889	.	A	G	21569	PASS	2996	0.271362	0	"2177,0,813,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16908	.	T	C	144	PASS	2736	0.006944	0	"2716,0,19,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16644T>C	p.Tyr5548Tyr	16644/21291	16644/21291	5548/7096	5548	7096		",C"	Y5548Y	T16908C	Y5548Y	ORF1AB:Y5548Y	1147	ORF1b	Y1147Y	ORF1B:Y1147Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	16967	.	A	G	2286	PASS	2394	0.057644	0	"2256,0,138,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16703A>G	p.Glu5568Gly	16703/21291	16703/21291	5568/7096	5568	7096		",G"	E5568G	A16967G	E5568G	ORF1AB:E5568G	1167	ORF1b	E1167G	ORF1B:E1167G	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	17019	.	G	T	9083	PASS	1408	0.25071	0	"1055,0,353,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	17953	.	C	T	4897	PASS	1274	0.17033	0	"1056,0,217,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17689C>T	p.Leu5897Phe	17689/21291	17689/21291	5897/7096	5897	7096		",T"	L5897F	C17953T	L5897F	ORF1AB:L5897F	1496	ORF1b	L1496F	ORF1B:L1496F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	18012	.	T	C	181	PASS	1152	0.016493	0	"1132,0,19,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17748T>C	p.Ile5916Ile	17748/21291	17748/21291	5916/7096	5916	7096		",C"	I5916I	T18012C	I5916I	ORF1AB:I5916I	1515	ORF1b	I1515I	ORF1B:I1515I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	18066	.	A	G	3486	PASS	1192	0.143456	0	"1021,0,171,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17802A>G	p.Lys5934Lys	17802/21291	17802/21291	5934/7096	5934	7096		",G"	K5934K	A18066G	K5934K	ORF1AB:K5934K	1533	ORF1b	K1533K	ORF1B:K1533K	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	18271	.	G	C	85	PASS	278	0.02518	0	"271,0,7,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18007G>C	p.Glu6003Gln	18007/21291	18007/21291	6003/7096	6003	7096		",C"	E6003Q	G18271C	E6003Q	ORF1AB:E6003Q	1602	ORF1b	E1602Q	ORF1B:E1602Q	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	18688	.	T	C	1105	PASS	1284	0.05919	0	"1206,0,76,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18424T>C	p.Phe6142Leu	18424/21291	18424/21291	6142/7096	6142	7096		",C"	F6142L	T18688C	F6142L	ORF1AB:F6142L	1741	ORF1b	F1741L	ORF1B:F1741L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	18877	.	C	T	22130	PASS	2415	0.335404	0	"1605,0,810,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	19114	.	A	G	1395	PASS	3219	0.031998	0	"3110,0,103,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18850A>G	p.Lys6284Glu	18850/21291	18850/21291	6284/7096	6284	7096		",G"	K6284E	A19114G	K6284E	ORF1AB:K6284E	1883	ORF1b	K1883E	ORF1B:K1883E	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	19396	.	G	T	928	PASS	2043	0.032305	0	"1976,0,66,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19132G>T	p.Glu6378*	19132/21291	19132/21291	6378/7096	6378	7096		",T"	E6378*	G19396T	E6378*	ORF1AB:E6378*	1977	ORF1b	E1977*	ORF1B:E1977*	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	19524	.	C	T	10717	PASS	1366	0.292826	0	"966,0,400,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	19638	.	T	C	2234	PASS	1316	0.092705	0	"1194,0,122,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19374T>C	p.Ala6458Ala	19374/21291	19374/21291	6458/7096	6458	7096		",C"	A6458A	T19638C	A6458A	ORF1AB:A6458A	2057	ORF1b	A2057A	ORF1B:A2057A	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	20336	.	AT	A	66	PASS	117	0.025641	0	"114,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20076delT	p.Phe6692fs	20076/21291	20076/21291	6692/7096	6692	7096		"INFO_REALIGN_3_PRIME,A"	del6692	AT20336A	del6692	ORF1AB:DEL6692	2291	ORF1b	del2291	ORF1B:DEL2291	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	20406	.	T	C	304	PASS	519	0.040462	0	"497,0,21,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20142T>C	p.Pro6714Pro	20142/21291	20142/21291	6714/7096	6714	7096		",C"	P6714P	T20406C	P6714P	ORF1AB:P6714P	2313	ORF1b	P2313P	ORF1B:P2313P	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	20559	.	A	G	1129	PASS	1235	0.051822	0	"1170,0,64,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20295A>G	p.Val6765Val	20295/21291	20295/21291	6765/7096	6765	7096		",G"	V6765V	A20559G	V6765V	ORF1AB:V6765V	2364	ORF1b	V2364V	ORF1B:V2364V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	20572	.	G	A	1076	PASS	1340	0.052239	0	"1268,0,70,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20308G>A	p.Val6770Ile	20308/21291	20308/21291	6770/7096	6770	7096		",A"	V6770I	G20572A	V6770I	ORF1AB:V6770I	2369	ORF1b	V2369I	ORF1B:V2369I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	20823	.	C	T	1008	PASS	1610	0.042236	0	"1541,0,68,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20559C>T	p.Asn6853Asn	20559/21291	20559/21291	6853/7096	6853	7096		",T"	N6853N	C20823T	N6853N	ORF1AB:N6853N	2452	ORF1b	N2452N	ORF1B:N2452N	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	20864	.	A	T	1763	PASS	1420	0.069718	0	"1319,0,99,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20600A>T	p.His6867Leu	20600/21291	20600/21291	6867/7096	6867	7096		",T"	H6867L	A20864T	H6867L	ORF1AB:H6867L	2466	ORF1b	H2466L	ORF1B:H2466L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	20922	.	G	T	1282	PASS	1499	0.054703	0	"1415,0,82,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20658G>T	p.Trp6886Cys	20658/21291	20658/21291	6886/7096	6886	7096		",T"	W6886C	G20922T	W6886C	ORF1AB:W6886C	2485	ORF1b	W2485C	ORF1B:W2485C	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	21184	.	TG	T	592	PASS	1448	0.020028	0	"1428,0,29,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20922delG	p.Trp6974fs	20922/21291	20922/21291	6974/7096	6974	7096		"INFO_REALIGN_3_PRIME,T"	del6974	TG21184T	del6974	ORF1AB:DEL6974	2573	ORF1b	del2573	ORF1B:DEL2573	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	21255	.	G	C	12588	PASS	1695	0.284366	0	"1212,0,482,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	21270	.	A	T	3184	PASS	1683	0.094474	0	"1522,0,159,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21006A>T	p.Ala7002Ala	21006/21291	21006/21291	7002/7096	7002	7096		",T"	A7002A	A21270T	A7002A	ORF1AB:A7002A	2601	ORF1b	A2601A	ORF1B:A2601A	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	21440	.	C	T	2588	PASS	1256	0.103503	0	"1124,0,130,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21176C>T	p.Ser7059Phe	21176/21291	21176/21291	7059/7096	7059	7096		",T"	S7059F	C21440T	S7059F	ORF1AB:S7059F	2658	ORF1b	S2658F	ORF1B:S2658F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	21486	.	TA	T	3725	PASS	1353	0.102735	0	"1241,0,139,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21225delA	p.Gly7076fs	21225/21291	21225/21291	7075/7096	7075	7096		"INFO_REALIGN_3_PRIME,T"	del7076	TA21486T	del7076	ORF1AB:DEL7076	2675	ORF1b	del2675	ORF1B:DEL2675	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	21855	.	C	T	3140	PASS	180	0.572222	0	"77,0,103,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	22083	.	CTT	C	246	PASS	133	0.067669	0	"124,0,9,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.524_525delTT	p.Phe175fs	524/3822	524/3822	175/1273	175	1273		"INFO_REALIGN_3_PRIME,C"	del175	CTT22083C	del175	S:DEL175	175	S	del175	S:DEL175	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	22227	.	C	T	463	PASS	61	0.344262	0	"40,0,21,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	22690	.	T	C	71	PASS	76	0.065789	0	"71,0,5,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1128T>C	p.Thr376Thr	1128/3822	1128/3822	376/1273	376	1273		",C"	T376T	T22690C	T376T	S:T376T	376	S	T376T	S:T376T	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	22992	.	G	A	406	PASS	170	0.123529	0	"149,0,21,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	23403	.	A	G	7990	PASS	227	1	2147483647	"0,0,227,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	24436	.	T	C	945	PASS	443	0.106095	0	"396,0,47,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2874T>C	p.Ala958Ala	2874/3822	2874/3822	958/1273	958	1273		",C"	A958A	T24436C	A958A	S:A958A	958	S	A958A	S:A958A	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25000	.	C	T	1259	PASS	1026	0.067251	0	"954,0,69,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3438C>T	p.Asp1146Asp	3438/3822	3438/3822	1146/1273	1146	1273		",T"	D1146D	C25000T	D1146D	S:D1146D	1146	S	D1146D	S:D1146D	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25207	.	C	T	685	PASS	935	0.062032	0	"872,0,58,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3645C>T	p.Tyr1215Tyr	3645/3822	3645/3822	1215/1273	1215	1273		",T"	Y1215Y	C25207T	Y1215Y	S:Y1215Y	1215	S	Y1215Y	S:Y1215Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25216	.	A	T	156	PASS	956	0.028243	0	"924,0,27,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25225	.	A	C	178	PASS	975	0.030769	0	"939,0,30,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25228	.	T	G	92	PASS	973	0.021583	0	"952,0,21,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25240	.	C	A	144	PASS	1003	0.032901	0	"970,0,33,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25244	.	G	T	113	PASS	1038	0.025048	0	"1012,0,26,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25247	.	A	T	124	PASS	1036	0.030888	0	"1003,0,32,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25252	.	G	C	68	PASS	1049	0.021926	0	"1010,0,23,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>C	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",C"	V1230V	G25252C	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25254	.	C	A	257	PASS	1091	0.042163	0	"1045,0,46,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25259	.	A	T	66	PASS	1113	0.021563	0	"1087,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25269	.	G	T	68	PASS	1052	0.021863	0	"1029,0,23,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3707G>T	p.Cys1236Phe	3707/3822	3707/3822	1236/1273	1236	1273		",T"	C1236F	G25269T	C1236F	S:C1236F	1236	S	C1236F	S:C1236F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25273	.	G	C	144	PASS	1049	0.035272	0	"1010,0,37,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25277	.	A	T	338	PASS	1029	0.058309	0	"966,0,60,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25286	.	A	T	301	PASS	1036	0.057915	0	"963,0,60,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25296	.	A	C	543	PASS	1023	0.085044	0	"879,0,87,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25296	.	A	T	220	PASS	1023	0.051808	0	"879,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25312	.	T	G	105	PASS	1041	0.035543	0	"1003,0,37,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25314	.	G	T	135	PASS	1076	0.041822	0	"1022,0,45,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25317	.	C	T	9459	PASS	1067	0.395501	0	"638,0,422,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25323	.	G	C	382	PASS	1018	0.077603	0	"925,0,79,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25324	.	C	A	2129	PASS	1028	0.19358	0	"829,0,199,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25327	.	A	T	210	PASS	1025	0.056585	0	"967,0,58,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25331	.	G	T	149	PASS	1012	0.051383	0	"942,0,52,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25334	.	G	C	284	PASS	1013	0.070089	0	"908,0,71,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25336	.	A	C	1183	PASS	1022	0.150685	0	"865,0,154,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25337	.	G	C	526	PASS	980	0.102041	0	"880,0,100,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25505	.	A	G	10604	PASS	909	0.412541	0	"533,0,375,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25513	.	C	T	2185	PASS	906	0.113687	0	"803,0,103,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.121C>T	p.Leu41Phe	121/828	121/828	41/275	41	275		",T"	L41F	C25513T	L41F	ORF3A:L41F	41	ORF3a	L41F	ORF3A:L41F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25563	.	G	T	9976	PASS	842	0.410926	0	"496,0,346,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25630	.	G	T	555	PASS	999	0.039039	0	"960,0,39,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.238G>T	p.Val80Phe	238/828	238/828	80/275	80	275		",T"	V80F	G25630T	V80F	ORF3A:V80F	80	ORF3a	V80F	ORF3A:V80F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25710	.	C	T	7002	PASS	728	0.353022	0	"471,0,257,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25879	.	G	T	1590	PASS	563	0.134991	0	"486,0,76,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.487G>T	p.Val163Leu	487/828	487/828	163/275	163	275		",T"	V163L	G25879T	V163L	ORF3A:V163L	163	ORF3a	V163L	ORF3A:V163L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25906	.	G	C	1109	PASS	571	0.098074	0	"515,0,56,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	25996	.	G	T	3368	PASS	626	0.226837	0	"483,0,142,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26214	.	T	C	1021	PASS	1314	0.053272	0	"1242,0,70,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.822T>C	p.Pro274Pro	822/828	822/828	274/275	274	275		",C"	P274P	T26214C	P274P	ORF3A:P274P	274	ORF3a	P274P	ORF3A:P274P	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26526	.	G	A	93	PASS	1831	0.009285	0	"1810,0,17,0"	FALSE	A	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.4G>A	p.Ala2Thr	4/669	4/669	2/222	2	222		",A"	A2T	G26526A	A2T	M:A2T	2	M	A2T	M:A2T	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26596	.	G	GT	3996	PASS	1751	0.083381	0	"1644,0,146,0"	TRUE	GT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.77dupT	p.Leu27fs	78/669	78/669	26/222	26	222		"INFO_REALIGN_3_PRIME,GT"	del27	G26596GT	del27	M:DEL27	27	M	del27	M:DEL27	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26600	.	C	T	3753	PASS	1775	0.109859	0	"1578,0,195,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26667	.	A	T	3158	PASS	1682	0.095719	0	"1521,0,161,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.145A>T	p.Ile49Phe	145/669	145/669	49/222	49	222		",T"	I49F	A26667T	I49F	M:I49F	49	M	I49F	M:I49F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26694	.	T	C	94	PASS	1565	0.007668	0	"1553,0,12,0"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.172T>C	p.Trp58Arg	172/669	172/669	58/222	58	222		",C"	W58R	T26694C	W58R	M:W58R	58	M	W58R	M:W58R	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26735	.	C	T	8186	PASS	1390	0.235252	0	"1063,0,327,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26801	.	C	G	6088	PASS	1152	0.216146	0	"902,0,249,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	26876	.	T	C	3028	PASS	570	0.231579	0	"438,0,132,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	27175	.	C	CT	256	PASS	255	0.039216	0	"245,0,10,0"	TRUE	CT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.656dupT	p.Leu219fs	657/669	657/669	219/222	219	222		"INFO_REALIGN_3_PRIME,CT"	del219	C27175CT	del219	M:DEL219	219	M	del219	M:DEL219	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	27378	.	G	A	6895	PASS	1761	0.176604	0	"1449,0,311,0"	FALSE	A	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.177G>A	p.Glu59Glu	177/186	177/186	59/61	59	61		",A"	E59E	G27378A	E59E	ORF6:E59E	59	ORF6	E59E	ORF6:E59E	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	27576	.	T	G	1964	PASS	2364	0.055838	0	"2231,0,132,0"	FALSE	G	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.183T>G	p.Thr61Thr	183/366	183/366	61/121	61	121		",G"	T61T	T27576G	T61T	ORF7A:T61T	61	ORF7a	T61T	ORF7A:T61T	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	27944	.	C	T	1492	PASS	1906	0.055089	0	"1798,0,105,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	27970	.	C	A	3628	PASS	1611	0.108007	0	"1435,0,174,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	27973	.	A	G	126	PASS	1559	0.011546	0	"1541,0,18,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.80A>G	p.Gln27Arg	80/366	80/366	27/121	27	121		",G"	Q27R	A27973G	Q27R	ORF8:Q27R	27	ORF8	Q27R	ORF8:Q27R	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28133	.	A	T	748	PASS	847	0.053129	0	"802,0,45,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28254	.	A	C	122	PASS	820	0.019512	0	"804,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28346	.	G	T	453	PASS	1354	0.036189	0	"1304,0,49,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.73G>T	p.Gly25Cys	73/1260	73/1260	25/419	25	419		",T"	G25C	G28346T	G25C	N:G25C	25	N	G25C	N:G25C	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28361	.	G	T	424	PASS	1470	0.031293	0	"1422,0,46,0"	FALSE	T	stop_gained	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.88G>T	p.Gly30*	88/1260	88/1260	30/419	30	419		",T"	G30*	G28361T	G30*	N:G30*	30	N	G30*	N:G30*	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28384	.	A	T	4618	PASS	1469	0.149081	0	"1249,0,219,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28411	.	C	T	2747	PASS	1867	0.091055	0	"1693,0,170,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.138C>T	p.Pro46Pro	138/1260	138/1260	46/419	46	419		",T"	P46P	C28411T	P46P	N:P46P	46	N	P46P	N:P46P	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28487	.	G	A	782	PASS	2981	0.026166	0	"2899,0,78,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.214G>A	p.Val72Ile	214/1260	214/1260	72/419	72	419		",A"	V72I	G28487A	V72I	N:V72I	72	N	V72I	N:V72I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28588	.	T	C	1247	PASS	3347	0.035255	0	"3224,0,118,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.315T>C	p.Ser105Ser	315/1260	315/1260	105/419	105	419		",C"	S105S	T28588C	S105S	N:S105S	105	N	S105S	N:S105S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28603	.	C	T	107	PASS	3233	0.007423	0	"3206,0,24,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.330C>T	p.Phe110Phe	330/1260	330/1260	110/419	110	419		",T"	F110F	C28603T	F110F	N:F110F	110	N	F110F	N:F110F	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28651	.	C	T	26209	PASS	3650	0.279178	0	"2630,0,1019,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28749	.	T	A	135	PASS	5358	0.005039	0	"5327,0,27,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.476T>A	p.Leu159Gln	476/1260	476/1260	159/419	159	419		",A"	L159Q	T28749A	L159Q	N:L159Q	159	N	L159Q	N:L159Q	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28776	.	CA	C	50	PASS	5254	0.000952	0	"5249,0,5,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28868	.	C	T	1036	PASS	4946	0.021634	0	"4831,0,107,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.595C>T	p.Pro199Ser	595/1260	595/1260	199/419	199	419		",T"	P199S	C28868T	P199S	N:P199S	199	N	P199S	N:P199S	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28869	.	C	T	38693	PASS	4945	0.302528	0	"3445,0,1496,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28881	.	G	A	811	PASS	4768	0.019505	0	"4669,0,93,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28882	.	G	A	645	PASS	4834	0.019239	0	"4732,0,93,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28883	.	G	C	761	PASS	4832	0.019868	0	"4728,0,96,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28887	.	C	T	5751	PASS	4710	0.072399	0	"4365,0,341,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28916	.	G	T	2274	PASS	4721	0.039398	0	"4535,0,186,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.643G>T	p.Gly215Cys	643/1260	643/1260	215/419	215	419		",T"	G215C	G28916T	G215C	N:G215C	215	N	G215C	N:G215C	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28932	.	C	T	39580	PASS	4764	0.324097	0	"3214,0,1544,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28969	.	CA	C	3690	PASS	4508	0.034605	0	"4353,0,156,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.700delA	p.Met234fs	700/1260	700/1260	234/419	234	419		"INFO_REALIGN_3_PRIME,C"	del234	CA28969C	del234	N:DEL234	234	N	del234	N:DEL234	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28975	.	G	C	29525	PASS	4468	0.262534	0	"3291,0,1173,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	28987	.	CCAA	C	279	PASS	4034	0.004214	0	"4037,0,17,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	29041	.	GA	G	3045	PASS	3571	0.035004	0	"3510,0,125,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.770delA	p.Lys257fs	770/1260	770/1260	257/419	257	419		"INFO_REALIGN_3_PRIME,G"	del257	GA29041G	del257	N:DEL257	257	N	del257	N:DEL257	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER31	NC_045512.2	29051	.	C	CA	2138	PASS	3427	0.028305	0	"3330,0,97,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	MER31	MERSCH	2020-10-26T00:00:00Z	29.88775	33.19	x	14122020	2020-10-26
MER33-3	NC_045512.2	100	.	C	T	2165	PASS	529	0.177694	0	"433,0,94,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-166C>T						NA	166	",T"		C100T		NA	NA	NA		NA	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	241	.	C	T	49314	PASS	1947	0.997946	0	"1,0,1943,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	445	.	T	C	4455	PASS	2022	0.155786	0	"1695,0,315,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	728	.	G	T	3899	PASS	3434	0.069889	0	"3191,0,240,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.463G>T	p.Glu155*	463/21291	463/21291	155/7096	155	7096		",T"	E155*	G728T	E155*	ORF1AB:E155*	155	ORF1a	E155*	ORF1A:E155*	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	802	.	A	C	216	PASS	2798	0.014653	0	"2747,0,41,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	1151	.	T	C	6679	PASS	3644	0.120472	0	"3196,0,439,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.886T>C	p.Phe296Leu	886/21291	886/21291	296/7096	296	7096		",C"	F296L	T1151C	F296L	ORF1AB:F296L	296	ORF1a	F296L	ORF1A:F296L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	3037	.	C	T	26422	PASS	757	0.998679	2147483647	"0,0,756,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	3251	.	G	T	366	PASS	120	0.15	0	"102,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2986G>T	p.Asp996Tyr	2986/21291	2986/21291	996/7096	996	7096		",T"	D996Y	G3251T	D996Y	ORF1AB:D996Y	996	ORF1a	D996Y	ORF1A:D996Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	3602	.	C	T	294	PASS	89	0.191011	0	"72,0,17,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	4040	.	A	G	108	PASS	80	0.1	0	"72,0,8,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	4072	.	T	C	329	PASS	75	0.2	0	"59,0,15,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3807T>C	p.Thr1269Thr	3807/21291	3807/21291	1269/7096	1269	7096		",C"	T1269T	T4072C	T1269T	ORF1AB:T1269T	1269	ORF1a	T1269T	ORF1A:T1269T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	4543	.	C	T	20426	PASS	1234	0.576175	0	"520,0,711,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	4576	.	A	T	2014	PASS	1283	0.113796	0	"1134,0,146,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4311A>T	p.Thr1437Thr	4311/21291	4311/21291	1437/7096	1437	7096		",T"	T1437T	A4576T	T1437T	ORF1AB:T1437T	1437	ORF1a	T1437T	ORF1A:T1437T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	4579	.	T	A	2234	PASS	1320	0.113636	0	"1169,0,150,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4314T>A	p.Leu1438Leu	4314/21291	4314/21291	1438/7096	1438	7096		",A"	L1438L	T4579A	L1438L	ORF1AB:L1438L	1438	ORF1a	L1438L	ORF1A:L1438L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	4764	.	A	AT	2874	PASS	1325	0.080755	0	"1220,0,107,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4503dupT	p.Ile1502fs	4504/21291	4504/21291	1502/7096	1502	7096		"INFO_REALIGN_3_PRIME,AT"	del1502	A4764AT	del1502	ORF1AB:DEL1502	1502	ORF1a	del1502	ORF1A:DEL1502	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	4963	.	G	C	310	PASS	485	0.043299	0	"464,0,21,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4698G>C	p.Arg1566Ser	4698/21291	4698/21291	1566/7096	1566	7096		",C"	R1566S	G4963C	R1566S	ORF1AB:R1566S	1566	ORF1a	R1566S	ORF1A:R1566S	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	5025	.	CA	C	2397	PASS	324	0.240741	0	"246,0,78,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4762delA	p.Met1588fs	4762/21291	4762/21291	1588/7096	1588	7096		"INFO_REALIGN_3_PRIME,C"	del1588	CA5025C	del1588	ORF1AB:DEL1588	1588	ORF1a	del1588	ORF1A:DEL1588	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	5080	.	T	C	1925	PASS	341	0.252199	0	"254,0,86,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4815T>C	p.Thr1605Thr	4815/21291	4815/21291	1605/7096	1605	7096		",C"	T1605T	T5080C	T1605T	ORF1AB:T1605T	1605	ORF1a	T1605T	ORF1A:T1605T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	5392	.	CT	C	901	PASS	683	0.051245	0	"648,0,35,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5131delT	p.Cys1711fs	5131/21291	5131/21291	1711/7096	1711	7096		"INFO_REALIGN_3_PRIME,C"	del1711	CT5392C	del1711	ORF1AB:DEL1711	1711	ORF1a	del1711	ORF1A:DEL1711	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	5629	.	G	T	13705	PASS	1020	0.478431	0	"532,0,488,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	5884	.	C	T	155	PASS	909	0.020902	0	"887,0,19,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	6439	.	GA	G	759	PASS	344	0.078488	0	"328,0,27,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6177delA	p.Asp2060fs	6177/21291	6177/21291	2059/7096	2059	7096		"INFO_REALIGN_3_PRIME,G"	del2060	GA6439G	del2060	ORF1AB:DEL2060	2060	ORF1a	del2060	ORF1A:DEL2060	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	6817	.	A	G	1541	PASS	1238	0.075121	0	"1142,0,93,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6552A>G	p.Arg2184Arg	6552/21291	6552/21291	2184/7096	2184	7096		",G"	R2184R	A6817G	R2184R	ORF1AB:R2184R	2184	ORF1a	R2184R	ORF1A:R2184R	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	6941	.	C	T	4343	PASS	1462	0.154583	0	"1229,0,226,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	7767	.	T	C	2503	PASS	1223	0.105478	0	"1093,0,129,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7502T>C	p.Ile2501Thr	7502/21291	7502/21291	2501/7096	2501	7096		",C"	I2501T	T7767C	I2501T	ORF1AB:I2501T	2501	ORF1a	I2501T	ORF1A:I2501T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	8047	.	C	T	2659	PASS	1866	0.085745	0	"1700,0,160,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7782C>T	p.Tyr2594Tyr	7782/21291	7782/21291	2594/7096	2594	7096		",T"	Y2594Y	C8047T	Y2594Y	ORF1AB:Y2594Y	2594	ORF1a	Y2594Y	ORF1A:Y2594Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	8626	.	C	T	3167	PASS	602	0.22093	0	"468,0,133,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8361C>T	p.Phe2787Phe	8361/21291	8361/21291	2787/7096	2787	7096		",T"	F2787F	C8626T	F2787F	ORF1AB:F2787F	2787	ORF1a	F2787F	ORF1A:F2787F	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	9149	.	A	G	72	PASS	1021	0.013712	0	"1005,0,14,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8884A>G	p.Ile2962Val	8884/21291	8884/21291	2962/7096	2962	7096		",G"	I2962V	A9149G	I2962V	ORF1AB:I2962V	2962	ORF1a	I2962V	ORF1A:I2962V	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	9251	.	G	GT	3352	PASS	959	0.123045	0	"848,0,118,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8989dupT	p.Cys2997fs	8990/21291	8990/21291	2997/7096	2997	7096		"INFO_REALIGN_3_PRIME,GT"	del2997	G9251GT	del2997	ORF1AB:DEL2997	2997	ORF1a	del2997	ORF1A:DEL2997	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	9502	.	C	T	3589	PASS	1292	0.151703	0	"1093,0,196,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9237C>T	p.Ala3079Ala	9237/21291	9237/21291	3079/7096	3079	7096		",T"	A3079A	C9502T	A3079A	ORF1AB:A3079A	3079	ORF1a	A3079A	ORF1A:A3079A	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	9526	.	G	T	19947	PASS	1454	0.499312	0	"727,0,726,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	10097	.	G	A	4926	PASS	1965	0.138931	0	"1688,0,273,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9832G>A	p.Gly3278Ser	9832/21291	9832/21291	3278/7096	3278	7096		",A"	G3278S	G10097A	G3278S	ORF1AB:G3278S	3278	ORF1a	G3278S	ORF1A:G3278S	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	10527	.	CT	C	49	PASS	2011	0.001989	0	"2007,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10267delT	p.Cys3423fs	10267/21291	10267/21291	3423/7096	3423	7096		"INFO_REALIGN_3_PRIME,C"	del3423	CT10527C	del3423	ORF1AB:DEL3423	3423	ORF1a	del3423	ORF1A:DEL3423	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	11074	.	C	CT	4357	PASS	1371	0.167031	0	"1142,0,229,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817dupT	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,CT"	del3606	C11074CT	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	11083	.	G	T	171	PASS	1508	0.020557	0	"1473,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	11497	.	C	T	26956	PASS	1694	0.550767	0	"759,0,933,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	12409	.	T	G	3120	PASS	1031	0.173618	0	"850,0,179,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12144T>G	p.Ile4048Met	12144/21291	12144/21291	4048/7096	4048	7096		",G"	I4048M	T12409G	I4048M	ORF1AB:I4048M	4048	ORF1a	I4048M	ORF1A:I4048M	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	12988	.	G	T	1937	PASS	152	0.480263	0	"78,0,73,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	13815	.	A	G	110	PASS	1925	0.010909	0	"1901,0,21,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13551A>G	p.Ala4517Ala	13551/21291	13551/21291	4517/7096	4517	7096		",G"	A4517A	A13815G	A4517A	ORF1AB:A4517A	116	ORF1b	A116A	ORF1B:A116A	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	13993	.	G	T	17014	PASS	1435	0.436237	0	"809,0,626,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	15089	.	CA	C	12938	PASS	2014	0.212016	0	"1585,0,427,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14828delA	p.Lys4943fs	14828/21291	14828/21291	4943/7096	4943	7096		"INFO_REALIGN_3_PRIME,C"	del4943	CA15089C	del4943	ORF1AB:DEL4943	542	ORF1b	del542	ORF1B:DEL542	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	15324	.	C	T	456	PASS	429	0.072261	0	"396,0,31,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	15598	.	G	A	253	PASS	116	0.12931	0	"100,0,15,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15334G>A	p.Val5112Ile	15334/21291	15334/21291	5112/7096	5112	7096		",A"	V5112I	G15598A	V5112I	ORF1AB:V5112I	711	ORF1b	V711I	ORF1B:V711I	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	15766	.	G	T	2672	PASS	216	0.449074	0	"119,0,97,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	15804	.	T	C	451	PASS	219	0.100457	0	"197,0,22,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15540T>C	p.Tyr5180Tyr	15540/21291	15540/21291	5180/7096	5180	7096		",C"	Y5180Y	T15804C	Y5180Y	ORF1AB:Y5180Y	779	ORF1b	Y779Y	ORF1B:Y779Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	16092	.	C	G	397	PASS	153	0.143791	0	"131,0,22,0"	FALSE	G	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15828C>G	p.Tyr5276*	15828/21291	15828/21291	5276/7096	5276	7096		",G"	Y5276*	C16092G	Y5276*	ORF1AB:Y5276*	875	ORF1b	Y875*	ORF1B:Y875*	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	16293	.	C	T	1130	PASS	1008	0.079365	0	"924,0,80,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16029C>T	p.Cys5343Cys	16029/21291	16029/21291	5343/7096	5343	7096		",T"	C5343C	C16293T	C5343C	ORF1AB:C5343C	942	ORF1b	C942C	ORF1B:C942C	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	17104	.	C	T	1779	PASS	127	0.488189	0	"65,0,62,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	18028	.	G	T	86	PASS	94	0.06383	0	"87,0,6,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17764G>T	p.Ala5922Ser	17764/21291	17764/21291	5922/7096	5922	7096		",T"	A5922S	G18028T	A5922S	ORF1AB:A5922S	1521	ORF1b	A1521S	ORF1B:A1521S	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	18215	.	G	T	654	PASS	157	0.229299	0	"120,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17951G>T	p.Gly5984Val	17951/21291	17951/21291	5984/7096	5984	7096		",T"	G5984V	G18215T	G5984V	ORF1AB:G5984V	1583	ORF1b	G1583V	ORF1B:G1583V	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	18434	.	AT	A	455	PASS	144	0.111111	0	"129,0,16,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18175delT	p.Ser6059fs	18175/21291	18175/21291	6059/7096	6059	7096		"INFO_REALIGN_3_PRIME,A"	del6059	AT18434A	del6059	ORF1AB:DEL6059	1658	ORF1b	del1658	ORF1B:DEL1658	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	18673	.	A	G	322	PASS	605	0.042975	0	"579,0,26,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18409A>G	p.Arg6137Gly	18409/21291	18409/21291	6137/7096	6137	7096		",G"	R6137G	A18673G	R6137G	ORF1AB:R6137G	1736	ORF1b	R1736G	ORF1B:R1736G	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	18877	.	C	T	18219	PASS	1229	0.524003	0	"578,0,644,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	19239	.	A	G	1005	PASS	1626	0.051661	0	"1539,0,84,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18975A>G	p.Arg6325Arg	18975/21291	18975/21291	6325/7096	6325	7096		",G"	R6325R	A19239G	R6325R	ORF1AB:R6325R	1924	ORF1b	R1924R	ORF1B:R1924R	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	19264	.	C	T	1833	PASS	1823	0.068568	0	"1696,0,125,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19000C>T	p.Leu6334Phe	19000/21291	19000/21291	6334/7096	6334	7096		",T"	L6334F	C19264T	L6334F	ORF1AB:L6334F	1933	ORF1b	L1933F	ORF1B:L1933F	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	19355	.	T	A	4077	PASS	2169	0.105118	0	"1941,0,228,0"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19091T>A	p.Leu6364*	19091/21291	19091/21291	6364/7096	6364	7096		",A"	L6364*	T19355A	L6364*	ORF1AB:L6364*	1963	ORF1b	L1963*	ORF1B:L1963*	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	19524	.	C	T	8029	PASS	2550	0.152157	0	"2157,0,388,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	20436	.	C	T	455	PASS	936	0.042735	0	"894,0,40,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20172C>T	p.Asp6724Asp	20172/21291	20172/21291	6724/7096	6724	7096		",T"	D6724D	C20436T	D6724D	ORF1AB:D6724D	2323	ORF1b	D2323D	ORF1B:D2323D	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	20451	.	C	T	11739	PASS	1099	0.386715	0	"671,0,425,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20187C>T	p.Asn6729Asn	20187/21291	20187/21291	6729/7096	6729	7096		",T"	N6729N	C20451T	N6729N	ORF1AB:N6729N	2328	ORF1b	N2328N	ORF1B:N2328N	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	20742	.	A	C	8204	PASS	2170	0.178802	0	"1778,0,388,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	20762	.	C	T	22484	PASS	2310	0.363636	0	"1468,0,840,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20498C>T	p.Thr6833Ile	20498/21291	20498/21291	6833/7096	6833	7096		",T"	T6833I	C20762T	T6833I	ORF1AB:T6833I	2432	ORF1b	T2432I	ORF1B:T2432I	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21060	.	TA	T	58	PASS	1779	0.002248	0	"1775,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20798delA	p.Lys6933fs	20798/21291	20798/21291	6933/7096	6933	7096		"INFO_REALIGN_3_PRIME,T"	del6933	TA21060T	del6933	ORF1AB:DEL6933	2532	ORF1b	del2532	ORF1B:DEL2532	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21145	.	C	T	1627	PASS	1324	0.086858	0	"1201,0,115,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20881C>T	p.Leu6961Phe	20881/21291	20881/21291	6961/7096	6961	7096		",T"	L6961F	C21145T	L6961F	ORF1AB:L6961F	2560	ORF1b	L2560F	ORF1B:L2560F	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21193	.	G	T	263	PASS	895	0.030168	0	"868,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20929G>T	p.Asp6977Tyr	20929/21291	20929/21291	6977/7096	6977	7096		",T"	D6977Y	G21193T	D6977Y	ORF1AB:D6977Y	2576	ORF1b	D2576Y	ORF1B:D2576Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21237	.	T	C	4969	PASS	1146	0.202443	0	"911,0,232,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20973T>C	p.Phe6991Phe	20973/21291	20973/21291	6991/7096	6991	7096		",C"	F6991F	T21237C	F6991F	ORF1AB:F6991F	2590	ORF1b	F2590F	ORF1B:F2590F	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21255	.	G	C	5414	PASS	1192	0.209732	0	"940,0,250,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21620	.	AC	A	46	PASS	1245	0.00241	0	"1248,0,3,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.60delC	p.Arg21fs	60/3822	60/3822	20/1273	20	1273		"INFO_REALIGN_3_PRIME,A"	del21	AC21620A	del21	S:DEL21	21	S	del21	S:DEL21	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21638	.	C	T	9059	PASS	1106	0.331826	0	"738,0,367,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.76C>T	p.Pro26Ser	76/3822	76/3822	26/1273	26	1273		",T"	P26S	C21638T	P26S	S:P26S	26	S	P26S	S:P26S	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21764	.	ATACATG	A	3119	PASS	535	0.198131	0	"430,0,106,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	21770	.	G	A	87	PASS	475	0.029474	0	"354,0,14,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.208G>A	p.Val70Ile	208/3822	208/3822	70/1273	70	1273		",A"	V70I	G21770A	V70I	S:V70I	70	S	V70I	S:V70I	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	22603	.	T	C	180	PASS	37	0.189189	0	"30,0,7,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1041T>C	p.Phe347Phe	1041/3822	1041/3822	347/1273	347	1273		",C"	F347F	T22603C	F347F	S:F347F	347	S	F347F	S:F347F	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	22879	.	C	A	1091	PASS	240	0.195833	0	"193,0,47,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1317C>A	p.Asn439Lys	1317/3822	1317/3822	439/1273	439	1273		",A"	N439K	C22879A	N439K	S:N439K	439	S	N439K	S:N439K	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	22992	.	G	A	5343	PASS	334	0.556886	0	"148,0,186,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	23403	.	A	G	7056	PASS	214	0.995327	2147483647	"0,0,213,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	23972	.	CA	C	372	PASS	195	0.071795	0	"181,0,14,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2413delA	p.Ile805fs	2413/3822	2413/3822	805/1273	805	1273		"INFO_REALIGN_3_PRIME,C"	del805	CA23972C	del805	S:DEL805	805	S	del805	S:DEL805	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	24370	.	C	T	741	PASS	307	0.117264	0	"271,0,36,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2808C>T	p.Asp936Asp	2808/3822	2808/3822	936/1273	936	1273		",T"	D936D	C24370T	D936D	S:D936D	936	S	D936D	S:D936D	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	24570	.	G	GT	109	PASS	399	0.012531	0	"410,0,5,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3011dupT	p.Leu1004fs	3012/3822	3012/3822	1004/1273	1004	1273		"INFO_REALIGN_3_PRIME,GT"	del1004	G24570GT	del1004	S:DEL1004	1004	S	del1004	S:DEL1004	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	24910	.	T	C	869	PASS	435	0.121839	0	"382,0,53,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3348T>C	p.Thr1116Thr	3348/3822	3348/3822	1116/1273	1116	1273		",C"	T1116T	T24910C	T1116T	S:T1116T	1116	S	T1116T	S:T1116T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	24912	.	C	G	1035	PASS	425	0.129412	0	"369,0,55,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3350C>G	p.Thr1117Arg	3350/3822	3350/3822	1117/1273	1117	1273		",G"	T1117R	C24912G	T1117R	S:T1117R	1117	S	T1117R	S:T1117R	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25225	.	A	C	76	PASS	1126	0.020426	0	"1100,0,23,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25254	.	C	A	82	PASS	1292	0.01935	0	"1266,0,25,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25289	.	T	G	74	PASS	1224	0.025327	0	"1193,0,31,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25296	.	A	C	110	PASS	1242	0.036232	0	"1173,0,45,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25301	.	T	G	67	PASS	1252	0.026358	0	"1219,0,33,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25324	.	C	A	481	PASS	1326	0.064857	0	"1239,0,86,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25327	.	A	T	71	PASS	1321	0.024224	0	"1288,0,32,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25336	.	A	C	187	PASS	1306	0.047473	0	"1230,0,62,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25563	.	G	T	12532	PASS	1101	0.411444	0	"647,0,453,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25593	.	G	T	1532	PASS	1188	0.08165	0	"1091,0,97,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25710	.	C	T	8041	PASS	722	0.409972	0	"425,0,296,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25783	.	T	A	1207	PASS	307	0.179153	0	"251,0,55,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.391T>A	p.Trp131Arg	391/828	391/828	131/275	131	275		",A"	W131R	T25783A	W131R	ORF3A:W131R	131	ORF3a	W131R	ORF3A:W131R	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25886	.	C	T	3846	PASS	365	0.380822	0	"226,0,139,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	25948	.	A	G	1402	PASS	415	0.163855	0	"346,0,68,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.556A>G	p.Ile186Val	556/828	556/828	186/275	186	275		",G"	I186V	A25948G	I186V	ORF3A:I186V	186	ORF3a	I186V	ORF3A:I186V	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	26062	.	G	T	1703	PASS	407	0.199017	0	"325,0,81,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	26157	.	TGTTA	T	937	PASS	1373	0.03059	0	"1336,0,42,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.766_769delGTTA	p.Val256fs	766/828	766/828	256/275	256	275		",T"	del256	TGTTA26157T	del256	ORF3A:DEL256	256	ORF3a	del256	ORF3A:DEL256	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	26332	.	A	G	16200	PASS	2119	0.317131	0	"1443,0,672,0"	FALSE	G	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.88A>G	p.Thr30Ala	88/228	88/228	30/75	30	75		",G"	T30A	A26332G	T30A	E:T30A	30	E	T30A	E:T30A	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	26735	.	C	T	109	PASS	2127	0.010343	0	"2102,0,22,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	26801	.	C	G	14350	PASS	1790	0.310056	0	"1234,0,555,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	26876	.	T	C	78	PASS	773	0.012937	0	"762,0,10,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	26951	.	G	T	401	PASS	56	0.267857	0	"41,0,15,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	26972	.	T	C	370	PASS	71	0.267606	0	"51,0,19,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	27281	.	G	T	4457	PASS	1082	0.198706	0	"866,0,215,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.80G>T	p.Trp27Leu	80/186	80/186	27/61	27	61		",T"	W27L	G27281T	W27L	ORF6:W27L	27	ORF6	W27L	ORF6:W27L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	27906	.	G	GT	202	PASS	1333	0.008252	0	"1325,0,11,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.17dupT	p.Gly8fs	18/366	18/366	6/121	6	121		"INFO_REALIGN_3_PRIME,GT"	del8	G27906GT	del8	ORF8:DEL8	8	ORF8	del8	ORF8:DEL8	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	27922	.	T	C	6049	PASS	1325	0.206792	0	"1049,0,274,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	27944	.	C	T	133	PASS	1077	0.020427	0	"1053,0,22,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28254	.	A	C	90	PASS	280	0.042857	0	"266,0,12,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28291	.	C	T	381	PASS	488	0.067623	0	"454,0,33,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.18C>T	p.Pro6Pro	18/1260	18/1260	6/419	6	419		",T"	P6P	C28291T	P6P	N:P6P	6	N	P6P	N:P6P	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28378	.	G	T	481	PASS	804	0.053483	0	"761,0,43,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28651	.	C	T	88	PASS	3543	0.008185	0	"3507,0,29,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28798	.	G	A	25743	PASS	5618	0.207191	0	"4441,0,1164,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28850	.	A	T	8395	PASS	5127	0.094987	0	"4637,0,487,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.577A>T	p.Ser193Cys	577/1260	577/1260	193/419	193	419		",T"	S193C	A28850T	S193C	N:S193C	193	N	S193C	N:S193C	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28881	.	G	A	2334	PASS	4994	0.043452	0	"4761,0,217,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28882	.	G	A	1899	PASS	5050	0.042574	0	"4815,0,215,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28883	.	G	C	2158	PASS	5038	0.044661	0	"4800,0,225,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28932	.	C	T	11144	PASS	4921	0.123349	0	"4302,0,607,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28975	.	G	C	49314	PASS	4542	0.603038	0	"1793,0,2739,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	28987	.	CCAA	C	254	PASS	4178	0.00383	0	"4182,0,16,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	29004	.	A	G	1173	PASS	4249	0.031772	0	"4109,0,135,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.731A>G	p.Gln244Arg	731/1260	731/1260	244/419	244	419		",G"	Q244R	A29004G	Q244R	N:Q244R	244	N	Q244R	N:Q244R	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER33-3	NC_045512.2	29201	.	A	G	90	PASS	814	0.015971	0	"801,0,13,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.928A>G	p.Ser310Gly	928/1260	928/1260	310/419	310	419		",G"	S310G	A29201G	S310G	N:S310G	310	N	S310G	N:S310G	MER33-3	MERSCH	2020-11-12T00:00:00Z	30.882	34.27	x	1022021	2020-11-12
MER34-2	NC_045512.2	79	.	A	G	1377	PASS	359	0.167131	0	"299,0,60,0"	FALSE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-187A>G						NA	187	",G"		A79G		NA	NA	NA		NA	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	204	.	G	T	23819	PASS	1890	0.44709	0	"1044,0,845,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	241	.	C	T	49314	PASS	2214	0.998193	0	"1,0,2210,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	335	.	C	T	9007	PASS	2209	0.184699	0	"1797,0,408,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	445	.	T	C	24338	PASS	2268	0.421076	0	"1307,0,955,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	571	.	G	A	9551	PASS	2136	0.196161	0	"1713,0,419,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	687	.	A	G	1962	PASS	3324	0.047834	0	"3157,0,159,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.422A>G	p.Lys141Arg	422/21291	422/21291	141/7096	141	7096		",G"	K141R	A687G	K141R	ORF1AB:K141R	141	ORF1a	K141R	ORF1A:K141R	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	802	.	A	C	127	PASS	3238	0.009574	0	"3185,0,31,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	843	.	C	T	5214	PASS	3238	0.100371	0	"2904,0,325,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.578C>T	p.Pro193Leu	578/21291	578/21291	193/7096	193	7096		",T"	P193L	C843T	P193L	ORF1AB:P193L	193	ORF1a	P193L	ORF1A:P193L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	1080	.	A	AT	13575	PASS	4446	0.109762	0	"3960,0,488,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.819dupT	p.Val274fs	820/21291	820/21291	274/7096	274	7096		"INFO_REALIGN_3_PRIME,AT"	del274	A1080AT	del274	ORF1AB:DEL274	274	ORF1a	del274	ORF1A:DEL274	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	1080	.	A	T	81	PASS	4448	0.007869	0	"4410,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.815A>T	p.Asn272Ile	815/21291	815/21291	272/7096	272	7096		",T"	N272I	A1080T	N272I	ORF1AB:N272I	272	ORF1a	N272I	ORF1A:N272I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	1276	.	TA	T	74	PASS	3917	0.001532	0	"3921,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1014delA	p.Ala339fs	1014/21291	1014/21291	338/7096	338	7096		"INFO_REALIGN_3_PRIME,T"	del339	TA1276T	del339	ORF1AB:DEL339	339	ORF1a	del339	ORF1A:DEL339	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	1345	.	A	ACC	1425	PASS	3290	0.056839	0	"3133,0,187,0"	TRUE	ACC	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1083_1084dupCC	p.Gln362fs	1085/21291	1085/21291	362/7096	362	7096		"INFO_REALIGN_3_PRIME,ACC"	del362	A1345ACC	del362	ORF1AB:DEL362	362	ORF1a	del362	ORF1A:DEL362	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	1350	.	A	ACC	79	PASS	3145	0.006041	0	"3136,0,19,0"	TRUE	ACC	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1085_1086insCC	p.Gln362fs	1086/21291	1086/21291	362/7096	362	7096		",ACC"	del362	A1350ACC	del362	ORF1AB:DEL362	362	ORF1a	del362	ORF1A:DEL362	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	1350	.	A	C	909	PASS	3155	0.067829	0	"2933,0,214,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1085A>C	p.Gln362Pro	1085/21291	1085/21291	362/7096	362	7096		",C"	Q362P	A1350C	Q362P	ORF1AB:Q362P	362	ORF1a	Q362P	ORF1A:Q362P	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	1968	.	C	CA	5569	PASS	778	0.230077	0	"599,0,179,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1705dupA	p.Ile569fs	1706/21291	1706/21291	569/7096	569	7096		"INFO_REALIGN_3_PRIME,CA"	del569	C1968CA	del569	ORF1AB:DEL569	569	ORF1a	del569	ORF1A:DEL569	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	3037	.	C	T	3243	PASS	94	1	2147483647	"0,0,94,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	3602	.	C	T	90	PASS	14	0.357143	0	"9,0,5,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	4492	.	TA	T	52	PASS	489	0.006135	0	"486,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4231delA	p.Ile1411fs	4231/21291	4231/21291	1411/7096	1411	7096		"INFO_REALIGN_3_PRIME,T"	del1411	TA4492T	del1411	ORF1AB:DEL1411	1411	ORF1a	del1411	ORF1A:DEL1411	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	4530	.	TTTA	T	2612	PASS	512	0.1875	0	"423,0,96,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4266_4268delTTA	p.Tyr1423del	4266/21291	4266/21291	1422/7096	1422	7096		",T"	del1423	TTTA4530T	del1423	ORF1AB:DEL1423	1423	ORF1a	del1423	ORF1A:DEL1423	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	4535	.	T	C	1373	PASS	512	0.150391	0	"434,0,77,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4270T>C	p.Phe1424Leu	4270/21291	4270/21291	1424/7096	1424	7096		",C"	F1424L	T4535C	F1424L	ORF1AB:F1424L	1424	ORF1a	F1424L	ORF1A:F1424L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	4543	.	C	T	7667	PASS	514	0.538911	0	"237,0,277,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	5629	.	G	T	3684	PASS	335	0.408955	0	"198,0,137,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	6692	.	A	G	731	PASS	285	0.133333	0	"247,0,38,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6427A>G	p.Lys2143Glu	6427/21291	6427/21291	2143/7096	2143	7096		",G"	K2143E	A6692G	K2143E	ORF1AB:K2143E	2143	ORF1a	K2143E	ORF1A:K2143E	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	6696	.	C	CT	884	PASS	271	0.118081	0	"239,0,32,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	6696	.	C	T	681	PASS	271	0.140221	0	"232,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	6930	.	A	T	500	PASS	481	0.074844	0	"445,0,36,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6665A>T	p.Asn2222Ile	6665/21291	6665/21291	2222/7096	2222	7096		",T"	N2222I	A6930T	N2222I	ORF1AB:N2222I	2222	ORF1a	N2222I	ORF1A:N2222I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	6941	.	C	T	4467	PASS	495	0.349495	0	"321,0,173,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	7246	.	GT	G	70	PASS	69	0.043478	0	"67,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6986delT	p.Leu2329fs	6986/21291	6986/21291	2329/7096	2329	7096		"INFO_REALIGN_3_PRIME,G"	del2329	GT7246G	del2329	ORF1AB:DEL2329	2329	ORF1a	del2329	ORF1A:DEL2329	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	7900	.	TAAATC	T	3448	PASS	728	0.156593	0	"619,0,114,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7639_7643delTCAAA	p.Ser2547fs	7639/21291	7639/21291	2547/7096	2547	7096		"INFO_REALIGN_3_PRIME,T"	del2547	TAAATC7900T	del2547	ORF1AB:DEL2547	2547	ORF1a	del2547	ORF1A:DEL2547	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	7905	.	CA	C	3701	PASS	732	0.173497	0	"605,0,127,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7644delA	p.Lys2548fs	7644/21291	7644/21291	2548/7096	2548	7096		"INFO_REALIGN_3_PRIME,C"	del2548	CA7905C	del2548	ORF1AB:DEL2548	2548	ORF1a	del2548	ORF1A:DEL2548	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	7993	.	A	G	2285	PASS	715	0.179021	0	"587,0,128,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7728A>G	p.Leu2576Leu	7728/21291	7728/21291	2576/7096	2576	7096		",G"	L2576L	A7993G	L2576L	ORF1AB:L2576L	2576	ORF1a	L2576L	ORF1A:L2576L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	8297	.	A	G	1326	PASS	591	0.13198	0	"509,0,78,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8032A>G	p.Asn2678Asp	8032/21291	8032/21291	2678/7096	2678	7096		",G"	N2678D	A8297G	N2678D	ORF1AB:N2678D	2678	ORF1a	N2678D	ORF1A:N2678D	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	8300	.	A	T	1288	PASS	552	0.119565	0	"486,0,66,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8035A>T	p.Lys2679*	8035/21291	8035/21291	2679/7096	2679	7096		",T"	K2679*	A8300T	K2679*	ORF1AB:K2679*	2679	ORF1a	K2679*	ORF1A:K2679*	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	8983	.	T	G	1656	PASS	687	0.131004	0	"595,0,90,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	9028	.	T	C	248	PASS	774	0.036176	0	"744,0,28,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8763T>C	p.Ile2921Ile	8763/21291	8763/21291	2921/7096	2921	7096		",C"	I2921I	T9028C	I2921I	ORF1AB:I2921I	2921	ORF1a	I2921I	ORF1A:I2921I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	9526	.	G	T	5670	PASS	1189	0.221194	0	"926,0,263,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	9575	.	G	GT	8056	PASS	1179	0.219678	0	"922,0,259,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9313dupT	p.Tyr3105fs	9314/21291	9314/21291	3105/7096	3105	7096		"INFO_REALIGN_3_PRIME,GT"	del3105	G9575GT	del3105	ORF1AB:DEL3105	3105	ORF1a	del3105	ORF1A:DEL3105	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	10248	.	A	AT	14393	PASS	3751	0.132498	0	"3293,0,497,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9986dupT	p.Val3331fs	9987/21291	9987/21291	3329/7096	3329	7096		"INFO_REALIGN_3_PRIME,AT"	del3331	A10248AT	del3331	ORF1AB:DEL3331	3331	ORF1a	del3331	ORF1A:DEL3331	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	10311	.	T	C	7014	PASS	3692	0.109967	0	"3281,0,406,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10046T>C	p.Val3349Ala	10046/21291	10046/21291	3349/7096	3349	7096		",C"	V3349A	T10311C	V3349A	ORF1AB:V3349A	3349	ORF1a	V3349A	ORF1A:V3349A	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	10675	.	GT	G	1696	PASS	497	0.120724	0	"442,0,60,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10412delT	p.Leu3471fs	10412/21291	10412/21291	3471/7096	3471	7096		"INFO_REALIGN_3_PRIME,G"	del3471	GT10675G	del3471	ORF1AB:DEL3471	3471	ORF1a	del3471	ORF1A:DEL3471	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	11083	.	G	T	81	PASS	1192	0.014262	0	"1175,0,17,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	11143	.	GA	G	188	PASS	1165	0.009442	0	"997,0,11,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10879delA	p.Met3627fs	10879/21291	10879/21291	3627/7096	3627	7096		",G"	del3627	GA11143G	del3627	ORF1AB:DEL3627	3627	ORF1a	del3627	ORF1A:DEL3627	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	11143	.	GATGTT	G	4932	PASS	1165	0.154506	0	"997,0,180,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10879_10883delATGTT	p.Met3627fs	10879/21291	10879/21291	3627/7096	3627	7096		",G"	del3627	GATGTT11143G	del3627	ORF1AB:DEL3627	3627	ORF1a	del3627	ORF1A:DEL3627	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	11148	.	T	G	71	PASS	1086	0.011971	0	"892,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10883T>G	p.Phe3628Cys	10883/21291	10883/21291	3628/7096	3628	7096		",G"	F3628C	T11148G	F3628C	ORF1AB:F3628C	3628	ORF1a	F3628C	ORF1A:F3628C	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	11456	.	A	T	5177	PASS	1528	0.168194	0	"1271,0,257,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11191A>T	p.Ile3731Phe	11191/21291	11191/21291	3731/7096	3731	7096		",T"	I3731F	A11456T	I3731F	ORF1AB:I3731F	3731	ORF1a	I3731F	ORF1A:I3731F	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	11497	.	C	T	26995	PASS	1374	0.646288	0	"482,0,888,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	11623	.	A	G	3717	PASS	1080	0.164815	0	"901,0,178,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11358A>G	p.Leu3786Leu	11358/21291	11358/21291	3786/7096	3786	7096		",G"	L3786L	A11623G	L3786L	ORF1AB:L3786L	3786	ORF1a	L3786L	ORF1A:L3786L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	12333	.	CA	C	2515	PASS	429	0.195804	0	"345,0,84,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12072delA	p.Val4025fs	12072/21291	12072/21291	4024/7096	4024	7096		"INFO_REALIGN_3_PRIME,C"	del4025	CA12333C	del4025	ORF1AB:DEL4025	4025	ORF1a	del4025	ORF1A:DEL4025	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	12436	.	T	C	2403	PASS	669	0.189836	0	"542,0,127,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	12583	.	TA	T	3905	PASS	752	0.182181	0	"622,0,137,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12322delA	p.Ile4108fs	12322/21291	12322/21291	4108/7096	4108	7096		"INFO_REALIGN_3_PRIME,T"	del4108	TA12583T	del4108	ORF1AB:DEL4108	4108	ORF1a	del4108	ORF1A:DEL4108	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	12757	.	T	C	1225	PASS	943	0.080594	0	"867,0,76,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12492T>C	p.Thr4164Thr	12492/21291	12492/21291	4164/7096	4164	7096		",C"	T4164T	T12757C	T4164T	ORF1AB:T4164T	4164	ORF1a	T4164T	ORF1A:T4164T	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	12758	.	G	C	1260	PASS	967	0.079628	0	"890,0,77,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12493G>C	p.Asp4165His	12493/21291	12493/21291	4165/7096	4165	7096		",C"	D4165H	G12758C	D4165H	ORF1AB:D4165H	4165	ORF1a	D4165H	ORF1A:D4165H	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	12759	.	A	C	1199	PASS	969	0.078431	0	"891,0,76,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12494A>C	p.Asp4165Ala	12494/21291	12494/21291	4165/7096	4165	7096		",C"	D4165A	A12759C	D4165A	ORF1AB:D4165A	4165	ORF1a	D4165A	ORF1A:D4165A	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	12965	.	TTAAACAACC	T	11689	PASS	1527	0.242305	0	"1178,0,370,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12705_12713delCAACCTAAA	p.Asn4236_Asn4238del	12705/21291	12705/21291	4235/7096	4235	7096		"INFO_REALIGN_3_PRIME,T"	del4236/4238	TTAAACAACC12965T	del4236/4238	ORF1AB:DEL4236/4238	4236/4238	ORF1a	del4236/4238	ORF1A:DEL4236/4238	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	12970	.	C	T	95	PASS	1492	0.010724	0	"1104,0,16,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12705C>T	p.Asn4235Asn	12705/21291	12705/21291	4235/7096	4235	7096		",T"	N4235N	C12970T	N4235N	ORF1AB:N4235N	4235	ORF1a	N4235N	ORF1A:N4235N	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	13299	.	TA	T	21158	PASS	2096	0.323473	0	"1418,0,678,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13038delA	p.Gly4347fs	13038/21291	13038/21291	4346/7096	4346	7096		"INFO_REALIGN_3_PRIME,T"	del4347	TA13299T	del4347	ORF1AB:DEL4347	4347	ORF1a	del4347	ORF1A:DEL4347	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	13556	.	A	G	4511	PASS	1137	0.183817	0	"923,0,209,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13292A>G	p.Asn4431Ser	13292/21291	13292/21291	4431/7096	4431	7096		",G"	N4431S	A13556G	N4431S	ORF1AB:N4431S	30	ORF1b	N30S	ORF1B:N30S	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	13993	.	G	T	22450	PASS	1005	0.723383	0	"278,0,727,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	14978	.	G	T	9425	PASS	2300	0.193043	0	"1854,0,444,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14714G>T	p.Arg4905Ile	14714/21291	14714/21291	4905/7096	4905	7096		",T"	R4905I	G14978T	R4905I	ORF1AB:R4905I	504	ORF1b	R504I	ORF1B:R504I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	15199	.	GTAGTAATT	G	359	PASS	1808	0.010509	0	"1789,0,19,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14936_14943delTAGTAATT	p.Val4979fs	14936/21291	14936/21291	4979/7096	4979	7096		",G"	del4979	GTAGTAATT15199G	del4979	ORF1AB:DEL4979	578	ORF1b	del578	ORF1B:DEL578	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	15579	.	C	T	413	PASS	36	0.444444	0	"20,0,16,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	15766	.	G	T	2957	PASS	191	0.528796	0	"90,0,101,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	16837	.	GA	G	80	PASS	2140	0.002804	0	"2138,0,6,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	16889	.	A	G	28039	PASS	1995	0.488221	0	"1015,0,974,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	16912	.	G	T	4740	PASS	1803	0.132002	0	"1558,0,238,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	17014	.	G	T	1591	PASS	1029	0.095238	0	"931,0,98,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16750G>T	p.Asp5584Tyr	16750/21291	16750/21291	5584/7096	5584	7096		",T"	D5584Y	G17014T	D5584Y	ORF1AB:D5584Y	1183	ORF1b	D1183Y	ORF1B:D1183Y	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	17019	.	G	T	11880	PASS	995	0.438191	0	"559,0,436,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	18215	.	G	T	2096	PASS	260	0.342308	0	"171,0,89,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17951G>T	p.Gly5984Val	17951/21291	17951/21291	5984/7096	5984	7096		",T"	G5984V	G18215T	G5984V	ORF1AB:G5984V	1583	ORF1b	G1583V	ORF1B:G1583V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	18877	.	C	T	15053	PASS	1331	0.417731	0	"773,0,556,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	19303	.	A	G	7367	PASS	2339	0.153912	0	"1973,0,360,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19039A>G	p.Asn6347Asp	19039/21291	19039/21291	6347/7096	6347	7096		",G"	N6347D	A19303G	N6347D	ORF1AB:N6347D	1946	ORF1b	N1946D	ORF1B:N1946D	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	19983	.	C	CT	966	PASS	431	0.102088	0	"387,0,44,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19725dupT	p.Asp6576fs	19726/21291	19726/21291	6576/7096	6576	7096		"INFO_REALIGN_3_PRIME,CT"	del6576	C19983CT	del6576	ORF1AB:DEL6576	2175	ORF1b	del2175	ORF1B:DEL2175	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	20695	.	A	G	375	PASS	1700	0.022941	0	"1657,0,39,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20431A>G	p.Asn6811Asp	20431/21291	20431/21291	6811/7096	6811	7096		",G"	N6811D	A20695G	N6811D	ORF1AB:N6811D	2410	ORF1b	N2410D	ORF1B:N2410D	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	21036	.	CA	C	3093	PASS	1797	0.074569	0	"1663,0,134,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20773delA	p.Ile6925fs	20773/21291	20773/21291	6925/7096	6925	7096		",C"	del6925	CA21036C	del6925	ORF1AB:DEL6925	2524	ORF1b	del2524	ORF1B:DEL2524	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	21611	.	A	T	2408	PASS	1061	0.119698	0	"933,0,127,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.49A>T	p.Asn17Tyr	49/3822	49/3822	17/1273	17	1273		",T"	N17Y	A21611T	N17Y	S:N17Y	17	S	N17Y	S:N17Y	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	21742	.	C	T	226	PASS	213	0.093897	0	"190,0,20,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.180C>T	p.Ser60Ser	180/3822	180/3822	60/1273	60	1273		",T"	S60S	C21742T	S60S	S:S60S	60	S	S60S	S:S60S	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	22083	.	C	CT	648	PASS	32	0.59375	0	"13,0,19,0"	TRUE	CT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.525dupT	p.Leu176fs	526/3822	526/3822	176/1273	176	1273		"INFO_REALIGN_3_PRIME,CT"	del176	C22083CT	del176	S:DEL176	176	S	del176	S:DEL176	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	22184	.	A	G	555	PASS	36	0.555556	0	"16,0,20,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.622A>G	p.Thr208Ala	622/3822	622/3822	208/1273	208	1273		",G"	T208A	A22184G	T208A	S:T208A	208	S	T208A	S:T208A	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	22227	.	C	T	276	PASS	22	0.5	0	"11,0,11,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	22992	.	G	A	645	PASS	43	0.511628	0	"21,0,22,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	23403	.	A	G	3444	PASS	101	1	2147483647	"0,0,101,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	23860	.	T	G	215	PASS	134	0.104478	0	"119,0,14,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2298T>G	p.Ala766Ala	2298/3822	2298/3822	766/1273	766	1273		",G"	A766A	T23860G	A766A	S:A766A	766	S	A766A	S:A766A	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	23887	.	CA	C	268	PASS	147	0.068027	0	"137,0,10,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2330delA	p.Asn777fs	2330/3822	2330/3822	777/1273	777	1273		"INFO_REALIGN_3_PRIME,C"	del777	CA23887C	del777	S:DEL777	777	S	del777	S:DEL777	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	24536	.	CA	C	188	PASS	142	0.049296	0	"135,0,7,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2977delA	p.Ile993fs	2977/3822	2977/3822	993/1273	993	1273		"INFO_REALIGN_3_PRIME,C"	del993	CA24536C	del993	S:DEL993	993	S	del993	S:DEL993	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	24672	.	CA	C	1117	PASS	187	0.203209	0	"149,0,38,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3115delA	p.Arg1039fs	3115/3822	3115/3822	1039/1273	1039	1273		"INFO_REALIGN_3_PRIME,C"	del1039	CA24672C	del1039	S:DEL1039	1039	S	del1039	S:DEL1039	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	24933	.	G	T	406	PASS	457	0.059081	0	"429,0,27,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3371G>T	p.Gly1124Val	3371/3822	3371/3822	1124/1273	1124	1273		",T"	G1124V	G24933T	G1124V	S:G1124V	1124	S	G1124V	S:G1124V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25056	.	A	T	168	PASS	1822	0.014819	0	"1795,0,27,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3494A>T	p.Asp1165Val	3494/3822	3494/3822	1165/1273	1165	1273		",T"	D1165V	A25056T	D1165V	S:D1165V	1165	S	D1165V	S:D1165V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25207	.	C	T	1708	PASS	1764	0.082766	0	"1608,0,146,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3645C>T	p.Tyr1215Tyr	3645/3822	3645/3822	1215/1273	1215	1273		",T"	Y1215Y	C25207T	Y1215Y	S:Y1215Y	1215	S	Y1215Y	S:Y1215Y	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25225	.	A	C	116	PASS	1941	0.019062	0	"1894,0,37,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25254	.	C	A	94	PASS	2234	0.017457	0	"2190,0,39,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25277	.	A	T	69	PASS	2157	0.020399	0	"2095,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25286	.	A	T	78	PASS	2232	0.022849	0	"2154,0,51,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25289	.	T	G	97	PASS	2186	0.024245	0	"2129,0,53,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25296	.	A	C	200	PASS	2234	0.036705	0	"2110,0,82,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25301	.	T	G	126	PASS	2257	0.02747	0	"2193,0,62,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25312	.	T	G	156	PASS	2366	0.028318	0	"2295,0,67,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25314	.	G	T	92	PASS	2370	0.024473	0	"2296,0,58,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25324	.	C	A	977	PASS	2403	0.070745	0	"2233,0,170,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25327	.	A	T	119	PASS	2386	0.023889	0	"2329,0,57,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25331	.	G	T	104	PASS	2400	0.029583	0	"2303,0,71,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25336	.	A	C	342	PASS	2412	0.049751	0	"2276,0,120,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25337	.	G	C	103	PASS	2348	0.027257	0	"2279,0,64,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25472	.	A	AT	6674	PASS	2407	0.099709	0	"2170,0,240,0"	TRUE	AT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.84dupT	p.Val29fs	85/828	85/828	29/275	29	275		"INFO_REALIGN_3_PRIME,AT"	del29	A25472AT	del29	ORF3A:DEL29	29	ORF3a	del29	ORF3A:DEL29	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25505	.	A	G	8095	PASS	1985	0.194962	0	"1593,0,387,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25520	.	T	C	137	PASS	2020	0.012871	0	"1989,0,26,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.128T>C	p.Phe43Ser	128/828	128/828	43/275	43	275		",C"	F43S	T25520C	F43S	ORF3A:F43S	43	ORF3a	F43S	ORF3A:F43S	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25563	.	G	T	38559	PASS	2007	0.63727	0	"727,0,1279,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25626	.	CT	C	6500	PASS	2019	0.114413	0	"1788,0,231,0"	TRUE	C	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.237delT	p.Phe79fs	237/828	237/828	79/275	79	275		"INFO_REALIGN_3_PRIME,C"	del79	CT25626C	del79	ORF3A:DEL79	79	ORF3a	del79	ORF3A:DEL79	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25710	.	C	T	18414	PASS	1248	0.512019	0	"606,0,639,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25906	.	G	C	2877	PASS	494	0.261134	0	"365,0,129,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	25996	.	G	T	2795	PASS	489	0.243354	0	"370,0,119,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26062	.	G	T	4483	PASS	422	0.407583	0	"249,0,172,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26091	.	CAAT	C	773	PASS	782	0.039642	0	"751,0,31,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.702_704delTAA	p.Asn234del	702/828	702/828	234/275	234	275		"INFO_REALIGN_3_PRIME,C"	del234	CAAT26091C	del234	ORF3A:DEL234	234	ORF3a	del234	ORF3A:DEL234	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26094	.	T	C	118	PASS	856	0.026869	0	"800,0,23,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.702T>C	p.Asn234Asn	702/828	702/828	234/275	234	275		",C"	N234N	T26094C	N234N	ORF3A:N234N	234	ORF3a	N234N	ORF3A:N234N	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26167	.	G	A	161	PASS	1909	0.016763	0	"1870,0,32,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.775G>A	p.Val259Ile	775/828	775/828	259/275	259	275		",A"	V259I	G26167A	V259I	ORF3A:V259I	259	ORF3a	V259I	ORF3A:V259I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26600	.	C	T	6817	PASS	3676	0.105277	0	"3281,0,387,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26735	.	C	T	25143	PASS	2860	0.343007	0	"1875,0,981,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26801	.	C	G	21643	PASS	2106	0.378443	0	"1059,0,797,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26801	.	C	T	49314	PASS	2106	0.117759	0	"1059,0,248,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>T	p.Leu93Leu	279/669	279/669	93/222	93	222		",T"	L93L	C26801T	L93L	M:L93L	93	M	L93L	M:L93L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	26876	.	T	C	6579	PASS	911	0.29528	0	"641,0,269,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	27481	.	C	T	4557	PASS	2369	0.112284	0	"2097,0,266,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.88C>T	p.Leu30Phe	88/366	88/366	30/121	30	121		",T"	L30F	C27481T	L30F	ORF7A:L30F	30	ORF7a	L30F	ORF7A:L30F	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	27659	.	G	A	4654	PASS	3093	0.087941	0	"2815,0,272,0"	FALSE	A	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.266G>A	p.Arg89Lys	266/366	266/366	89/121	89	121		",A"	R89K	G27659A	R89K	ORF7A:R89K	89	ORF7a	R89K	ORF7A:R89K	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	27717	.	G	GT	10387	PASS	3090	0.116828	0	"2791,0,361,0"	TRUE	GT	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.327dupT	p.Ile110fs	328/366	328/366	110/121	110	121		"INFO_REALIGN_3_PRIME,GT"	del110	G27717GT	del110	ORF7A:DEL110	110	ORF7a	del110	ORF7A:DEL110	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	27760	.	T	C	4460	PASS	3008	0.099734	0	"2701,0,300,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.5T>C	p.Ile2Thr	5/132	5/132	2/43	2	43		",C"	I2T	T27760C	I2T	ORF7B:I2T	2	ORF7b	I2T	ORF7B:I2T	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	27944	.	C	T	4113	PASS	2063	0.113912	0	"1822,0,235,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	27968	.	T	C	2436	PASS	1737	0.083477	0	"1590,0,145,0"	FALSE	C	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.75T>C	p.Cys25Cys	75/366	75/366	25/121	25	121		",C"	C25C	T27968C	C25C	ORF8:C25C	25	ORF8	C25C	ORF8:C25C	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	27970	.	C	A	3843	PASS	1628	0.11855	0	"1434,0,193,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28045	.	C	T	928	PASS	352	0.136364	0	"303,0,48,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28133	.	A	T	440	PASS	187	0.128342	0	"163,0,24,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28378	.	G	T	797	PASS	206	0.199029	0	"165,0,41,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28604	.	T	C	4281	PASS	3977	0.078954	0	"3648,0,314,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.331T>C	p.Tyr111His	331/1260	331/1260	111/419	111	419		",C"	Y111H	T28604C	Y111H	N:Y111H	111	N	Y111H	N:Y111H	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28651	.	C	T	14962	PASS	4582	0.159756	0	"3845,0,732,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28698	.	C	CA	12587	PASS	5851	0.080328	0	"5381,0,470,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.429dupA	p.Asp144fs	430/1260	430/1260	144/419	144	419		"INFO_REALIGN_3_PRIME,CA"	del144	C28698CA	del144	N:DEL144	144	N	del144	N:DEL144	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28869	.	C	T	20060	PASS	6166	0.160234	0	"5170,0,988,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28881	.	G	A	43351	PASS	5751	0.311946	0	"3944,0,1794,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28882	.	G	A	42107	PASS	5811	0.306832	0	"4010,0,1783,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28883	.	G	C	44683	PASS	5819	0.310363	0	"4001,0,1806,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28932	.	C	T	33685	PASS	5948	0.248823	0	"4458,0,1480,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28970	.	A	G	74	PASS	5582	0.007882	0	"5528,0,44,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.697A>G	p.Lys233Glu	697/1260	697/1260	233/419	233	419		",G"	K233E	A28970G	K233E	N:K233E	233	N	K233E	N:K233E	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28975	.	G	C	27326	PASS	5563	0.23171	0	"4268,0,1289,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28977	.	C	T	34580	PASS	5277	0.267197	0	"3859,0,1410,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28978	.	T	A	34559	PASS	5282	0.267891	0	"3865,0,1415,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	28987	.	CCAA	C	411	PASS	5051	0.00495	0	"5053,0,25,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	29038	.	TA	T	56	PASS	4794	0.001043	0	"4789,0,5,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.767delA	p.Lys256fs	767/1260	767/1260	256/419	256	419		"INFO_REALIGN_3_PRIME,T"	del256	TA29038T	del256	N:DEL256	256	N	del256	N:DEL256	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER34-2	NC_045512.2	29039	.	A	T	5691	PASS	4841	0.075398	0	"4467,0,365,0"	FALSE	T	stop_gained	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.766A>T	p.Lys256*	766/1260	766/1260	256/419	256	419		",T"	K256*	A29039T	K256*	N:K256*	256	N	K256*	N:K256*	MER34-2	MERSCH	2020-11-18T00:00:00Z	31.00475	32.49333333	x	1022021	2020-11-18
MER36-1	NC_045512.2	241	.	C	T	49314	PASS	3970	0.997229	0	"2,0,3959,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	313	.	C	T	24000	PASS	4014	0.253363	0	"2987,0,1017,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.48C>T	p.Leu16Leu	48/21291	48/21291	16/7096	16	7096		",T"	L16L	C313T	L16L	ORF1AB:L16L	16	ORF1a	L16L	ORF1A:L16L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	434	.	GA	G	74	PASS	4716	0.001484	0	"4727,0,7,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	445	.	T	C	21597	PASS	4860	0.236831	0	"3696,0,1151,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	742	.	A	C	13790	PASS	4187	0.160974	0	"3508,0,674,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.477A>C	p.Glu159Asp	477/21291	477/21291	159/7096	159	7096		",C"	E159D	A742C	E159D	ORF1AB:E159D	159	ORF1a	E159D	ORF1A:E159D	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	1310	.	T	C	972	PASS	2695	0.035993	0	"2595,0,97,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1045T>C	p.Leu349Leu	1045/21291	1045/21291	349/7096	349	7096		",C"	L349L	T1310C	L349L	ORF1AB:L349L	349	ORF1a	L349L	ORF1A:L349L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	1469	.	C	T	16726	PASS	3312	0.226449	0	"2554,0,750,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1204C>T	p.Arg402Cys	1204/21291	1204/21291	402/7096	402	7096		",T"	R402C	C1469T	R402C	ORF1AB:R402C	402	ORF1a	R402C	ORF1A:R402C	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	1672	.	T	C	25723	PASS	4535	0.25226	0	"3382,0,1144,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1407T>C	p.Leu469Leu	1407/21291	1407/21291	469/7096	469	7096		",C"	L469L	T1672C	L469L	ORF1AB:L469L	469	ORF1a	L469L	ORF1A:L469L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	1780	.	CTG	C	31201	PASS	3951	0.251582	0	"2957,0,994,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1518_1519delTG	p.Cys506fs	1518/21291	1518/21291	506/7096	506	7096		"INFO_REALIGN_3_PRIME,C"	del506	CTG1780C	del506	ORF1AB:DEL506	506	ORF1a	del506	ORF1A:DEL506	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	1865	.	T	C	12797	PASS	3451	0.17763	0	"2835,0,613,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1600T>C	p.Tyr534His	1600/21291	1600/21291	534/7096	534	7096		",C"	Y534H	T1865C	Y534H	ORF1AB:Y534H	534	ORF1a	Y534H	ORF1A:Y534H	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	3037	.	C	T	49314	PASS	2200	0.997273	2147483647	"0,0,2194,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	3267	.	C	T	1208	PASS	174	0.287356	0	"124,0,50,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	3412	.	T	A	1264	PASS	180	0.288889	0	"128,0,52,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3147T>A	p.Ala1049Ala	3147/21291	3147/21291	1049/7096	1049	7096		",A"	A1049A	T3412A	A1049A	ORF1AB:A1049A	1049	ORF1a	A1049A	ORF1A:A1049A	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	3602	.	C	T	1493	PASS	168	0.345238	0	"109,0,58,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	3863	.	GA	G	908	PASS	188	0.164894	0	"158,0,31,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3600delA	p.Glu1200fs	3600/21291	3600/21291	1200/7096	1200	7096		"INFO_REALIGN_3_PRIME,G"	del1200	GA3863G	del1200	ORF1AB:DEL1200	1200	ORF1a	del1200	ORF1A:DEL1200	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	4040	.	A	G	607	PASS	204	0.156863	0	"172,0,32,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	4543	.	C	T	5628	PASS	516	0.422481	0	"295,0,218,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	4605	.	CA	C	3997	PASS	581	0.22031	0	"453,0,128,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4342delA	p.Met1448fs	4342/21291	4342/21291	1448/7096	1448	7096		"INFO_REALIGN_3_PRIME,C"	del1448	CA4605C	del1448	ORF1AB:DEL1448	1448	ORF1a	del1448	ORF1A:DEL1448	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	4795	.	C	T	3359	PASS	1791	0.103294	0	"1600,0,185,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4530C>T	p.Ser1510Ser	4530/21291	4530/21291	1510/7096	1510	7096		",T"	S1510S	C4795T	S1510S	ORF1AB:S1510S	1510	ORF1a	S1510S	ORF1A:S1510S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	4886	.	C	T	2398	PASS	2261	0.070765	0	"2093,0,160,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4621C>T	p.Pro1541Ser	4621/21291	4621/21291	1541/7096	1541	7096		",T"	P1541S	C4886T	P1541S	ORF1AB:P1541S	1541	ORF1a	P1541S	ORF1A:P1541S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	4902	.	T	C	209	PASS	2424	0.013614	0	"2387,0,33,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4637T>C	p.Leu1546Pro	4637/21291	4637/21291	1546/7096	1546	7096		",C"	L1546P	T4902C	L1546P	ORF1AB:L1546P	1546	ORF1a	L1546P	ORF1A:L1546P	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	4984	.	A	T	9564	PASS	2653	0.166981	0	"2209,0,443,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4719A>T	p.Thr1573Thr	4719/21291	4719/21291	1573/7096	1573	7096		",T"	T1573T	A4984T	T1573T	ORF1AB:T1573T	1573	ORF1a	T1573T	ORF1A:T1573T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	5051	.	C	T	2600	PASS	3406	0.061362	0	"3185,0,209,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4786C>T	p.Pro1596Ser	4786/21291	4786/21291	1596/7096	1596	7096		",T"	P1596S	C5051T	P1596S	ORF1AB:P1596S	1596	ORF1a	P1596S	ORF1A:P1596S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	5193	.	TG	T	49	PASS	3163	0.001265	0	"3159,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4931delG	p.Gly1644fs	4931/21291	4931/21291	1644/7096	1644	7096		"INFO_REALIGN_3_PRIME,T"	del1644	TG5193T	del1644	ORF1AB:DEL1644	1644	ORF1a	del1644	ORF1A:DEL1644	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	5388	.	C	A	1414	PASS	2648	0.045317	0	"2526,0,120,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	5497	.	CA	C	4981	PASS	1678	0.107271	0	"1498,0,180,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5236delA	p.Arg1746fs	5236/21291	5236/21291	1746/7096	1746	7096		"INFO_REALIGN_3_PRIME,C"	del1746	CA5497C	del1746	ORF1AB:DEL1746	1746	ORF1a	del1746	ORF1A:DEL1746	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	5629	.	G	T	13101	PASS	1102	0.427405	0	"630,0,471,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	5978	.	T	C	1478	PASS	1288	0.073758	0	"1191,0,95,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5713T>C	p.Ser1905Pro	5713/21291	5713/21291	1905/7096	1905	7096		",C"	S1905P	T5978C	S1905P	ORF1AB:S1905P	1905	ORF1a	S1905P	ORF1A:S1905P	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	5986	.	C	T	1678	PASS	1338	0.081465	0	"1228,0,109,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5721C>T	p.Phe1907Phe	5721/21291	5721/21291	1907/7096	1907	7096		",T"	F1907F	C5986T	F1907F	ORF1AB:F1907F	1907	ORF1a	F1907F	ORF1A:F1907F	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	6286	.	C	T	4087	PASS	1586	0.14628	0	"1350,0,232,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	6369	.	GA	G	5507	PASS	1521	0.135437	0	"1321,0,206,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6106delA	p.Met2036fs	6106/21291	6106/21291	2036/7096	2036	7096		"INFO_REALIGN_3_PRIME,G"	del2036	GA6369G	del2036	ORF1AB:DEL2036	2036	ORF1a	del2036	ORF1A:DEL2036	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	6784	.	TA	T	7629	PASS	2050	0.137073	0	"1773,0,281,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6520delA	p.Thr2174fs	6520/21291	6520/21291	2174/7096	2174	7096		",T"	del2174	TA6784T	del2174	ORF1AB:DEL2174	2174	ORF1a	del2174	ORF1A:DEL2174	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	6941	.	C	T	12845	PASS	1953	0.280082	0	"1399,0,547,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	6954	.	T	C	5367	PASS	1908	0.162474	0	"1596,0,310,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	7259	.	A	AT	1582	PASS	520	0.107692	0	"467,0,56,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6996dupT	p.Leu2333fs	6997/21291	6997/21291	2333/7096	2333	7096		"INFO_REALIGN_3_PRIME,AT"	del2333	A7259AT	del2333	ORF1AB:DEL2333	2333	ORF1a	del2333	ORF1A:DEL2333	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	7773	.	T	C	5323	PASS	1764	0.154762	0	"1487,0,273,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7508T>C	p.Leu2503Pro	7508/21291	7508/21291	2503/7096	2503	7096		",C"	L2503P	T7773C	L2503P	ORF1AB:L2503P	2503	ORF1a	L2503P	ORF1A:L2503P	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	8299	.	CA	C	1297	PASS	1860	0.02957	0	"1805,0,55,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8037delA	p.Val2680fs	8037/21291	8037/21291	2679/7096	2679	7096		"INFO_REALIGN_3_PRIME,C"	del2680	CA8299C	del2680	ORF1AB:DEL2680	2680	ORF1a	del2680	ORF1A:DEL2680	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	8341	.	T	C	144	PASS	1439	0.014593	0	"1418,0,21,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8076T>C	p.Ile2692Ile	8076/21291	8076/21291	2692/7096	2692	7096		",C"	I2692I	T8341C	I2692I	ORF1AB:I2692I	2692	ORF1a	I2692I	ORF1A:I2692I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	8638	.	A	G	2871	PASS	1054	0.162239	0	"881,0,171,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8373A>G	p.Thr2791Thr	8373/21291	8373/21291	2791/7096	2791	7096		",G"	T2791T	A8638G	T2791T	ORF1AB:T2791T	2791	ORF1a	T2791T	ORF1A:T2791T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	8982	.	C	T	166	PASS	1575	0.017143	0	"1543,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8717C>T	p.Thr2906Ile	8717/21291	8717/21291	2906/7096	2906	7096		",T"	T2906I	C8982T	T2906I	ORF1AB:T2906I	2906	ORF1a	T2906I	ORF1A:T2906I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	9214	.	CTG	C	7095	PASS	1774	0.139233	0	"1527,0,247,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8951_8952delGT	p.Cys2984fs	8951/21291	8951/21291	2984/7096	2984	7096		"INFO_REALIGN_3_PRIME,C"	del2984	CTG9214C	del2984	ORF1AB:DEL2984	2984	ORF1a	del2984	ORF1A:DEL2984	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	9331	.	TG	T	3086	PASS	2537	0.049271	0	"2465,0,125,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9067delG	p.Ala3023fs	9067/21291	9067/21291	3023/7096	3023	7096		",T"	del3023	TG9331T	del3023	ORF1AB:DEL3023	3023	ORF1a	del3023	ORF1A:DEL3023	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	9526	.	G	T	49314	PASS	4120	0.555583	0	"1826,0,2289,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	9604	.	A	AT	20397	PASS	4855	0.143975	0	"4157,0,699,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9343dupT	p.Tyr3115fs	9344/21291	9344/21291	3115/7096	3115	7096		"INFO_REALIGN_3_PRIME,AT"	del3115	A9604AT	del3115	ORF1AB:DEL3115	3115	ORF1a	del3115	ORF1A:DEL3115	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	9666	.	CT	C	54	PASS	5072	0.000986	0	"5067,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9404delT	p.Leu3135fs	9404/21291	9404/21291	3135/7096	3135	7096		"INFO_REALIGN_3_PRIME,C"	del3135	CT9666C	del3135	ORF1AB:DEL3135	3135	ORF1a	del3135	ORF1A:DEL3135	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	10129	.	T	C	17154	PASS	3123	0.236311	0	"2377,0,738,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9864T>C	p.Thr3288Thr	9864/21291	9864/21291	3288/7096	3288	7096		",C"	T3288T	T10129C	T3288T	ORF1AB:T3288T	3288	ORF1a	T3288T	ORF1A:T3288T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	10136	.	A	G	17281	PASS	3108	0.243565	0	"2342,0,757,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9871A>G	p.Asn3291Asp	9871/21291	9871/21291	3291/7096	3291	7096		",G"	N3291D	A10136G	N3291D	ORF1AB:N3291D	3291	ORF1a	N3291D	ORF1A:N3291D	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	10282	.	G	T	25392	PASS	4056	0.273669	0	"2940,0,1110,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10017G>T	p.Arg3339Ser	10017/21291	10017/21291	3339/7096	3339	7096		",T"	R3339S	G10282T	R3339S	ORF1AB:R3339S	3339	ORF1a	R3339S	ORF1A:R3339S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	10605	.	C	T	9132	PASS	2480	0.182661	0	"2021,0,453,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10340C>T	p.Pro3447Leu	10340/21291	10340/21291	3447/7096	3447	7096		",T"	P3447L	C10605T	P3447L	ORF1AB:P3447L	3447	ORF1a	P3447L	ORF1A:P3447L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	10912	.	A	G	3748	PASS	1281	0.160812	0	"1071,0,206,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10647A>G	p.Leu3549Leu	10647/21291	10647/21291	3549/7096	3549	7096		",G"	L3549L	A10912G	L3549L	ORF1AB:L3549L	3549	ORF1a	L3549L	ORF1A:L3549L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	11497	.	C	T	23499	PASS	3305	0.292587	0	"2330,0,967,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	11773	.	T	C	1953	PASS	592	0.172297	0	"488,0,102,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11508T>C	p.Asp3836Asp	11508/21291	11508/21291	3836/7096	3836	7096		",C"	D3836D	T11773C	D3836D	ORF1AB:D3836D	3836	ORF1a	D3836D	ORF1A:D3836D	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	12307	.	A	T	6895	PASS	1764	0.213719	0	"1384,0,377,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12042A>T	p.Lys4014Asn	12042/21291	12042/21291	4014/7096	4014	7096		",T"	K4014N	A12307T	K4014N	ORF1AB:K4014N	4014	ORF1a	K4014N	ORF1A:K4014N	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	12436	.	T	C	21829	PASS	2764	0.321635	0	"1862,0,889,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	12934	.	T	C	664	PASS	4290	0.020979	0	"4193,0,90,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12669T>C	p.Pro4223Pro	12669/21291	12669/21291	4223/7096	4223	7096		",C"	P4223P	T12934C	P4223P	ORF1AB:P4223P	4223	ORF1a	P4223P	ORF1A:P4223P	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	12935	.	A	T	707	PASS	4342	0.02234	0	"4243,0,97,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12670A>T	p.Lys4224*	12670/21291	12670/21291	4224/7096	4224	7096		",T"	K4224*	A12935T	K4224*	ORF1AB:K4224*	4224	ORF1a	K4224*	ORF1A:K4224*	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	12988	.	G	T	77	PASS	4932	0.007097	0	"4890,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	13123	.	TG	T	77	PASS	6431	0.001244	0	"6493,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	13459	.	G	T	9981	PASS	4739	0.110994	0	"4211,0,526,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13194G>T	p.Ser4398Ser	13194/21291	13194/21291	4398/7096	4398	7096		",T"	S4398S	G13459T	S4398S	ORF1AB:S4398S	4398	ORF1a	S4398S	ORF1A:S4398S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	13914	.	TA	T	60	PASS	4495	0.001335	0	"4504,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13655delA	p.Lys4552fs	13655/21291	13655/21291	4552/7096	4552	7096		"INFO_REALIGN_3_PRIME,T"	del4552	TA13914T	del4552	ORF1AB:DEL4552	151	ORF1b	del151	ORF1B:DEL151	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	13993	.	G	T	49314	PASS	3316	0.559107	0	"1459,0,1854,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	14226	.	A	G	68	PASS	41	0.073171	0	"38,0,3,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13962A>G	p.Thr4654Thr	13962/21291	13962/21291	4654/7096	4654	7096		",G"	T4654T	A14226G	T4654T	ORF1AB:T4654T	253	ORF1b	T253T	ORF1B:T253T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	14408	.	C	T	1428	PASS	41	1	2147483647	"0,0,41,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	14625	.	C	T	5584	PASS	2919	0.11271	0	"2579,0,329,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14361C>T	p.Cys4787Cys	14361/21291	14361/21291	4787/7096	4787	7096		",T"	C4787C	C14625T	C4787C	ORF1AB:C4787C	386	ORF1b	C386C	ORF1B:C386C	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	14631	.	A	G	145	PASS	2980	0.008725	0	"2953,0,26,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14367A>G	p.Ser4789Ser	14367/21291	14367/21291	4789/7096	4789	7096		",G"	S4789S	A14631G	S4789S	ORF1AB:S4789S	388	ORF1b	S388S	ORF1B:S388S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	14799	.	T	C	5079	PASS	4932	0.066504	0	"4595,0,328,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14535T>C	p.Tyr4845Tyr	14535/21291	14535/21291	4845/7096	4845	7096		",C"	Y4845Y	T14799C	Y4845Y	ORF1AB:Y4845Y	444	ORF1b	Y444Y	ORF1B:Y444Y	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	15324	.	C	T	4568	PASS	1615	0.147988	0	"1374,0,239,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	15766	.	G	T	26393	PASS	1061	0.782281	0	"228,0,830,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	16414	.	G	T	7993	PASS	4196	0.112011	0	"3721,0,470,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16150G>T	p.Val5384Leu	16150/21291	16150/21291	5384/7096	5384	7096		",T"	V5384L	G16414T	V5384L	ORF1AB:V5384L	983	ORF1b	V983L	ORF1B:V983L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	16428	.	C	T	5023	PASS	4212	0.08642	0	"3835,0,364,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16164C>T	p.Tyr5388Tyr	16164/21291	16164/21291	5388/7096	5388	7096		",T"	Y5388Y	C16428T	Y5388Y	ORF1AB:Y5388Y	987	ORF1b	Y987Y	ORF1B:Y987Y	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	16630	.	CT	C	22893	PASS	6946	0.119493	0	"6116,0,830,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16371delT	p.Phe5457fs	16371/21291	16371/21291	5457/7096	5457	7096		"INFO_REALIGN_3_PRIME,C"	del5457	CT16630C	del5457	ORF1AB:DEL5457	1056	ORF1b	del1056	ORF1B:DEL1056	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	16837	.	G	A	7429	PASS	5908	0.080399	0	"5422,0,475,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16573G>A	p.Glu5525Lys	16573/21291	16573/21291	5525/7096	5525	7096		",A"	E5525K	G16837A	E5525K	ORF1AB:E5525K	1124	ORF1b	E1124K	ORF1B:E1124K	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	16889	.	A	G	49314	PASS	5304	0.812029	0	"988,0,4307,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	16912	.	G	T	9252	PASS	4917	0.104332	0	"4403,0,513,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	17019	.	G	T	49314	PASS	2798	0.778056	0	"617,0,2177,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	17104	.	C	T	368	PASS	317	0.07571	0	"293,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	17777	.	CT	C	55	PASS	5022	0.000996	0	"5017,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17515delT	p.Tyr5839fs	17515/21291	17515/21291	5839/7096	5839	7096		"INFO_REALIGN_3_PRIME,C"	del5839	CT17777C	del5839	ORF1AB:DEL5839	1438	ORF1b	del1438	ORF1B:DEL1438	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	17809	.	AT	A	50	PASS	5180	0.000965	0	"5185,0,5,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17549delT	p.Leu5850fs	17549/21291	17549/21291	5850/7096	5850	7096		"INFO_REALIGN_3_PRIME,A"	del5850	AT17809A	del5850	ORF1AB:DEL5850	1449	ORF1b	del1449	ORF1B:DEL1449	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	17953	.	C	CT	27186	PASS	5088	0.173153	0	"4206,0,881,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17692dupT	p.Cys5898fs	17693/21291	17693/21291	5898/7096	5898	7096		"INFO_REALIGN_3_PRIME,CT"	del5898	C17953CT	del5898	ORF1AB:DEL5898	1497	ORF1b	del1497	ORF1B:DEL1497	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	18138	.	CA	C	14769	PASS	3154	0.15948	0	"2651,0,503,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17878delA	p.Thr5960fs	17878/21291	17878/21291	5960/7096	5960	7096		"INFO_REALIGN_3_PRIME,C"	del5960	CA18138C	del5960	ORF1AB:DEL5960	1559	ORF1b	del1559	ORF1B:DEL1559	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	18251	.	A	T	3272	PASS	1274	0.143642	0	"1089,0,183,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17987A>T	p.Asn5996Ile	17987/21291	17987/21291	5996/7096	5996	7096		",T"	N5996I	A18251T	N5996I	ORF1AB:N5996I	1595	ORF1b	N1595I	ORF1B:N1595I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	18662	.	G	T	396	PASS	1739	0.025877	0	"1691,0,45,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18398G>T	p.Cys6133Phe	18398/21291	18398/21291	6133/7096	6133	7096		",T"	C6133F	G18662T	C6133F	ORF1AB:C6133F	1732	ORF1b	C1732F	ORF1B:C1732F	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	18674	.	G	T	70	PASS	2114	0.007569	0	"2098,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18410G>T	p.Arg6137Ile	18410/21291	18410/21291	6137/7096	6137	7096		",T"	R6137I	G18674T	R6137I	ORF1AB:R6137I	1736	ORF1b	R1736I	ORF1B:R1736I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	18877	.	C	T	49314	PASS	4928	0.586648	0	"2025,0,2891,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	19012	.	A	G	838	PASS	6732	0.018122	0	"6595,0,122,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18748A>G	p.Lys6250Glu	18748/21291	18748/21291	6250/7096	6250	7096		",G"	K6250E	A19012G	K6250E	ORF1AB:K6250E	1849	ORF1b	K1849E	ORF1B:K1849E	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	19211	.	G	T	6884	PASS	5875	0.073872	0	"5439,0,434,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18947G>T	p.Arg6316Ile	18947/21291	18947/21291	6316/7096	6316	7096		",T"	R6316I	G19211T	R6316I	ORF1AB:R6316I	1915	ORF1b	R1915I	ORF1B:R1915I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	19336	.	A	T	4545	PASS	5531	0.068884	0	"5146,0,381,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19072A>T	p.Lys6358*	19072/21291	19072/21291	6358/7096	6358	7096		",T"	K6358*	A19336T	K6358*	ORF1AB:K6358*	1957	ORF1b	K1957*	ORF1B:K1957*	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	19399	.	T	C	2882	PASS	4244	0.063619	0	"3959,0,270,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19135T>C	p.Ser6379Pro	19135/21291	19135/21291	6379/7096	6379	7096		",C"	S6379P	T19399C	S6379P	ORF1AB:S6379P	1978	ORF1b	S1978P	ORF1B:S1978P	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	19524	.	C	T	32912	PASS	3969	0.326027	0	"2664,0,1294,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	19705	.	A	G	9035	PASS	3541	0.131036	0	"3072,0,464,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19441A>G	p.Asn6481Asp	19441/21291	19441/21291	6481/7096	6481	7096		",G"	N6481D	A19705G	N6481D	ORF1AB:N6481D	2080	ORF1b	N2080D	ORF1B:N2080D	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	20548	.	GA	G	13073	PASS	3093	0.161655	0	"2609,0,500,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20285delA	p.Asp6762fs	20285/21291	20285/21291	6762/7096	6762	7096		",G"	del6762	GA20548G	del6762	ORF1AB:DEL6762	2361	ORF1b	del2361	ORF1B:DEL2361	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	20580	.	G	T	8522	PASS	3551	0.127851	0	"3092,0,454,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20316G>T	p.Val6772Val	20316/21291	20316/21291	6772/7096	6772	7096		",T"	V6772V	G20580T	V6772V	ORF1AB:V6772V	2371	ORF1b	V2371V	ORF1B:V2371V	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	20737	.	CT	C	16838	PASS	4578	0.129969	0	"3983,0,595,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20475delT	p.Gln6826fs	20475/21291	20475/21291	6825/7096	6825	7096		"INFO_REALIGN_3_PRIME,C"	del6826	CT20737C	del6826	ORF1AB:DEL6826	2425	ORF1b	del2425	ORF1B:DEL2425	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	21066	.	TA	T	13177	PASS	4047	0.118359	0	"3569,0,479,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20807delA	p.Asn6936fs	20807/21291	20807/21291	6936/7096	6936	7096		"INFO_REALIGN_3_PRIME,T"	del6936	TA21066T	del6936	ORF1AB:DEL6936	2535	ORF1b	del2535	ORF1B:DEL2535	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	21255	.	G	C	42598	PASS	4063	0.394782	0	"2447,0,1604,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	21575	.	C	T	1532	PASS	3194	0.040701	0	"3057,0,130,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	21634	.	AC	A	58	PASS	2758	0.001813	0	"2801,0,5,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.77delC	p.Pro26fs	77/3822	77/3822	26/1273	26	1273		"INFO_REALIGN_3_PRIME,A"	del26	AC21634A	del26	S:DEL26	26	S	del26	S:DEL26	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	21855	.	C	T	5519	PASS	1834	0.148855	0	"1557,0,273,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	22218	.	GT	G	122	PASS	817	0.008568	0	"856,0,7,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.661delT	p.Ser221fs	661/3822	661/3822	221/1273	221	1273		"INFO_REALIGN_3_PRIME,G"	del221	GT22218G	del221	S:DEL221	221	S	del221	S:DEL221	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	22377	.	C	T	81	PASS	18	0.166667	0	"15,0,3,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.815C>T	p.Pro272Leu	815/3822	815/3822	272/1273	272	1273		",T"	P272L	C22377T	P272L	S:P272L	272	S	P272L	S:P272L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	22546	.	A	AT	85	PASS	19	0.157895	0	"16,0,3,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.987dupT	p.Pro330fs	988/3822	988/3822	330/1273	330	1273		"INFO_REALIGN_3_PRIME,AT"	del330	A22546AT	del330	S:DEL330	330	S	del330	S:DEL330	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	22620	.	G	C	468	PASS	121	0.206612	0	"94,0,25,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1058G>C	p.Trp353Ser	1058/3822	1058/3822	353/1273	353	1273		",C"	W353S	G22620C	W353S	S:W353S	353	S	W353S	S:W353S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	22992	.	G	A	14787	PASS	756	0.671958	0	"246,0,508,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	23403	.	A	G	14122	PASS	417	0.997602	2147483647	"0,0,416,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	23635	.	C	T	2754	PASS	302	0.387417	0	"183,0,117,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2073C>T	p.Ser691Ser	2073/3822	2073/3822	691/1273	691	1273		",T"	S691S	C23635T	S691S	S:S691S	691	S	S691S	S:S691S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	23707	.	C	T	5426	PASS	297	0.619529	0	"113,0,184,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2145C>T	p.Pro715Pro	2145/3822	2145/3822	715/1273	715	1273		",T"	P715P	C23707T	P715P	S:P715P	715	S	P715P	S:P715P	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	23731	.	C	T	2747	PASS	283	0.381625	0	"175,0,108,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2169C>T	p.Thr723Thr	2169/3822	2169/3822	723/1273	723	1273		",T"	T723T	C23731T	T723T	S:T723T	723	S	T723T	S:T723T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	23958	.	G	GT	604	PASS	300	0.08	0	"277,0,24,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	24223	.	C	CT	2119	PASS	262	0.255725	0	"195,0,67,0"	TRUE	CT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2664dupT	p.Gly889fs	2665/3822	2665/3822	889/1273	889	1273		"INFO_REALIGN_3_PRIME,CT"	del889	C24223CT	del889	S:DEL889	889	S	del889	S:DEL889	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	24506	.	T	G	5446	PASS	1090	0.221101	0	"847,0,241,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	24536	.	CA	C	6540	PASS	1112	0.202338	0	"887,0,225,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2977delA	p.Ile993fs	2977/3822	2977/3822	993/1273	993	1273		"INFO_REALIGN_3_PRIME,C"	del993	CA24536C	del993	S:DEL993	993	S	del993	S:DEL993	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	24781	.	G	T	8592	PASS	1772	0.227427	0	"1368,0,403,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3219G>T	p.Lys1073Asn	3219/3822	3219/3822	1073/1273	1073	1273		",T"	K1073N	G24781T	K1073N	S:K1073N	1073	S	K1073N	S:K1073N	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	24914	.	G	C	7822	PASS	1524	0.230971	0	"1170,0,352,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25049	.	G	T	6386	PASS	2889	0.117688	0	"2542,0,340,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3487G>T	p.Asp1163Tyr	3487/3822	3487/3822	1163/1273	1163	1273		",T"	D1163Y	G25049T	D1163Y	S:D1163Y	1163	S	D1163Y	S:D1163Y	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25225	.	A	C	71	PASS	2741	0.013499	0	"2690,0,37,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25228	.	T	G	108	PASS	2745	0.017851	0	"2693,0,49,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25240	.	C	A	104	PASS	2889	0.017653	0	"2834,0,51,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25254	.	C	A	71	PASS	3129	0.014382	0	"3082,0,45,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25256	.	A	T	71	PASS	3153	0.013321	0	"3111,0,42,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3694A>T	p.Ile1232Phe	3694/3822	3694/3822	1232/1273	1232	1273		",T"	I1232F	A25256T	I1232F	S:I1232F	1232	S	I1232F	S:I1232F	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25274	.	A	C	80	PASS	3059	0.01798	0	"3000,0,55,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3712A>C	p.Thr1238Pro	3712/3822	3712/3822	1238/1273	1238	1273		",C"	T1238P	A25274C	T1238P	S:T1238P	1238	S	T1238P	S:T1238P	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25277	.	A	T	184	PASS	3023	0.027456	0	"2890,0,83,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25280	.	T	G	133	PASS	3102	0.022244	0	"3027,0,69,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25286	.	A	T	87	PASS	3167	0.021471	0	"3060,0,68,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25289	.	T	G	89	PASS	3097	0.020019	0	"3025,0,62,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25296	.	A	C	314	PASS	3115	0.039165	0	"2919,0,122,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25296	.	A	T	77	PASS	3115	0.023114	0	"2919,0,72,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25301	.	T	G	152	PASS	3070	0.02671	0	"2986,0,82,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25312	.	T	G	188	PASS	3162	0.028147	0	"3070,0,89,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25314	.	G	T	172	PASS	3194	0.028178	0	"3091,0,90,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25317	.	C	T	8333	PASS	3197	0.169534	0	"2636,0,542,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25324	.	C	A	1522	PASS	3197	0.077573	0	"2949,0,248,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25327	.	A	T	135	PASS	3164	0.023072	0	"3090,0,73,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25331	.	G	T	223	PASS	3156	0.036122	0	"3012,0,114,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25334	.	G	T	95	PASS	3127	0.028462	0	"2964,0,89,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25336	.	A	C	420	PASS	3161	0.049351	0	"2976,0,156,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25505	.	A	G	8948	PASS	2493	0.180104	0	"2035,0,449,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25563	.	G	T	49314	PASS	2318	0.833477	0	"386,0,1932,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25710	.	C	T	32217	PASS	1228	0.809446	0	"231,0,994,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25906	.	G	C	193	PASS	438	0.041096	0	"420,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	25996	.	G	T	149	PASS	491	0.032587	0	"475,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	26735	.	C	T	49314	PASS	3445	0.734107	0	"915,0,2529,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	26801	.	C	G	49314	PASS	2879	0.019799	0	"1972,0,57,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	26801	.	C	T	21499	PASS	2879	0.294894	0	"1972,0,849,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>T	p.Leu93Leu	279/669	279/669	93/222	93	222		",T"	L93L	C26801T	L93L	M:L93L	93	M	L93L	M:L93L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	26876	.	T	C	30575	PASS	1418	0.704513	0	"417,0,999,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	27046	.	CG	C	1852	PASS	560	0.128571	0	"489,0,72,0"	TRUE	C	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.525delG	p.Leu176fs	525/669	525/669	175/222	175	222		",C"	del176	CG27046C	del176	M:DEL176	176	M	del176	M:DEL176	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	27944	.	C	T	558	PASS	2892	0.025934	0	"2810,0,75,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28254	.	A	C	264	PASS	1390	0.028777	0	"1347,0,40,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28270	.	TA	T	4290	PASS	2052	0.091131	0	"1865,0,187,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28280	.	G	C	2892	PASS	2149	0.091205	0	"1948,0,196,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28281	.	A	T	3050	PASS	2187	0.090535	0	"1987,0,198,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28282	.	T	A	2996	PASS	2237	0.097899	0	"2014,0,219,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28384	.	A	T	15453	PASS	3482	0.204193	0	"2767,0,711,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28651	.	C	T	9395	PASS	5451	0.102183	0	"4883,0,557,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28869	.	C	T	13628	PASS	7879	0.104582	0	"7042,0,824,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28902	.	TG	T	20743	PASS	7776	0.096708	0	"7080,0,752,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.631delG	p.Ala211fs	631/1260	631/1260	211/419	211	419		"INFO_REALIGN_3_PRIME,T"	del211	TG28902T	del211	N:DEL211	211	N	del211	N:DEL211	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28932	.	C	T	30878	PASS	7724	0.192905	0	"6211,0,1490,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28969	.	CA	C	55	PASS	7174	0.000836	0	"7168,0,6,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.700delA	p.Met234fs	700/1260	700/1260	234/419	234	419		"INFO_REALIGN_3_PRIME,C"	del234	CA28969C	del234	N:DEL234	234	N	del234	N:DEL234	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28975	.	G	C	49314	PASS	7057	0.7088	0	"2048,0,5002,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	28987	.	CCAA	C	898	PASS	6600	0.007424	0	"6578,0,49,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	29072	.	G	A	4114	PASS	5893	0.067198	0	"5469,0,396,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.799G>A	p.Ala267Thr	799/1260	799/1260	267/419	267	419		",A"	A267T	G29072A	A267T	N:A267T	267	N	A267T	N:A267T	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
MER36-1	NC_045512.2	29131	.	T	G	87	PASS	3740	0.007754	0	"3701,0,29,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.858T>G	p.Phe286Leu	858/1260	858/1260	286/419	286	419		",G"	F286L	T29131G	F286L	N:F286L	286	N	F286L	N:F286L	MER36-1	MERSCH	2020-11-30T00:00:00Z	31.42775	32.91333333	x	1022021	2020-11-30
PET16	NC_045512.2	174	.	G	T	7271	PASS	1047	0.274117	0	"759,0,287,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-92G>T						NA	92	",T"		G174T		NA	NA	NA		NA	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	241	.	C	T	44561	PASS	1269	0.998424	2147483647	"0,0,1267,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	505	.	T	C	35284	PASS	1513	0.741573	0	"390,0,1122,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.240T>C	p.Pro80Pro	240/21291	240/21291	80/7096	80	7096		",C"	P80P	T505C	P80P	ORF1AB:P80P	80	ORF1a	P80P	ORF1A:P80P	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	872	.	G	T	17692	PASS	861	0.672474	0	"281,0,579,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.607G>T	p.Asp203Tyr	607/21291	607/21291	203/7096	203	7096		",T"	D203Y	G872T	D203Y	ORF1AB:D203Y	203	ORF1a	D203Y	ORF1A:D203Y	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	1722	.	C	T	7771	PASS	920	0.325	0	"620,0,299,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1457C>T	p.Ala486Val	1457/21291	1457/21291	486/7096	486	7096		",T"	A486V	C1722T	A486V	ORF1AB:A486V	486	ORF1a	A486V	ORF1A:A486V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	2175	.	A	G	194	PASS	88	0.102273	0	"79,0,9,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1910A>G	p.Glu637Gly	1910/21291	1910/21291	637/7096	637	7096		",G"	E637G	A2175G	E637G	ORF1AB:E637G	637	ORF1a	E637G	ORF1A:E637G	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	3037	.	C	T	28543	PASS	816	1	2147483647	"0,0,816,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	3261	.	C	T	1736	PASS	81	0.679012	0	"26,0,55,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2996C>T	p.Thr999Ile	2996/21291	2996/21291	999/7096	999	7096		",T"	T999I	C3261T	T999I	ORF1AB:T999I	999	ORF1a	T999I	ORF1A:T999I	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	4016	.	GA	G	255	PASS	10	0.7	0	"3,0,7,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3755delA	p.Asn1252fs	3755/21291	3755/21291	1252/7096	1252	7096		"INFO_REALIGN_3_PRIME,G"	del1252	GA4016G	del1252	ORF1AB:DEL1252	1252	ORF1a	del1252	ORF1A:DEL1252	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	4438	.	CTG	C	122	PASS	42	0.095238	0	"38,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4178_4179delTG	p.Val1393fs	4178/21291	4178/21291	1393/7096	1393	7096		"INFO_REALIGN_3_PRIME,C"	del1393	CTG4438C	del1393	ORF1AB:DEL1393	1393	ORF1a	del1393	ORF1A:DEL1393	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	6363	.	C	A	3572	PASS	359	0.370474	0	"226,0,133,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6098C>A	p.Ala2033Glu	6098/21291	6098/21291	2033/7096	2033	7096		",A"	A2033E	C6363A	A2033E	ORF1AB:A2033E	2033	ORF1a	A2033E	ORF1A:A2033E	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	6928	.	T	A	738	PASS	574	0.076655	0	"529,0,44,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6663T>A	p.Pro2221Pro	6663/21291	6663/21291	2221/7096	2221	7096		",A"	P2221P	T6928A	P2221P	ORF1AB:P2221P	2221	ORF1a	P2221P	ORF1A:P2221P	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	7008	.	CT	C	2687	PASS	617	0.150729	0	"524,0,93,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6744delT	p.Ala2249fs	6744/21291	6744/21291	2248/7096	2248	7096		",C"	del2249	CT7008C	del2249	ORF1AB:DEL2249	2249	ORF1a	del2249	ORF1A:DEL2249	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	7696	.	TA	T	880	PASS	479	0.068894	0	"447,0,33,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7435delA	p.Arg2479fs	7435/21291	7435/21291	2479/7096	2479	7096		"INFO_REALIGN_3_PRIME,T"	del2479	TA7696T	del2479	ORF1AB:DEL2479	2479	ORF1a	del2479	ORF1A:DEL2479	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	8394	.	C	T	502	PASS	136	0.176471	0	"112,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8129C>T	p.Ala2710Val	8129/21291	8129/21291	2710/7096	2710	7096		",T"	A2710V	C8394T	A2710V	ORF1AB:A2710V	2710	ORF1a	A2710V	ORF1A:A2710V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	9344	.	C	T	1483	PASS	343	0.183673	0	"280,0,63,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9079C>T	p.Leu3027Phe	9079/21291	9079/21291	3027/7096	3027	7096		",T"	L3027F	C9344T	L3027F	ORF1AB:L3027F	3027	ORF1a	L3027F	ORF1A:L3027F	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	9356	.	T	C	179	PASS	400	0.0375	0	"384,0,15,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9091T>C	p.Phe3031Leu	9091/21291	9091/21291	3031/7096	3031	7096		",C"	F3031L	T9356C	F3031L	ORF1AB:F3031L	3031	ORF1a	F3031L	ORF1A:F3031L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	9912	.	A	AT	1930	PASS	1077	0.066852	0	"1013,0,72,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9651dupT	p.Ser3218fs	9652/21291	9652/21291	3218/7096	3218	7096		"INFO_REALIGN_3_PRIME,AT"	del3218	A9912AT	del3218	ORF1AB:DEL3218	3218	ORF1a	del3218	ORF1A:DEL3218	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	10265	.	G	A	3646	PASS	1969	0.104622	0	"1755,0,206,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10000G>A	p.Gly3334Ser	10000/21291	10000/21291	3334/7096	3334	7096		",A"	G3334S	G10265A	G3334S	ORF1AB:G3334S	3334	ORF1a	G3334S	ORF1A:G3334S	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	10405	.	TTA	T	146	PASS	1789	0.086082	0	"1696,0,154,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10141_10142delTA	p.Tyr3381fs	10141/21291	10141/21291	3381/7096	3381	7096		",T"	del3381	TTA10405T	del3381	ORF1AB:DEL3381	3381	ORF1a	del3381	ORF1A:DEL3381	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	10406	.	TAC	T	97	PASS	1771	0.01694	0	"1763,0,30,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10143_10144delCA	p.Tyr3381fs	10143/21291	10143/21291	3381/7096	3381	7096		"INFO_REALIGN_3_PRIME,T"	del3381	TAC10406T	del3381	ORF1AB:DEL3381	3381	ORF1a	del3381	ORF1A:DEL3381	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	10406	.	T	A	99	PASS	1793	0.017847	0	"1607,0,32,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10141T>A	p.Tyr3381Asn	10141/21291	10141/21291	3381/7096	3381	7096		",A"	Y3381N	T10406A	Y3381N	ORF1AB:Y3381N	3381	ORF1a	Y3381N	ORF1A:Y3381N	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	10626	.	C	T	1870	PASS	1021	0.095984	0	"922,0,98,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10361C>T	p.Ala3454Val	10361/21291	10361/21291	3454/7096	3454	7096		",T"	A3454V	C10626T	A3454V	ORF1AB:A3454V	3454	ORF1a	A3454V	ORF1A:A3454V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	10908	.	CT	C	378	PASS	442	0.174208	0	"365,0,77,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10646delT	p.Leu3549fs	10646/21291	10646/21291	3549/7096	3549	7096		"INFO_REALIGN_3_PRIME,C"	del3549	CT10908C	del3549	ORF1AB:DEL3549	3549	ORF1a	del3549	ORF1A:DEL3549	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	10912	.	A	G	470	PASS	421	0.192399	0	"335,0,81,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10647A>G	p.Leu3549Leu	10647/21291	10647/21291	3549/7096	3549	7096		",G"	L3549L	A10912G	L3549L	ORF1AB:L3549L	3549	ORF1a	L3549L	ORF1A:L3549L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	11074	.	C	CT	761	PASS	523	0.087954	0	"476,0,46,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817dupT	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,CT"	del3606	C11074CT	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	11074	.	CT	C	910	PASS	523	0.101338	0	"470,0,53,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	11521	.	G	GT	3389	PASS	319	0.332288	0	"214,0,106,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11261dupT	p.Leu3754fs	11262/21291	11262/21291	3754/7096	3754	7096		"INFO_REALIGN_3_PRIME,GT"	del3754	G11521GT	del3754	ORF1AB:DEL3754	3754	ORF1a	del3754	ORF1A:DEL3754	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	13506	.	CG	C	90	PASS	1109	0.021641	0	"1085,0,24,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13244delG	p.Gly4415fs	13244/21291	13244/21291	4415/7096	4415	7096		"INFO_REALIGN_3_PRIME,C"	del4415	CG13506C	del4415	ORF1AB:DEL4415	14	ORF1b	del14	ORF1B:DEL14	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	13509	.	C	T	75	PASS	1110	0.021622	0	"1086,0,24,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13245C>T	p.Gly4415Gly	13245/21291	13245/21291	4415/7096	4415	7096		",T"	G4415G	C13509T	G4415G	ORF1AB:G4415G	14	ORF1b	G14G	ORF1B:G14G	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	14408	.	C	T	2531	PASS	69	1	2147483647	"0,0,69,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	14904	.	TA	T	8178	PASS	1074	0.239292	0	"825,0,257,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14642delA	p.Asn4881fs	14642/21291	14642/21291	4881/7096	4881	7096		"INFO_REALIGN_3_PRIME,T"	del4881	TA14904T	del4881	ORF1AB:DEL4881	480	ORF1b	del480	ORF1B:DEL480	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	14925	.	C	T	163	PASS	976	0.015369	0	"960,0,15,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14661C>T	p.Val4887Val	14661/21291	14661/21291	4887/7096	4887	7096		",T"	V4887V	C14925T	V4887V	ORF1AB:V4887V	486	ORF1b	V486V	ORF1B:V486V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	15776	.	TA	T	51	PASS	848	0.003538	0	"863,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15515delA	p.Lys5172fs	15515/21291	15515/21291	5172/7096	5172	7096		"INFO_REALIGN_3_PRIME,T"	del5172	TA15776T	del5172	ORF1AB:DEL5172	771	ORF1b	del771	ORF1B:DEL771	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	16308	.	C	T	1469	PASS	1200	0.066667	0	"1117,0,80,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16044C>T	p.Phe5348Phe	16044/21291	16044/21291	5348/7096	5348	7096		",T"	F5348F	C16308T	F5348F	ORF1AB:F5348F	947	ORF1b	F947F	ORF1B:F947F	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	16843	.	G	A	3056	PASS	2289	0.079074	0	"2105,0,181,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16579G>A	p.Gly5527Ser	16579/21291	16579/21291	5527/7096	5527	7096		",A"	G5527S	G16843A	G5527S	ORF1AB:G5527S	1126	ORF1b	G1126S	ORF1B:G1126S	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	16887	.	C	T	3146	PASS	2024	0.083992	0	"1852,0,170,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16623C>T	p.Tyr5541Tyr	16623/21291	16623/21291	5541/7096	5541	7096		",T"	Y5541Y	C16887T	Y5541Y	ORF1AB:Y5541Y	1140	ORF1b	Y1140Y	ORF1B:Y1140Y	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	16929	.	AGT	A	5142	PASS	1893	0.102483	0	"1721,0,194,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16666_16667delGT	p.Val5556fs	16666/21291	16666/21291	5556/7096	5556	7096		",A"	del5556	AGT16929A	del5556	ORF1AB:DEL5556	1155	ORF1b	del1155	ORF1B:DEL1155	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	17019	.	G	T	1099	PASS	972	0.061728	0	"912,0,60,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	17893	.	G	T	3117	PASS	2068	0.082205	0	"1898,0,170,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17629G>T	p.Ala5877Ser	17629/21291	17629/21291	5877/7096	5877	7096		",T"	A5877S	G17893T	A5877S	ORF1AB:A5877S	1476	ORF1b	A1476S	ORF1B:A1476S	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	18086	.	C	T	196	PASS	1870	0.013369	0	"1845,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17822C>T	p.Thr5941Ile	17822/21291	17822/21291	5941/7096	5941	7096		",T"	T5941I	C18086T	T5941I	ORF1AB:T5941I	1540	ORF1b	T1540I	ORF1B:T1540I	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	18108	.	AC	A	3747	PASS	1747	0.077848	0	"1628,0,136,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17846delC	p.Pro5949fs	17846/21291	17846/21291	5949/7096	5949	7096		"INFO_REALIGN_3_PRIME,A"	del5949	AC18108A	del5949	ORF1AB:DEL5949	1548	ORF1b	del1548	ORF1B:DEL1548	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	19676	.	A	C	160	PASS	424	0.025943	0	"413,0,11,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19412A>C	p.Gln6471Pro	19412/21291	19412/21291	6471/7096	6471	7096		",C"	Q6471P	A19676C	Q6471P	ORF1AB:Q6471P	2070	ORF1b	Q2070P	ORF1B:Q2070P	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	19718	.	C	T	4191	PASS	365	0.419178	0	"212,0,153,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19454C>T	p.Thr6485Ile	19454/21291	19454/21291	6485/7096	6485	7096		",T"	T6485I	C19718T	T6485I	ORF1AB:T6485I	2084	ORF1b	T2084I	ORF1B:T2084I	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	20032	.	C	T	154	PASS	67	0.119403	0	"58,0,8,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19768C>T	p.Arg6590Cys	19768/21291	19768/21291	6590/7096	6590	7096		",T"	R6590C	C20032T	R6590C	ORF1AB:R6590C	2189	ORF1b	R2189C	ORF1B:R2189C	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	20091	.	C	CA	132	PASS	93	0.053763	0	"88,0,5,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19830dupA	p.Gln6611fs	19831/21291	19831/21291	6611/7096	6611	7096		"INFO_REALIGN_3_PRIME,CA"	del6611	C20091CA	del6611	ORF1AB:DEL6611	2210	ORF1b	del2210	ORF1B:DEL2210	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	20191	.	G	A	190	PASS	99	0.090909	0	"90,0,9,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19927G>A	p.Glu6643Lys	19927/21291	19927/21291	6643/7096	6643	7096		",A"	E6643K	G20191A	E6643K	ORF1AB:E6643K	2242	ORF1b	E2242K	ORF1B:E2242K	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	20742	.	A	C	23443	PASS	2750	0.316364	0	"1879,0,870,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	20946	.	C	T	36833	PASS	2240	0.547768	0	"1012,0,1227,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20682C>T	p.Val6894Val	20682/21291	20682/21291	6894/7096	6894	7096		",T"	V6894V	C20946T	V6894V	ORF1AB:V6894V	2493	ORF1b	V2493V	ORF1B:V2493V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	21101	.	G	GT	1823	PASS	1751	0.055397	0	"1663,0,97,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843dupT	p.Thr6949fs	20844/21291	20844/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,GT"	del6949	G21101GT	del6949	ORF1AB:DEL6949	2548	ORF1b	del2548	ORF1B:DEL2548	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	21354	.	G	A	6200	PASS	1416	0.201271	0	"1131,0,285,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21090G>A	p.Arg7030Arg	21090/21291	21090/21291	7030/7096	7030	7096		",A"	R7030R	G21354A	R7030R	ORF1AB:R7030R	2629	ORF1b	R2629R	ORF1B:R2629R	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	21371	.	A	G	5879	PASS	1356	0.184366	0	"1099,0,250,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21107A>G	p.Gln7036Arg	21107/21291	21107/21291	7036/7096	7036	7096		",G"	Q7036R	A21371G	Q7036R	ORF1AB:Q7036R	2635	ORF1b	Q2635R	ORF1B:Q2635R	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	22075	.	C	T	10398	PASS	412	0.786408	0	"88,0,324,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.513C>T	p.Val171Val	513/3822	513/3822	171/1273	171	1273		",T"	V171V	C22075T	V171V	S:V171V	171	S	V171V	S:V171V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	22276	.	T	C	208	PASS	117	0.111111	0	"104,0,13,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.714T>C	p.Phe238Phe	714/3822	714/3822	238/1273	238	1273		",C"	F238F	T22276C	F238F	S:F238F	238	S	F238F	S:F238F	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	22992	.	G	T	633	PASS	303	0.09901	0	"273,0,30,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>T	p.Ser477Ile	1430/3822	1430/3822	477/1273	477	1273		",T"	S477I	G22992T	S477I	S:S477I	477	S	S477I	S:S477I	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	23162	.	G	A	396	PASS	204	0.098039	0	"183,0,20,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1600G>A	p.Val534Ile	1600/3822	1600/3822	534/1273	534	1273		",A"	V534I	G23162A	V534I	S:V534I	534	S	V534I	S:V534I	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	23403	.	A	G	16332	PASS	476	0.997899	2147483647	"0,0,475,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	23731	.	C	T	1141	PASS	458	0.122271	0	"399,0,56,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2169C>T	p.Thr723Thr	2169/3822	2169/3822	723/1273	723	1273		",T"	T723T	C23731T	T723T	S:T723T	723	S	T723T	S:T723T	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	24064	.	CA	C	1797	PASS	661	0.096823	0	"597,0,64,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2505delA	p.Lys835fs	2505/3822	2505/3822	835/1273	835	1273		"INFO_REALIGN_3_PRIME,C"	del835	CA24064C	del835	S:DEL835	835	S	del835	S:DEL835	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	24125	.	TTTAACGGCCTTACTG	T	1537	PASS	817	0.069767	0	"764,0,57,0"	TRUE	T	conservative_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2566_2580delAACGGCCTTACTGTT	p.Asn856_Val860del	2566/3822	2566/3822	856/1273	856	1273		"INFO_REALIGN_3_PRIME,T"	del856/860	TTTAACGGCCTTACTG24125T	del856/860	S:DEL856/860	856/860	S	del856/860	S:DEL856/860	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	24223	.	C	CT	1937	PASS	834	0.082734	0	"765,0,69,0"	TRUE	CT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2664dupT	p.Gly889fs	2665/3822	2665/3822	889/1273	889	1273		"INFO_REALIGN_3_PRIME,CT"	del889	C24223CT	del889	S:DEL889	889	S	del889	S:DEL889	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	24223	.	C	T	1226	PASS	834	0.083933	0	"764,0,70,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2661C>T	p.Thr887Thr	2661/3822	2661/3822	887/1273	887	1273		",T"	T887T	C24223T	T887T	S:T887T	887	S	T887T	S:T887T	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	24320	.	CA	C	47	PASS	725	0.004138	0	"722,0,3,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2763delA	p.Lys921fs	2763/3822	2763/3822	921/1273	921	1273		"INFO_REALIGN_3_PRIME,C"	del921	CA24320C	del921	S:DEL921	921	S	del921	S:DEL921	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	24374	.	CT	C	1134	PASS	805	0.057143	0	"759,0,46,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2815delT	p.Ser939fs	2815/3822	2815/3822	939/1273	939	1273		"INFO_REALIGN_3_PRIME,C"	del939	CT24374C	del939	S:DEL939	939	S	del939	S:DEL939	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	24773	.	CA	C	4501	PASS	1135	0.134802	0	"982,0,153,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3213delA	p.Glu1072fs	3213/3822	3213/3822	1071/1273	1071	1273		"INFO_REALIGN_3_PRIME,C"	del1072	CA24773C	del1072	S:DEL1072	1072	S	del1072	S:DEL1072	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	24843	.	T	C	331	PASS	1244	0.032958	0	"1200,0,41,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3281T>C	p.Val1094Ala	3281/3822	3281/3822	1094/1273	1094	1273		",C"	V1094A	T24843C	V1094A	S:V1094A	1094	S	V1094A	S:V1094A	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25184	.	C	G	153	PASS	1155	0.014719	0	"1136,0,17,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3622C>G	p.Gln1208Glu	3622/3822	3622/3822	1208/1273	1208	1273		",G"	Q1208E	C25184G	Q1208E	S:Q1208E	1208	S	Q1208E	S:Q1208E	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25216	.	A	T	116	PASS	1014	0.023669	0	"987,0,24,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25225	.	A	C	80	PASS	1023	0.01955	0	"1000,0,20,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25240	.	C	A	87	PASS	1036	0.024131	0	"1010,0,25,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25244	.	G	T	123	PASS	1082	0.025878	0	"1054,0,28,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25247	.	A	T	146	PASS	1086	0.031308	0	"1049,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25252	.	G	C	70	PASS	1107	0.02168	0	"1067,0,24,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>C	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",C"	V1230V	G25252C	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25254	.	C	A	86	PASS	1158	0.023316	0	"1131,0,27,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25259	.	A	T	77	PASS	1197	0.021721	0	"1170,0,26,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25269	.	G	T	80	PASS	1121	0.021409	0	"1097,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3707G>T	p.Cys1236Phe	3707/3822	3707/3822	1236/1273	1236	1273		",T"	C1236F	G25269T	C1236F	S:C1236F	1236	S	C1236F	S:C1236F	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25277	.	A	T	434	PASS	1125	0.066667	0	"1035,0,75,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25286	.	A	T	405	PASS	1177	0.063721	0	"1084,0,75,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25296	.	A	C	717	PASS	1176	0.092687	0	"1011,0,109,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25296	.	A	T	154	PASS	1176	0.040816	0	"1011,0,48,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25302	.	G	T	72	PASS	1161	0.020672	0	"1136,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3740G>T	p.Cys1247Phe	3740/3822	3740/3822	1247/1273	1247	1273		",T"	C1247F	G25302T	C1247F	S:C1247F	1247	S	C1247F	S:C1247F	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25312	.	T	G	82	PASS	1192	0.029362	0	"1156,0,35,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25314	.	G	T	190	PASS	1185	0.048101	0	"1124,0,57,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25323	.	G	C	261	PASS	1174	0.057922	0	"1079,0,68,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25324	.	C	A	1876	PASS	1183	0.166526	0	"985,0,197,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25327	.	A	T	227	PASS	1161	0.054264	0	"1097,0,63,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25331	.	G	T	275	PASS	1143	0.063867	0	"1063,0,73,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25334	.	G	C	265	PASS	1124	0.064947	0	"1017,0,73,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25336	.	A	C	1232	PASS	1135	0.148899	0	"960,0,169,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25337	.	G	C	328	PASS	1082	0.074861	0	"1001,0,81,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25731	.	C	T	6800	PASS	1241	0.224013	0	"961,0,278,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.339C>T	p.Tyr113Tyr	339/828	339/828	113/275	113	275		",T"	Y113Y	C25731T	Y113Y	ORF3A:Y113Y	113	ORF3a	Y113Y	ORF3A:Y113Y	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25744	.	A	G	4480	PASS	1237	0.156831	0	"1042,0,194,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.352A>G	p.Ile118Val	352/828	352/828	118/275	118	275		",G"	I118V	A25744G	I118V	ORF3A:I118V	118	ORF3a	I118V	ORF3A:I118V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	25982	.	T	A	2104	PASS	1186	0.095278	0	"1073,0,113,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.590T>A	p.Val197Glu	590/828	590/828	197/275	197	275		",A"	V197E	T25982A	V197E	ORF3A:V197E	197	ORF3a	V197E	ORF3A:V197E	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	26372	.	G	A	4058	PASS	2369	0.090333	0	"2152,0,214,0"	FALSE	A	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.128G>A	p.Cys43Tyr	128/228	128/228	43/75	43	75		",A"	C43Y	G26372A	C43Y	E:C43Y	43	E	C43Y	E:C43Y	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	26399	.	T	C	952	PASS	2656	0.026732	0	"2584,0,71,0"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.155T>C	p.Val52Ala	155/228	155/228	52/75	52	75		",C"	V52A	T26399C	V52A	E:V52A	52	E	V52A	E:V52A	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	26512	.	T	A	4022	PASS	2732	0.080161	0	"2512,0,219,0"	FALSE	A	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-11T>A						NA	11	",A"		T26512A		NA	NA	M		NA	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	26700	.	G	T	3337	PASS	2169	0.076072	0	"2003,0,165,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.178G>T	p.Val60Leu	178/669	178/669	60/222	60	222		",T"	V60L	G26700T	V60L	M:V60L	60	M	V60L	M:V60L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	27297	.	C	T	1313	PASS	932	0.078326	0	"856,0,73,0"	FALSE	T	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.96C>T	p.Ile32Ile	96/186	96/186	32/61	32	61		",T"	I32I	C27297T	I32I	ORF6:I32I	32	ORF6	I32I	ORF6:I32I	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	27906	.	G	GT	2688	PASS	1726	0.059676	0	"1626,0,103,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.17dupT	p.Gly8fs	18/366	18/366	6/121	6	121		"INFO_REALIGN_3_PRIME,GT"	del8	G27906GT	del8	ORF8:DEL8	8	ORF8	del8	ORF8:DEL8	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	27945	.	C	T	39098	PASS	1755	0.694587	0	"535,0,1219,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.52C>T	p.Gln18*	52/366	52/366	18/121	18	121		",T"	Q18*	C27945T	Q18*	ORF8:Q18*	18	ORF8	Q18*	ORF8:Q18*	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	27999	.	C	T	1027	PASS	1385	0.05343	0	"1307,0,74,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.106C>T	p.Pro36Ser	106/366	106/366	36/121	36	121		",T"	P36S	C27999T	P36S	ORF8:P36S	36	ORF8	P36S	ORF8:P36S	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28065	.	A	T	1757	PASS	1330	0.07218	0	"1234,0,96,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.172A>T	p.Ile58Phe	172/366	172/366	58/121	58	121		",T"	I58F	A28065T	I58F	ORF8:I58F	58	ORF8	I58F	ORF8:I58F	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28221	.	G	T	1666	PASS	1372	0.067784	0	"1278,0,93,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.328G>T	p.Glu110*	328/366	328/366	110/121	110	121		",T"	E110*	G28221T	E110*	ORF8:E110*	110	ORF8	E110*	ORF8:E110*	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28379	.	C	A	386	PASS	1645	0.023708	0	"1605,0,39,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.106C>A	p.Arg36Arg	106/1260	106/1260	36/419	36	419		",A"	R36R	C28379A	R36R	N:R36R	36	N	R36R	N:R36R	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28747	.	G	C	5110	PASS	3799	0.078968	0	"3494,0,300,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.474G>C	p.Val158Val	474/1260	474/1260	158/419	158	419		",C"	V158V	G28747C	V158V	N:V158V	158	N	V158V	N:V158V	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28759	.	T	C	9084	PASS	3608	0.118071	0	"3179,0,426,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.486T>C	p.Pro162Pro	486/1260	486/1260	162/419	162	419		",C"	P162P	T28759C	P162P	N:P162P	162	N	P162P	N:P162P	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28815	.	A	G	516	PASS	3689	0.018162	0	"3617,0,67,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.542A>G	p.Gln181Arg	542/1260	542/1260	181/419	181	419		",G"	Q181R	A28815G	Q181R	N:Q181R	181	N	Q181R	N:Q181R	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28881	.	G	A	49314	PASS	3061	0.99902	0	"1,0,3058,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28882	.	G	A	49314	PASS	3055	0.999345	2147483647	"0,0,3053,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28883	.	G	C	49314	PASS	3075	0.998049	0	"1,0,3069,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28889	.	TCTCCTGCTA	T	1739	PASS	3344	0.024821	0	"3261,0,83,0"	TRUE	T	stop_gained&disruptive_inframe_deletion	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.617_625delCTCCTGCTA	p.Ser206_Arg209delinsTer	617/1260	617/1260	206/419	206	419		",T"	indel	TCTCCTGCTA28889T	NA	NA	NA	N	NA	NA	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28930	.	T	C	98	PASS	3407	0.00587	0	"3385,0,20,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.657T>C	p.Leu219Leu	657/1260	657/1260	219/419	219	419		",C"	L219L	T28930C	L219L	N:L219L	219	N	L219L	N:L219L	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	28987	.	CCAA	C	255	PASS	3032	0.004947	0	"3038,0,15,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	29051	.	C	CA	5594	PASS	2739	0.078131	0	"2525,0,214,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET16	NC_045512.2	29423	.	CAG	C	62	PASS	24	0.083333	0	"22,0,2,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.1154_1155delGA	p.Arg385fs	1154/1260	1154/1260	385/419	385	419		"INFO_REALIGN_3_PRIME,C"	del385	CAG29423C	del385	N:DEL385	385	N	del385	N:DEL385	PET16	PETANGE	2020-07-13T00:00:00Z	32.86425	36	NA	19/09/2021	2020-07-13
PET17	NC_045512.2	76	.	T	C	1405	PASS	296	0.202703	0	"235,0,60,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-190T>C						NA	190	",C"		T76C		NA	NA	NA		NA	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	112	.	T	C	491	PASS	622	0.049839	0	"589,0,31,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-154T>C						NA	154	",C"		T112C		NA	NA	NA		NA	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	241	.	C	T	49314	PASS	1436	0.999304	2147483647	"0,0,1435,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	505	.	T	C	25942	PASS	1675	0.53194	0	"782,0,891,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.240T>C	p.Pro80Pro	240/21291	240/21291	80/7096	80	7096		",C"	P80P	T505C	P80P	ORF1AB:P80P	80	ORF1a	P80P	ORF1A:P80P	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	844	.	T	C	243	PASS	976	0.021516	0	"955,0,21,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.579T>C	p.Pro193Pro	579/21291	579/21291	193/7096	193	7096		",C"	P193P	T844C	P193P	ORF1AB:P193P	193	ORF1a	P193P	ORF1A:P193P	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	872	.	G	T	13484	PASS	837	0.553166	0	"374,0,463,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.607G>T	p.Asp203Tyr	607/21291	607/21291	203/7096	203	7096		",T"	D203Y	G872T	D203Y	ORF1AB:D203Y	203	ORF1a	D203Y	ORF1A:D203Y	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	1268	.	G	T	2229	PASS	1073	0.10438	0	"961,0,112,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1003G>T	p.Asp335Tyr	1003/21291	1003/21291	335/7096	335	7096		",T"	D335Y	G1268T	D335Y	ORF1AB:D335Y	335	ORF1a	D335Y	ORF1A:D335Y	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	1312	.	G	T	1469	PASS	1209	0.07196	0	"1120,0,87,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1047G>T	p.Leu349Phe	1047/21291	1047/21291	349/7096	349	7096		",T"	L349F	G1312T	L349F	ORF1AB:L349F	349	ORF1a	L349F	ORF1A:L349F	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	1372	.	T	C	74	PASS	1109	0.009017	0	"1098,0,10,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1107T>C	p.Tyr369Tyr	1107/21291	1107/21291	369/7096	369	7096		",C"	Y369Y	T1372C	Y369Y	ORF1AB:Y369Y	369	ORF1a	Y369Y	ORF1A:Y369Y	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	3037	.	C	T	30656	PASS	869	1	2147483647	"0,0,869,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	3261	.	C	T	426	PASS	25	0.56	0	"11,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2996C>T	p.Thr999Ile	2996/21291	2996/21291	999/7096	999	7096		",T"	T999I	C3261T	T999I	ORF1AB:T999I	999	ORF1a	T999I	ORF1A:T999I	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	3692	.	G	T	77	PASS	25	0.12	0	"22,0,3,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3427G>T	p.Val1143Phe	3427/21291	3427/21291	1143/7096	1143	7096		",T"	V1143F	G3692T	V1143F	ORF1AB:V1143F	1143	ORF1a	V1143F	ORF1A:V1143F	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	5936	.	G	GA	1167	PASS	414	0.096618	0	"374,0,40,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5674dupA	p.Ile1892fs	5675/21291	5675/21291	1892/7096	1892	7096		"INFO_REALIGN_3_PRIME,GA"	del1892	G5936GA	del1892	ORF1AB:DEL1892	1892	ORF1a	del1892	ORF1A:DEL1892	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	5950	.	G	T	3636	PASS	486	0.286008	0	"347,0,139,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5685G>T	p.Lys1895Asn	5685/21291	5685/21291	1895/7096	1895	7096		",T"	K1895N	G5950T	K1895N	ORF1AB:K1895N	1895	ORF1a	K1895N	ORF1A:K1895N	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	6696	.	C	CT	258	PASS	105	0.085714	0	"96,0,9,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	6701	.	C	T	70	PASS	93	0.107527	0	"83,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	8627	.	TA	T	85	PASS	43	0.069767	0	"40,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8363delA	p.Tyr2788fs	8363/21291	8363/21291	2788/7096	2788	7096		",T"	del2788	TA8627T	del2788	ORF1AB:DEL2788	2788	ORF1a	del2788	ORF1A:DEL2788	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	10097	.	G	A	368	PASS	414	0.065217	0	"385,0,27,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9832G>A	p.Gly3278Ser	9832/21291	9832/21291	3278/7096	3278	7096		",A"	G3278S	G10097A	G3278S	ORF1AB:G3278S	3278	ORF1a	G3278S	ORF1A:G3278S	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	10141	.	T	C	4177	PASS	435	0.383908	0	"268,0,167,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9876T>C	p.Gly3292Gly	9876/21291	9876/21291	3292/7096	3292	7096		",C"	G3292G	T10141C	G3292G	ORF1AB:G3292G	3292	ORF1a	G3292G	ORF1A:G3292G	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	11653	.	C	T	95	PASS	45	0.088889	0	"41,0,4,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11388C>T	p.Leu3796Leu	11388/21291	11388/21291	3796/7096	3796	7096		",T"	L3796L	C11653T	L3796L	ORF1AB:L3796L	3796	ORF1a	L3796L	ORF1A:L3796L	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	13331	.	T	C	70	PASS	1743	0.006311	0	"1731,0,11,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13066T>C	p.Cys4356Arg	13066/21291	13066/21291	4356/7096	4356	7096		",C"	C4356R	T13331C	C4356R	ORF1AB:C4356R	4356	ORF1a	C4356R	ORF1A:C4356R	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	13536	.	C	T	1757	PASS	830	0.104819	0	"742,0,87,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13272C>T	p.Tyr4424Tyr	13272/21291	13272/21291	4424/7096	4424	7096		",T"	Y4424Y	C13536T	Y4424Y	ORF1AB:Y4424Y	23	ORF1b	Y23Y	ORF1B:Y23Y	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	14408	.	C	T	2000	PASS	56	1	2147483647	"0,0,56,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	15252	.	TG	T	1727	PASS	1291	0.052672	0	"1223,0,68,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14989delG	p.Val4997fs	14989/21291	14989/21291	4997/7096	4997	7096		",T"	del4997	TG15252T	del4997	ORF1AB:DEL4997	596	ORF1b	del596	ORF1B:DEL596	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	15581	.	A	T	3620	PASS	1036	0.159266	0	"871,0,165,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15317A>T	p.Lys5106Ile	15317/21291	15317/21291	5106/7096	5106	7096		",T"	K5106I	A15581T	K5106I	ORF1AB:K5106I	705	ORF1b	K705I	ORF1B:K705I	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	16915	.	C	T	5145	PASS	1149	0.194082	0	"924,0,223,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16651C>T	p.Leu5551Leu	16651/21291	16651/21291	5551/7096	5551	7096		",T"	L5551L	C16915T	L5551L	ORF1AB:L5551L	1150	ORF1b	L1150L	ORF1B:L1150L	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	17059	.	CA	C	146	PASS	524	0.013359	0	"518,0,7,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799delA	p.Lys5600fs	16799/21291	16799/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,C"	del5600	CA17059C	del5600	ORF1AB:DEL5600	1199	ORF1b	del1199	ORF1B:DEL1199	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	17550	.	CG	C	393	PASS	1053	0.017094	0	"1035,0,18,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17288delG	p.Gly5763fs	17288/21291	17288/21291	5763/7096	5763	7096		"INFO_REALIGN_3_PRIME,C"	del5763	CG17550C	del5763	ORF1AB:DEL5763	1362	ORF1b	del1362	ORF1B:DEL1362	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	18604	.	G	A	656	PASS	209	0.186603	0	"168,0,39,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18340G>A	p.Gly6114Ser	18340/21291	18340/21291	6114/7096	6114	7096		",A"	G6114S	G18604A	G6114S	ORF1AB:G6114S	1713	ORF1b	G1713S	ORF1B:G1713S	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	18688	.	T	C	547	PASS	899	0.042269	0	"861,0,38,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18424T>C	p.Phe6142Leu	18424/21291	18424/21291	6142/7096	6142	7096		",C"	F6142L	T18688C	F6142L	ORF1AB:F6142L	1741	ORF1b	F1741L	ORF1B:F1741L	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	18871	.	A	G	4211	PASS	1225	0.148571	0	"1042,0,182,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18607A>G	p.Arg6203Gly	18607/21291	18607/21291	6203/7096	6203	7096		",G"	R6203G	A18871G	R6203G	ORF1AB:R6203G	1802	ORF1b	R1802G	ORF1B:R1802G	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	19552	.	GGCTT	G	867	PASS	325	0.098462	0	"296,0,32,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19289_19292delGCTT	p.Gly6430fs	19289/21291	19289/21291	6430/7096	6430	7096		",G"	del6430	GGCTT19552G	del6430	ORF1AB:DEL6430	2029	ORF1b	del2029	ORF1B:DEL2029	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	19903	.	C	T	3049	PASS	199	0.572864	0	"85,0,114,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19639C>T	p.His6547Tyr	19639/21291	19639/21291	6547/7096	6547	7096		",T"	H6547Y	C19903T	H6547Y	ORF1AB:H6547Y	2146	ORF1b	H2146Y	ORF1B:H2146Y	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	20002	.	G	T	213	PASS	73	0.123288	0	"64,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19738G>T	p.Asp6580Tyr	19738/21291	19738/21291	6580/7096	6580	7096		",T"	D6580Y	G20002T	D6580Y	ORF1AB:D6580Y	2179	ORF1b	D2179Y	ORF1B:D2179Y	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	20742	.	A	C	28388	PASS	2058	0.472303	0	"1086,0,972,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	20946	.	C	T	27798	PASS	1642	0.557247	0	"727,0,915,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20682C>T	p.Val6894Val	20682/21291	20682/21291	6894/7096	6894	7096		",T"	V6894V	C20946T	V6894V	ORF1AB:V6894V	2493	ORF1b	V2493V	ORF1B:V2493V	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	22075	.	C	T	2916	PASS	240	0.445833	0	"133,0,107,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.513C>T	p.Val171Val	513/3822	513/3822	171/1273	171	1273		",T"	V171V	C22075T	V171V	S:V171V	171	S	V171V	S:V171V	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	22830	.	AT	A	56	PASS	38	0.052632	0	"36,0,2,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1269delT	p.Tyr423fs	1269/3822	1269/3822	423/1273	423	1273		",A"	del423	AT22830A	del423	S:DEL423	423	S	del423	S:DEL423	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	22992	.	G	T	1018	PASS	40	0.775	0	"9,0,31,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>T	p.Ser477Ile	1430/3822	1430/3822	477/1273	477	1273		",T"	S477I	G22992T	S477I	S:S477I	477	S	S477I	S:S477I	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	23403	.	A	G	7180	PASS	204	1	2147483647	"0,0,204,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	23764	.	A	G	518	PASS	310	0.077419	0	"286,0,24,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2202A>G	p.Thr734Thr	2202/3822	2202/3822	734/1273	734	1273		",G"	T734T	A23764G	T734T	S:T734T	734	S	T734T	S:T734T	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	24223	.	C	T	1599	PASS	479	0.152401	0	"405,0,73,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2661C>T	p.Thr887Thr	2661/3822	2661/3822	887/1273	887	1273		",T"	T887T	C24223T	T887T	S:T887T	887	S	T887T	S:T887T	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	24816	.	G	A	96	PASS	939	0.01278	0	"926,0,12,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3254G>A	p.Gly1085Glu	3254/3822	3254/3822	1085/1273	1085	1273		",A"	G1085E	G24816A	G1085E	S:G1085E	1085	S	G1085E	S:G1085E	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25146	.	A	G	2192	PASS	539	0.172542	0	"446,0,93,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3584A>G	p.Glu1195Gly	3584/3822	3584/3822	1195/1273	1195	1273		",G"	E1195G	A25146G	E1195G	S:E1195G	1195	S	E1195G	S:E1195G	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25216	.	A	T	70	PASS	263	0.038023	0	"252,0,10,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25277	.	A	T	157	PASS	282	0.074468	0	"258,0,21,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25296	.	A	C	276	PASS	304	0.108553	0	"263,0,33,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25324	.	C	A	535	PASS	306	0.166667	0	"255,0,51,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25334	.	G	C	104	PASS	290	0.072414	0	"260,0,21,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25336	.	A	C	247	PASS	296	0.114865	0	"262,0,34,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25337	.	G	C	82	PASS	278	0.064748	0	"260,0,18,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25519	.	TTC	T	180	PASS	449	0.017817	0	"442,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.128_129delTC	p.Phe43fs	128/828	128/828	43/275	43	275		",T"	del43	TTC25519T	del43	ORF3A:DEL43	43	ORF3a	del43	ORF3A:DEL43	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25703	.	C	CT	1813	PASS	724	0.092541	0	"657,0,67,0"	TRUE	CT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.315dupT	p.Leu106fs	316/828	316/828	106/275	106	275		"INFO_REALIGN_3_PRIME,CT"	del106	C25703CT	del106	ORF3A:DEL106	106	ORF3a	del106	ORF3A:DEL106	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25731	.	C	T	1681	PASS	892	0.093049	0	"809,0,83,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.339C>T	p.Tyr113Tyr	339/828	339/828	113/275	113	275		",T"	Y113Y	C25731T	Y113Y	ORF3A:Y113Y	113	ORF3a	Y113Y	ORF3A:Y113Y	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	25936	.	C	A	2713	PASS	1043	0.121764	0	"915,0,127,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.544C>A	p.His182Asn	544/828	544/828	182/275	182	275		",A"	H182N	C25936A	H182N	ORF3A:H182N	182	ORF3a	H182N	ORF3A:H182N	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	26112	.	TG	T	2674	PASS	1149	0.104439	0	"1029,0,120,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.721delG	p.Glu241fs	721/828	721/828	241/275	241	275		",T"	del241	TG26112T	del241	ORF3A:DEL241	241	ORF3a	del241	ORF3A:DEL241	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	26309	.	C	CT	6042	PASS	1002	0.191617	0	"810,0,192,0"	TRUE	CT	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.68dupT	p.Val24fs	69/228	69/228	23/75	23	75		"INFO_REALIGN_3_PRIME,CT"	del24	C26309CT	del24	E:DEL24	24	E	del24	E:DEL24	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	27264	.	T	C	344	PASS	425	0.047059	0	"404,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.63T>C	p.Thr21Thr	63/186	63/186	21/61	21	61		",C"	T21T	T27264C	T21T	ORF6:T21T	21	ORF6	T21T	ORF6:T21T	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	27605	.	TA	T	48	PASS	782	0.003836	0	"779,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.216delA	p.Lys72fs	216/366	216/366	72/121	72	121		"INFO_REALIGN_3_PRIME,T"	del72	TA27605T	del72	ORF7A:DEL72	72	ORF7a	del72	ORF7A:DEL72	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	27797	.	A	G	2008	PASS	682	0.131965	0	"592,0,90,0"	FALSE	G	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.42A>G	p.Leu14Leu	42/132	42/132	14/43	14	43		",G"	L14L	A27797G	L14L	ORF7B:L14L	14	ORF7b	L14L	ORF7B:L14L	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	27920	.	C	T	2185	PASS	1036	0.098456	0	"934,0,102,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.27C>T	p.Ile9Ile	27/366	27/366	9/121	9	121		",T"	I9I	C27920T	I9I	ORF8:I9I	9	ORF8	I9I	ORF8:I9I	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	27945	.	C	T	22906	PASS	985	0.714721	0	"281,0,704,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.52C>T	p.Gln18*	52/366	52/366	18/121	18	121		",T"	Q18*	C27945T	Q18*	ORF8:Q18*	18	ORF8	Q18*	ORF8:Q18*	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28161	.	T	A	2168	PASS	791	0.130215	0	"688,0,103,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.268T>A	p.Cys90Ser	268/366	268/366	90/121	90	121		",A"	C90S	T28161A	C90S	ORF8:C90S	90	ORF8	C90S	ORF8:C90S	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28221	.	G	T	3573	PASS	821	0.181486	0	"672,0,149,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.328G>T	p.Glu110*	328/366	328/366	110/121	110	121		",T"	E110*	G28221T	E110*	ORF8:E110*	110	ORF8	E110*	ORF8:E110*	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28242	.	G	GT	4319	PASS	796	0.178392	0	"659,0,142,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.353dupT	p.Leu118fs	354/366	354/366	118/121	118	121		"INFO_REALIGN_3_PRIME,GT"	del118	G28242GT	del118	ORF8:DEL118	118	ORF8	del118	ORF8:DEL118	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28776	.	CA	C	45	PASS	3237	0.001236	0	"3233,0,4,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28807	.	C	T	1605	PASS	3267	0.037343	0	"3143,0,122,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.534C>T	p.Gly178Gly	534/1260	534/1260	178/419	178	419		",T"	G178G	C28807T	G178G	N:G178G	178	N	G178G	N:G178G	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28880	.	A	AAAAC	1785	PASS	2576	0.078804	0	"2633,0,203,0"	TRUE	AAAAC	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.607_608insAAAC	p.Arg203fs	608/1260	608/1260	203/419	203	419		",AAAAC"	del203	A28880AAAAC	del203	N:DEL203	203	N	del203	N:DEL203	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28882	.	G	A	49314	PASS	2565	0.916179	0	"4,0,2350,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28883	.	G	C	49314	PASS	2589	0.918501	0	"2,0,2378,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET17	NC_045512.2	28945	.	T	C	3524	PASS	2860	0.070629	0	"2657,0,202,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.672T>C	p.Leu224Leu	672/1260	672/1260	224/419	224	419		",C"	L224L	T28945C	L224L	N:L224L	224	N	L224L	N:L224L	PET17	PETANGE	2020-07-19T00:00:00Z	31.938	35	NA	19/09/2021	2020-07-19
PET30	NC_045512.2	150	.	T	C	68	PASS	2633	0.004937	0	"2618,0,13,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-116T>C						NA	116	",C"		T150C		NA	NA	NA		NA	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	204	.	G	T	20336	PASS	3928	0.211303	0	"3096,0,830,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	241	.	C	T	49314	PASS	4533	0.998235	0	"1,0,4525,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	335	.	C	T	10578	PASS	4753	0.107511	0	"4240,0,511,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	381	.	T	C	72	PASS	5276	0.003601	0	"5257,0,19,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.116T>C	p.Leu39Ser	116/21291	116/21291	39/7096	39	7096		",C"	L39S	T381C	L39S	ORF1AB:L39S	39	ORF1a	L39S	ORF1A:L39S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	434	.	GA	G	70	PASS	5458	0.001283	0	"5477,0,7,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	445	.	T	C	42073	PASS	5663	0.29419	0	"3991,0,1666,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	535	.	A	G	10842	PASS	5253	0.099372	0	"4728,0,522,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.270A>G	p.Ala90Ala	270/21291	270/21291	90/7096	90	7096		",G"	A90A	A535G	A90A	ORF1AB:A90A	90	ORF1a	A90A	ORF1A:A90A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	658	.	TG	T	14313	PASS	5143	0.106747	0	"4594,0,549,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.395delG	p.Gly132fs	395/21291	395/21291	132/7096	132	7096		"INFO_REALIGN_3_PRIME,T"	del132	TG658T	del132	ORF1AB:DEL132	132	ORF1a	del132	ORF1A:DEL132	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	666	.	A	G	456	PASS	5224	0.011677	0	"5155,0,61,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.401A>G	p.His134Arg	401/21291	401/21291	134/7096	134	7096		",G"	H134R	A666G	H134R	ORF1AB:H134R	134	ORF1a	H134R	ORF1A:H134R	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	875	.	C	A	1255	PASS	2992	0.036096	0	"2884,0,108,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	1059	.	C	T	11779	PASS	3453	0.154648	0	"2918,0,534,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.794C>T	p.Thr265Ile	794/21291	794/21291	265/7096	265	7096		",T"	T265I	C1059T	T265I	ORF1AB:T265I	265	ORF1a	T265I	ORF1A:T265I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	1439	.	G	A	534	PASS	3559	0.018826	0	"3489,0,67,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1174G>A	p.Gly392Ser	1174/21291	1174/21291	392/7096	392	7096		",A"	G392S	G1439A	G392S	ORF1AB:G392S	392	ORF1a	G392S	ORF1A:G392S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	1461	.	AG	A	62	PASS	3666	0.001364	0	"3672,0,5,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1199delG	p.Gly400fs	1199/21291	1199/21291	400/7096	400	7096		"INFO_REALIGN_3_PRIME,A"	del400	AG1461A	del400	ORF1AB:DEL400	400	ORF1a	del400	ORF1A:DEL400	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	1764	.	A	G	8571	PASS	4050	0.108642	0	"3605,0,440,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1499A>G	p.Lys500Arg	1499/21291	1499/21291	500/7096	500	7096		",G"	K500R	A1764G	K500R	ORF1AB:K500R	500	ORF1a	K500R	ORF1A:K500R	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	1898	.	CG	C	13068	PASS	3063	0.147894	0	"2617,0,453,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1634delG	p.Arg545fs	1634/21291	1634/21291	545/7096	545	7096		",C"	del545	CG1898C	del545	ORF1AB:DEL545	545	ORF1a	del545	ORF1A:DEL545	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	1910	.	TC	T	50	PASS	3064	0.001305	0	"3062,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1648delC	p.Arg550fs	1648/21291	1648/21291	550/7096	550	7096		"INFO_REALIGN_3_PRIME,T"	del550	TC1910T	del550	ORF1AB:DEL550	550	ORF1a	del550	ORF1A:DEL550	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	1922	.	G	T	69	PASS	3181	0.004401	0	"3167,0,14,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1657G>T	p.Glu553*	1657/21291	1657/21291	553/7096	553	7096		",T"	E553*	G1922T	E553*	ORF1AB:E553*	553	ORF1a	E553*	ORF1A:E553*	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	2928	.	A	G	441	PASS	2555	0.016438	0	"2509,0,42,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2663A>G	p.Glu888Gly	2663/21291	2663/21291	888/7096	888	7096		",G"	E888G	A2928G	E888G	ORF1AB:E888G	888	ORF1a	E888G	ORF1A:E888G	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	2973	.	C	T	12327	PASS	2612	0.212098	0	"2053,0,554,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2708C>T	p.Ala903Val	2708/21291	2708/21291	903/7096	903	7096		",T"	A903V	C2973T	A903V	ORF1AB:A903V	903	ORF1a	A903V	ORF1A:A903V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	3037	.	C	T	49314	PASS	2090	0.998565	2147483647	"0,0,2087,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	3099	.	C	T	93	PASS	2151	0.007438	0	"2133,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2834C>T	p.Thr945Ile	2834/21291	2834/21291	945/7096	945	7096		",T"	T945I	C3099T	T945I	ORF1AB:T945I	945	ORF1a	T945I	ORF1A:T945I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	3231	.	G	T	447	PASS	374	0.064171	0	"350,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2966G>T	p.Gly989Val	2966/21291	2966/21291	989/7096	989	7096		",T"	G989V	G3231T	G989V	ORF1AB:G989V	989	ORF1a	G989V	ORF1A:G989V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	3592	.	T	C	2158	PASS	226	0.367257	0	"143,0,83,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	3602	.	C	T	515	PASS	238	0.113445	0	"211,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	3838	.	G	T	389	PASS	195	0.123077	0	"170,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3573G>T	p.Leu1191Phe	3573/21291	3573/21291	1191/7096	1191	7096		",T"	L1191F	G3838T	L1191F	ORF1AB:L1191F	1191	ORF1a	L1191F	ORF1A:L1191F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	3852	.	A	G	521	PASS	212	0.113208	0	"188,0,24,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3587A>G	p.Glu1196Gly	3587/21291	3587/21291	1196/7096	1196	7096		",G"	E1196G	A3852G	E1196G	ORF1AB:E1196G	1196	ORF1a	E1196G	ORF1A:E1196G	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	4040	.	A	G	527	PASS	237	0.101266	0	"213,0,24,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	4312	.	TA	T	203	PASS	147	0.054422	0	"147,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4051delA	p.Ser1351fs	4051/21291	4051/21291	1351/7096	1351	7096		"INFO_REALIGN_3_PRIME,T"	del1351	TA4312T	del1351	ORF1AB:DEL1351	1351	ORF1a	del1351	ORF1A:DEL1351	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	4543	.	C	T	661	PASS	172	0.168605	0	"143,0,29,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	4846	.	T	C	1535	PASS	1480	0.058108	0	"1394,0,86,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4581T>C	p.Phe1527Phe	4581/21291	4581/21291	1527/7096	1527	7096		",C"	F1527F	T4846C	F1527F	ORF1AB:F1527F	1527	ORF1a	F1527F	ORF1A:F1527F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	5629	.	G	T	3575	PASS	550	0.252727	0	"411,0,139,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	6070	.	C	T	1013	PASS	792	0.066919	0	"739,0,53,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5805C>T	p.Ile1935Ile	5805/21291	5805/21291	1935/7096	1935	7096		",T"	I1935I	C6070T	I1935I	ORF1AB:I1935I	1935	ORF1a	I1935I	ORF1A:I1935I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	6266	.	G	A	2445	PASS	1148	0.111498	0	"1018,0,128,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6001G>A	p.Ala2001Thr	6001/21291	6001/21291	2001/7096	2001	7096		",A"	A2001T	G6266A	A2001T	ORF1AB:A2001T	2001	ORF1a	A2001T	ORF1A:A2001T	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	6286	.	C	T	6950	PASS	1156	0.240484	0	"877,0,278,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	6696	.	C	CT	2212	PASS	513	0.14425	0	"439,0,74,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	6701	.	C	T	109	PASS	529	0.030246	0	"513,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	6843	.	C	T	2078	PASS	727	0.125172	0	"636,0,91,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6578C>T	p.Ser2193Phe	6578/21291	6578/21291	2193/7096	2193	7096		",T"	S2193F	C6843T	S2193F	ORF1AB:S2193F	2193	ORF1a	S2193F	ORF1A:S2193F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	6961	.	G	GT	3540	PASS	720	0.169444	0	"600,0,122,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6701dupT	p.Leu2234fs	6702/21291	6702/21291	2234/7096	2234	7096		"INFO_REALIGN_3_PRIME,GT"	del2234	G6961GT	del2234	ORF1AB:DEL2234	2234	ORF1a	del2234	ORF1A:DEL2234	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	7428	.	C	T	109	PASS	337	0.029674	0	"326,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7163C>T	p.Ala2388Val	7163/21291	7163/21291	2388/7096	2388	7096		",T"	A2388V	C7428T	A2388V	ORF1AB:A2388V	2388	ORF1a	A2388V	ORF1A:A2388V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	7509	.	G	A	1649	PASS	316	0.208861	0	"250,0,66,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7244G>A	p.Arg2415His	7244/21291	7244/21291	2415/7096	2415	7096		",A"	R2415H	G7509A	R2415H	ORF1AB:R2415H	2415	ORF1a	R2415H	ORF1A:R2415H	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	7564	.	C	T	722	PASS	537	0.080074	0	"494,0,43,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7299C>T	p.Ser2433Ser	7299/21291	7299/21291	2433/7096	2433	7096		",T"	S2433S	C7564T	S2433S	ORF1AB:S2433S	2433	ORF1a	S2433S	ORF1A:S2433S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	8293	.	C	T	6479	PASS	971	0.257467	0	"719,0,250,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8028C>T	p.Thr2676Thr	8028/21291	8028/21291	2676/7096	2676	7096		",T"	T2676T	C8293T	T2676T	ORF1AB:T2676T	2676	ORF1a	T2676T	ORF1A:T2676T	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	8522	.	G	T	860	PASS	236	0.15678	0	"199,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8257G>T	p.Val2753Phe	8257/21291	8257/21291	2753/7096	2753	7096		",T"	V2753F	G8522T	V2753F	ORF1AB:V2753F	2753	ORF1a	V2753F	ORF1A:V2753F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	8747	.	G	T	455	PASS	305	0.07541	0	"282,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8482G>T	p.Ala2828Ser	8482/21291	8482/21291	2828/7096	2828	7096		",T"	A2828S	G8747T	A2828S	ORF1AB:A2828S	2828	ORF1a	A2828S	ORF1A:A2828S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	9142	.	C	T	1527	PASS	638	0.117555	0	"562,0,75,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8877C>T	p.Gly2959Gly	8877/21291	8877/21291	2959/7096	2959	7096		",T"	G2959G	C9142T	G2959G	ORF1AB:G2959G	2959	ORF1a	G2959G	ORF1A:G2959G	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	9246	.	C	T	1376	PASS	597	0.115578	0	"527,0,69,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8981C>T	p.Ala2994Val	8981/21291	8981/21291	2994/7096	2994	7096		",T"	A2994V	C9246T	A2994V	ORF1AB:A2994V	2994	ORF1a	A2994V	ORF1A:A2994V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	9526	.	G	T	39237	PASS	3519	0.403808	0	"2094,0,1421,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	9912	.	A	T	6092	PASS	3293	0.092924	0	"2986,0,306,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9647A>T	p.Tyr3216Phe	9647/21291	9647/21291	3216/7096	3216	7096		",T"	Y3216F	A9912T	Y3216F	ORF1AB:Y3216F	3216	ORF1a	Y3216F	ORF1A:Y3216F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	9996	.	C	T	4271	PASS	3385	0.07031	0	"3147,0,238,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9731C>T	p.Ser3244Leu	9731/21291	9731/21291	3244/7096	3244	7096		",T"	S3244L	C9996T	S3244L	ORF1AB:S3244L	3244	ORF1a	S3244L	ORF1A:S3244L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	10279	.	C	T	8528	PASS	2240	0.166518	0	"1865,0,373,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10014C>T	p.Leu3338Leu	10014/21291	10014/21291	3338/7096	3338	7096		",T"	L3338L	C10279T	L3338L	ORF1AB:L3338L	3338	ORF1a	L3338L	ORF1A:L3338L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	10301	.	C	A	8090	PASS	2302	0.152042	0	"1952,0,350,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10036C>A	p.Gln3346Lys	10036/21291	10036/21291	3346/7096	3346	7096		",A"	Q3346K	C10301A	Q3346K	ORF1AB:Q3346K	3346	ORF1a	Q3346K	ORF1A:Q3346K	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	10502	.	T	G	1188	PASS	2285	0.043764	0	"2182,0,100,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10237T>G	p.Phe3413Val	10237/21291	10237/21291	3413/7096	3413	7096		",G"	F3413V	T10502G	F3413V	ORF1AB:F3413V	3413	ORF1a	F3413V	ORF1A:F3413V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	10525	.	C	T	4413	PASS	2418	0.10091	0	"2172,0,244,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10260C>T	p.Val3420Val	10260/21291	10260/21291	3420/7096	3420	7096		",T"	V3420V	C10525T	V3420V	ORF1AB:V3420V	3420	ORF1a	V3420V	ORF1A:V3420V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	10582	.	C	T	4359	PASS	2265	0.098013	0	"2041,0,222,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10317C>T	p.Asp3439Asp	10317/21291	10317/21291	3439/7096	3439	7096		",T"	D3439D	C10582T	D3439D	ORF1AB:D3439D	3439	ORF1a	D3439D	ORF1A:D3439D	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	10688	.	G	T	388	PASS	1438	0.024339	0	"1403,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10423G>T	p.Val3475Phe	10423/21291	10423/21291	3475/7096	3475	7096		",T"	V3475F	G10688T	V3475F	ORF1AB:V3475F	3475	ORF1a	V3475F	ORF1A:V3475F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	10870	.	G	T	3976	PASS	1716	0.118881	0	"1510,0,204,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10605G>T	p.Leu3535Leu	10605/21291	10605/21291	3535/7096	3535	7096		",T"	L3535L	G10870T	L3535L	ORF1AB:L3535L	3535	ORF1a	L3535L	ORF1A:L3535L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	11074	.	C	CT	1224	PASS	1747	0.050372	0	"1655,0,88,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817dupT	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,CT"	del3606	C11074CT	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	11074	.	CT	C	95	PASS	1747	0.008014	0	"1733,0,14,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	11095	.	C	T	1130	PASS	1997	0.04657	0	"1903,0,93,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10830C>T	p.Ala3610Ala	10830/21291	10830/21291	3610/7096	3610	7096		",T"	A3610A	C11095T	A3610A	ORF1AB:A3610A	3610	ORF1a	A3610A	ORF1A:A3610A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	11251	.	T	G	530	PASS	1098	0.037341	0	"1055,0,41,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10986T>G	p.Arg3662Arg	10986/21291	10986/21291	3662/7096	3662	7096		",G"	R3662R	T11251G	R3662R	ORF1AB:R3662R	3662	ORF1a	R3662R	ORF1A:R3662R	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	11497	.	C	T	8661	PASS	1214	0.270181	0	"885,0,328,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	11654	.	T	C	1939	PASS	975	0.095385	0	"882,0,93,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11389T>C	p.Phe3797Leu	11389/21291	11389/21291	3797/7096	3797	7096		",C"	F3797L	T11654C	F3797L	ORF1AB:F3797L	3797	ORF1a	F3797L	ORF1A:F3797L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	11747	.	C	T	2090	PASS	437	0.194508	0	"352,0,85,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11482C>T	p.Leu3828Leu	11482/21291	11482/21291	3828/7096	3828	7096		",T"	L3828L	C11747T	L3828L	ORF1AB:L3828L	3828	ORF1a	L3828L	ORF1A:L3828L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	12827	.	TTA	T	10091	PASS	3041	0.121013	0	"2676,0,368,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12563_12564delTA	p.Leu4188fs	12563/21291	12563/21291	4188/7096	4188	7096		",T"	del4188	TTA12827T	del4188	ORF1AB:DEL4188	4188	ORF1a	del4188	ORF1A:DEL4188	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	13445	.	G	A	10154	PASS	3682	0.126562	0	"3213,0,466,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13180G>A	p.Ala4394Thr	13180/21291	13180/21291	4394/7096	4394	7096		",A"	A4394T	G13445A	A4394T	ORF1AB:A4394T	4394	ORF1a	A4394T	ORF1A:A4394T	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	13517	.	C	T	17525	PASS	2984	0.235925	0	"2276,0,704,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	13541	.	C	CT	7235	PASS	2369	0.10764	0	"2114,0,255,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13281dupT	p.Asp4428fs	13282/21291	13282/21291	4428/7096	4428	7096		"INFO_REALIGN_3_PRIME,CT"	del4428	C13541CT	del4428	ORF1AB:DEL4428	27	ORF1b	del27	ORF1B:DEL27	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	13620	.	C	T	3075	PASS	2322	0.072782	0	"2150,0,169,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13356C>T	p.Asp4452Asp	13356/21291	13356/21291	4452/7096	4452	7096		",T"	D4452D	C13620T	D4452D	ORF1AB:D4452D	51	ORF1b	D51D	ORF1B:D51D	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	13993	.	G	T	26099	PASS	2036	0.451866	0	"1116,0,920,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	14318	.	C	T	109	PASS	21	0.190476	0	"17,0,4,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14054C>T	p.Thr4685Ile	14054/21291	14054/21291	4685/7096	4685	7096		",T"	T4685I	C14318T	T4685I	ORF1AB:T4685I	284	ORF1b	T284I	ORF1B:T284I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	14408	.	C	T	646	PASS	18	1	2147483647	"0,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	15157	.	CA	C	12762	PASS	2840	0.158099	0	"2391,0,449,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14898delA	p.Lys4966fs	14898/21291	14898/21291	4966/7096	4966	7096		"INFO_REALIGN_3_PRIME,C"	del4966	CA15157C	del4966	ORF1AB:DEL4966	565	ORF1b	del565	ORF1B:DEL565	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	15766	.	G	T	7310	PASS	453	0.538631	0	"209,0,244,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	16197	.	G	GT	322	PASS	52	0.192308	0	"42,0,10,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15937dupT	p.Tyr5313fs	15938/21291	15938/21291	5313/7096	5313	7096		"INFO_REALIGN_3_PRIME,GT"	del5313	G16197GT	del5313	ORF1AB:DEL5313	912	ORF1b	del912	ORF1B:DEL912	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	16377	.	G	T	22072	PASS	2805	0.295544	0	"1972,0,829,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16113G>T	p.Pro5371Pro	16113/21291	16113/21291	5371/7096	5371	7096		",T"	P5371P	G16377T	P5371P	ORF1AB:P5371P	970	ORF1b	P970P	ORF1B:P970P	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	16401	.	T	C	105	PASS	2531	0.007507	0	"2512,0,19,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16137T>C	p.Cys5379Cys	16137/21291	16137/21291	5379/7096	5379	7096		",C"	C5379C	T16401C	C5379C	ORF1AB:C5379C	978	ORF1b	C978C	ORF1B:C978C	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	16581	.	A	G	175	PASS	4782	0.006274	0	"4745,0,30,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16317A>G	p.Thr5439Thr	16317/21291	16317/21291	5439/7096	5439	7096		",G"	T5439T	A16581G	T5439T	ORF1AB:T5439T	1038	ORF1b	T1038T	ORF1B:T1038T	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	16889	.	A	G	49314	PASS	3544	0.595937	0	"1431,0,2112,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	17019	.	G	T	31762	PASS	1868	0.557281	0	"827,0,1041,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	17059	.	CA	C	7353	PASS	1401	0.172734	0	"1160,0,242,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799delA	p.Lys5600fs	16799/21291	16799/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,C"	del5600	CA17059C	del5600	ORF1AB:DEL5600	1199	ORF1b	del1199	ORF1B:DEL1199	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	17093	.	C	T	121	PASS	408	0.022059	0	"399,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16829C>T	p.Thr5610Ile	16829/21291	16829/21291	5610/7096	5610	7096		",T"	T5610I	C17093T	T5610I	ORF1AB:T5610I	1209	ORF1b	T1209I	ORF1B:T1209I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	18483	.	C	T	5677	PASS	526	0.391635	0	"320,0,206,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18219C>T	p.His6073His	18219/21291	18219/21291	6073/7096	6073	7096		",T"	H6073H	C18483T	H6073H	ORF1AB:H6073H	1672	ORF1b	H1672H	ORF1B:H1672H	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	18782	.	G	T	258	PASS	2798	0.014296	0	"2758,0,40,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18518G>T	p.Gly6173Val	18518/21291	18518/21291	6173/7096	6173	7096		",T"	G6173V	G18782T	G6173V	ORF1AB:G6173V	1772	ORF1b	G1772V	ORF1B:G1772V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	18845	.	T	C	104	PASS	3121	0.005767	0	"3102,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18581T>C	p.Val6194Ala	18581/21291	18581/21291	6194/7096	6194	7096		",C"	V6194A	T18845C	V6194A	ORF1AB:V6194A	1793	ORF1b	V1793A	ORF1B:V1793A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	18877	.	C	T	22447	PASS	3270	0.260856	0	"2417,0,853,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	18915	.	G	T	12031	PASS	3910	0.139642	0	"3364,0,546,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18651G>T	p.Trp6217Cys	18651/21291	18651/21291	6217/7096	6217	7096		",T"	W6217C	G18915T	W6217C	ORF1AB:W6217C	1816	ORF1b	W1816C	ORF1B:W1816C	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	19634	.	T	C	6891	PASS	1764	0.171202	0	"1461,0,302,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19370T>C	p.Val6457Ala	19370/21291	19370/21291	6457/7096	6457	7096		",C"	V6457A	T19634C	V6457A	ORF1AB:V6457A	2056	ORF1b	V2056A	ORF1B:V2056A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	20445	.	T	TA	104	PASS	858	0.006993	0	"854,0,6,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20186dupA	p.Asn6729fs	20187/21291	20187/21291	6729/7096	6729	7096		"INFO_REALIGN_3_PRIME,TA"	del6729	T20445TA	del6729	ORF1AB:DEL6729	2328	ORF1b	del2328	ORF1B:DEL2328	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	21101	.	G	T	1768	PASS	1367	0.076811	0	"1262,0,105,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20837G>T	p.Gly6946Val	20837/21291	20837/21291	6946/7096	6946	7096		",T"	G6946V	G21101T	G6946V	ORF1AB:G6946V	2545	ORF1b	G2545V	ORF1B:G2545V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	21255	.	G	C	11872	PASS	1474	0.302578	0	"1028,0,446,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	21575	.	C	T	257	PASS	1071	0.021475	0	"1047,0,23,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	22009	.	CA	C	1409	PASS	147	0.29932	0	"103,0,44,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.451delA	p.Ser151fs	451/3822	451/3822	151/1273	151	1273		"INFO_REALIGN_3_PRIME,C"	del151	CA22009C	del151	S:DEL151	151	S	del151	S:DEL151	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	22227	.	C	T	1331	PASS	87	0.528736	0	"41,0,46,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	22889	.	T	G	327	PASS	230	0.091304	0	"208,0,21,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1327T>G	p.Ser443Ala	1327/3822	1327/3822	443/1273	443	1273		",G"	S443A	T22889G	S443A	S:S443A	443	S	S443A	S:S443A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	22964	.	A	AT	903	PASS	274	0.109489	0	"244,0,30,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1405dupT	p.Ser469fs	1406/3822	1406/3822	469/1273	469	1273		"INFO_REALIGN_3_PRIME,AT"	del469	A22964AT	del469	S:DEL469	469	S	del469	S:DEL469	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	22998	.	C	A	740	PASS	282	0.124113	0	"247,0,35,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1436C>A	p.Pro479His	1436/3822	1436/3822	479/1273	479	1273		",A"	P479H	C22998A	P479H	S:P479H	479	S	P479H	S:P479H	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	23086	.	C	T	558	PASS	301	0.096346	0	"271,0,29,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1524C>T	p.Tyr508Tyr	1524/3822	1524/3822	508/1273	508	1273		",T"	Y508Y	C23086T	Y508Y	S:Y508Y	508	S	Y508Y	S:Y508Y	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	23403	.	A	G	9752	PASS	283	1	2147483647	"0,0,283,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	23771	.	G	T	3039	PASS	261	0.40613	0	"155,0,106,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2209G>T	p.Asp737Tyr	2209/3822	2209/3822	737/1273	737	1273		",T"	D737Y	G23771T	D737Y	S:D737Y	737	S	D737Y	S:D737Y	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	23997	.	C	T	153	PASS	151	0.05298	0	"143,0,8,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2435C>T	p.Pro812Leu	2435/3822	2435/3822	812/1273	812	1273		",T"	P812L	C23997T	P812L	S:P812L	812	S	P812L	S:P812L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	24110	.	AT	A	528	PASS	135	0.140741	0	"116,0,19,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2551delT	p.Cys851fs	2551/3822	2551/3822	851/1273	851	1273		"INFO_REALIGN_3_PRIME,A"	del851	AT24110A	del851	S:DEL851	851	S	del851	S:DEL851	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	24536	.	CA	C	294	PASS	606	0.021452	0	"593,0,13,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2977delA	p.Ile993fs	2977/3822	2977/3822	993/1273	993	1273		"INFO_REALIGN_3_PRIME,C"	del993	CA24536C	del993	S:DEL993	993	S	del993	S:DEL993	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25079	.	A	G	77	PASS	2190	0.005479	0	"2177,0,12,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3517A>G	p.Asn1173Asp	3517/3822	3517/3822	1173/1273	1173	1273		",G"	N1173D	A25079G	N1173D	S:N1173D	1173	S	N1173D	S:N1173D	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25201	.	A	T	67	PASS	1951	0.009226	0	"1931,0,18,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3639A>T	p.Pro1213Pro	3639/3822	3639/3822	1213/1273	1213	1273		",T"	P1213P	A25201T	P1213P	S:P1213P	1213	S	P1213P	S:P1213P	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25208	.	A	T	76	PASS	2006	0.00997	0	"1985,0,20,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3646A>T	p.Ile1216Phe	3646/3822	3646/3822	1216/1273	1216	1273		",T"	I1216F	A25208T	I1216F	S:I1216F	1216	S	I1216F	S:I1216F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25216	.	A	T	221	PASS	2097	0.022413	0	"2041,0,47,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25225	.	A	C	207	PASS	2137	0.021993	0	"2082,0,47,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25234	.	G	T	122	PASS	2188	0.018282	0	"2147,0,40,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3672G>T	p.Leu1224Phe	3672/3822	3672/3822	1224/1273	1224	1273		",T"	L1224F	G25234T	L1224F	S:L1224F	1224	S	L1224F	S:L1224F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25240	.	C	A	308	PASS	2210	0.033032	0	"2137,0,73,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25244	.	G	T	169	PASS	2300	0.021304	0	"2249,0,49,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25247	.	A	T	177	PASS	2309	0.024253	0	"2250,0,56,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25252	.	G	C	116	PASS	2359	0.020348	0	"2267,0,48,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>C	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",C"	V1230V	G25252C	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25252	.	G	T	94	PASS	2359	0.018652	0	"2267,0,44,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>T	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",T"	V1230V	G25252T	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25254	.	C	A	413	PASS	2448	0.036765	0	"2358,0,90,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25259	.	A	T	217	PASS	2505	0.026747	0	"2436,0,67,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25269	.	G	T	90	PASS	2367	0.017744	0	"2323,0,42,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3707G>T	p.Cys1236Phe	3707/3822	3707/3822	1236/1273	1236	1273		",T"	C1236F	G25269T	C1236F	S:C1236F	1236	S	C1236F	S:C1236F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25273	.	G	C	212	PASS	2369	0.029548	0	"2291,0,70,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25274	.	A	C	85	PASS	2378	0.018503	0	"2333,0,44,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3712A>C	p.Thr1238Pro	3712/3822	3712/3822	1238/1273	1238	1273		",C"	T1238P	A25274C	T1238P	S:T1238P	1238	S	T1238P	S:T1238P	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25277	.	A	T	774	PASS	2355	0.061146	0	"2188,0,144,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25286	.	A	T	630	PASS	2443	0.05526	0	"2266,0,135,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25296	.	A	C	1691	PASS	2436	0.100575	0	"2098,0,245,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25296	.	A	T	230	PASS	2436	0.035714	0	"2098,0,87,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25312	.	T	G	186	PASS	2484	0.032206	0	"2404,0,80,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25314	.	G	T	202	PASS	2471	0.036423	0	"2356,0,90,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25316	.	T	C	101	PASS	2534	0.028019	0	"2412,0,71,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3754T>C	p.Ser1252Pro	3754/3822	3754/3822	1252/1273	1252	1273		",C"	S1252P	T25316C	S1252P	S:S1252P	1252	S	S1252P	S:S1252P	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25323	.	G	C	588	PASS	2466	0.064071	0	"2260,0,158,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25324	.	C	A	5479	PASS	2479	0.205325	0	"1969,0,509,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25327	.	A	T	576	PASS	2466	0.062855	0	"2311,0,155,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25331	.	G	T	393	PASS	2441	0.054076	0	"2290,0,132,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25334	.	G	C	742	PASS	2420	0.076033	0	"2163,0,184,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25334	.	G	T	69	PASS	2420	0.028926	0	"2163,0,70,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25336	.	A	C	2640	PASS	2454	0.149552	0	"2082,0,367,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25337	.	G	C	988	PASS	2373	0.08976	0	"2159,0,213,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25477	.	G	T	7903	PASS	2704	0.133136	0	"2340,0,360,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.85G>T	p.Val29Phe	85/828	85/828	29/275	29	275		",T"	V29F	G25477T	V29F	ORF3A:V29F	29	ORF3a	V29F	ORF3A:V29F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25563	.	G	T	15805	PASS	2007	0.296462	0	"1411,0,595,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25669	.	C	T	528	PASS	1553	0.028332	0	"1507,0,44,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.277C>T	p.His93Tyr	277/828	277/828	93/275	93	275		",T"	H93Y	C25669T	H93Y	ORF3A:H93Y	93	ORF3a	H93Y	ORF3A:H93Y	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25710	.	C	T	7253	PASS	1110	0.254955	0	"826,0,283,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25757	.	G	T	456	PASS	556	0.059353	0	"523,0,33,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.365G>T	p.Arg122Ile	365/828	365/828	122/275	122	275		",T"	R122I	G25757T	R122I	ORF3A:R122I	122	ORF3a	R122I	ORF3A:R122I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	25886	.	C	T	822	PASS	220	0.159091	0	"184,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	26167	.	G	C	3970	PASS	1925	0.105974	0	"1717,0,204,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.775G>C	p.Val259Leu	775/828	775/828	259/275	259	275		",C"	V259L	G26167C	V259L	ORF3A:V259L	259	ORF3a	V259L	ORF3A:V259L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	26257	.	G	GT	1490	PASS	2928	0.022199	0	"2913,0,65,0"	TRUE	GT	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.16dupT	p.Ser6fs	17/228	17/228	6/75	6	75		"INFO_REALIGN_3_PRIME,GT"	del6	G26257GT	del6	E:DEL6	6	E	del6	E:DEL6	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	26454	.	T	C	8817	PASS	5008	0.092851	0	"4538,0,465,0"	FALSE	C	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.210T>C	p.Val70Val	210/228	210/228	70/75	70	75		",C"	V70V	T26454C	V70V	E:V70V	70	E	V70V	E:V70V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	26528	.	A	G	993	PASS	4562	0.018632	0	"4471,0,85,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.6A>G	p.Ala2Ala	6/669	6/669	2/222	2	222		",G"	A2A	A26528G	A2A	M:A2A	2	M	A2A	M:A2A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	26735	.	C	T	8406	PASS	3325	0.117895	0	"2933,0,392,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	26801	.	C	G	48103	PASS	2784	0.558549	0	"1228,0,1555,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	26819	.	T	C	3435	PASS	2217	0.080289	0	"2039,0,178,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.297T>C	p.Ser99Ser	297/669	297/669	99/222	99	222		",C"	S99S	T26819C	S99S	M:S99S	99	M	S99S	M:S99S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	26876	.	T	C	5138	PASS	1293	0.170147	0	"1073,0,220,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27167	.	C	T	1064	PASS	290	0.158621	0	"244,0,46,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.645C>T	p.Asp215Asp	645/669	645/669	215/222	215	222		",T"	D215D	C27167T	D215D	M:D215D	215	M	D215D	M:D215D	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27197	.	A	T	605	PASS	289	0.100346	0	"260,0,29,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding		c.-5A>T						NA	5	",T"		A27197T		NA	NA	ORF6		NA	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27434	.	C	T	373	PASS	1993	0.018565	0	"1955,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27438	.	T	C	166	PASS	1957	0.011753	0	"1933,0,23,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.45T>C	p.Cys15Cys	45/366	45/366	15/121	15	121		",C"	C15C	T27438C	C15C	ORF7A:C15C	15	ORF7a	C15C	ORF7A:C15C	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27614	.	T	C	7429	PASS	2877	0.131387	0	"2495,0,378,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.221T>C	p.Val74Ala	221/366	221/366	74/121	74	121		",C"	V74A	T27614C	V74A	ORF7A:V74A	74	ORF7a	V74A	ORF7A:V74A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27632	.	G	T	20118	PASS	2889	0.263759	0	"2126,0,762,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.239G>T	p.Arg80Ile	239/366	239/366	80/121	80	121		",T"	R80I	G27632T	R80I	ORF7A:R80I	80	ORF7a	R80I	ORF7A:R80I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27706	.	GC	G	10790	PASS	2984	0.134718	0	"2595,0,402,0"	TRUE	G	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314delC	p.Ala105fs	314/366	314/366	105/121	105	121		",G"	del105	GC27706G	del105	ORF7A:DEL105	105	ORF7a	del105	ORF7A:DEL105	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27707	.	C	G	171	PASS	3025	0.010909	0	"2583,0,33,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>G	p.Ala105Gly	314/366	314/366	105/121	105	121		",G"	A105G	C27707G	A105G	ORF7A:A105G	105	ORF7a	A105G	ORF7A:A105G	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27800	.	C	A	4328	PASS	2391	0.098285	0	"2155,0,235,0"	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27804	.	C	T	15816	PASS	2326	0.261823	0	"1716,0,609,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.49C>T	p.Leu17Leu	49/132	49/132	17/43	17	43		",T"	L17L	C27804T	L17L	ORF7B:L17L	17	ORF7b	L17L	ORF7B:L17L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27877	.	G	T	362	PASS	2546	0.015711	0	"2504,0,40,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.122G>T	p.Cys41Phe	122/132	122/132	41/43	41	43		",T"	C41F	G27877T	C41F	ORF7B:C41F	41	ORF7b	C41F	ORF7B:C41F	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27944	.	C	T	28030	PASS	2278	0.423617	0	"1312,0,965,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	27982	.	CAT	C	960	PASS	1722	0.02381	0	"1681,0,41,0"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.92_93delAT	p.Tyr31fs	92/366	92/366	31/121	31	121		"INFO_REALIGN_3_PRIME,C"	del31	CAT27982C	del31	ORF8:DEL31	31	ORF8	del31	ORF8:DEL31	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28290	.	C	T	2041	PASS	1525	0.086557	0	"1390,0,132,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.17C>T	p.Pro6Leu	17/1260	17/1260	6/419	6	419		",T"	P6L	C28290T	P6L	N:P6L	6	N	P6L	N:P6L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28433	.	AC	A	306	PASS	2440	0.033607	0	"2364,0,82,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.162delC	p.Ala55fs	162/1260	162/1260	54/419	54	419		"INFO_REALIGN_3_PRIME,A"	del55	AC28433A	del55	N:DEL55	55	N	del55	N:DEL55	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28436	.	G	T	457	PASS	2503	0.04155	0	"2394,0,104,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.163G>T	p.Ala55Ser	163/1260	163/1260	55/419	55	419		",T"	A55S	G28436T	A55S	N:A55S	55	N	A55S	N:A55S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28634	.	C	CT	706	PASS	4297	0.008611	0	"4260,0,37,0"	TRUE	CT	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.363dupT	p.Pro122fs	364/1260	364/1260	122/419	122	419		"INFO_REALIGN_3_PRIME,CT"	del122	C28634CT	del122	N:DEL122	122	N	del122	N:DEL122	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28651	.	C	T	6716	PASS	4487	0.080009	0	"4126,0,359,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28774	.	GC	G	49	PASS	6665	0.00075	0	"6790,0,5,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.503delC	p.Pro168fs	503/1260	503/1260	168/419	168	419		"INFO_REALIGN_3_PRIME,G"	del168	GC28774G	del168	N:DEL168	168	N	del168	N:DEL168	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28830	.	C	A	10650	PASS	6588	0.08895	0	"5998,0,586,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.557C>A	p.Ser186Tyr	557/1260	557/1260	186/419	186	419		",A"	S186Y	C28830A	S186Y	N:S186Y	186	N	S186Y	N:S186Y	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28857	.	G	T	4237	PASS	6469	0.04251	0	"6194,0,275,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.584G>T	p.Arg195Ile	584/1260	584/1260	195/419	195	419		",T"	R195I	G28857T	R195I	N:R195I	195	N	R195I	N:R195I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28869	.	C	T	8779	PASS	6450	0.077209	0	"5945,0,498,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28932	.	C	T	49314	PASS	6437	0.596396	0	"2590,0,3839,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28975	.	G	C	25985	PASS	5998	0.184562	0	"4889,0,1107,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	28987	.	CCAA	C	312	PASS	5427	0.003685	0	"5439,0,20,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	29051	.	C	CA	25440	PASS	4647	0.18442	0	"3788,0,857,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET30	NC_045512.2	29057	.	C	A	156	PASS	4593	0.009362	0	"4550,0,43,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.784C>A	p.Arg262Ser	784/1260	784/1260	262/419	262	419		",A"	R262S	C29057A	R262S	N:R262S	262	N	R262S	N:R262S	PET30	PETANGE	2020-10-20T00:00:00Z	30.448	33.61	x	14122020	2020-10-20
PET35-2	NC_045512.2	204	.	G	T	3336	PASS	2041	0.101911	0	"1830,0,208,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	219	.	G	T	3110	PASS	2115	0.096927	0	"1908,0,205,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-47G>T						NA	47	",T"		G219T		NA	NA	NA		NA	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	239	.	TTC	T	6343	PASS	2341	0.103802	0	"2109,0,243,0"	TRUE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-26_-25delTC						NA	26	",T"	del	TTC239T	del	ORF1AB:DEL	NA	NA	del	NA:DEL	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	241	.	C	T	49314	PASS	2319	0.892626	0	"2,0,2070,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	335	.	C	T	4828	PASS	2378	0.116064	0	"2096,0,276,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	445	.	T	C	8531	PASS	2679	0.199328	0	"2121,0,534,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	487	.	G	T	12373	PASS	2748	0.21179	0	"2162,0,582,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.222G>T	p.Ser74Ser	222/21291	222/21291	74/7096	74	7096		",T"	S74S	G487T	S74S	ORF1AB:S74S	74	ORF1a	S74S	ORF1A:S74S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	539	.	C	T	10799	PASS	2468	0.210697	0	"1940,0,520,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.274C>T	p.Leu92Phe	274/21291	274/21291	92/7096	92	7096		",T"	L92F	C539T	L92F	ORF1AB:L92F	92	ORF1a	L92F	ORF1A:L92F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	571	.	G	A	4243	PASS	2390	0.100837	0	"2146,0,241,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	593	.	C	T	5789	PASS	2134	0.142924	0	"1824,0,305,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	823	.	C	T	3868	PASS	1690	0.127219	0	"1470,0,215,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	869	.	A	G	672	PASS	1360	0.048529	0	"1291,0,66,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.604A>G	p.Lys202Glu	604/21291	604/21291	202/7096	202	7096		",G"	K202E	A869G	K202E	ORF1AB:K202E	202	ORF1a	K202E	ORF1A:K202E	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	913	.	C	T	6621	PASS	1133	0.263901	0	"827,0,299,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	1087	.	A	T	4049	PASS	1473	0.149355	0	"1253,0,220,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.822A>T	p.Val274Val	822/21291	822/21291	274/7096	274	7096		",T"	V274V	A1087T	V274V	ORF1AB:V274V	274	ORF1a	V274V	ORF1A:V274V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	1268	.	G	A	1155	PASS	1523	0.05975	0	"1431,0,91,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1003G>A	p.Asp335Asn	1003/21291	1003/21291	335/7096	335	7096		",A"	D335N	G1268A	D335N	ORF1AB:D335N	335	ORF1a	D335N	ORF1A:D335N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	1350	.	A	G	139	PASS	1795	0.018942	0	"1759,0,34,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1085A>G	p.Gln362Arg	1085/21291	1085/21291	362/7096	362	7096		",G"	Q362R	A1350G	Q362R	ORF1AB:Q362R	362	ORF1a	Q362R	ORF1A:Q362R	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	1375	.	T	C	1006	PASS	1510	0.056291	0	"1425,0,85,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1110T>C	p.Cys370Cys	1110/21291	1110/21291	370/7096	370	7096		",C"	C370C	T1375C	C370C	ORF1AB:C370C	370	ORF1a	C370C	ORF1A:C370C	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	1453	.	T	C	2046	PASS	1477	0.099526	0	"1327,0,147,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1188T>C	p.Ile396Ile	1188/21291	1188/21291	396/7096	396	7096		",C"	I396I	T1453C	I396I	ORF1AB:I396I	396	ORF1a	I396I	ORF1A:I396I	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	1762	.	CA	C	6506	PASS	1861	0.121977	0	"1634,0,227,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1500delA	p.Lys500fs	1500/21291	1500/21291	500/7096	500	7096		"INFO_REALIGN_3_PRIME,C"	del500	CA1762C	del500	ORF1AB:DEL500	500	ORF1a	del500	ORF1A:DEL500	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	2416	.	C	T	690	PASS	351	0.105413	0	"314,0,37,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	2634	.	T	C	324	PASS	1242	0.031401	0	"1199,0,39,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2369T>C	p.Leu790Ser	2369/21291	2369/21291	790/7096	790	7096		",C"	L790S	T2634C	L790S	ORF1AB:L790S	790	ORF1a	L790S	ORF1A:L790S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	2695	.	C	T	5399	PASS	1488	0.174731	0	"1227,0,260,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2430C>T	p.Asn810Asn	2430/21291	2430/21291	810/7096	810	7096		",T"	N810N	C2695T	N810N	ORF1AB:N810N	810	ORF1a	N810N	ORF1A:N810N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	3037	.	C	T	39377	PASS	1148	0.997387	2147483647	"0,0,1145,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	3545	.	AATG	A	165	PASS	12	0.416667	0	"8,0,5,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3281_3283delATG	p.Asn1094_Gly1095delinsArg	3281/21291	3281/21291	1094/7096	1094	7096		",A"	indel	AATG3545A	NA	NA	NA	ORF1a	NA	NA	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	3602	.	C	T	459	PASS	36	0.472222	0	"19,0,17,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	3813	.	A	C	175	PASS	87	0.137931	0	"75,0,12,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3548A>C	p.Tyr1183Ser	3548/21291	3548/21291	1183/7096	1183	7096		",C"	Y1183S	A3813C	Y1183S	ORF1AB:Y1183S	1183	ORF1a	Y1183S	ORF1A:Y1183S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	3814	.	TG	T	287	PASS	86	0.139535	0	"74,0,12,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3550delG	p.Asp1184fs	3550/21291	3550/21291	1184/7096	1184	7096		",T"	del1184	TG3814T	del1184	ORF1AB:DEL1184	1184	ORF1a	del1184	ORF1A:DEL1184	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	4040	.	A	G	176	PASS	97	0.103093	0	"87,0,10,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	4088	.	G	T	118	PASS	85	0.094118	0	"77,0,8,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3823G>T	p.Asp1275Tyr	3823/21291	3823/21291	1275/7096	1275	7096		",T"	D1275Y	G4088T	D1275Y	ORF1AB:D1275Y	1275	ORF1a	D1275Y	ORF1A:D1275Y	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	4158	.	C	T	205	PASS	128	0.09375	0	"116,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3893C>T	p.Ala1298Val	3893/21291	3893/21291	1298/7096	1298	7096		",T"	A1298V	C4158T	A1298V	ORF1AB:A1298V	1298	ORF1a	A1298V	ORF1A:A1298V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	4212	.	CT	C	208	PASS	178	0.044944	0	"170,0,8,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3950delT	p.Leu1317fs	3950/21291	3950/21291	1317/7096	1317	7096		"INFO_REALIGN_3_PRIME,C"	del1317	CT4212C	del1317	ORF1AB:DEL1317	1317	ORF1a	del1317	ORF1A:DEL1317	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	4543	.	C	T	1741	PASS	214	0.331776	0	"143,0,71,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	4579	.	T	A	402	PASS	236	0.118644	0	"207,0,28,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4314T>A	p.Leu1438Leu	4314/21291	4314/21291	1438/7096	1438	7096		",A"	L1438L	T4579A	L1438L	ORF1AB:L1438L	1438	ORF1a	L1438L	ORF1A:L1438L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	5104	.	T	A	2740	PASS	1540	0.101948	0	"1382,0,157,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4839T>A	p.His1613Gln	4839/21291	4839/21291	1613/7096	1613	7096		",A"	H1613Q	T5104A	H1613Q	ORF1AB:H1613Q	1613	ORF1a	H1613Q	ORF1A:H1613Q	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	5629	.	G	T	816	PASS	151	0.238411	0	"115,0,36,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	5861	.	G	GT	303	PASS	74	0.135135	0	"70,0,10,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5600dupT	p.Tyr1868fs	5601/21291	5601/21291	1867/7096	1867	7096		"INFO_REALIGN_3_PRIME,GT"	del1868	G5861GT	del1868	ORF1AB:DEL1868	1868	ORF1a	del1868	ORF1A:DEL1868	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	5884	.	C	T	574	PASS	196	0.137755	0	"169,0,27,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	5961	.	A	T	172	PASS	381	0.049869	0	"362,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5696A>T	p.Tyr1899Phe	5696/21291	5696/21291	1899/7096	1899	7096		",T"	Y1899F	A5961T	Y1899F	ORF1AB:Y1899F	1899	ORF1a	Y1899F	ORF1A:Y1899F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	6031	.	C	T	261	PASS	428	0.051402	0	"406,0,22,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5766C>T	p.Asn1922Asn	5766/21291	5766/21291	1922/7096	1922	7096		",T"	N1922N	C6031T	N1922N	ORF1AB:N1922N	1922	ORF1a	N1922N	ORF1A:N1922N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	6139	.	A	T	281	PASS	407	0.058968	0	"383,0,24,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5874A>T	p.Thr1958Thr	5874/21291	5874/21291	1958/7096	1958	7096		",T"	T1958T	A6139T	T1958T	ORF1AB:T1958T	1958	ORF1a	T1958T	ORF1A:T1958T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	6286	.	C	T	1468	PASS	586	0.153584	0	"496,0,90,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	6663	.	TC	T	338	PASS	286	0.048951	0	"277,0,14,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6401delC	p.Pro2134fs	6401/21291	6401/21291	2134/7096	2134	7096		"INFO_REALIGN_3_PRIME,T"	del2134	TC6663T	del2134	ORF1AB:DEL2134	2134	ORF1a	del2134	ORF1A:DEL2134	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	6696	.	C	CT	93	PASS	181	0.022099	0	"177,0,4,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	6861	.	CA	C	811	PASS	196	0.147959	0	"167,0,29,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6599delA	p.Lys2200fs	6599/21291	6599/21291	2200/7096	2200	7096		"INFO_REALIGN_3_PRIME,C"	del2200	CA6861C	del2200	ORF1AB:DEL2200	2200	ORF1a	del2200	ORF1A:DEL2200	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	6941	.	C	T	488	PASS	188	0.138298	0	"162,0,26,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	7390	.	C	T	146	PASS	269	0.066914	0	"250,0,18,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7125C>T	p.Ala2375Ala	7125/21291	7125/21291	2375/7096	2375	7096		",T"	A2375A	C7390T	A2375A	ORF1AB:A2375A	2375	ORF1a	A2375A	ORF1A:A2375A	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	7432	.	AT	A	687	PASS	312	0.086538	0	"285,0,27,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7171delT	p.Tyr2391fs	7171/21291	7171/21291	2391/7096	2391	7096		"INFO_REALIGN_3_PRIME,A"	del2391	AT7432A	del2391	ORF1AB:DEL2391	2391	ORF1a	del2391	ORF1A:DEL2391	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	7730	.	T	C	782	PASS	676	0.076923	0	"622,0,52,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7465T>C	p.Tyr2489His	7465/21291	7465/21291	2489/7096	2489	7096		",C"	Y2489H	T7730C	Y2489H	ORF1AB:Y2489H	2489	ORF1a	Y2489H	ORF1A:Y2489H	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	7834	.	C	T	621	PASS	690	0.073913	0	"637,0,51,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7569C>T	p.Asn2523Asn	7569/21291	7569/21291	2523/7096	2523	7096		",T"	N2523N	C7834T	N2523N	ORF1AB:N2523N	2523	ORF1a	N2523N	ORF1A:N2523N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	7874	.	C	T	1474	PASS	868	0.124424	0	"754,0,108,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7609C>T	p.Pro2537Ser	7609/21291	7609/21291	2537/7096	2537	7096		",T"	P2537S	C7874T	P2537S	ORF1AB:P2537S	2537	ORF1a	P2537S	ORF1A:P2537S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	8376	.	CA	C	304	PASS	329	0.039514	0	"316,0,13,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	8606	.	C	CT	451	PASS	220	0.077273	0	"203,0,17,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8346dupT	p.Val2783fs	8347/21291	8347/21291	2783/7096	2783	7096		"INFO_REALIGN_3_PRIME,CT"	del2783	C8606CT	del2783	ORF1AB:DEL2783	2783	ORF1a	del2783	ORF1A:DEL2783	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	8618	.	G	A	594	PASS	209	0.157895	0	"175,0,33,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	8704	.	T	C	191	PASS	178	0.089888	0	"161,0,16,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8439T>C	p.Asp2813Asp	8439/21291	8439/21291	2813/7096	2813	7096		",C"	D2813D	T8704C	D2813D	ORF1AB:D2813D	2813	ORF1a	D2813D	ORF1A:D2813D	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	8983	.	T	G	2002	PASS	572	0.181818	0	"467,0,104,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	9526	.	G	T	15128	PASS	1317	0.441154	0	"730,0,581,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	9543	.	G	GT	3023	PASS	1317	0.092635	0	"1195,0,122,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9281dupT	p.Leu3094fs	9282/21291	9282/21291	3094/7096	3094	7096		"INFO_REALIGN_3_PRIME,GT"	del3094	G9543GT	del3094	ORF1AB:DEL3094	3094	ORF1a	del3094	ORF1A:DEL3094	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	9925	.	A	G	335	PASS	1452	0.030303	0	"1399,0,44,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9660A>G	p.Ala3220Ala	9660/21291	9660/21291	3220/7096	3220	7096		",G"	A3220A	A9925G	A3220A	ORF1AB:A3220A	3220	ORF1a	A3220A	ORF1A:A3220A	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	10098	.	G	T	94	PASS	1523	0.014445	0	"1498,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9833G>T	p.Gly3278Val	9833/21291	9833/21291	3278/7096	3278	7096		",T"	G3278V	G10098T	G3278V	ORF1AB:G3278V	3278	ORF1a	G3278V	ORF1A:G3278V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	10252	.	C	T	2344	PASS	2009	0.089597	0	"1820,0,180,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9987C>T	p.Phe3329Phe	9987/21291	9987/21291	3329/7096	3329	7096		",T"	F3329F	C10252T	F3329F	ORF1AB:F3329F	3329	ORF1a	F3329F	ORF1A:F3329F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	10456	.	C	T	2629	PASS	1583	0.103601	0	"1412,0,164,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10191C>T	p.Phe3397Phe	10191/21291	10191/21291	3397/7096	3397	7096		",T"	F3397F	C10456T	F3397F	ORF1AB:F3397F	3397	ORF1a	F3397F	ORF1A:F3397F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	10720	.	A	T	576	PASS	222	0.153153	0	"188,0,34,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10455A>T	p.Arg3485Arg	10455/21291	10455/21291	3485/7096	3485	7096		",T"	R3485R	A10720T	R3485R	ORF1AB:R3485R	3485	ORF1a	R3485R	ORF1A:R3485R	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	11287	.	GTCTGGTTTT	G	6682	PASS	978	0.250511	0	"742,0,245,0"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	11456	.	A	T	1403	PASS	1105	0.093213	0	"1002,0,103,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11191A>T	p.Ile3731Phe	11191/21291	11191/21291	3731/7096	3731	7096		",T"	I3731F	A11456T	I3731F	ORF1AB:I3731F	3731	ORF1a	I3731F	ORF1A:I3731F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	11497	.	C	T	6523	PASS	978	0.290389	0	"691,0,284,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	11557	.	G	T	2101	PASS	842	0.144893	0	"718,0,122,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11292G>T	p.Glu3764Asp	11292/21291	11292/21291	3764/7096	3764	7096		",T"	E3764D	G11557T	E3764D	ORF1AB:E3764D	3764	ORF1a	E3764D	ORF1A:E3764D	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	11653	.	C	T	442	PASS	680	0.055882	0	"640,0,38,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11388C>T	p.Leu3796Leu	11388/21291	11388/21291	3796/7096	3796	7096		",T"	L3796L	C11653T	L3796L	ORF1AB:L3796L	3796	ORF1a	L3796L	ORF1A:L3796L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	11779	.	CA	C	189	PASS	156	0.044872	0	"149,0,7,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11517delA	p.Lys3839fs	11517/21291	11517/21291	3839/7096	3839	7096		"INFO_REALIGN_3_PRIME,C"	del3839	CA11779C	del3839	ORF1AB:DEL3839	3839	ORF1a	del3839	ORF1A:DEL3839	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	12134	.	T	C	197	PASS	72	0.25	0	"52,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11869T>C	p.Phe3957Leu	11869/21291	11869/21291	3957/7096	3957	7096		",C"	F3957L	T12134C	F3957L	ORF1AB:F3957L	3957	ORF1a	F3957L	ORF1A:F3957L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	12436	.	T	C	1282	PASS	707	0.121641	0	"619,0,86,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	12988	.	G	T	5552	PASS	2017	0.153694	0	"1703,0,310,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	13132	.	A	G	5958	PASS	2701	0.168456	0	"2227,0,455,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12867A>G	p.Gln4289Gln	12867/21291	12867/21291	4289/7096	4289	7096		",G"	Q4289Q	A13132G	Q4289Q	ORF1AB:Q4289Q	4289	ORF1a	Q4289Q	ORF1A:Q4289Q	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	13360	.	TA	T	7236	PASS	2217	0.120433	0	"1950,0,267,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13100delA	p.Asn4367fs	13100/21291	13100/21291	4367/7096	4367	7096		"INFO_REALIGN_3_PRIME,T"	del4367	TA13360T	del4367	ORF1AB:DEL4367	4367	ORF1a	del4367	ORF1A:DEL4367	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	13517	.	C	T	1404	PASS	1621	0.066009	0	"1511,0,107,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	13993	.	G	T	12724	PASS	987	0.472138	0	"520,0,466,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	14000	.	TA	T	2531	PASS	925	0.103784	0	"829,0,96,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13741delA	p.Thr4581fs	13741/21291	13741/21291	4581/7096	4581	7096		"INFO_REALIGN_3_PRIME,T"	del4581	TA14000T	del4581	ORF1AB:DEL4581	180	ORF1b	del180	ORF1B:DEL180	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	14408	.	C	T	420	PASS	12	1	2147483647	"0,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	14676	.	C	T	1269	PASS	765	0.115033	0	"673,0,88,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	15279	.	C	T	891	PASS	734	0.091281	0	"666,0,67,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	15324	.	C	T	1207	PASS	603	0.117745	0	"531,0,71,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	15706	.	A	G	736	PASS	501	0.097804	0	"452,0,49,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15442A>G	p.Met5148Val	15442/21291	15442/21291	5148/7096	5148	7096		",G"	M5148V	A15706G	M5148V	ORF1AB:M5148V	747	ORF1b	M747V	ORF1B:M747V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	15766	.	G	T	6943	PASS	476	0.527311	0	"225,0,251,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	15858	.	TA	T	88	PASS	326	0.01227	0	"322,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15597delA	p.Gly5200fs	15597/21291	15597/21291	5199/7096	5199	7096		"INFO_REALIGN_3_PRIME,T"	del5200	TA15858T	del5200	ORF1AB:DEL5200	799	ORF1b	del799	ORF1B:DEL799	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	16250	.	G	T	443	PASS	576	0.060764	0	"541,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15986G>T	p.Cys5329Phe	15986/21291	15986/21291	5329/7096	5329	7096		",T"	C5329F	G16250T	C5329F	ORF1AB:C5329F	928	ORF1b	C928F	ORF1B:C928F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	16379	.	A	G	1463	PASS	2166	0.057248	0	"2039,0,124,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16115A>G	p.Tyr5372Cys	16115/21291	16115/21291	5372/7096	5372	7096		",G"	Y5372C	A16379G	Y5372C	ORF1AB:Y5372C	971	ORF1b	Y971C	ORF1B:Y971C	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	16501	.	G	GT	2924	PASS	2702	0.045892	0	"2594,0,124,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16242dupT	p.Gly5415fs	16243/21291	16243/21291	5415/7096	5415	7096		"INFO_REALIGN_3_PRIME,GT"	del5415	G16501GT	del5415	ORF1AB:DEL5415	1014	ORF1b	del1014	ORF1B:DEL1014	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	16515	.	TA	T	3637	PASS	2865	0.055846	0	"2715,0,160,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16256delA	p.Asn5419fs	16256/21291	16256/21291	5419/7096	5419	7096		"INFO_REALIGN_3_PRIME,T"	del5419	TA16515T	del5419	ORF1AB:DEL5419	1018	ORF1b	del1018	ORF1B:DEL1018	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	16564	.	G	T	1967	PASS	3700	0.048919	0	"3517,0,181,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16300G>T	p.Ala5434Ser	16300/21291	16300/21291	5434/7096	5434	7096		",T"	A5434S	G16564T	A5434S	ORF1AB:A5434S	1033	ORF1b	A1033S	ORF1B:A1033S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	16770	.	A	G	2366	PASS	3429	0.055701	0	"3231,0,191,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16506A>G	p.Arg5502Arg	16506/21291	16506/21291	5502/7096	5502	7096		",G"	R5502R	A16770G	R5502R	ORF1AB:R5502R	1101	ORF1b	R1101R	ORF1B:R1101R	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	16889	.	A	G	33732	PASS	2864	0.42912	0	"1627,0,1229,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	17018	.	A	T	859	PASS	1403	0.04918	0	"1332,0,69,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16754A>T	p.Glu5585Val	16754/21291	16754/21291	5585/7096	5585	7096		",T"	E5585V	A17018T	E5585V	ORF1AB:E5585V	1184	ORF1b	E1184V	ORF1B:E1184V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	17019	.	G	T	15389	PASS	1402	0.413695	0	"821,0,580,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	17615	.	A	G	1439	PASS	1491	0.0778	0	"1368,0,116,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	17813	.	T	C	87	PASS	2725	0.009908	0	"2683,0,27,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17549T>C	p.Leu5850Ser	17549/21291	17549/21291	5850/7096	5850	7096		",C"	L5850S	T17813C	L5850S	ORF1AB:L5850S	1449	ORF1b	L1449S	ORF1B:L1449S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	18615	.	G	T	84	PASS	162	0.04321	0	"155,0,7,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18351G>T	p.Leu6117Phe	18351/21291	18351/21291	6117/7096	6117	7096		",T"	L6117F	G18615T	L6117F	ORF1AB:L6117F	1716	ORF1b	L1716F	ORF1B:L1716F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	18636	.	GA	G	993	PASS	347	0.103746	0	"312,0,36,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18376delA	p.Ile6126fs	18376/21291	18376/21291	6126/7096	6126	7096		"INFO_REALIGN_3_PRIME,G"	del6126	GA18636G	del6126	ORF1AB:DEL6126	1725	ORF1b	del1725	ORF1B:DEL1725	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	18682	.	A	T	1128	PASS	1022	0.096869	0	"921,0,99,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18418A>T	p.Thr6140Ser	18418/21291	18418/21291	6140/7096	6140	7096		",T"	T6140S	A18682T	T6140S	ORF1AB:T6140S	1739	ORF1b	T1739S	ORF1B:T1739S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	18756	.	G	GT	3169	PASS	1943	0.062275	0	"1829,0,121,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18495dupT	p.Met6166fs	18496/21291	18496/21291	6166/7096	6166	7096		"INFO_REALIGN_3_PRIME,GT"	del6166	G18756GT	del6166	ORF1AB:DEL6166	1765	ORF1b	del1765	ORF1B:DEL1765	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	18877	.	C	T	20552	PASS	2246	0.358415	0	"1435,0,805,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	19718	.	CA	C	3451	PASS	932	0.13412	0	"807,0,125,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19458delA	p.Val6487fs	19458/21291	19458/21291	6486/7096	6486	7096		"INFO_REALIGN_3_PRIME,C"	del6487	CA19718C	del6487	ORF1AB:DEL6487	2086	ORF1b	del2086	ORF1B:DEL2086	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	21058	.	C	T	368	PASS	1507	0.033842	0	"1443,0,51,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20794C>T	p.Pro6932Ser	20794/21291	20794/21291	6932/7096	6932	7096		",T"	P6932S	C21058T	P6932S	ORF1AB:P6932S	2531	ORF1b	P2531S	ORF1B:P2531S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	21255	.	G	C	9604	PASS	1444	0.280471	0	"1033,0,405,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	21855	.	C	T	4220	PASS	444	0.358108	0	"284,0,159,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	22227	.	C	T	1476	PASS	190	0.363158	0	"120,0,69,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	22992	.	G	A	553	PASS	65	0.369231	0	"41,0,24,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23144	.	A	T	73	PASS	70	0.071429	0	"64,0,5,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1582A>T	p.Lys528*	1582/3822	1582/3822	528/1273	528	1273		",T"	K528*	A23144T	K528*	S:K528*	528	S	K528*	S:K528*	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23403	.	A	G	11087	PASS	335	0.991045	2147483647	"0,0,332,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23554	.	ACCCATTGGTGCAGGTATATGCGCTAGTT	A	742	PASS	359	0.072423	0	"348,0,26,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1993_2020delCCCATTGGTGCAGGTATATGCGCTAGTT	p.Pro665fs	1993/3822	1993/3822	665/1273	665	1273		",A"	del665	ACCCATTGGTGCAGGTATATGCGCTAGTT23554A	del665	S:DEL665	665	S	del665	S:DEL665	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23560	.	TG	T	1078	PASS	357	0.109244	0	"321,0,39,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2000delG	p.Gly667fs	2000/3822	2000/3822	667/1273	667	1273		"INFO_REALIGN_3_PRIME,T"	del667	TG23560T	del667	S:DEL667	667	S	del667	S:DEL667	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23570	.	A	G	1956	PASS	364	0.236264	0	"251,0,86,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2008A>G	p.Ile670Val	2008/3822	2008/3822	670/1273	670	1273		",G"	I670V	A23570G	I670V	S:I670V	670	S	I670V	S:I670V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23604	.	C	A	477	PASS	316	0.098101	0	"285,0,31,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23655	.	C	T	591	PASS	381	0.107612	0	"340,0,41,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2093C>T	p.Ser698Leu	2093/3822	2093/3822	698/1273	698	1273		",T"	S698L	C23655T	S698L	S:S698L	698	S	S698L	S:S698L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23710	.	A	T	478	PASS	352	0.096591	0	"317,0,34,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2148A>T	p.Thr716Thr	2148/3822	2148/3822	716/1273	716	1273		",T"	T716T	A23710T	T716T	S:T716T	716	S	T716T	S:T716T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23903	.	G	GT	867	PASS	288	0.114583	0	"269,0,33,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2346dupT	p.Ala783fs	2347/3822	2347/3822	783/1273	783	1273		"INFO_REALIGN_3_PRIME,GT"	del783	G23903GT	del783	S:DEL783	783	S	del783	S:DEL783	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23948	.	G	T	291	PASS	218	0.09633	0	"197,0,21,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23958	.	G	GT	88	PASS	190	0.021053	0	"191,0,4,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	23958	.	G	T	223	PASS	195	0.076923	0	"180,0,15,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2396G>T	p.Gly799Val	2396/3822	2396/3822	799/1273	799	1273		",T"	G799V	G23958T	G799V	S:G799V	799	S	G799V	S:G799V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	24302	.	A	G	239	PASS	30	0.333333	0	"20,0,10,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2740A>G	p.Asn914Asp	2740/3822	2740/3822	914/1273	914	1273		",G"	N914D	A24302G	N914D	S:N914D	914	S	N914D	S:N914D	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	24504	.	T	C	836	PASS	601	0.09817	0	"541,0,59,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2942T>C	p.Leu981Pro	2942/3822	2942/3822	981/1273	981	1273		",C"	L981P	T24504C	L981P	S:L981P	981	S	L981P	S:L981P	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	24816	.	GA	G	2051	PASS	1105	0.072398	0	"1025,0,80,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3258delA	p.Ala1087fs	3258/3822	3258/3822	1086/1273	1086	1273		"INFO_REALIGN_3_PRIME,G"	del1087	GA24816G	del1087	S:DEL1087	1087	S	del1087	S:DEL1087	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25047	.	C	G	1310	PASS	1185	0.0827	0	"1084,0,98,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3485C>G	p.Pro1162Arg	3485/3822	3485/3822	1162/1273	1162	1273		",G"	P1162R	C25047G	P1162R	S:P1162R	1162	S	P1162R	S:P1162R	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25249	.	G	T	2515	PASS	603	0.20398	0	"480,0,123,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3687G>T	p.Met1229Ile	3687/3822	3687/3822	1229/1273	1229	1273		",T"	M1229I	G25249T	M1229I	S:M1229I	1229	S	M1229I	S:M1229I	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25296	.	A	C	95	PASS	628	0.042994	0	"582,0,27,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25301	.	T	G	84	PASS	620	0.03871	0	"595,0,24,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25324	.	C	A	168	PASS	627	0.052632	0	"594,0,33,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25334	.	G	T	74	PASS	601	0.043261	0	"557,0,26,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25336	.	A	C	181	PASS	601	0.06822	0	"554,0,41,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25563	.	G	T	9004	PASS	563	0.559503	0	"248,0,315,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25709	.	T	C	231	PASS	435	0.050575	0	"412,0,22,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.317T>C	p.Leu106Pro	317/828	317/828	106/275	106	275		",C"	L106P	T25709C	L106P	ORF3A:L106P	106	ORF3a	L106P	ORF3A:L106P	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25710	.	C	T	6082	PASS	436	0.509174	0	"213,0,222,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25906	.	G	C	242	PASS	315	0.063492	0	"293,0,20,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	25996	.	G	T	368	PASS	363	0.077135	0	"334,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	26038	.	T	C	527	PASS	322	0.090062	0	"292,0,29,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	26431	.	A	T	2320	PASS	1934	0.095657	0	"1746,0,185,0"	FALSE	T	stop_gained	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.187A>T	p.Lys63*	187/228	187/228	63/75	63	75		",T"	K63*	A26431T	K63*	E:K63*	63	E	K63*	E:K63*	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	26472	.	A	G	3554	PASS	2165	0.117321	0	"1902,0,254,0"	FALSE	G	splice_region_variant&stop_retained_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.228A>G	p.Ter76Ter	228/228	228/228	76/75	76	75		",G"	Ter76Ter	A26472G	Ter76Ter	E:TER76TER	76	E	Ter76Ter	E:TER76TER	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	26735	.	C	T	8693	PASS	1470	0.257143	0	"1092,0,378,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	26801	.	C	G	27866	PASS	1358	0.661267	0	"459,0,898,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	26846	.	C	A	722	PASS	909	0.066007	0	"848,0,60,0"	FALSE	A	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.324C>A	p.Ser108Ser	324/669	324/669	108/222	108	222		",A"	S108S	C26846A	S108S	M:S108S	108	M	S108S	M:S108S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	26876	.	T	C	4420	PASS	715	0.264336	0	"526,0,189,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	27253	.	AT	A	55	PASS	625	0.0048	0	"622,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.54delT	p.Met19fs	54/186	54/186	18/61	18	61		"INFO_REALIGN_3_PRIME,A"	del19	AT27253A	del19	ORF6:DEL19	19	ORF6	del19	ORF6:DEL19	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	27384	.	T	C	1373	PASS	1226	0.088091	0	"1114,0,108,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.183T>C	p.Asp61Asp	183/186	183/186	61/61	61	61		",C"	D61D	T27384C	D61D	ORF6:D61D	61	ORF6	D61D	ORF6:D61D	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	27407	.	T	C	1376	PASS	1095	0.084018	0	"998,0,92,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.14T>C	p.Leu5Pro	14/366	14/366	5/121	5	121		",C"	L5P	T27407C	L5P	ORF7A:L5P	5	ORF7a	L5P	ORF7A:L5P	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	27637	.	G	GT	3419	PASS	1811	0.070679	0	"1683,0,128,0"	TRUE	GT	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.247dupT	p.Ser83fs	248/366	248/366	83/121	83	121		"INFO_REALIGN_3_PRIME,GT"	del83	G27637GT	del83	ORF7A:DEL83	83	ORF7a	del83	ORF7A:DEL83	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	27881	.	C	T	4697	PASS	1627	0.153042	0	"1371,0,249,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	27944	.	C	T	22201	PASS	1416	0.54096	0	"648,0,766,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	27970	.	C	A	141	PASS	1137	0.01759	0	"1117,0,20,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28005	.	C	T	2245	PASS	804	0.162935	0	"670,0,131,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.112C>T	p.Pro38Ser	112/366	112/366	38/121	38	121		",T"	P38S	C28005T	P38S	ORF8:P38S	38	ORF8	P38S	ORF8:P38S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28045	.	C	T	571	PASS	441	0.097506	0	"396,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28133	.	A	T	720	PASS	421	0.102138	0	"377,0,43,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28254	.	A	C	130	PASS	387	0.043928	0	"369,0,17,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28258	.	A	T	429	PASS	619	0.051696	0	"587,0,32,0"	FALSE	T	stop_lost&splice_region_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.365A>T	p.Ter122Leuext*?	365/366	365/366	122/121	122	121		",T"	startorstoploss	A28258T	NA	NA	NA	ORF8	NA	NA	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28270	.	TA	T	6128	PASS	680	0.358824	0	"436,0,244,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28280	.	G	C	5532	PASS	705	0.350355	0	"457,0,247,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28281	.	A	T	5465	PASS	713	0.346424	0	"465,0,247,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28282	.	T	A	5415	PASS	732	0.357924	0	"469,0,262,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28378	.	G	T	802	PASS	1534	0.051499	0	"1455,0,79,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28384	.	A	T	191	PASS	1514	0.021797	0	"1481,0,33,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28634	.	C	T	415	PASS	2082	0.026417	0	"2023,0,55,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.361C>T	p.Leu121Phe	361/1260	361/1260	121/419	121	419		",T"	L121F	C28634T	L121F	N:L121F	121	N	L121F	N:L121F	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28651	.	CA	C	4343	PASS	2161	0.075428	0	"1998,0,163,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.381delA	p.Asp128fs	381/1260	381/1260	127/419	127	419		"INFO_REALIGN_3_PRIME,C"	del128	CA28651C	del128	N:DEL128	128	N	del128	N:DEL128	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28651	.	C	T	4373	PASS	2161	0.119852	0	"1896,0,259,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28855	.	A	C	3490	PASS	3054	0.085789	0	"2785,0,262,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28869	.	C	T	7941	PASS	3028	0.14498	0	"2583,0,439,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28932	.	C	T	29273	PASS	2919	0.403905	0	"1733,0,1179,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28957	.	C	T	1986	PASS	2752	0.062863	0	"2569,0,173,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET35-2	NC_045512.2	28975	.	G	C	34803	PASS	2725	0.463853	0	"1457,0,1264,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	PET35-2	PETANGE	2020-11-24T00:00:00Z	30.3445	33.63	x	1022021	2020-11-24
PET36-1	NC_045512.2	241	.	C	T	49314	PASS	3493	0.995419	0	"2,0,3477,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	335	.	C	T	13272	PASS	3533	0.178319	0	"2894,0,630,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	394	.	T	C	79	PASS	3759	0.009577	0	"3707,0,36,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.129T>C	p.Arg43Arg	129/21291	129/21291	43/7096	43	7096		",C"	R43R	T394C	R43R	ORF1AB:R43R	43	ORF1a	R43R	ORF1A:R43R	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	445	.	T	C	12475	PASS	4150	0.184337	0	"3369,0,765,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	509	.	GGTCATGTTA	G	8747	PASS	4013	0.088462	0	"3730,0,355,0"	TRUE	G	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.245_253delGTCATGTTA	p.Gly82_Met85delinsVal	245/21291	245/21291	82/7096	82	7096		",G"	indel	GGTCATGTTA509G	NA	NA	NA	ORF1a	NA	NA	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	571	.	G	A	14684	PASS	3777	0.181361	0	"3089,0,685,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	713	.	G	T	2481	PASS	4646	0.045846	0	"4430,0,213,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.448G>T	p.Gly150Cys	448/21291	448/21291	150/7096	150	7096		",T"	G150C	G713T	G150C	ORF1AB:G150C	150	ORF1a	G150C	ORF1A:G150C	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	802	.	A	C	123	PASS	3635	0.009078	0	"3586,0,33,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	823	.	CG	C	232	PASS	3555	0.024754	0	"3541,0,88,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.559delG	p.Asp187fs	559/21291	559/21291	187/7096	187	7096		",C"	del187	CG823C	del187	ORF1AB:DEL187	187	ORF1a	del187	ORF1A:DEL187	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	843	.	C	G	1646	PASS	3391	0.045709	0	"3231,0,155,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.578C>G	p.Pro193Arg	578/21291	578/21291	193/7096	193	7096		",G"	P193R	C843G	P193R	ORF1AB:P193R	193	ORF1a	P193R	ORF1A:P193R	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	875	.	C	T	9866	PASS	3206	0.164067	0	"2665,0,526,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>T	p.Leu204Phe	610/21291	610/21291	204/7096	204	7096		",T"	L204F	C875T	L204F	ORF1AB:L204F	204	ORF1a	L204F	ORF1A:L204F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	1156	.	G	T	5534	PASS	3700	0.092973	0	"3354,0,344,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.891G>T	p.Met297Ile	891/21291	891/21291	297/7096	297	7096		",T"	M297I	G1156T	M297I	ORF1AB:M297I	297	ORF1a	M297I	ORF1A:M297I	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	1471	.	C	T	849	PASS	1677	0.052475	0	"1584,0,88,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1206C>T	p.Arg402Arg	1206/21291	1206/21291	402/7096	402	7096		",T"	R402R	C1471T	R402R	ORF1AB:R402R	402	ORF1a	R402R	ORF1A:R402R	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	1856	.	A	G	273	PASS	1680	0.02619	0	"1631,0,44,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1591A>G	p.Ser531Gly	1591/21291	1591/21291	531/7096	531	7096		",G"	S531G	A1856G	S531G	ORF1AB:S531G	531	ORF1a	S531G	ORF1A:S531G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	2416	.	C	T	1354	PASS	406	0.160099	0	"341,0,65,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	3037	.	C	T	49314	PASS	1499	0.997332	0	"1,0,1495,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	3228	.	TTGG	T	183	PASS	263	0.030418	0	"255,0,8,0"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2965_2967delGGT	p.Gly989del	2965/21291	2965/21291	989/7096	989	7096		"INFO_REALIGN_3_PRIME,T"	del989	TTGG3228T	del989	ORF1AB:DEL989	989	ORF1a	del989	ORF1A:DEL989	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	3602	.	C	T	210	PASS	116	0.103448	0	"104,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	3722	.	A	AT	66	PASS	173	0.017341	0	"170,0,3,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3462dupT	p.Gly1155fs	3463/21291	3463/21291	1155/7096	1155	7096		"INFO_REALIGN_3_PRIME,AT"	del1155	A3722AT	del1155	ORF1AB:DEL1155	1155	ORF1a	del1155	ORF1A:DEL1155	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	3743	.	C	T	171	PASS	186	0.075269	0	"172,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3478C>T	p.His1160Tyr	3478/21291	3478/21291	1160/7096	1160	7096		",T"	H1160Y	C3743T	H1160Y	ORF1AB:H1160Y	1160	ORF1a	H1160Y	ORF1A:H1160Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	3956	.	A	G	206	PASS	199	0.075377	0	"184,0,15,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3691A>G	p.Lys1231Glu	3691/21291	3691/21291	1231/7096	1231	7096		",G"	K1231E	A3956G	K1231E	ORF1AB:K1231E	1231	ORF1a	K1231E	ORF1A:K1231E	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	4040	.	A	G	428	PASS	252	0.111111	0	"223,0,28,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	4362	.	A	G	125	PASS	400	0.0325	0	"387,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4097A>G	p.Glu1366Gly	4097/21291	4097/21291	1366/7096	1366	7096		",G"	E1366G	A4362G	E1366G	ORF1AB:E1366G	1366	ORF1a	E1366G	ORF1A:E1366G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	4543	.	C	T	7131	PASS	443	0.566591	0	"192,0,251,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	5104	.	T	A	7900	PASS	1520	0.232237	0	"1167,0,353,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4839T>A	p.His1613Gln	4839/21291	4839/21291	1613/7096	1613	7096		",A"	H1613Q	T5104A	H1613Q	ORF1AB:H1613Q	1613	ORF1a	H1613Q	ORF1A:H1613Q	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	5629	.	G	T	20828	PASS	1445	0.50519	0	"715,0,730,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	5788	.	TA	T	2252	PASS	1187	0.071609	0	"1102,0,85,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5526delA	p.Glu1843fs	5526/21291	5526/21291	1842/7096	1842	7096		"INFO_REALIGN_3_PRIME,T"	del1843	TA5788T	del1843	ORF1AB:DEL1843	1843	ORF1a	del1843	ORF1A:DEL1843	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	5884	.	C	T	2121	PASS	1182	0.103215	0	"1057,0,122,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	6109	.	G	GA	667	PASS	408	0.061275	0	"429,0,25,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5847dupA	p.Pro1950fs	5848/21291	5848/21291	1950/7096	1950	7096		"INFO_REALIGN_3_PRIME,GA"	del1950	G6109GA	del1950	ORF1AB:DEL1950	1950	ORF1a	del1950	ORF1A:DEL1950	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	6113	.	C	A	104	PASS	396	0.035354	0	"382,0,14,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5848C>A	p.Pro1950Thr	5848/21291	5848/21291	1950/7096	1950	7096		",A"	P1950T	C6113A	P1950T	ORF1AB:P1950T	1950	ORF1a	P1950T	ORF1A:P1950T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	6286	.	C	T	1544	PASS	359	0.197772	0	"286,0,71,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	6696	.	C	T	850	PASS	917	0.081788	0	"835,0,75,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	6941	.	C	T	7198	PASS	1524	0.219816	0	"1188,0,335,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	7098	.	T	C	872	PASS	931	0.065521	0	"869,0,61,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6833T>C	p.Ile2278Thr	6833/21291	6833/21291	2278/7096	2278	7096		",C"	I2278T	T7098C	I2278T	ORF1AB:I2278T	2278	ORF1a	I2278T	ORF1A:I2278T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	7256	.	T	C	133	PASS	146	0.061644	0	"137,0,9,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6991T>C	p.Tyr2331His	6991/21291	6991/21291	2331/7096	2331	7096		",C"	Y2331H	T7256C	Y2331H	ORF1AB:Y2331H	2331	ORF1a	Y2331H	ORF1A:Y2331H	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	7390	.	C	T	227	PASS	58	0.189655	0	"47,0,11,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7125C>T	p.Ala2375Ala	7125/21291	7125/21291	2375/7096	2375	7096		",T"	A2375A	C7390T	A2375A	ORF1AB:A2375A	2375	ORF1a	A2375A	ORF1A:A2375A	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	7834	.	C	T	1818	PASS	1637	0.080024	0	"1501,0,131,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7569C>T	p.Asn2523Asn	7569/21291	7569/21291	2523/7096	2523	7096		",T"	N2523N	C7834T	N2523N	ORF1AB:N2523N	2523	ORF1a	N2523N	ORF1A:N2523N	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	8137	.	G	T	1331	PASS	1870	0.058824	0	"1758,0,110,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7872G>T	p.Val2624Val	7872/21291	7872/21291	2624/7096	2624	7096		",T"	V2624V	G8137T	V2624V	ORF1AB:V2624V	2624	ORF1a	V2624V	ORF1A:V2624V	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	8456	.	A	G	1265	PASS	241	0.232365	0	"184,0,56,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8191A>G	p.Ser2731Gly	8191/21291	8191/21291	2731/7096	2731	7096		",G"	S2731G	A8456G	S2731G	ORF1AB:S2731G	2731	ORF1a	S2731G	ORF1A:S2731G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	8618	.	G	A	1647	PASS	173	0.352601	0	"112,0,61,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	8809	.	CA	C	1043	PASS	617	0.063209	0	"578,0,39,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8547delA	p.Ala2850fs	8547/21291	8547/21291	2849/7096	2849	7096		"INFO_REALIGN_3_PRIME,C"	del2850	CA8809C	del2850	ORF1AB:DEL2850	2850	ORF1a	del2850	ORF1A:DEL2850	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	8964	.	CA	C	3448	PASS	913	0.131435	0	"793,0,120,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8703delA	p.Lys2901fs	8703/21291	8703/21291	2901/7096	2901	7096		"INFO_REALIGN_3_PRIME,C"	del2901	CA8964C	del2901	ORF1AB:DEL2901	2901	ORF1a	del2901	ORF1A:DEL2901	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	9173	.	GA	G	48	PASS	1106	0.002712	0	"1104,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8910delA	p.Gly2971fs	8910/21291	8910/21291	2970/7096	2970	7096		"INFO_REALIGN_3_PRIME,G"	del2971	GA9173G	del2971	ORF1AB:DEL2971	2971	ORF1a	del2971	ORF1A:DEL2971	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	9475	.	T	C	206	PASS	1563	0.023033	0	"1525,0,36,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9210T>C	p.Ala3070Ala	9210/21291	9210/21291	3070/7096	3070	7096		",C"	A3070A	T9475C	A3070A	ORF1AB:A3070A	3070	ORF1a	A3070A	ORF1A:A3070A	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	9526	.	G	T	20096	PASS	1859	0.418505	0	"1077,0,778,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	10261	.	G	T	10328	PASS	3465	0.155556	0	"2922,0,539,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9996G>T	p.Gln3332His	9996/21291	9996/21291	3332/7096	3332	7096		",T"	Q3332H	G10261T	Q3332H	ORF1AB:Q3332H	3332	ORF1a	Q3332H	ORF1A:Q3332H	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	10871	.	CA	C	1724	PASS	290	0.196552	0	"233,0,57,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10610delA	p.Asn3537fs	10610/21291	10610/21291	3537/7096	3537	7096		"INFO_REALIGN_3_PRIME,C"	del3537	CA10871C	del3537	ORF1AB:DEL3537	3537	ORF1a	del3537	ORF1A:DEL3537	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	11083	.	G	T	814	PASS	1567	0.05552	0	"1475,0,87,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	11129	.	TCTG	T	6713	PASS	1667	0.138572	0	"1483,0,231,0"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10867_10869delGCT	p.Ala3623del	10867/21291	10867/21291	3623/7096	3623	7096		"INFO_REALIGN_3_PRIME,T"	del3623	TCTG11129T	del3623	ORF1AB:DEL3623	3623	ORF1a	del3623	ORF1A:DEL3623	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	11497	.	C	T	14015	PASS	2007	0.293473	0	"1411,0,589,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	11628	.	A	AT	7803	PASS	1558	0.173299	0	"1289,0,270,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11368dupT	p.Cys3790fs	11369/21291	11369/21291	3790/7096	3790	7096		"INFO_REALIGN_3_PRIME,AT"	del3790	A11628AT	del3790	ORF1AB:DEL3790	3790	ORF1a	del3790	ORF1A:DEL3790	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	11634	.	G	T	4284	PASS	1570	0.143312	0	"1343,0,225,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11369G>T	p.Cys3790Phe	11369/21291	11369/21291	3790/7096	3790	7096		",T"	C3790F	G11634T	C3790F	ORF1AB:C3790F	3790	ORF1a	C3790F	ORF1A:C3790F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	11747	.	C	T	363	PASS	640	0.046875	0	"608,0,30,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11482C>T	p.Leu3828Leu	11482/21291	11482/21291	3828/7096	3828	7096		",T"	L3828L	C11747T	L3828L	ORF1AB:L3828L	3828	ORF1a	L3828L	ORF1A:L3828L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	12237	.	TTG	T	3936	PASS	1169	0.123182	0	"1025,0,144,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11973_11974delTG	p.Phe3991fs	11973/21291	11973/21291	3991/7096	3991	7096		",T"	del3991	TTG12237T	del3991	ORF1AB:DEL3991	3991	ORF1a	del3991	ORF1A:DEL3991	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	12251	.	G	C	2347	PASS	1407	0.099502	0	"1262,0,140,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11986G>C	p.Ala3996Pro	11986/21291	11986/21291	3996/7096	3996	7096		",C"	A3996P	G12251C	A3996P	ORF1AB:A3996P	3996	ORF1a	A3996P	ORF1A:A3996P	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	12651	.	C	T	3937	PASS	2757	0.094305	0	"2494,0,260,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12386C>T	p.Thr4129Ile	12386/21291	12386/21291	4129/7096	4129	7096		",T"	T4129I	C12651T	T4129I	ORF1AB:T4129I	4129	ORF1a	T4129I	ORF1A:T4129I	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	12759	.	A	G	4044	PASS	2783	0.093065	0	"2518,0,259,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12494A>G	p.Asp4165Gly	12494/21291	12494/21291	4165/7096	4165	7096		",G"	D4165G	A12759G	D4165G	ORF1AB:D4165G	4165	ORF1a	D4165G	ORF1A:D4165G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	13361	.	A	T	13602	PASS	2373	0.252845	0	"1772,0,600,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13096A>T	p.Lys4366*	13096/21291	13096/21291	4366/7096	4366	7096		",T"	K4366*	A13361T	K4366*	ORF1AB:K4366*	4366	ORF1a	K4366*	ORF1A:K4366*	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	13612	.	GA	G	50	PASS	2447	0.001635	0	"2443,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13352delA	p.Lys4451fs	13352/21291	13352/21291	4451/7096	4451	7096		"INFO_REALIGN_3_PRIME,G"	del4451	GA13612G	del4451	ORF1AB:DEL4451	50	ORF1b	del50	ORF1B:DEL50	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	13993	.	G	T	39606	PASS	2355	0.594904	0	"952,0,1401,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	14408	.	C	T	438	PASS	12	1	2147483647	"0,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	14655	.	T	C	3578	PASS	2006	0.104187	0	"1788,0,209,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14391T>C	p.Val4797Val	14391/21291	14391/21291	4797/7096	4797	7096		",C"	V4797V	T14655C	V4797V	ORF1AB:V4797V	396	ORF1b	V396V	ORF1B:V396V	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	15324	.	C	T	8375	PASS	748	0.425134	0	"430,0,318,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	15744	.	C	T	230	PASS	386	0.046632	0	"368,0,18,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15480C>T	p.Ser5160Ser	15480/21291	15480/21291	5160/7096	5160	7096		",T"	S5160S	C15744T	S5160S	ORF1AB:S5160S	759	ORF1b	S759S	ORF1B:S759S	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	15766	.	G	T	8626	PASS	425	0.675294	0	"137,0,287,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	15908	.	GTGA	G	126	PASS	218	0.027523	0	"213,0,6,0"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15649_15651delGAT	p.Asp5217del	15649/21291	15649/21291	5217/7096	5217	7096		"INFO_REALIGN_3_PRIME,G"	del5217	GTGA15908G	del5217	ORF1AB:DEL5217	816	ORF1b	del816	ORF1B:DEL816	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	16044	.	A	T	399	PASS	144	0.145833	0	"122,0,21,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15780A>T	p.Pro5260Pro	15780/21291	15780/21291	5260/7096	5260	7096		",T"	P5260P	A16044T	P5260P	ORF1AB:P5260P	859	ORF1b	P859P	ORF1B:P859P	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	16461	.	TA	T	83	PASS	2981	0.002013	0	"2982,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16200delA	p.Lys5400fs	16200/21291	16200/21291	5400/7096	5400	7096		"INFO_REALIGN_3_PRIME,T"	del5400	TA16461T	del5400	ORF1AB:DEL5400	999	ORF1b	del999	ORF1B:DEL999	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	16743	.	T	C	311	PASS	4589	0.016561	0	"4507,0,76,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16479T>C	p.Val5493Val	16479/21291	16479/21291	5493/7096	5493	7096		",C"	V5493V	T16743C	V5493V	ORF1AB:V5493V	1092	ORF1b	V1092V	ORF1B:V1092V	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	16800	.	TA	T	7845	PASS	4523	0.068539	0	"4213,0,310,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16541delA	p.Asn5514fs	16541/21291	16541/21291	5514/7096	5514	7096		"INFO_REALIGN_3_PRIME,T"	del5514	TA16800T	del5514	ORF1AB:DEL5514	1113	ORF1b	del1113	ORF1B:DEL1113	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	16889	.	A	G	49314	PASS	3548	0.592446	0	"1436,0,2102,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	16912	.	G	T	3207	PASS	3189	0.067419	0	"2970,0,215,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	16975	.	G	T	2329	PASS	2770	0.056318	0	"2613,0,156,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16711G>T	p.Val5571Phe	16711/21291	16711/21291	5571/7096	5571	7096		",T"	V5571F	G16975T	V5571F	ORF1AB:V5571F	1170	ORF1b	V1170F	ORF1B:V1170F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	17005	.	A	G	171	PASS	2023	0.013841	0	"1992,0,28,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16741A>G	p.Asn5581Asp	16741/21291	16741/21291	5581/7096	5581	7096		",G"	N5581D	A17005G	N5581D	ORF1AB:N5581D	1180	ORF1b	N1180D	ORF1B:N1180D	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	17019	.	G	T	27541	PASS	1722	0.552846	0	"766,0,952,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	18432	.	A	G	789	PASS	323	0.126935	0	"280,0,41,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18168A>G	p.Thr6056Thr	18168/21291	18168/21291	6056/7096	6056	7096		",G"	T6056T	A18432G	T6056T	ORF1AB:T6056T	1655	ORF1b	T1655T	ORF1B:T1655T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	18561	.	T	TA	943	PASS	345	0.101449	0	"311,0,35,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18302dupA	p.Asn6101fs	18303/21291	18303/21291	6101/7096	6101	7096		"INFO_REALIGN_3_PRIME,TA"	del6101	T18561TA	del6101	ORF1AB:DEL6101	1700	ORF1b	del1700	ORF1B:DEL1700	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	18595	.	TG	T	888	PASS	330	0.09697	0	"300,0,32,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18334delG	p.Ala6112fs	18334/21291	18334/21291	6112/7096	6112	7096		"INFO_REALIGN_3_PRIME,T"	del6112	TG18595T	del6112	ORF1AB:DEL6112	1711	ORF1b	del1711	ORF1B:DEL1711	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	18615	.	G	T	517	PASS	437	0.089245	0	"397,0,39,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18351G>T	p.Leu6117Phe	18351/21291	18351/21291	6117/7096	6117	7096		",T"	L6117F	G18615T	L6117F	ORF1AB:L6117F	1716	ORF1b	L1716F	ORF1B:L1716F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	18633	.	T	C	164	PASS	657	0.028919	0	"637,0,19,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18369T>C	p.Phe6123Phe	18369/21291	18369/21291	6123/7096	6123	7096		",C"	F6123F	T18633C	F6123F	ORF1AB:F6123F	1722	ORF1b	F1722F	ORF1B:F1722F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	18750	.	TA	T	55	PASS	2257	0.001772	0	"2255,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18488delA	p.Asn6163fs	18488/21291	18488/21291	6163/7096	6163	7096		"INFO_REALIGN_3_PRIME,T"	del6163	TA18750T	del6163	ORF1AB:DEL6163	1762	ORF1b	del1762	ORF1B:DEL1762	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	18877	.	C	T	26365	PASS	2671	0.375515	0	"1661,0,1003,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	18892	.	TG	T	7303	PASS	2775	0.102342	0	"2495,0,284,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18629delG	p.Cys6210fs	18629/21291	18629/21291	6210/7096	6210	7096		",T"	del6210	TG18892T	del6210	ORF1AB:DEL6210	1809	ORF1b	del1809	ORF1B:DEL1809	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	19170	.	C	T	3188	PASS	3356	0.070024	0	"3113,0,235,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18906C>T	p.Phe6302Phe	18906/21291	18906/21291	6302/7096	6302	7096		",T"	F6302F	C19170T	F6302F	ORF1AB:F6302F	1901	ORF1b	F1901F	ORF1B:F1901F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	19269	.	C	T	781	PASS	2991	0.03009	0	"2897,0,90,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19005C>T	p.Asn6335Asn	19005/21291	19005/21291	6335/7096	6335	7096		",T"	N6335N	C19269T	N6335N	ORF1AB:N6335N	1934	ORF1b	N1934N	ORF1B:N1934N	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	19407	.	A	G	2303	PASS	2608	0.069402	0	"2420,0,181,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19143A>G	p.Gly6381Gly	19143/21291	19143/21291	6381/7096	6381	7096		",G"	G6381G	A19407G	G6381G	ORF1AB:G6381G	1980	ORF1b	G1980G	ORF1B:G1980G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	19524	.	C	T	5271	PASS	2880	0.105556	0	"2571,0,304,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	19645	.	G	T	3468	PASS	2778	0.086393	0	"2531,0,240,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19381G>T	p.Val6461Phe	19381/21291	19381/21291	6461/7096	6461	7096		",T"	V6461F	G19645T	V6461F	ORF1AB:V6461F	2060	ORF1b	V2060F	ORF1B:V2060F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	19827	.	GA	G	6511	PASS	2330	0.101717	0	"2143,0,237,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19567delA	p.Ile6523fs	19567/21291	19567/21291	6523/7096	6523	7096		"INFO_REALIGN_3_PRIME,G"	del6523	GA19827G	del6523	ORF1AB:DEL6523	2122	ORF1b	del2122	ORF1B:DEL2122	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	19868	.	CTG	C	4924	PASS	1895	0.095515	0	"1714,0,181,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19607_19608delTG	p.Val6536fs	19607/21291	19607/21291	6536/7096	6536	7096		"INFO_REALIGN_3_PRIME,C"	del6536	CTG19868C	del6536	ORF1AB:DEL6536	2135	ORF1b	del2135	ORF1B:DEL2135	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	20420	.	A	AT	2661	PASS	826	0.112591	0	"734,0,93,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20160dupT	p.Ile6721fs	20161/21291	20161/21291	6721/7096	6721	7096		"INFO_REALIGN_3_PRIME,AT"	del6721	A20420AT	del6721	ORF1AB:DEL6721	2320	ORF1b	del2320	ORF1B:DEL2320	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	20532	.	A	G	2414	PASS	1570	0.11465	0	"1389,0,180,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20268A>G	p.Glu6756Glu	20268/21291	20268/21291	6756/7096	6756	7096		",G"	E6756E	A20532G	E6756E	ORF1AB:E6756E	2355	ORF1b	E2355E	ORF1B:E2355E	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	20788	.	G	A	1250	PASS	2686	0.04691	0	"2548,0,126,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20524G>A	p.Val6842Ile	20524/21291	20524/21291	6842/7096	6842	7096		",A"	V6842I	G20788A	V6842I	ORF1AB:V6842I	2441	ORF1b	V2441I	ORF1B:V2441I	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	22009	.	CA	C	2657	PASS	517	0.17795	0	"425,0,92,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.451delA	p.Ser151fs	451/3822	451/3822	151/1273	151	1273		"INFO_REALIGN_3_PRIME,C"	del151	CA22009C	del151	S:DEL151	151	S	del151	S:DEL151	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	22992	.	G	A	5352	PASS	220	0.795455	0	"44,0,175,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	23335	.	T	C	118	PASS	367	0.035422	0	"353,0,13,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1773T>C	p.Ser591Ser	1773/3822	1773/3822	591/1273	591	1273		",C"	S591S	T23335C	S591S	S:S591S	591	S	S591S	S:S591S	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	23403	.	A	G	11394	PASS	347	0.988473	2147483647	"0,0,343,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	23885	.	G	T	81	PASS	289	0.031142	0	"280,0,9,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2323G>T	p.Asp775Tyr	2323/3822	2323/3822	775/1273	775	1273		",T"	D775Y	G23885T	D775Y	S:D775Y	775	S	D775Y	S:D775Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	24035	.	A	T	175	PASS	72	0.111111	0	"64,0,8,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2473A>T	p.Lys825*	2473/3822	2473/3822	825/1273	825	1273		",T"	K825*	A24035T	K825*	S:K825*	825	S	K825*	S:K825*	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	24283	.	TG	T	51	PASS	87	0.022989	0	"85,0,2,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2723delG	p.Gly908fs	2723/3822	2723/3822	908/1273	908	1273		"INFO_REALIGN_3_PRIME,T"	del908	TG24283T	del908	S:DEL908	908	S	del908	S:DEL908	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	24506	.	T	G	1579	PASS	507	0.153846	0	"428,0,78,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	24914	.	G	C	1545	PASS	717	0.122734	0	"629,0,88,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	24959	.	G	T	1270	PASS	914	0.089716	0	"832,0,82,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3397G>T	p.Val1133Phe	3397/3822	3397/3822	1133/1273	1133	1273		",T"	V1133F	G24959T	V1133F	S:V1133F	1133	S	V1133F	S:V1133F	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	24999	.	A	G	819	PASS	1107	0.073171	0	"1022,0,81,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3437A>G	p.Asp1146Gly	3437/3822	3437/3822	1146/1273	1146	1273		",G"	D1146G	A24999G	D1146G	S:D1146G	1146	S	D1146G	S:D1146G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25047	.	C	G	1533	PASS	1487	0.081372	0	"1362,0,121,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3485C>G	p.Pro1162Arg	3485/3822	3485/3822	1162/1273	1162	1273		",G"	P1162R	C25047G	P1162R	S:P1162R	1162	S	P1162R	S:P1162R	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25225	.	A	C	99	PASS	1177	0.02294	0	"1143,0,27,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25254	.	C	A	73	PASS	1351	0.019985	0	"1320,0,27,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25286	.	A	T	83	PASS	1352	0.028107	0	"1294,0,38,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25296	.	A	C	158	PASS	1364	0.041056	0	"1275,0,56,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25301	.	T	G	104	PASS	1362	0.031571	0	"1316,0,43,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25312	.	T	G	133	PASS	1391	0.034508	0	"1339,0,48,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25314	.	G	T	117	PASS	1387	0.032444	0	"1337,0,45,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25324	.	C	A	449	PASS	1421	0.060521	0	"1334,0,86,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25327	.	A	T	71	PASS	1403	0.023521	0	"1369,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25336	.	A	C	289	PASS	1380	0.05942	0	"1285,0,82,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25563	.	G	T	36291	PASS	1068	0.9897	0	"10,0,1057,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25710	.	C	T	19552	PASS	665	0.873684	0	"81,0,581,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25906	.	G	C	494	PASS	296	0.108108	0	"262,0,32,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	25996	.	G	T	664	PASS	305	0.121311	0	"268,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	26038	.	T	C	2776	PASS	286	0.381119	0	"176,0,109,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	26735	.	C	T	34885	PASS	1071	0.961718	0	"39,0,1030,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	26766	.	ATC	A	59	PASS	1110	0.004505	0	"1109,0,5,0"	TRUE	A	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.245_246delTC	p.Ile82fs	245/669	245/669	82/222	82	222		",A"	del82	ATC26766A	del82	M:DEL82	82	M	del82	M:DEL82	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	26767	.	TCG	T	17358	PASS	1118	0.4839	0	"579,0,541,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.247_248delGC	p.Ala83fs	247/669	247/669	83/222	83	222		"INFO_REALIGN_3_PRIME,T"	del83	TCG26767T	del83	M:DEL83	83	M	del83	M:DEL83	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	26876	.	T	C	14535	PASS	485	0.91134	0	"41,0,442,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	27146	.	A	T	277	PASS	138	0.130435	0	"119,0,18,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.624A>T	p.Thr208Thr	624/669	624/669	208/222	208	222		",T"	T208T	A27146T	T208T	M:T208T	208	M	T208T	M:T208T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	27605	.	TA	T	81	PASS	2648	0.002266	0	"2646,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.216delA	p.Lys72fs	216/366	216/366	72/121	72	121		"INFO_REALIGN_3_PRIME,T"	del72	TA27605T	del72	ORF7A:DEL72	72	ORF7a	del72	ORF7A:DEL72	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	27760	.	T	C	4989	PASS	2472	0.130663	0	"2139,0,323,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.5T>C	p.Ile2Thr	5/132	5/132	2/43	2	43		",C"	I2T	T27760C	I2T	ORF7B:I2T	2	ORF7b	I2T	ORF7B:I2T	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	27881	.	C	T	6306	PASS	2262	0.149867	0	"1921,0,339,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	27970	.	C	A	336	PASS	1649	0.024864	0	"1607,0,41,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28026	.	T	C	96	PASS	965	0.014508	0	"950,0,14,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.133T>C	p.Trp45Arg	133/366	133/366	45/121	45	121		",C"	W45R	T28026C	W45R	ORF8:W45R	45	ORF8	W45R	ORF8:W45R	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28257	.	T	TA	2084	PASS	932	0.082618	0	"855,0,77,0"	TRUE	TA	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.355_356insA	p.Asp119fs	356/366	356/366	119/121	119	121		"INFO_REALIGN_3_PRIME,TA"	del119	T28257TA	del119	ORF8:DEL119	119	ORF8	del119	ORF8:DEL119	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28280	.	G	T	1193	PASS	1058	0.074669	0	"979,0,79,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>T	p.Asp3Tyr	7/1260	7/1260	3/419	3	419		",T"	D3Y	G28280T	D3Y	N:D3Y	3	N	D3Y	N:D3Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28300	.	G	T	16099	PASS	1111	0.508551	0	"543,0,565,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28384	.	A	T	482	PASS	1314	0.040335	0	"1259,0,53,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28404	.	G	T	637	PASS	1419	0.043693	0	"1357,0,62,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.131G>T	p.Gly44Val	131/1260	131/1260	44/419	44	419		",T"	G44V	G28404T	G44V	N:G44V	44	N	G44V	N:G44V	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28651	.	C	T	4834	PASS	3015	0.101493	0	"2702,0,306,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28776	.	CA	C	65	PASS	4761	0.00126	0	"4755,0,6,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28851	.	G	T	4578	PASS	4598	0.074598	0	"4247,0,343,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.578G>T	p.Ser193Ile	578/1260	578/1260	193/419	193	419		",T"	S193I	G28851T	S193I	N:S193I	193	N	S193I	N:S193I	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28869	.	C	T	4607	PASS	4563	0.074512	0	"4204,0,340,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28932	.	C	T	18443	PASS	4475	0.204022	0	"3552,0,913,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28975	.	G	C	49314	PASS	4219	0.72292	0	"1163,0,3050,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	28987	.	CCAA	C	162	PASS	3951	0.002784	0	"3963,0,11,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	29122	.	AG	A	632	PASS	2208	0.083786	0	"2033,0,185,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.851delG	p.Gly284fs	851/1260	851/1260	284/419	284	419		"INFO_REALIGN_3_PRIME,A"	del284	AG29122A	del284	N:DEL284	284	N	del284	N:DEL284	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	29127	.	AT	A	414	PASS	2145	0.020047	0	"2115,0,43,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.858delT	p.Phe286fs	858/1260	858/1260	286/419	286	419		"INFO_REALIGN_3_PRIME,A"	del286	AT29127A	del286	N:DEL286	286	N	del286	N:DEL286	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	29128	.	T	A	119	PASS	2145	0.085781	0	"1916,0,184,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.855T>A	p.Asn285Lys	855/1260	855/1260	285/419	285	419		",A"	N285K	T29128A	N285K	N:N285K	285	N	N285K	N:N285K	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	29167	.	C	T	2454	PASS	1313	0.108911	0	"1169,0,143,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.894C>T	p.Tyr298Tyr	894/1260	894/1260	298/419	298	419		",T"	Y298Y	C29167T	Y298Y	N:Y298Y	298	N	Y298Y	N:Y298Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET36-1	NC_045512.2	29171	.	C	T	3389	PASS	1147	0.1517	0	"969,0,174,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.898C>T	p.His300Tyr	898/1260	898/1260	300/419	300	419		",T"	H300Y	C29171T	H300Y	N:H300Y	300	N	H300Y	N:H300Y	PET36-1	PETANGE	2020-11-30T00:00:00Z	31.131	34.03333333	x	1022021	2020-11-30
PET37-1	NC_045512.2	241	.	C	T	32381	PASS	934	0.998929	2147483647	"0,0,933,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	742	.	A	C	8402	PASS	2145	0.187879	0	"1738,0,403,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.477A>C	p.Glu159Asp	477/21291	477/21291	159/7096	159	7096		",C"	E159D	A742C	E159D	ORF1AB:E159D	159	ORF1a	E159D	ORF1A:E159D	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	802	.	A	C	113	PASS	1783	0.014021	0	"1747,0,25,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	875	.	C	A	5109	PASS	1993	0.147015	0	"1418,0,293,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	875	.	C	T	4777	PASS	1993	0.140492	0	"1418,0,280,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>T	p.Leu204Phe	610/21291	610/21291	204/7096	204	7096		",T"	L204F	C875T	L204F	ORF1AB:L204F	204	ORF1a	L204F	ORF1A:L204F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	1026	.	C	CT	10096	PASS	2382	0.146935	0	"2032,0,350,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.765dupT	p.Glu256fs	766/21291	766/21291	256/7096	256	7096		"INFO_REALIGN_3_PRIME,CT"	del256	C1026CT	del256	ORF1AB:DEL256	256	ORF1a	del256	ORF1A:DEL256	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	1214	.	C	CT	10643	PASS	2295	0.155991	0	"1937,0,358,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.952dupT	p.Ser318fs	953/21291	953/21291	318/7096	318	7096		"INFO_REALIGN_3_PRIME,CT"	del318	C1214CT	del318	ORF1AB:DEL318	318	ORF1a	del318	ORF1A:DEL318	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	1346	.	C	A	1381	PASS	1959	0.067381	0	"1826,0,132,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1081C>A	p.Pro361Thr	1081/21291	1081/21291	361/7096	361	7096		",A"	P361T	C1346A	P361T	ORF1AB:P361T	361	ORF1a	P361T	ORF1A:P361T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	1362	.	T	C	898	PASS	1736	0.057604	0	"1628,0,100,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1097T>C	p.Val366Ala	1097/21291	1097/21291	366/7096	366	7096		",C"	V366A	T1362C	V366A	ORF1AB:V366A	366	ORF1a	V366A	ORF1A:V366A	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	2388	.	C	T	386	PASS	63	0.238095	0	"48,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2123C>T	p.Thr708Ile	2123/21291	2123/21291	708/7096	708	7096		",T"	T708I	C2388T	T708I	ORF1AB:T708I	708	ORF1a	T708I	ORF1A:T708I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	2416	.	C	T	778	PASS	156	0.217949	0	"122,0,34,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	2518	.	G	T	1209	PASS	384	0.158854	0	"322,0,61,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2253G>T	p.Val751Val	2253/21291	2253/21291	751/7096	751	7096		",T"	V751V	G2518T	V751V	ORF1AB:V751V	751	ORF1a	V751V	ORF1A:V751V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	3037	.	C	T	21901	PASS	638	0.998433	2147483647	"0,0,637,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	3160	.	T	A	328	PASS	424	0.054245	0	"401,0,23,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2895T>A	p.Thr965Thr	2895/21291	2895/21291	965/7096	965	7096		",A"	T965T	T3160A	T965T	ORF1AB:T965T	965	ORF1a	T965T	ORF1A:T965T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	3412	.	T	A	486	PASS	157	0.171975	0	"130,0,27,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3147T>A	p.Ala1049Ala	3147/21291	3147/21291	1049/7096	1049	7096		",A"	A1049A	T3412A	A1049A	ORF1AB:A1049A	1049	ORF1a	A1049A	ORF1A:A1049A	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	3547	.	T	C	170	PASS	122	0.090164	0	"111,0,11,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3282T>C	p.Asn1094Asn	3282/21291	3282/21291	1094/7096	1094	7096		",C"	N1094N	T3547C	N1094N	ORF1AB:N1094N	1094	ORF1a	N1094N	ORF1A:N1094N	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	3602	.	C	T	1330	PASS	109	0.46789	0	"58,0,51,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	3737	.	C	T	122	PASS	75	0.106667	0	"67,0,8,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3472C>T	p.Pro1158Ser	3472/21291	3472/21291	1158/7096	1158	7096		",T"	P1158S	C3737T	P1158S	ORF1AB:P1158S	1158	ORF1a	P1158S	ORF1A:P1158S	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	3743	.	C	T	106	PASS	69	0.101449	0	"62,0,7,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3478C>T	p.His1160Tyr	3478/21291	3478/21291	1160/7096	1160	7096		",T"	H1160Y	C3743T	H1160Y	ORF1AB:H1160Y	1160	ORF1a	H1160Y	ORF1A:H1160Y	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	3963	.	A	G	249	PASS	59	0.220339	0	"46,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3698A>G	p.Lys1233Arg	3698/21291	3698/21291	1233/7096	1233	7096		",G"	K1233R	A3963G	K1233R	ORF1AB:K1233R	1233	ORF1a	K1233R	ORF1A:K1233R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	4477	.	TA	T	162	PASS	701	0.034237	0	"694,0,24,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4215delA	p.Lys1405fs	4215/21291	4215/21291	1405/7096	1405	7096		"INFO_REALIGN_3_PRIME,T"	del1405	TA4477T	del1405	ORF1AB:DEL1405	1405	ORF1a	del1405	ORF1A:DEL1405	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	4482	.	A	T	138	PASS	753	0.041169	0	"720,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4217A>T	p.Tyr1406Phe	4217/21291	4217/21291	1406/7096	1406	7096		",T"	Y1406F	A4482T	Y1406F	ORF1AB:Y1406F	1406	ORF1a	Y1406F	ORF1A:Y1406F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	4543	.	C	T	5636	PASS	781	0.297055	0	"548,0,232,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	4794	.	C	T	2250	PASS	920	0.13913	0	"789,0,128,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4529C>T	p.Ser1510Phe	4529/21291	4529/21291	1510/7096	1510	7096		",T"	S1510F	C4794T	S1510F	ORF1AB:S1510F	1510	ORF1a	S1510F	ORF1A:S1510F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	4850	.	A	G	268	PASS	872	0.033257	0	"843,0,29,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4585A>G	p.Lys1529Glu	4585/21291	4585/21291	1529/7096	1529	7096		",G"	K1529E	A4850G	K1529E	ORF1AB:K1529E	1529	ORF1a	K1529E	ORF1A:K1529E	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	4984	.	A	T	242	PASS	390	0.046154	0	"372,0,18,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4719A>T	p.Thr1573Thr	4719/21291	4719/21291	1573/7096	1573	7096		",T"	T1573T	A4984T	T1573T	ORF1AB:T1573T	1573	ORF1a	T1573T	ORF1A:T1573T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	5023	.	G	T	1965	PASS	446	0.2287	0	"343,0,102,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4758G>T	p.Met1586Ile	4758/21291	4758/21291	1586/7096	1586	7096		",T"	M1586I	G5023T	M1586I	ORF1AB:M1586I	1586	ORF1a	M1586I	ORF1A:M1586I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	5629	.	G	T	7181	PASS	1270	0.245669	0	"957,0,312,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	5802	.	A	G	3594	PASS	1132	0.157244	0	"951,0,178,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5537A>G	p.Tyr1846Cys	5537/21291	5537/21291	1846/7096	1846	7096		",G"	Y1846C	A5802G	Y1846C	ORF1AB:Y1846C	1846	ORF1a	Y1846C	ORF1A:Y1846C	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	6352	.	G	T	368	PASS	151	0.152318	0	"128,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6087G>T	p.Lys2029Asn	6087/21291	6087/21291	2029/7096	2029	7096		",T"	K2029N	G6352T	K2029N	ORF1AB:K2029N	2029	ORF1a	K2029N	ORF1A:K2029N	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	6504	.	CA	C	1132	PASS	482	0.087137	0	"440,0,42,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6242delA	p.Asn2081fs	6242/21291	6242/21291	2081/7096	2081	7096		"INFO_REALIGN_3_PRIME,C"	del2081	CA6504C	del2081	ORF1AB:DEL2081	2081	ORF1a	del2081	ORF1A:DEL2081	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	6555	.	C	T	1342	PASS	666	0.115616	0	"587,0,77,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	6696	.	C	CT	1731	PASS	587	0.105622	0	"525,0,62,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	6941	.	C	T	5885	PASS	907	0.280044	0	"653,0,254,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	7634	.	A	G	1809	PASS	431	0.199536	0	"345,0,86,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7369A>G	p.Thr2457Ala	7369/21291	7369/21291	2457/7096	2457	7096		",G"	T2457A	A7634G	T2457A	ORF1AB:T2457A	2457	ORF1a	T2457A	ORF1A:T2457A	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	7853	.	A	G	281	PASS	624	0.044872	0	"596,0,28,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7588A>G	p.Asn2530Asp	7588/21291	7588/21291	2530/7096	2530	7096		",G"	N2530D	A7853G	N2530D	ORF1AB:N2530D	2530	ORF1a	N2530D	ORF1A:N2530D	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	8376	.	CA	C	1695	PASS	227	0.246696	0	"171,0,56,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	9314	.	G	GT	1401	PASS	333	0.15015	0	"283,0,50,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9053dupT	p.Cys3019fs	9054/21291	9054/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,GT"	del3019	G9314GT	del3019	ORF1AB:DEL3019	3019	ORF1a	del3019	ORF1A:DEL3019	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	9314	.	GTT	G	1507	PASS	333	0.156156	0	"281,0,52,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9052_9053delTT	p.Phe3018fs	9052/21291	9052/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,G"	del3018	GTT9314G	del3018	ORF1AB:DEL3018	3018	ORF1a	del3018	ORF1A:DEL3018	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	9515	.	C	T	3456	PASS	446	0.307175	0	"309,0,137,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9250C>T	p.Leu3084Leu	9250/21291	9250/21291	3084/7096	3084	7096		",T"	L3084L	C9515T	L3084L	ORF1AB:L3084L	3084	ORF1a	L3084L	ORF1A:L3084L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	9526	.	G	T	8644	PASS	489	0.611452	0	"189,0,299,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	10288	.	T	C	6606	PASS	1883	0.175783	0	"1548,0,331,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10023T>C	p.Ile3341Ile	10023/21291	10023/21291	3341/7096	3341	7096		",C"	I3341I	T10288C	I3341I	ORF1AB:I3341I	3341	ORF1a	I3341I	ORF1A:I3341I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	10386	.	C	CT	1746	PASS	1613	0.045257	0	"1540,0,73,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10126dupT	p.Ser3376fs	10127/21291	10127/21291	3376/7096	3376	7096		"INFO_REALIGN_3_PRIME,CT"	del3376	C10386CT	del3376	ORF1AB:DEL3376	3376	ORF1a	del3376	ORF1A:DEL3376	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	11023	.	A	G	418	PASS	597	0.053601	0	"563,0,32,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10758A>G	p.Thr3586Thr	10758/21291	10758/21291	3586/7096	3586	7096		",G"	T3586T	A11023G	T3586T	ORF1AB:T3586T	3586	ORF1a	T3586T	ORF1A:T3586T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	11083	.	G	T	164	PASS	989	0.0273	0	"962,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	11140	.	A	G	489	PASS	1028	0.046693	0	"976,0,48,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10875A>G	p.Ala3625Ala	10875/21291	10875/21291	3625/7096	3625	7096		",G"	A3625A	A11140G	A3625A	ORF1AB:A3625A	3625	ORF1a	A3625A	ORF1A:A3625A	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	11247	.	T	G	4235	PASS	998	0.214429	0	"784,0,214,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10982T>G	p.Met3661Arg	10982/21291	10982/21291	3661/7096	3661	7096		",G"	M3661R	T11247G	M3661R	ORF1AB:M3661R	3661	ORF1a	M3661R	ORF1A:M3661R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	11497	.	C	T	4820	PASS	1204	0.194352	0	"968,0,234,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	11653	.	C	T	4389	PASS	895	0.231285	0	"687,0,207,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11388C>T	p.Leu3796Leu	11388/21291	11388/21291	3796/7096	3796	7096		",T"	L3796L	C11653T	L3796L	ORF1AB:L3796L	3796	ORF1a	L3796L	ORF1A:L3796L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	12683	.	CAG	C	497	PASS	905	0.141436	0	"778,0,128,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12420_12421delGA	p.Asn4141fs	12420/21291	12420/21291	4140/7096	4140	7096		"INFO_REALIGN_3_PRIME,C"	del4141	CAG12683C	del4141	ORF1AB:DEL4141	4141	ORF1a	del4141	ORF1A:DEL4141	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	12687	.	A	T	488	PASS	896	0.148438	0	"743,0,133,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12422A>T	p.Asn4141Ile	12422/21291	12422/21291	4141/7096	4141	7096		",T"	N4141I	A12687T	N4141I	ORF1AB:N4141I	4141	ORF1a	N4141I	ORF1A:N4141I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	13119	.	C	T	2412	PASS	2541	0.075167	0	"2343,0,191,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12854C>T	p.Ala4285Val	12854/21291	12854/21291	4285/7096	4285	7096		",T"	A4285V	C13119T	A4285V	ORF1AB:A4285V	4285	ORF1a	A4285V	ORF1A:A4285V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	13517	.	C	T	4693	PASS	1877	0.138519	0	"1613,0,260,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	13541	.	C	CT	1030	PASS	1541	0.029202	0	"1496,0,45,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13281dupT	p.Asp4428fs	13282/21291	13282/21291	4428/7096	4428	7096		"INFO_REALIGN_3_PRIME,CT"	del4428	C13541CT	del4428	ORF1AB:DEL4428	27	ORF1b	del27	ORF1B:DEL27	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	14105	.	T	C	95	PASS	673	0.019316	0	"659,0,13,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13841T>C	p.Phe4614Ser	13841/21291	13841/21291	4614/7096	4614	7096		",C"	F4614S	T14105C	F4614S	ORF1AB:F4614S	213	ORF1b	F213S	ORF1B:F213S	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	15264	.	TG	T	113	PASS	934	0.006424	0	"928,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15001delG	p.Val5001fs	15001/21291	15001/21291	5001/7096	5001	7096		",T"	del5001	TG15264T	del5001	ORF1AB:DEL5001	600	ORF1b	del600	ORF1B:DEL600	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	15324	.	C	T	4712	PASS	442	0.414027	0	"259,0,183,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	15579	.	CA	C	899	PASS	184	0.168478	0	"153,0,31,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15319delA	p.Ile5107fs	15319/21291	15319/21291	5107/7096	5107	7096		"INFO_REALIGN_3_PRIME,C"	del5107	CA15579C	del5107	ORF1AB:DEL5107	706	ORF1b	del706	ORF1B:DEL706	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	15766	.	G	T	2901	PASS	200	0.515	0	"97,0,103,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	16044	.	A	T	295	PASS	44	0.295455	0	"29,0,13,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15780A>T	p.Pro5260Pro	15780/21291	15780/21291	5260/7096	5260	7096		",T"	P5260P	A16044T	P5260P	ORF1AB:P5260P	859	ORF1b	P859P	ORF1B:P859P	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	16767	.	C	T	2645	PASS	2575	0.07767	0	"2367,0,200,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16503C>T	p.Asn5501Asn	16503/21291	16503/21291	5501/7096	5501	7096		",T"	N5501N	C16767T	N5501N	ORF1AB:N5501N	1100	ORF1b	N1100N	ORF1B:N1100N	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	16889	.	A	G	20505	PASS	2327	0.341642	0	"1528,0,795,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	16975	.	G	T	2020	PASS	1839	0.071234	0	"1706,0,131,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16711G>T	p.Val5571Phe	16711/21291	16711/21291	5571/7096	5571	7096		",T"	V5571F	G16975T	V5571F	ORF1AB:V5571F	1170	ORF1b	V1170F	ORF1B:V1170F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	17019	.	G	T	8786	PASS	1140	0.314035	0	"782,0,358,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	17104	.	C	T	1486	PASS	126	0.428571	0	"71,0,54,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	17615	.	A	G	619	PASS	1116	0.051075	0	"1056,0,57,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	17688	.	TTCA	T	3603	PASS	1282	0.099844	0	"1160,0,128,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17427_17429delATC	p.Ser5810del	17427/21291	17427/21291	5809/7096	5809	7096		"INFO_REALIGN_3_PRIME,T"	del5810	TTCA17688T	del5810	ORF1AB:DEL5810	1409	ORF1b	del1409	ORF1B:DEL1409	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	17999	.	C	T	1221	PASS	1760	0.0625	0	"1646,0,110,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17735C>T	p.Thr5912Ile	17735/21291	17735/21291	5912/7096	5912	7096		",T"	T5912I	C17999T	T5912I	ORF1AB:T5912I	1511	ORF1b	T1511I	ORF1B:T1511I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	18044	.	A	G	3058	PASS	1624	0.118227	0	"1430,0,192,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17780A>G	p.Glu5927Gly	17780/21291	17780/21291	5927/7096	5927	7096		",G"	E5927G	A18044G	E5927G	ORF1AB:E5927G	1526	ORF1b	E1526G	ORF1B:E1526G	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	18877	.	C	T	219	PASS	1342	0.022355	0	"1306,0,30,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	19188	.	A	AT	10638	PASS	1671	0.210652	0	"1319,0,352,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18928dupT	p.Trp6310fs	18929/21291	18929/21291	6310/7096	6310	7096		"INFO_REALIGN_3_PRIME,AT"	del6310	A19188AT	del6310	ORF1AB:DEL6310	1909	ORF1b	del1909	ORF1B:DEL1909	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	19327	.	G	T	3961	PASS	1814	0.12183	0	"1591,0,221,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19063G>T	p.Ala6355Ser	19063/21291	19063/21291	6355/7096	6355	7096		",T"	A6355S	G19327T	A6355S	ORF1AB:A6355S	1954	ORF1b	A1954S	ORF1B:A1954S	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	19524	.	C	T	6563	PASS	1391	0.219986	0	"1080,0,306,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	19645	.	G	T	4540	PASS	1269	0.175729	0	"1045,0,223,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19381G>T	p.Val6461Phe	19381/21291	19381/21291	6461/7096	6461	7096		",T"	V6461F	G19645T	V6461F	ORF1AB:V6461F	2060	ORF1b	V2060F	ORF1B:V2060F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	20451	.	C	T	1242	PASS	496	0.129032	0	"432,0,64,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20187C>T	p.Asn6729Asn	20187/21291	20187/21291	6729/7096	6729	7096		",T"	N6729N	C20451T	N6729N	ORF1AB:N6729N	2328	ORF1b	N2328N	ORF1B:N2328N	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	20762	.	C	T	2948	PASS	964	0.156639	0	"812,0,151,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20498C>T	p.Thr6833Ile	20498/21291	20498/21291	6833/7096	6833	7096		",T"	T6833I	C20762T	T6833I	ORF1AB:T6833I	2432	ORF1b	T2432I	ORF1B:T2432I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	21234	.	C	T	3557	PASS	1218	0.168309	0	"1008,0,205,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20970C>T	p.Ala6990Ala	20970/21291	20970/21291	6990/7096	6990	7096		",T"	A6990A	C21234T	A6990A	ORF1AB:A6990A	2589	ORF1b	A2589A	ORF1B:A2589A	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	21255	.	G	C	4896	PASS	1292	0.184211	0	"1050,0,238,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	21295	.	G	T	4853	PASS	1419	0.17759	0	"1165,0,252,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21031G>T	p.Gly7011Cys	21031/21291	21031/21291	7011/7096	7011	7096		",T"	G7011C	G21295T	G7011C	ORF1AB:G7011C	2610	ORF1b	G2610C	ORF1B:G2610C	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	21469	.	A	AT	3988	PASS	1105	0.127602	0	"971,0,141,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21209dupT	p.Leu7070fs	21210/21291	21210/21291	7070/7096	7070	7096		"INFO_REALIGN_3_PRIME,AT"	del7070	A21469AT	del7070	ORF1AB:DEL7070	2669	ORF1b	del2669	ORF1B:DEL2669	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	21575	.	C	T	3453	PASS	1024	0.178711	0	"837,0,183,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	21855	.	C	T	1533	PASS	123	0.471545	0	"65,0,58,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	21979	.	A	AT	46	PASS	100	0.02	0	"99,0,2,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.422dupT	p.Leu141fs	423/3822	423/3822	141/1273	141	1273		"INFO_REALIGN_3_PRIME,AT"	del141	A21979AT	del141	S:DEL141	141	S	del141	S:DEL141	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	22227	.	C	T	437	PASS	58	0.344828	0	"38,0,20,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	22252	.	A	T	686	PASS	48	0.520833	0	"23,0,25,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.690A>T	p.Pro230Pro	690/3822	690/3822	230/1273	230	1273		",T"	P230P	A22252T	P230P	S:P230P	230	S	P230P	S:P230P	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	22879	.	C	A	249	PASS	75	0.186667	0	"61,0,14,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1317C>A	p.Asn439Lys	1317/3822	1317/3822	439/1273	439	1273		",A"	N439K	C22879A	N439K	S:N439K	439	S	N439K	S:N439K	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	23403	.	A	G	5155	PASS	151	1	2147483647	"0,0,151,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	23604	.	C	A	509	PASS	161	0.167702	0	"134,0,27,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	23948	.	G	T	175	PASS	128	0.101562	0	"115,0,13,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	24206	.	A	G	420	PASS	31	0.483871	0	"16,0,15,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2644A>G	p.Ile882Val	2644/3822	2644/3822	882/1273	882	1273		",G"	I882V	A24206G	I882V	S:I882V	882	S	I882V	S:I882V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	24517	.	CA	C	269	PASS	309	0.035599	0	"298,0,11,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2958delA	p.Val987fs	2958/3822	2958/3822	986/1273	986	1273		"INFO_REALIGN_3_PRIME,C"	del987	CA24517C	del987	S:DEL987	987	S	del987	S:DEL987	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	24910	.	T	C	884	PASS	450	0.131111	0	"389,0,59,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3348T>C	p.Thr1116Thr	3348/3822	3348/3822	1116/1273	1116	1273		",C"	T1116T	T24910C	T1116T	S:T1116T	1116	S	T1116T	S:T1116T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25047	.	C	G	1073	PASS	1056	0.078598	0	"968,0,83,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3485C>G	p.Pro1162Arg	3485/3822	3485/3822	1162/1273	1162	1273		",G"	P1162R	C25047G	P1162R	S:P1162R	1162	S	P1162R	S:P1162R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25296	.	A	C	86	PASS	801	0.036205	0	"754,0,29,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25301	.	T	G	109	PASS	811	0.039457	0	"776,0,32,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25312	.	T	G	94	PASS	847	0.034238	0	"816,0,29,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25314	.	G	T	67	PASS	848	0.03066	0	"818,0,26,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25324	.	C	A	397	PASS	868	0.074885	0	"802,0,65,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25336	.	A	C	139	PASS	853	0.051583	0	"801,0,44,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25505	.	A	G	4768	PASS	713	0.286115	0	"508,0,204,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25563	.	G	T	4993	PASS	733	0.278308	0	"527,0,204,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25660	.	G	C	1154	PASS	621	0.111111	0	"548,0,69,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.268G>C	p.Val90Leu	268/828	268/828	90/275	90	275		",C"	V90L	G25660C	V90L	ORF3A:V90L	90	ORF3a	V90L	ORF3A:V90L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25674	.	T	C	1910	PASS	560	0.173214	0	"461,0,97,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.282T>C	p.Leu94Leu	282/828	282/828	94/275	94	275		",C"	L94L	T25674C	L94L	ORF3A:L94L	94	ORF3a	L94L	ORF3A:L94L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25710	.	C	T	2337	PASS	395	0.240506	0	"299,0,95,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25906	.	G	C	1131	PASS	132	0.348485	0	"84,0,46,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	25996	.	G	T	1175	PASS	151	0.317881	0	"102,0,48,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	26408	.	C	T	1298	PASS	1791	0.061977	0	"1672,0,111,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.164C>T	p.Ser55Phe	164/228	164/228	55/75	55	75		",T"	S55F	C26408T	S55F	E:S55F	55	E	S55F	E:S55F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	26735	.	C	T	1068	PASS	1316	0.06307	0	"1231,0,83,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	26801	.	C	G	15845	PASS	1188	0.468013	0	"630,0,556,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	26876	.	T	C	683	PASS	581	0.082616	0	"533,0,48,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	26951	.	G	T	70	PASS	88	0.068182	0	"82,0,6,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	26972	.	T	C	86	PASS	97	0.082474	0	"88,0,8,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	27146	.	A	T	419	PASS	85	0.235294	0	"65,0,20,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.624A>T	p.Thr208Thr	624/669	624/669	208/222	208	222		",T"	T208T	A27146T	T208T	M:T208T	208	M	T208T	M:T208T	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	27384	.	T	C	4638	PASS	654	0.293578	0	"462,0,192,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.183T>C	p.Asp61Asp	183/186	183/186	61/61	61	61		",C"	D61D	T27384C	D61D	ORF6:D61D	61	ORF6	D61D	ORF6:D61D	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	27874	.	C	T	6075	PASS	871	0.289323	0	"617,0,252,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.119C>T	p.Thr40Ile	119/132	119/132	40/43	40	43		",T"	T40I	C27874T	T40I	ORF7B:T40I	40	ORF7b	T40I	ORF7B:T40I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	27881	.	C	T	367	PASS	832	0.042067	0	"794,0,35,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	27944	.	C	T	7432	PASS	822	0.352798	0	"529,0,290,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28045	.	C	T	3618	PASS	361	0.404432	0	"214,0,146,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28300	.	G	T	2445	PASS	404	0.25495	0	"301,0,103,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28378	.	G	T	4273	PASS	361	0.468144	0	"192,0,169,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28570	.	T	TA	7689	PASS	1771	0.150198	0	"1514,0,266,0"	TRUE	TA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.301dupA	p.Met101fs	302/1260	302/1260	101/419	101	419		"INFO_REALIGN_3_PRIME,TA"	del101	T28570TA	del101	N:DEL101	101	N	del101	N:DEL101	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28651	.	C	T	165	PASS	1899	0.016324	0	"1865,0,31,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28729	.	TA	T	68	PASS	2620	0.001908	0	"2615,0,5,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.458delA	p.Asn153fs	458/1260	458/1260	153/419	153	419		"INFO_REALIGN_3_PRIME,T"	del153	TA28729T	del153	N:DEL153	153	N	del153	N:DEL153	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28846	.	C	T	9387	PASS	2643	0.181612	0	"2152,0,480,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.573C>T	p.Arg191Arg	573/1260	573/1260	191/419	191	419		",T"	R191R	C28846T	R191R	N:R191R	191	N	R191R	N:R191R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28881	.	G	A	28849	PASS	2312	0.471886	0	"1213,0,1091,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28882	.	G	A	27281	PASS	2340	0.463675	0	"1243,0,1085,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28883	.	G	C	29973	PASS	2352	0.467262	0	"1249,0,1099,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28887	.	C	T	7431	PASS	2410	0.174689	0	"1987,0,421,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28924	.	T	C	150	PASS	2358	0.016539	0	"2308,0,39,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.651T>C	p.Ala217Ala	651/1260	651/1260	217/419	217	419		",C"	A217A	T28924C	A217A	N:A217A	217	N	A217A	N:A217A	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28932	.	C	T	18094	PASS	2445	0.319836	0	"1656,0,782,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28977	.	C	T	17187	PASS	2178	0.318641	0	"1480,0,694,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28978	.	T	A	16900	PASS	2178	0.320018	0	"1480,0,697,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	28987	.	CCAA	C	56	PASS	2098	0.001907	0	"2105,0,4,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET37-1	NC_045512.2	29164	.	T	C	2447	PASS	834	0.157074	0	"702,0,131,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.891T>C	p.Asp297Asp	891/1260	891/1260	297/419	297	419		",C"	D297D	T29164C	D297D	N:D297D	297	N	D297D	N:D297D	PET37-1	PETANGE	2020-12-06T00:00:00Z	31.3565	32.25333333	x	1022021	2020-12-06
PET38-1	NC_045512.2	204	.	G	T	7641	PASS	3270	0.125076	0	"2858,0,409,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	241	.	C	T	49314	PASS	3718	0.998386	2147483647	"0,0,3712,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	445	.	T	C	45706	PASS	4131	0.436698	0	"2309,0,1804,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	456	.	T	C	10074	PASS	4347	0.119163	0	"3822,0,518,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.191T>C	p.Leu64Pro	191/21291	191/21291	64/7096	64	7096		",C"	L64P	T456C	L64P	ORF1AB:L64P	64	ORF1a	L64P	ORF1A:L64P	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	593	.	C	T	26809	PASS	3628	0.297409	0	"2540,0,1079,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	673	.	C	T	8333	PASS	4713	0.098027	0	"4241,0,462,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.408C>T	p.Tyr136Tyr	408/21291	408/21291	136/7096	136	7096		",T"	Y136Y	C673T	Y136Y	ORF1AB:Y136Y	136	ORF1a	Y136Y	ORF1A:Y136Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	684	.	TA	T	10693	PASS	4782	0.081556	0	"4392,0,390,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.422delA	p.Lys141fs	422/21291	422/21291	141/7096	141	7096		"INFO_REALIGN_3_PRIME,T"	del141	TA684T	del141	ORF1AB:DEL141	141	ORF1a	del141	ORF1A:DEL141	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	802	.	A	C	181	PASS	4097	0.010251	0	"4041,0,42,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	840	.	GCC	G	3324	PASS	3798	0.036598	0	"3725,0,139,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.577_578delCC	p.Pro193fs	577/21291	577/21291	193/7096	193	7096		"INFO_REALIGN_3_PRIME,G"	del193	GCC840G	del193	ORF1AB:DEL193	193	ORF1a	del193	ORF1A:DEL193	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	847	.	T	G	15892	PASS	4041	0.198466	0	"3236,0,802,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>G	p.Asp194Glu	582/21291	582/21291	194/7096	194	7096		",G"	D194E	T847G	D194E	ORF1AB:D194E	194	ORF1a	D194E	ORF1A:D194E	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	851	.	T	C	148	PASS	3869	0.010597	0	"3818,0,41,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.586T>C	p.Tyr196His	586/21291	586/21291	196/7096	196	7096		",C"	Y196H	T851C	Y196H	ORF1AB:Y196H	196	ORF1a	Y196H	ORF1A:Y196H	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	875	.	C	A	15353	PASS	3859	0.19772	0	"3094,0,763,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	906	.	C	T	4707	PASS	3757	0.083843	0	"3434,0,315,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.641C>T	p.Thr214Ile	641/21291	641/21291	214/7096	214	7096		",T"	T214I	C906T	T214I	ORF1AB:T214I	214	ORF1a	T214I	ORF1A:T214I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	1306	.	G	A	3166	PASS	4366	0.055428	0	"4112,0,242,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1041G>A	p.Glu347Glu	1041/21291	1041/21291	347/7096	347	7096		",A"	E347E	G1306A	E347E	ORF1AB:E347E	347	ORF1a	E347E	ORF1A:E347E	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	1315	.	TA	T	57	PASS	4358	0.001147	0	"4351,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1053delA	p.Glu352fs	1053/21291	1053/21291	351/7096	351	7096		"INFO_REALIGN_3_PRIME,T"	del352	TA1315T	del352	ORF1AB:DEL352	352	ORF1a	del352	ORF1A:DEL352	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	1346	.	C	A	9312	PASS	4065	0.141205	0	"3483,0,574,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1081C>A	p.Pro361Thr	1081/21291	1081/21291	361/7096	361	7096		",A"	P361T	C1346A	P361T	ORF1AB:P361T	361	ORF1a	P361T	ORF1A:P361T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	2185	.	G	GT	56	PASS	49	0.040816	0	"48,0,2,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1923dupT	p.Leu642fs	1924/21291	1924/21291	642/7096	642	7096		"INFO_REALIGN_3_PRIME,GT"	del642	G2185GT	del642	ORF1AB:DEL642	642	ORF1a	del642	ORF1A:DEL642	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	2507	.	C	T	3296	PASS	1767	0.101868	0	"1584,0,180,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2242C>T	p.Pro748Ser	2242/21291	2242/21291	748/7096	748	7096		",T"	P748S	C2507T	P748S	ORF1AB:P748S	748	ORF1a	P748S	ORF1A:P748S	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	2977	.	A	G	5662	PASS	3284	0.103532	0	"2936,0,340,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2712A>G	p.Thr904Thr	2712/21291	2712/21291	904/7096	904	7096		",G"	T904T	A2977G	T904T	ORF1AB:T904T	904	ORF1a	T904T	ORF1A:T904T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3036	.	TC	T	75	PASS	2722	0.002572	0	"2727,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3037	.	C	T	49314	PASS	2766	0.996746	2147483647	"0,0,2757,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3096	.	C	T	286	PASS	2827	0.015564	0	"2777,0,44,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2831C>T	p.Ser944Leu	2831/21291	2831/21291	944/7096	944	7096		",T"	S944L	C3096T	S944L	ORF1AB:S944L	944	ORF1a	S944L	ORF1A:S944L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3575	.	G	GT	1408	PASS	503	0.101392	0	"456,0,51,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3314dupT	p.Leu1105fs	3315/21291	3315/21291	1105/7096	1105	7096		"INFO_REALIGN_3_PRIME,GT"	del1105	G3575GT	del1105	ORF1AB:DEL1105	1105	ORF1a	del1105	ORF1A:DEL1105	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3602	.	C	T	92	PASS	558	0.02509	0	"543,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3632	.	A	G	118	PASS	582	0.027491	0	"565,0,16,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3367A>G	p.Asn1123Asp	3367/21291	3367/21291	1123/7096	1123	7096		",G"	N1123D	A3632G	N1123D	ORF1AB:N1123D	1123	ORF1a	N1123D	ORF1A:N1123D	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3743	.	C	T	676	PASS	328	0.112805	0	"290,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3478C>T	p.His1160Tyr	3478/21291	3478/21291	1160/7096	1160	7096		",T"	H1160Y	C3743T	H1160Y	ORF1AB:H1160Y	1160	ORF1a	H1160Y	ORF1A:H1160Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3885	.	C	T	264	PASS	163	0.110429	0	"145,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3620C>T	p.Pro1207Leu	3620/21291	3620/21291	1207/7096	1207	7096		",T"	P1207L	C3885T	P1207L	ORF1AB:P1207L	1207	ORF1a	P1207L	ORF1A:P1207L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	3963	.	A	G	206	PASS	140	0.1	0	"126,0,14,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3698A>G	p.Lys1233Arg	3698/21291	3698/21291	1233/7096	1233	7096		",G"	K1233R	A3963G	K1233R	ORF1AB:K1233R	1233	ORF1a	K1233R	ORF1A:K1233R	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	4327	.	C	T	743	PASS	666	0.076577	0	"613,0,51,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4062C>T	p.Tyr1354Tyr	4062/21291	4062/21291	1354/7096	1354	7096		",T"	Y1354Y	C4327T	Y1354Y	ORF1AB:Y1354Y	1354	ORF1a	Y1354Y	ORF1A:Y1354Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	4423	.	CA	C	1668	PASS	852	0.076291	0	"787,0,65,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4161delA	p.Lys1387fs	4161/21291	4161/21291	1387/7096	1387	7096		"INFO_REALIGN_3_PRIME,C"	del1387	CA4423C	del1387	ORF1AB:DEL1387	1387	ORF1a	del1387	ORF1A:DEL1387	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	4457	.	A	G	302	PASS	836	0.035885	0	"805,0,30,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4192A>G	p.Ile1398Val	4192/21291	4192/21291	1398/7096	1398	7096		",G"	I1398V	A4457G	I1398V	ORF1AB:I1398V	1398	ORF1a	I1398V	ORF1A:I1398V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	4543	.	C	T	8207	PASS	834	0.382494	0	"513,0,319,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	4891	.	C	T	2659	PASS	2428	0.075371	0	"2237,0,183,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4626C>T	p.Thr1542Thr	4626/21291	4626/21291	1542/7096	1542	7096		",T"	T1542T	C4891T	T1542T	ORF1AB:T1542T	1542	ORF1a	T1542T	ORF1A:T1542T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	5012	.	G	T	5199	PASS	3422	0.094389	0	"3097,0,323,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4747G>T	p.Val1583Phe	4747/21291	4747/21291	1583/7096	1583	7096		",T"	V1583F	G5012T	V1583F	ORF1AB:V1583F	1583	ORF1a	V1583F	ORF1A:V1583F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	5082	.	A	G	5220	PASS	3775	0.08053	0	"3466,0,304,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4817A>G	p.Lys1606Arg	4817/21291	4817/21291	1606/7096	1606	7096		",G"	K1606R	A5082G	K1606R	ORF1AB:K1606R	1606	ORF1a	K1606R	ORF1A:K1606R	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	5170	.	C	T	4134	PASS	3816	0.074948	0	"3523,0,286,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4905C>T	p.Tyr1635Tyr	4905/21291	4905/21291	1635/7096	1635	7096		",T"	Y1635Y	C5170T	Y1635Y	ORF1AB:Y1635Y	1635	ORF1a	Y1635Y	ORF1A:Y1635Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	5224	.	TA	T	67	PASS	3555	0.001688	0	"3549,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4964delA	p.Lys1655fs	4964/21291	4964/21291	1655/7096	1655	7096		"INFO_REALIGN_3_PRIME,T"	del1655	TA5224T	del1655	ORF1AB:DEL1655	1655	ORF1a	del1655	ORF1A:DEL1655	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	5629	.	G	T	12989	PASS	1393	0.356066	0	"895,0,496,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	5884	.	C	T	98	PASS	1291	0.012393	0	"1273,0,16,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	5907	.	C	T	2006	PASS	1200	0.098333	0	"1081,0,118,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5642C>T	p.Thr1881Ile	5642/21291	5642/21291	1881/7096	1881	7096		",T"	T1881I	C5907T	T1881I	ORF1AB:T1881I	1881	ORF1a	T1881I	ORF1A:T1881I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	6286	.	C	T	8663	PASS	1261	0.286281	0	"899,0,361,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	6555	.	C	T	3927	PASS	1726	0.128621	0	"1498,0,222,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	6582	.	C	T	678	PASS	1665	0.038438	0	"1600,0,64,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6317C>T	p.Thr2106Ile	6317/21291	6317/21291	2106/7096	2106	7096		",T"	T2106I	C6582T	T2106I	ORF1AB:T2106I	2106	ORF1a	T2106I	ORF1A:T2106I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	6668	.	TG	T	723	PASS	1286	0.024106	0	"1261,0,31,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6406delG	p.Asp2136fs	6406/21291	6406/21291	2136/7096	2136	7096		"INFO_REALIGN_3_PRIME,T"	del2136	TG6668T	del2136	ORF1AB:DEL2136	2136	ORF1a	del2136	ORF1A:DEL2136	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	6696	.	C	CT	3666	PASS	1149	0.112272	0	"1020,0,129,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	6941	.	C	T	4755	PASS	1818	0.139714	0	"1556,0,254,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	7114	.	T	C	415	PASS	1253	0.031923	0	"1207,0,40,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6849T>C	p.Thr2283Thr	6849/21291	6849/21291	2283/7096	2283	7096		",C"	T2283T	T7114C	T2283T	ORF1AB:T2283T	2283	ORF1a	T2283T	ORF1A:T2283T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	7390	.	C	T	1095	PASS	659	0.119879	0	"579,0,79,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7125C>T	p.Ala2375Ala	7125/21291	7125/21291	2375/7096	2375	7096		",T"	A2375A	C7390T	A2375A	ORF1AB:A2375A	2375	ORF1a	A2375A	ORF1A:A2375A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	7767	.	T	C	4407	PASS	1305	0.157088	0	"1100,0,205,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7502T>C	p.Ile2501Thr	7502/21291	7502/21291	2501/7096	2501	7096		",C"	I2501T	T7767C	I2501T	ORF1AB:I2501T	2501	ORF1a	I2501T	ORF1A:I2501T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	8047	.	C	T	7506	PASS	1803	0.193012	0	"1451,0,348,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7782C>T	p.Tyr2594Tyr	7782/21291	7782/21291	2594/7096	2594	7096		",T"	Y2594Y	C8047T	Y2594Y	ORF1AB:Y2594Y	2594	ORF1a	Y2594Y	ORF1A:Y2594Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	8274	.	G	T	193	PASS	1436	0.018802	0	"1406,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8009G>T	p.Cys2670Phe	8009/21291	8009/21291	2670/7096	2670	7096		",T"	C2670F	G8274T	C2670F	ORF1AB:C2670F	2670	ORF1a	C2670F	ORF1A:C2670F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	8638	.	A	G	618	PASS	209	0.167464	0	"173,0,35,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8373A>G	p.Thr2791Thr	8373/21291	8373/21291	2791/7096	2791	7096		",G"	T2791T	A8638G	T2791T	ORF1AB:T2791T	2791	ORF1a	T2791T	ORF1A:T2791T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	9199	.	T	C	3276	PASS	1050	0.152381	0	"888,0,160,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8934T>C	p.Thr2978Thr	8934/21291	8934/21291	2978/7096	2978	7096		",C"	T2978T	T9199C	T2978T	ORF1AB:T2978T	2978	ORF1a	T2978T	ORF1A:T2978T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	9344	.	C	T	1144	PASS	1454	0.060523	0	"1364,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9079C>T	p.Leu3027Phe	9079/21291	9079/21291	3027/7096	3027	7096		",T"	L3027F	C9344T	L3027F	ORF1AB:L3027F	3027	ORF1a	L3027F	ORF1A:L3027F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	9349	.	T	A	2094	PASS	1555	0.108039	0	"1382,0,168,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9084T>A	p.Thr3028Thr	9084/21291	9084/21291	3028/7096	3028	7096		",A"	T3028T	T9349A	T3028T	ORF1AB:T3028T	3028	ORF1a	T3028T	ORF1A:T3028T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	9502	.	C	CT	9161	PASS	1709	0.178467	0	"1402,0,305,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9240dupT	p.Asn3081fs	9241/21291	9241/21291	3081/7096	3081	7096		"INFO_REALIGN_3_PRIME,CT"	del3081	C9502CT	del3081	ORF1AB:DEL3081	3081	ORF1a	del3081	ORF1A:DEL3081	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	9502	.	C	T	70	PASS	1709	0.014628	0	"1680,0,25,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9237C>T	p.Ala3079Ala	9237/21291	9237/21291	3079/7096	3079	7096		",T"	A3079A	C9502T	A3079A	ORF1AB:A3079A	3079	ORF1a	A3079A	ORF1A:A3079A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	9526	.	G	T	30872	PASS	1974	0.556231	0	"870,0,1098,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	9554	.	G	T	102	PASS	1886	0.011135	0	"1864,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9289G>T	p.Val3097Phe	9289/21291	9289/21291	3097/7096	3097	7096		",T"	V3097F	G9554T	V3097F	ORF1AB:V3097F	3097	ORF1a	V3097F	ORF1A:V3097F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	10059	.	GT	G	48	PASS	2783	0.001437	0	"2796,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9798delT	p.Phe3266fs	9798/21291	9798/21291	3266/7096	3266	7096		"INFO_REALIGN_3_PRIME,G"	del3266	GT10059G	del3266	ORF1AB:DEL3266	3266	ORF1a	del3266	ORF1A:DEL3266	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	10277	.	C	T	11226	PASS	3644	0.158617	0	"3057,0,578,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10012C>T	p.Leu3338Phe	10012/21291	10012/21291	3338/7096	3338	7096		",T"	L3338F	C10277T	L3338F	ORF1AB:L3338F	3338	ORF1a	L3338F	ORF1A:L3338F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	10456	.	C	T	11898	PASS	3187	0.180107	0	"2605,0,574,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10191C>T	p.Phe3397Phe	10191/21291	10191/21291	3397/7096	3397	7096		",T"	F3397F	C10456T	F3397F	ORF1AB:F3397F	3397	ORF1a	F3397F	ORF1A:F3397F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	10615	.	C	T	4489	PASS	2220	0.117568	0	"1951,0,261,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10350C>T	p.Asp3450Asp	10350/21291	10350/21291	3450/7096	3450	7096		",T"	D3450D	C10615T	D3450D	ORF1AB:D3450D	3450	ORF1a	D3450D	ORF1A:D3450D	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	11082	.	TG	T	77	PASS	2752	0.00218	0	"2752,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	11083	.	G	T	3496	PASS	2757	0.094305	0	"2488,0,260,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	11132	.	G	T	2098	PASS	2849	0.058617	0	"2681,0,167,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10867G>T	p.Ala3623Ser	10867/21291	10867/21291	3623/7096	3623	7096		",T"	A3623S	G11132T	A3623S	ORF1AB:A3623S	3623	ORF1a	A3623S	ORF1A:A3623S	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	11167	.	A	T	6275	PASS	2353	0.136847	0	"2030,0,322,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10902A>T	p.Ala3634Ala	10902/21291	10902/21291	3634/7096	3634	7096		",T"	A3634A	A11167T	A3634A	ORF1AB:A3634A	3634	ORF1a	A3634A	ORF1A:A3634A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	11497	.	C	T	20036	PASS	2932	0.280696	0	"2102,0,823,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	12174	.	A	G	3244	PASS	1049	0.145853	0	"895,0,153,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11909A>G	p.Asn3970Ser	11909/21291	11909/21291	3970/7096	3970	7096		",G"	N3970S	A12174G	N3970S	ORF1AB:N3970S	3970	ORF1a	N3970S	ORF1A:N3970S	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	12287	.	G	T	4289	PASS	2261	0.108801	0	"2013,0,246,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12022G>T	p.Ala4008Ser	12022/21291	12022/21291	4008/7096	4008	7096		",T"	A4008S	G12287T	A4008S	ORF1AB:A4008S	4008	ORF1a	A4008S	ORF1A:A4008S	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	12312	.	C	T	3746	PASS	2047	0.110405	0	"1815,0,226,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12047C>T	p.Ala4016Val	12047/21291	12047/21291	4016/7096	4016	7096		",T"	A4016V	C12312T	A4016V	ORF1AB:A4016V	4016	ORF1a	A4016V	ORF1A:A4016V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	12333	.	CA	C	6928	PASS	1923	0.125845	0	"1681,0,242,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12072delA	p.Val4025fs	12072/21291	12072/21291	4024/7096	4024	7096		"INFO_REALIGN_3_PRIME,C"	del4025	CA12333C	del4025	ORF1AB:DEL4025	4025	ORF1a	del4025	ORF1A:DEL4025	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	12655	.	T	C	6499	PASS	3756	0.112886	0	"3321,0,424,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12390T>C	p.Ala4130Ala	12390/21291	12390/21291	4130/7096	4130	7096		",C"	A4130A	T12655C	A4130A	ORF1AB:A4130A	4130	ORF1a	A4130A	ORF1A:A4130A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	12695	.	CT	C	48	PASS	3446	0.001161	0	"3443,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12432delT	p.Ser4145fs	12432/21291	12432/21291	4144/7096	4144	7096		"INFO_REALIGN_3_PRIME,C"	del4145	CT12695C	del4145	ORF1AB:DEL4145	4145	ORF1a	del4145	ORF1A:DEL4145	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	12988	.	G	T	480	PASS	4057	0.020212	0	"3970,0,82,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	13123	.	TG	T	58	PASS	5063	0.001185	0	"5134,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	13246	.	T	C	344	PASS	4883	0.020684	0	"4753,0,101,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12981T>C	p.Cys4327Cys	12981/21291	12981/21291	4327/7096	4327	7096		",C"	C4327C	T13246C	C4327C	ORF1AB:C4327C	4327	ORF1a	C4327C	ORF1A:C4327C	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	13263	.	A	G	526	PASS	4905	0.020183	0	"4793,0,99,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12998A>G	p.His4333Arg	12998/21291	12998/21291	4333/7096	4333	7096		",G"	H4333R	A13263G	H4333R	ORF1AB:H4333R	4333	ORF1a	H4333R	ORF1A:H4333R	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	13696	.	AT	A	50	PASS	3090	0.001294	0	"3100,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13435delT	p.Tyr4479fs	13435/21291	13435/21291	4479/7096	4479	7096		"INFO_REALIGN_3_PRIME,A"	del4479	AT13696A	del4479	ORF1AB:DEL4479	78	ORF1b	del78	ORF1B:DEL78	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	13914	.	TA	T	53	PASS	3416	0.001464	0	"3417,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13655delA	p.Lys4552fs	13655/21291	13655/21291	4552/7096	4552	7096		"INFO_REALIGN_3_PRIME,T"	del4552	TA13914T	del4552	ORF1AB:DEL4552	151	ORF1b	del151	ORF1B:DEL151	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	13933	.	T	C	8124	PASS	3093	0.141933	0	"2643,0,439,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13669T>C	p.Phe4557Leu	13669/21291	13669/21291	4557/7096	4557	7096		",C"	F4557L	T13933C	F4557L	ORF1AB:F4557L	156	ORF1b	F156L	ORF1B:F156L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	14322	.	C	T	577	PASS	127	0.204724	0	"101,0,26,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14058C>T	p.Tyr4686Tyr	14058/21291	14058/21291	4686/7096	4686	7096		",T"	Y4686Y	C14322T	Y4686Y	ORF1AB:Y4686Y	285	ORF1b	Y285Y	ORF1B:Y285Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	14408	.	C	T	3686	PASS	108	0.990741	2147483647	"0,0,107,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	15318	.	GC	G	3069	PASS	1679	0.07028	0	"1610,0,118,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15056delC	p.Pro5019fs	15056/21291	15056/21291	5019/7096	5019	7096		"INFO_REALIGN_3_PRIME,G"	del5019	GC15318G	del5019	ORF1AB:DEL5019	618	ORF1b	del618	ORF1B:DEL618	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	15324	.	C	T	8866	PASS	1682	0.238407	0	"1277,0,401,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	15550	.	G	GT	4224	PASS	1446	0.105809	0	"1302,0,153,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15288dupT	p.Asn5097fs	15289/21291	15289/21291	5097/7096	5097	7096		"INFO_REALIGN_3_PRIME,GT"	del5097	G15550GT	del5097	ORF1AB:DEL5097	696	ORF1b	del696	ORF1B:DEL696	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	15579	.	C	T	7805	PASS	1377	0.237473	0	"1049,0,327,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	15766	.	G	T	4124	PASS	1216	0.159539	0	"1022,0,194,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	16044	.	A	T	172	PASS	102	0.127451	0	"89,0,13,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15780A>T	p.Pro5260Pro	15780/21291	15780/21291	5260/7096	5260	7096		",T"	P5260P	A16044T	P5260P	ORF1AB:P5260P	859	ORF1b	P859P	ORF1B:P859P	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	16501	.	GT	G	63	PASS	4007	0.001497	0	"4022,0,6,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16242delT	p.Phe5414fs	16242/21291	16242/21291	5414/7096	5414	7096		"INFO_REALIGN_3_PRIME,G"	del5414	GT16501G	del5414	ORF1AB:DEL5414	1013	ORF1b	del1013	ORF1B:DEL1013	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	16889	.	A	G	12459	PASS	4395	0.140387	0	"3769,0,617,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	16904	.	ATTATT	A	75	PASS	4108	0.001461	0	"4147,0,6,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16643_16647delATTTT	p.Tyr5548fs	16643/21291	16643/21291	5548/7096	5548	7096		"INFO_REALIGN_3_PRIME,A"	del5548	ATTATT16904A	del5548	ORF1AB:DEL5548	1147	ORF1b	del1147	ORF1B:DEL1147	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	16912	.	G	T	3012	PASS	4096	0.055176	0	"3870,0,226,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	17019	.	G	T	6553	PASS	2412	0.138889	0	"2077,0,335,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	17059	.	CA	C	4258	PASS	1795	0.088022	0	"1637,0,158,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799delA	p.Lys5600fs	16799/21291	16799/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,C"	del5600	CA17059C	del5600	ORF1AB:DEL5600	1199	ORF1b	del1199	ORF1B:DEL1199	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	17178	.	T	G	3139	PASS	245	0.481633	0	"127,0,118,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16914T>G	p.Val5638Val	16914/21291	16914/21291	5638/7096	5638	7096		",G"	V5638V	T17178G	V5638V	ORF1AB:V5638V	1237	ORF1b	V1237V	ORF1B:V1237V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	18060	.	CT	C	49	PASS	2692	0.001486	0	"2688,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17799delT	p.Phe5933fs	17799/21291	17799/21291	5933/7096	5933	7096		"INFO_REALIGN_3_PRIME,C"	del5933	CT18060C	del5933	ORF1AB:DEL5933	1532	ORF1b	del1532	ORF1B:DEL1532	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	18322	.	C	T	86	PASS	793	0.018916	0	"776,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18058C>T	p.His6020Tyr	18058/21291	18058/21291	6020/7096	6020	7096		",T"	H6020Y	C18322T	H6020Y	ORF1AB:H6020Y	1619	ORF1b	H1619Y	ORF1B:H1619Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	18683	.	C	T	2552	PASS	2058	0.08309	0	"1884,0,171,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18419C>T	p.Thr6140Ile	18419/21291	18419/21291	6140/7096	6140	7096		",T"	T6140I	C18683T	T6140I	ORF1AB:T6140I	1739	ORF1b	T1739I	ORF1B:T1739I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	18877	.	C	T	29103	PASS	3438	0.330425	0	"2292,0,1136,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	19170	.	C	T	9872	PASS	4278	0.126928	0	"3727,0,543,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18906C>T	p.Phe6302Phe	18906/21291	18906/21291	6302/7096	6302	7096		",T"	F6302F	C19170T	F6302F	ORF1AB:F6302F	1901	ORF1b	F1901F	ORF1B:F1901F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	19211	.	G	T	8011	PASS	4037	0.111469	0	"3585,0,450,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18947G>T	p.Arg6316Ile	18947/21291	18947/21291	6316/7096	6316	7096		",T"	R6316I	G19211T	R6316I	ORF1AB:R6316I	1915	ORF1b	R1915I	ORF1B:R1915I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	19348	.	G	GT	5770	PASS	3496	0.062643	0	"3301,0,219,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19086dupT	p.Asn6363fs	19087/21291	19087/21291	6363/7096	6363	7096		"INFO_REALIGN_3_PRIME,GT"	del6363	G19348GT	del6363	ORF1AB:DEL6363	1962	ORF1b	del1962	ORF1B:DEL1962	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	20509	.	T	G	4860	PASS	2263	0.118869	0	"1990,0,269,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20245T>G	p.Leu6749Val	20245/21291	20245/21291	6749/7096	6749	7096		",G"	L6749V	T20509G	L6749V	ORF1AB:L6749V	2348	ORF1b	L2348V	ORF1B:L2348V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	20562	.	T	C	4848	PASS	2848	0.111306	0	"2526,0,317,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20298T>C	p.Val6766Val	20298/21291	20298/21291	6766/7096	6766	7096		",C"	V6766V	T20562C	V6766V	ORF1AB:V6766V	2365	ORF1b	V2365V	ORF1B:V2365V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	21222	.	A	T	10493	PASS	2340	0.204274	0	"1859,0,478,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	21255	.	G	C	13101	PASS	2767	0.21142	0	"2174,0,585,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	21358	.	A	G	76	PASS	3100	0.007419	0	"3069,0,23,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21094A>G	p.Thr7032Ala	21094/21291	21094/21291	7032/7096	7032	7096		",G"	T7032A	A21358G	T7032A	ORF1AB:T7032A	2631	ORF1b	T2631A	ORF1B:T2631A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	22227	.	C	T	73	PASS	25	0.2	0	"20,0,5,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	22583	.	G	GT	54	PASS	43	0.046512	0	"41,0,2,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1026dupT	p.Asn343fs	1027/3822	1027/3822	343/1273	343	1273		"INFO_REALIGN_3_PRIME,GT"	del343	G22583GT	del343	S:DEL343	343	S	del343	S:DEL343	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	22594	.	C	T	121	PASS	56	0.125	0	"49,0,7,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1032C>T	p.Ala344Ala	1032/3822	1032/3822	344/1273	344	1273		",T"	A344A	C22594T	A344A	S:A344A	344	S	A344A	S:A344A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	23191	.	C	T	444	PASS	342	0.084795	0	"313,0,29,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1629C>T	p.Phe543Phe	1629/3822	1629/3822	543/1273	543	1273		",T"	F543F	C23191T	F543F	S:F543F	543	S	F543F	S:F543F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	23368	.	A	G	87	PASS	645	0.017054	0	"634,0,11,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1806A>G	p.Thr602Thr	1806/3822	1806/3822	602/1273	602	1273		",G"	T602T	A23368G	T602T	S:T602T	602	S	T602T	S:T602T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	23403	.	A	G	24292	PASS	725	0.994483	2147483647	"0,0,721,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	23604	.	C	A	2218	PASS	770	0.149351	0	"655,0,115,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	23948	.	G	T	795	PASS	497	0.094567	0	"450,0,47,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	23958	.	G	GT	955	PASS	446	0.08296	0	"421,0,37,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2400dupT	p.Asn801fs	2401/3822	2401/3822	801/1273	801	1273		"INFO_REALIGN_3_PRIME,GT"	del801	G23958GT	del801	S:DEL801	801	S	del801	S:DEL801	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	24567	.	A	G	479	PASS	1459	0.030843	0	"1411,0,45,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3005A>G	p.Gln1002Arg	3005/3822	3005/3822	1002/1273	1002	1273		",G"	Q1002R	A24567G	Q1002R	S:Q1002R	1002	S	Q1002R	S:Q1002R	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	24769	.	T	G	6742	PASS	2063	0.165293	0	"1716,0,341,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3207T>G	p.Pro1069Pro	3207/3822	3207/3822	1069/1273	1069	1273		",G"	P1069P	T24769G	P1069P	S:P1069P	1069	S	P1069P	S:P1069P	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	24885	.	AT	A	8817	PASS	2169	0.145228	0	"1859,0,315,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3328delT	p.Tyr1110fs	3328/3822	3328/3822	1110/1273	1110	1273		"INFO_REALIGN_3_PRIME,A"	del1110	AT24885A	del1110	S:DEL1110	1110	S	del1110	S:DEL1110	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25026	.	A	AT	4830	PASS	2582	0.071263	0	"2403,0,184,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3468dupT	p.Lys1157fs	3469/3822	3469/3822	1157/1273	1157	1273		"INFO_REALIGN_3_PRIME,AT"	del1157	A25026AT	del1157	S:DEL1157	1157	S	del1157	S:DEL1157	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25049	.	G	T	1165	PASS	3181	0.035209	0	"3069,0,112,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3487G>T	p.Asp1163Tyr	3487/3822	3487/3822	1163/1273	1163	1273		",T"	D1163Y	G25049T	D1163Y	S:D1163Y	1163	S	D1163Y	S:D1163Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25225	.	A	C	89	PASS	2507	0.015158	0	"2456,0,38,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25240	.	C	A	142	PASS	2609	0.021081	0	"2550,0,55,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25247	.	A	T	82	PASS	2736	0.017544	0	"2682,0,48,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25254	.	C	A	104	PASS	2863	0.017115	0	"2810,0,49,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25256	.	A	T	81	PASS	2874	0.014962	0	"2831,0,43,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3694A>T	p.Ile1232Phe	3694/3822	3694/3822	1232/1273	1232	1273		",T"	I1232F	A25256T	I1232F	S:I1232F	1232	S	I1232F	S:I1232F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25269	.	G	T	91	PASS	2796	0.013591	0	"2753,0,38,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3707G>T	p.Cys1236Phe	3707/3822	3707/3822	1236/1273	1236	1273		",T"	C1236F	G25269T	C1236F	S:C1236F	1236	S	C1236F	S:C1236F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25272	.	TG	T	11549	PASS	2788	0.159254	0	"2375,0,444,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711delG	p.Met1237fs	3711/3822	3711/3822	1237/1273	1237	1273		",T"	del1237	TG25272T	del1237	S:DEL1237	1237	S	del1237	S:DEL1237	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25277	.	A	T	142	PASS	2775	0.025225	0	"2665,0,70,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25280	.	T	G	90	PASS	2784	0.019756	0	"2724,0,55,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25286	.	A	T	118	PASS	2833	0.025415	0	"2719,0,72,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25289	.	T	G	84	PASS	2778	0.020158	0	"2715,0,56,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25296	.	A	C	385	PASS	2816	0.044744	0	"2631,0,126,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25301	.	T	G	174	PASS	2782	0.029475	0	"2695,0,82,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25304	.	T	G	81	PASS	2849	0.020007	0	"2789,0,57,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3742T>G	p.Cys1248Gly	3742/3822	3742/3822	1248/1273	1248	1273		",G"	C1248G	T25304G	C1248G	S:C1248G	1248	S	C1248G	S:C1248G	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25305	.	G	T	71	PASS	2880	0.013542	0	"2838,0,39,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3743G>T	p.Cys1248Phe	3743/3822	3743/3822	1248/1273	1248	1273		",T"	C1248F	G25305T	C1248F	S:C1248F	1248	S	C1248F	S:C1248F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25312	.	T	G	207	PASS	2901	0.02999	0	"2809,0,87,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25314	.	G	T	110	PASS	2894	0.024534	0	"2805,0,71,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25324	.	C	A	1345	PASS	2934	0.076005	0	"2709,0,223,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25327	.	A	T	156	PASS	2912	0.026099	0	"2835,0,76,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25331	.	G	T	121	PASS	2875	0.029565	0	"2763,0,85,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25336	.	A	C	502	PASS	2891	0.055344	0	"2710,0,160,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25505	.	A	G	1212	PASS	2245	0.051225	0	"2123,0,115,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25563	.	G	T	10039	PASS	2084	0.212092	0	"1642,0,442,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25710	.	C	T	5065	PASS	1152	0.19184	0	"931,0,221,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25728	.	C	T	2105	PASS	985	0.111675	0	"873,0,110,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.336C>T	p.Val112Val	336/828	336/828	112/275	112	275		",T"	V112V	C25728T	V112V	ORF3A:V112V	112	ORF3a	V112V	ORF3A:V112V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25906	.	G	C	1833	PASS	533	0.17636	0	"438,0,94,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	25996	.	G	T	2527	PASS	582	0.202749	0	"462,0,118,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26038	.	T	C	996	PASS	515	0.106796	0	"460,0,55,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26062	.	G	T	192	PASS	520	0.040385	0	"499,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26159	.	T	C	2672	PASS	2211	0.081863	0	"2025,0,181,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.767T>C	p.Val256Ala	767/828	767/828	256/275	256	275		",C"	V256A	T26159C	V256A	ORF3A:V256A	256	ORF3a	V256A	ORF3A:V256A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26226	.	A	G	15593	PASS	3281	0.22036	0	"2550,0,723,0"	FALSE	G	upstream_gene_variant	MODIFIER	E	GU280_gp04	transcript	GU280_gp04	protein_coding		c.-19A>G						NA	19	",G"		A26226G		NA	NA	E		NA	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26340	.	C	T	5687	PASS	4196	0.092946	0	"3793,0,390,0"	FALSE	T	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.96C>T	p.Ala32Ala	96/228	96/228	32/75	32	75		",T"	A32A	C26340T	A32A	E:A32A	32	E	A32A	E:A32A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26430	.	TA	T	14595	PASS	5356	0.102128	0	"4842,0,547,0"	TRUE	T	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.191delA	p.Asn64fs	191/228	191/228	64/75	64	75		"INFO_REALIGN_3_PRIME,T"	del64	TA26430T	del64	E:DEL64	64	E	del64	E:DEL64	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26600	.	C	T	9529	PASS	4753	0.111719	0	"4215,0,531,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26609	.	T	C	21016	PASS	4567	0.205605	0	"3622,0,939,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.87T>C	p.Leu29Leu	87/669	87/669	29/222	29	222		",C"	L29L	T26609C	L29L	M:L29L	29	M	L29L	M:L29L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26735	.	C	T	250	PASS	3841	0.013017	0	"3779,0,50,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26801	.	C	G	45408	PASS	3320	0.475904	0	"1734,0,1580,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	26876	.	T	C	391	PASS	1701	0.027043	0	"1650,0,46,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	27146	.	A	T	1589	PASS	684	0.131579	0	"594,0,90,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.624A>T	p.Thr208Thr	624/669	624/669	208/222	208	222		",T"	T208T	A27146T	T208T	M:T208T	208	M	T208T	M:T208T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	27288	.	T	C	1149	PASS	2177	0.040423	0	"2082,0,88,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.87T>C	p.Leu29Leu	87/186	87/186	29/61	29	61		",C"	L29L	T27288C	L29L	ORF6:L29L	29	ORF6	L29L	ORF6:L29L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	27576	.	T	C	23657	PASS	4047	0.253274	0	"3011,0,1025,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.183T>C	p.Thr61Thr	183/366	183/366	61/121	61	121		",C"	T61T	T27576C	T61T	ORF7A:T61T	61	ORF7a	T61T	ORF7A:T61T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	27707	.	C	T	14953	PASS	4266	0.182607	0	"3477,0,779,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	27734	.	T	C	189	PASS	4092	0.013685	0	"4021,0,56,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.341T>C	p.Phe114Ser	341/366	341/366	114/121	114	121		",C"	F114S	T27734C	F114S	ORF7A:F114S	114	ORF7a	F114S	ORF7A:F114S	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	27881	.	C	T	240	PASS	3667	0.01309	0	"3611,0,48,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	27944	.	C	T	22909	PASS	3405	0.278708	0	"2435,0,949,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	27970	.	C	A	6028	PASS	2948	0.107531	0	"2630,0,317,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28045	.	C	T	413	PASS	1740	0.027586	0	"1691,0,48,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28133	.	A	T	5361	PASS	1839	0.141925	0	"1576,0,261,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28160	.	T	C	5044	PASS	1810	0.149171	0	"1537,0,270,0"	FALSE	C	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.267T>C	p.Asn89Asn	267/366	267/366	89/121	89	121		",C"	N89N	T28160C	N89N	ORF8:N89N	89	ORF8	N89N	ORF8:N89N	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28254	.	A	C	71	PASS	1864	0.011266	0	"1841,0,21,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28270	.	TAA	T	2863	PASS	2137	0.068788	0	"1990,0,147,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3_-2delAA						NA	3	",T"	del	TAA28270T	del	N:DEL	NA	N	del	N:DEL	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28280	.	G	C	1658	PASS	2077	0.070294	0	"1917,0,146,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28281	.	A	T	1861	PASS	2101	0.070919	0	"1951,0,149,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28282	.	T	A	1772	PASS	2118	0.073654	0	"1961,0,156,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28292	.	C	CA	4228	PASS	2135	0.075878	0	"1972,0,162,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.23dupA	p.Asn8fs	24/1260	24/1260	8/419	8	419		"INFO_REALIGN_3_PRIME,CA"	del8	C28292CA	del8	N:DEL8	8	N	del8	N:DEL8	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28300	.	G	T	2735	PASS	2130	0.089202	0	"1935,0,190,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28378	.	G	T	16710	PASS	2267	0.315836	0	"1549,0,716,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28384	.	A	T	1270	PASS	2212	0.052893	0	"2092,0,117,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28472	.	C	T	864	PASS	3354	0.033691	0	"3222,0,113,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.199C>T	p.Pro67Ser	199/1260	199/1260	67/419	67	419		",T"	P67S	C28472T	P67S	N:P67S	67	N	P67S	N:P67S	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28651	.	C	T	587	PASS	4286	0.020065	0	"4190,0,86,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28672	.	T	A	3886	PASS	4797	0.072337	0	"4438,0,347,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.399T>A	p.Val133Val	399/1260	399/1260	133/419	133	419		",A"	V133V	T28672A	V133V	N:V133V	133	N	V133V	N:V133V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28846	.	C	T	15753	PASS	6378	0.134995	0	"5492,0,861,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.573C>T	p.Arg191Arg	573/1260	573/1260	191/419	191	419		",T"	R191R	C28846T	R191R	N:R191R	191	N	R191R	N:R191R	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28855	.	A	C	25090	PASS	6283	0.189082	0	"5081,0,1188,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28887	.	C	T	25976	PASS	6055	0.205946	0	"4793,0,1247,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28932	.	C	T	49314	PASS	6119	0.444517	0	"3388,0,2720,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28943	.	C	T	6134	PASS	5875	0.074723	0	"5420,0,439,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.670C>T	p.Leu224Phe	670/1260	670/1260	224/419	224	419		",T"	L224F	C28943T	L224F	N:L224F	224	N	L224F	N:L224F	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28975	.	G	C	49314	PASS	5712	0.344713	0	"3736,0,1969,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET38-1	NC_045512.2	28987	.	CCAA	C	357	PASS	5283	0.004164	0	"5289,0,22,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	PET38-1	PETANGE	2020-12-13T00:00:00Z	31.453	34.09666667	x	1022021	2020-12-13
PET42-1	NC_045512.2	241	.	C	T	49314	PASS	2847	0.998244	0	"1,0,2842,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	335	.	C	T	49314	PASS	2828	0.997171	0	"2,0,2820,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	431	.	G	A	14492	PASS	3103	0.212053	0	"2437,0,658,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.166G>A	p.Val56Ile	166/21291	166/21291	56/7096	56	7096		",A"	V56I	G431A	V56I	ORF1AB:V56I	56	ORF1a	V56I	ORF1A:V56I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	434	.	GA	G	21342	PASS	3124	0.228233	0	"2432,0,713,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	802	.	A	C	175	PASS	2472	0.01335	0	"2428,0,33,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	925	.	C	T	12469	PASS	2141	0.259692	0	"1577,0,556,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.660C>T	p.Asp220Asp	660/21291	660/21291	220/7096	220	7096		",T"	D220D	C925T	D220D	ORF1AB:D220D	220	ORF1a	D220D	ORF1A:D220D	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	1277	.	A	T	2900	PASS	2897	0.070418	0	"2692,0,204,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1012A>T	p.Lys338*	1012/21291	1012/21291	338/7096	338	7096		",T"	K338*	A1277T	K338*	ORF1AB:K338*	338	ORF1a	K338*	ORF1A:K338*	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	1723	.	T	C	8377	PASS	3462	0.138359	0	"2977,0,479,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1458T>C	p.Ala486Ala	1458/21291	1458/21291	486/7096	486	7096		",C"	A486A	T1723C	A486A	ORF1AB:A486A	486	ORF1a	A486A	ORF1A:A486A	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	1982	.	A	T	2951	PASS	1714	0.110268	0	"1525,0,189,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1717A>T	p.Ile573Phe	1717/21291	1717/21291	573/7096	573	7096		",T"	I573F	A1982T	I573F	ORF1AB:I573F	573	ORF1a	I573F	ORF1A:I573F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	2386	.	A	G	570	PASS	257	0.132296	0	"223,0,34,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2121A>G	p.Glu707Glu	2121/21291	2121/21291	707/7096	707	7096		",G"	E707E	A2386G	E707E	ORF1AB:E707E	707	ORF1a	E707E	ORF1A:E707E	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	2565	.	A	G	2096	PASS	1549	0.100065	0	"1389,0,155,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2300A>G	p.Glu767Gly	2300/21291	2300/21291	767/7096	767	7096		",G"	E767G	A2565G	E767G	ORF1AB:E767G	767	ORF1a	E767G	ORF1A:E767G	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	3037	.	C	T	49314	PASS	2322	0.995693	2147483647	"0,0,2312,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	3149	.	T	G	268	PASS	1442	0.023578	0	"1406,0,34,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2884T>G	p.Phe962Val	2884/21291	2884/21291	962/7096	962	7096		",G"	F962V	T3149G	F962V	ORF1AB:F962V	962	ORF1a	F962V	ORF1A:F962V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	3264	.	C	T	810	PASS	249	0.156627	0	"210,0,39,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2999C>T	p.Thr1000Ile	2999/21291	2999/21291	1000/7096	1000	7096		",T"	T1000I	C3264T	T1000I	ORF1AB:T1000I	1000	ORF1a	T1000I	ORF1A:T1000I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	3602	.	C	T	1546	PASS	251	0.262948	0	"185,0,66,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	3619	.	C	T	1334	PASS	254	0.244094	0	"192,0,62,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3354C>T	p.Val1118Val	3354/21291	3354/21291	1118/7096	1118	7096		",T"	V1118V	C3619T	V1118V	ORF1AB:V1118V	1118	ORF1a	V1118V	ORF1A:V1118V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	3671	.	G	GA	249	PASS	254	0.03937	0	"245,0,10,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3410dupA	p.Asn1137fs	3411/21291	3411/21291	1137/7096	1137	7096		"INFO_REALIGN_3_PRIME,GA"	del1137	G3671GA	del1137	ORF1AB:DEL1137	1137	ORF1a	del1137	ORF1A:DEL1137	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	4040	.	A	G	2778	PASS	130	0.7	0	"38,0,91,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	4543	.	C	T	7183	PASS	489	0.521472	0	"232,0,255,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	4732	.	T	C	706	PASS	956	0.063808	0	"895,0,61,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4467T>C	p.Tyr1489Tyr	4467/21291	4467/21291	1489/7096	1489	7096		",C"	Y1489Y	T4732C	Y1489Y	ORF1AB:Y1489Y	1489	ORF1a	Y1489Y	ORF1A:Y1489Y	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	4798	.	TA	T	5276	PASS	1318	0.136571	0	"1141,0,180,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4536delA	p.Asp1513fs	4536/21291	4536/21291	1512/7096	1512	7096		"INFO_REALIGN_3_PRIME,T"	del1513	TA4798T	del1513	ORF1AB:DEL1513	1513	ORF1a	del1513	ORF1A:DEL1513	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	5012	.	G	T	7327	PASS	1788	0.194072	0	"1439,0,347,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4747G>T	p.Val1583Phe	4747/21291	4747/21291	1583/7096	1583	7096		",T"	V1583F	G5012T	V1583F	ORF1AB:V1583F	1583	ORF1a	V1583F	ORF1A:V1583F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	5187	.	G	GT	11221	PASS	1821	0.205382	0	"1449,0,374,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4926dupT	p.Leu1643fs	4927/21291	4927/21291	1643/7096	1643	7096		"INFO_REALIGN_3_PRIME,GT"	del1643	G5187GT	del1643	ORF1AB:DEL1643	1643	ORF1a	del1643	ORF1A:DEL1643	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	5240	.	C	T	8602	PASS	1928	0.213693	0	"1508,0,412,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4975C>T	p.Pro1659Ser	4975/21291	4975/21291	1659/7096	1659	7096		",T"	P1659S	C5240T	P1659S	ORF1AB:P1659S	1659	ORF1a	P1659S	ORF1A:P1659S	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	5497	.	CA	C	3988	PASS	1540	0.094156	0	"1395,0,145,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5236delA	p.Arg1746fs	5236/21291	5236/21291	1746/7096	1746	7096		"INFO_REALIGN_3_PRIME,C"	del1746	CA5497C	del1746	ORF1AB:DEL1746	1746	ORF1a	del1746	ORF1A:DEL1746	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	5629	.	G	T	18732	PASS	1426	0.472651	0	"749,0,674,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	6518	.	A	G	1134	PASS	1038	0.075145	0	"958,0,78,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6253A>G	p.Lys2085Glu	6253/21291	6253/21291	2085/7096	2085	7096		",G"	K2085E	A6518G	K2085E	ORF1AB:K2085E	2085	ORF1a	K2085E	ORF1A:K2085E	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	6582	.	C	T	9010	PASS	1348	0.274481	0	"976,0,370,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6317C>T	p.Thr2106Ile	6317/21291	6317/21291	2106/7096	2106	7096		",T"	T2106I	C6582T	T2106I	ORF1AB:T2106I	2106	ORF1a	T2106I	ORF1A:T2106I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	6696	.	C	CT	6010	PASS	1385	0.149458	0	"1177,0,207,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	6701	.	C	T	94	PASS	1425	0.01614	0	"1400,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	6941	.	C	T	32874	PASS	2232	0.523297	0	"1060,0,1168,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	7006	.	C	T	15925	PASS	1926	0.341121	0	"1260,0,657,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6741C>T	p.Thr2247Thr	6741/21291	6741/21291	2247/7096	2247	7096		",T"	T2247T	C7006T	T2247T	ORF1AB:T2247T	2247	ORF1a	T2247T	ORF1A:T2247T	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	8299	.	CA	C	1060	PASS	1179	0.036472	0	"1136,0,43,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8037delA	p.Val2680fs	8037/21291	8037/21291	2679/7096	2679	7096		"INFO_REALIGN_3_PRIME,C"	del2680	CA8299C	del2680	ORF1AB:DEL2680	2680	ORF1a	del2680	ORF1A:DEL2680	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	8339	.	A	T	516	PASS	851	0.049354	0	"809,0,42,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8074A>T	p.Ile2692Phe	8074/21291	8074/21291	2692/7096	2692	7096		",T"	I2692F	A8339T	I2692F	ORF1AB:I2692F	2692	ORF1a	I2692F	ORF1A:I2692F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	8983	.	T	G	131	PASS	800	0.02125	0	"780,0,17,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	9026	.	A	AT	3644	PASS	867	0.152249	0	"734,0,132,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8766dupT	p.Lys2923fs	8767/21291	8767/21291	2923/7096	2923	7096		"INFO_REALIGN_3_PRIME,AT"	del2923	A9026AT	del2923	ORF1AB:DEL2923	2923	ORF1a	del2923	ORF1A:DEL2923	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	9526	.	G	T	27781	PASS	2695	0.40705	0	"1594,0,1097,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	9778	.	C	CT	13417	PASS	3055	0.148281	0	"2601,0,453,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9516dupT	p.Ser3173fs	9517/21291	9517/21291	3173/7096	3173	7096		"INFO_REALIGN_3_PRIME,CT"	del3173	C9778CT	del3173	ORF1AB:DEL3173	3173	ORF1a	del3173	ORF1A:DEL3173	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	10085	.	G	C	931	PASS	2211	0.047942	0	"2093,0,106,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9820G>C	p.Gly3274Arg	9820/21291	9820/21291	3274/7096	3274	7096		",C"	G3274R	G10085C	G3274R	ORF1AB:G3274R	3274	ORF1a	G3274R	ORF1A:G3274R	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	10803	.	T	C	1737	PASS	1223	0.094849	0	"1101,0,116,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10538T>C	p.Leu3513Pro	10538/21291	10538/21291	3513/7096	3513	7096		",C"	L3513P	T10803C	L3513P	ORF1AB:L3513P	3513	ORF1a	L3513P	ORF1A:L3513P	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	11095	.	C	CT	7378	PASS	2927	0.094978	0	"2649,0,278,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835dupT	p.Leu3612fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,CT"	del3612	C11095CT	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	11484	.	T	C	6515	PASS	2960	0.130068	0	"2564,0,385,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11219T>C	p.Val3740Ala	11219/21291	11219/21291	3740/7096	3740	7096		",C"	V3740A	T11484C	V3740A	ORF1AB:V3740A	3740	ORF1a	V3740A	ORF1A:V3740A	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	11497	.	C	T	49314	PASS	2924	0.621751	0	"1099,0,1818,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	11674	.	CT	C	57	PASS	1954	0.002047	0	"1950,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11412delT	p.Phe3804fs	11412/21291	11412/21291	3804/7096	3804	7096		"INFO_REALIGN_3_PRIME,C"	del3804	CT11674C	del3804	ORF1AB:DEL3804	3804	ORF1a	del3804	ORF1A:DEL3804	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	12297	.	A	C	4714	PASS	1432	0.160615	0	"1199,0,230,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12032A>C	p.Gln4011Pro	12032/21291	12032/21291	4011/7096	4011	7096		",C"	Q4011P	A12297C	Q4011P	ORF1AB:Q4011P	4011	ORF1a	Q4011P	ORF1A:Q4011P	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	12806	.	G	T	4365	PASS	2847	0.094837	0	"2570,0,270,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12541G>T	p.Val4181Leu	12541/21291	12541/21291	4181/7096	4181	7096		",T"	V4181L	G12806T	V4181L	ORF1AB:V4181L	4181	ORF1a	V4181L	ORF1A:V4181L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	13118	.	G	A	49314	PASS	3760	0.497074	0	"1873,0,1869,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12853G>A	p.Ala4285Thr	12853/21291	12853/21291	4285/7096	4285	7096		",A"	A4285T	G13118A	A4285T	ORF1AB:A4285T	4285	ORF1a	A4285T	ORF1A:A4285T	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	13571	.	G	GT	6066	PASS	1967	0.113371	0	"1763,0,223,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13311dupT	p.Ala4438fs	13312/21291	13312/21291	4438/7096	4438	7096		"INFO_REALIGN_3_PRIME,GT"	del4438	G13571GT	del4438	ORF1AB:DEL4438	37	ORF1b	del37	ORF1B:DEL37	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	13993	.	G	T	27094	PASS	1904	0.511555	0	"929,0,974,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	13995	.	TTTG	T	13054	PASS	1899	0.221169	0	"1479,0,420,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13734_13736delGTT	p.Leu4579del	13734/21291	13734/21291	4578/7096	4578	7096		"INFO_REALIGN_3_PRIME,T"	del4579	TTTG13995T	del4579	ORF1AB:DEL4579	178	ORF1b	del178	ORF1B:DEL178	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	14408	.	C	T	2255	PASS	64	1	2147483647	"0,0,64,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	14549	.	A	G	3265	PASS	603	0.237148	0	"458,0,143,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14285A>G	p.Glu4762Gly	14285/21291	14285/21291	4762/7096	4762	7096		",G"	E4762G	A14549G	E4762G	ORF1AB:E4762G	361	ORF1b	E361G	ORF1B:E361G	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	14688	.	CA	C	13429	PASS	1787	0.247342	0	"1345,0,442,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14427delA	p.Asp4810fs	14427/21291	14427/21291	4809/7096	4809	7096		"INFO_REALIGN_3_PRIME,C"	del4810	CA14688C	del4810	ORF1AB:DEL4810	409	ORF1b	del409	ORF1B:DEL409	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	15324	.	C	T	31429	PASS	1522	0.676084	0	"490,0,1029,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	15766	.	G	T	7739	PASS	1243	0.26066	0	"917,0,324,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	15907	.	G	A	186	PASS	379	0.05277	0	"358,0,20,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15643G>A	p.Gly5215Ser	15643/21291	15643/21291	5215/7096	5215	7096		",A"	G5215S	G15907A	G5215S	ORF1AB:G5215S	814	ORF1b	G814S	ORF1B:G814S	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	16320	.	A	C	4377	PASS	2104	0.115494	0	"1857,0,243,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16056A>C	p.Lys5352Asn	16056/21291	16056/21291	5352/7096	5352	7096		",C"	K5352N	A16320C	K5352N	ORF1AB:K5352N	951	ORF1b	K951N	ORF1B:K951N	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	16630	.	C	CT	10713	PASS	4811	0.084806	0	"4402,0,408,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16371dupT	p.Ala5458fs	16372/21291	16372/21291	5458/7096	5458	7096		"INFO_REALIGN_3_PRIME,CT"	del5458	C16630CT	del5458	ORF1AB:DEL5458	1057	ORF1b	del1057	ORF1B:DEL1057	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	16824	.	A	G	6121	PASS	4497	0.092284	0	"4074,0,415,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16560A>G	p.Gly5520Gly	16560/21291	16560/21291	5520/7096	5520	7096		",G"	G5520G	A16824G	G5520G	ORF1AB:G5520G	1119	ORF1b	G1119G	ORF1B:G1119G	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	16827	.	G	C	5842	PASS	4415	0.084711	0	"4038,0,374,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16563G>C	p.Glu5521Asp	16563/21291	16563/21291	5521/7096	5521	7096		",C"	E5521D	G16827C	E5521D	ORF1AB:E5521D	1120	ORF1b	E1120D	ORF1B:E1120D	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	16889	.	A	G	29204	PASS	3763	0.30667	0	"2600,0,1154,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	17019	.	G	T	13938	PASS	1977	0.285787	0	"1410,0,565,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	17162	.	G	T	308	PASS	190	0.110526	0	"167,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16898G>T	p.Cys5633Phe	16898/21291	16898/21291	5633/7096	5633	7096		",T"	C5633F	G17162T	C5633F	ORF1AB:C5633F	1232	ORF1b	C1232F	ORF1B:C1232F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	17178	.	T	G	302	PASS	211	0.094787	0	"191,0,20,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16914T>G	p.Val5638Val	16914/21291	16914/21291	5638/7096	5638	7096		",G"	V5638V	T17178G	V5638V	ORF1AB:V5638V	1237	ORF1b	V1237V	ORF1B:V1237V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	17304	.	C	T	2461	PASS	217	0.451613	0	"118,0,98,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17040C>T	p.Val5680Val	17040/21291	17040/21291	5680/7096	5680	7096		",T"	V5680V	C17304T	V5680V	ORF1AB:V5680V	1279	ORF1b	V1279V	ORF1B:V1279V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	18087	.	TG	T	268	PASS	3101	0.00516	0	"3085,0,16,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17826delG	p.Leu5943fs	17826/21291	17826/21291	5942/7096	5942	7096		"INFO_REALIGN_3_PRIME,T"	del5943	TG18087T	del5943	ORF1AB:DEL5943	1542	ORF1b	del1542	ORF1B:DEL1542	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	18648	.	TG	T	1243	PASS	1130	0.046018	0	"1078,0,52,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18385delG	p.Glu6129fs	18385/21291	18385/21291	6129/7096	6129	7096		",T"	del6129	TG18648T	del6129	ORF1AB:DEL6129	1728	ORF1b	del1728	ORF1B:DEL1728	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	18877	.	C	T	49314	PASS	2672	0.693114	0	"816,0,1852,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	19119	.	T	G	70	PASS	3476	0.007768	0	"3443,0,27,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18855T>G	p.Ala6285Ala	18855/21291	18855/21291	6285/7096	6285	7096		",G"	A6285A	T19119G	A6285A	ORF1AB:A6285A	1884	ORF1b	A1884A	ORF1B:A1884A	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	19164	.	C	T	24725	PASS	3394	0.295521	0	"2387,0,1003,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18900C>T	p.Asp6300Asp	18900/21291	18900/21291	6300/7096	6300	7096		",T"	D6300D	C19164T	D6300D	ORF1AB:D6300D	1899	ORF1b	D1899D	ORF1B:D1899D	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	19241	.	T	C	2383	PASS	3039	0.059559	0	"2854,0,181,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18977T>C	p.Phe6326Ser	18977/21291	18977/21291	6326/7096	6326	7096		",C"	F6326S	T19241C	F6326S	ORF1AB:F6326S	1925	ORF1b	F1925S	ORF1B:F1925S	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	19524	.	C	T	47223	PASS	2493	0.626955	0	"924,0,1563,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	20362	.	T	C	1662	PASS	540	0.153704	0	"456,0,83,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20098T>C	p.Leu6700Leu	20098/21291	20098/21291	6700/7096	6700	7096		",C"	L6700L	T20362C	L6700L	ORF1AB:L6700L	2299	ORF1b	L2299L	ORF1B:L2299L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	21133	.	CA	C	3364	PASS	947	0.122492	0	"835,0,116,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20873delA	p.Lys6958fs	20873/21291	20873/21291	6958/7096	6958	7096		"INFO_REALIGN_3_PRIME,C"	del6958	CA21133C	del6958	ORF1AB:DEL6958	2557	ORF1b	del2557	ORF1B:DEL2557	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	21565	.	G	C	1510	PASS	1014	0.09073	0	"922,0,92,0"	FALSE	C	start_lost	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3G>C	p.Met1?	3/3822	3/3822	1/1273	1	1273		",C"	startorstoploss	G21565C	NA	NA	NA	S	NA	NA	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	21855	.	C	T	18166	PASS	1747	0.388666	0	"1065,0,679,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	22120	.	CA	C	4116	PASS	1430	0.105594	0	"1279,0,151,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.563delA	p.Asn188fs	563/3822	563/3822	188/1273	188	1273		"INFO_REALIGN_3_PRIME,C"	del188	CA22120C	del188	S:DEL188	188	S	del188	S:DEL188	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	22218	.	GT	G	64	PASS	825	0.004848	0	"856,0,4,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.661delT	p.Ser221fs	661/3822	661/3822	221/1273	221	1273		"INFO_REALIGN_3_PRIME,G"	del221	GT22218G	del221	S:DEL221	221	S	del221	S:DEL221	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	22227	.	C	T	989	PASS	755	0.092715	0	"682,0,70,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	22785	.	G	A	4383	PASS	593	0.3086	0	"406,0,183,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1223G>A	p.Arg408Lys	1223/3822	1223/3822	408/1273	408	1273		",A"	R408K	G22785A	R408K	S:R408K	408	S	R408K	S:R408K	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	22860	.	TTATAGCTTGGAATTC	T	1255	PASS	651	0.073733	0	"606,0,48,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1301_1315delTAGCTTGGAATTCTA	p.Ile434_Ser438del	1301/3822	1301/3822	434/1273	434	1273		"INFO_REALIGN_3_PRIME,T"	del434/438	TTATAGCTTGGAATTC22860T	del434/438	S:DEL434/438	434/438	S	del434/438	S:DEL434/438	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	22992	.	G	A	9020	PASS	852	0.40493	0	"506,0,345,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	23403	.	A	G	17863	PASS	521	1	2147483647	"0,0,521,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	23427	.	T	C	2836	PASS	410	0.297561	0	"287,0,122,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1865T>C	p.Val622Ala	1865/3822	1865/3822	622/1273	622	1273		",C"	V622A	T23427C	V622A	S:V622A	622	S	V622A	S:V622A	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	23770	.	A	G	2539	PASS	394	0.281726	0	"283,0,111,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2208A>G	p.Val736Val	2208/3822	2208/3822	736/1273	736	1273		",G"	V736V	A23770G	V736V	S:V736V	736	S	V736V	S:V736V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	23853	.	A	G	400	PASS	535	0.085981	0	"487,0,46,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2291A>G	p.Asn764Ser	2291/3822	2291/3822	764/1273	764	1273		",G"	N764S	A23853G	N764S	S:N764S	764	S	N764S	S:N764S	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	24035	.	A	T	674	PASS	312	0.121795	0	"274,0,38,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2473A>T	p.Lys825*	2473/3822	2473/3822	825/1273	825	1273		",T"	K825*	A24035T	K825*	S:K825*	825	S	K825*	S:K825*	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	24119	.	CA	C	1131	PASS	437	0.093822	0	"396,0,41,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2561delA	p.Lys854fs	2561/3822	2561/3822	854/1273	854	1273		"INFO_REALIGN_3_PRIME,C"	del854	CA24119C	del854	S:DEL854	854	S	del854	S:DEL854	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	24358	.	C	A	564	PASS	601	0.066556	0	"561,0,40,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2796C>A	p.Gly932Gly	2796/3822	2796/3822	932/1273	932	1273		",A"	G932G	C24358A	G932G	S:G932G	932	S	G932G	S:G932G	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	24816	.	GA	G	9272	PASS	1170	0.259829	0	"867,0,304,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3258delA	p.Ala1087fs	3258/3822	3258/3822	1086/1273	1086	1273		"INFO_REALIGN_3_PRIME,G"	del1087	GA24816G	del1087	S:DEL1087	1087	S	del1087	S:DEL1087	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25254	.	C	A	139	PASS	2150	0.021395	0	"2101,0,46,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25271	.	A	T	72	PASS	2085	0.014388	0	"2052,0,30,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3709A>T	p.Met1237Leu	3709/3822	3709/3822	1237/1273	1237	1273		",T"	M1237L	A25271T	M1237L	S:M1237L	1237	S	M1237L	S:M1237L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25276	.	C	T	17965	PASS	2081	0.3753	0	"1283,0,781,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3714C>T	p.Thr1238Thr	3714/3822	3714/3822	1238/1273	1238	1273		",T"	T1238T	C25276T	T1238T	S:T1238T	1238	S	T1238T	S:T1238T	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25277	.	A	T	124	PASS	2097	0.025751	0	"2025,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25286	.	A	T	112	PASS	2099	0.026203	0	"2017,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25289	.	T	G	78	PASS	2065	0.020823	0	"2018,0,43,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25296	.	A	C	144	PASS	2096	0.030534	0	"1999,0,64,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25301	.	T	G	123	PASS	2058	0.027211	0	"2000,0,56,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25312	.	T	G	203	PASS	2108	0.033681	0	"2032,0,71,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25314	.	G	T	94	PASS	2139	0.023843	0	"2085,0,51,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25317	.	C	T	18267	PASS	2153	0.387831	0	"1291,0,835,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25324	.	C	A	940	PASS	2135	0.073068	0	"1978,0,156,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25327	.	A	T	75	PASS	2116	0.020794	0	"2071,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25331	.	G	T	108	PASS	2109	0.029398	0	"2037,0,62,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25336	.	A	C	220	PASS	2113	0.041647	0	"2008,0,88,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25505	.	A	G	22821	PASS	1671	0.489527	0	"848,0,818,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25563	.	G	T	16407	PASS	1609	0.385332	0	"987,0,620,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25710	.	C	T	11726	PASS	916	0.456332	0	"497,0,418,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25844	.	C	T	515	PASS	306	0.104575	0	"274,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.452C>T	p.Thr151Ile	452/828	452/828	151/275	151	275		",T"	T151I	C25844T	T151I	ORF3A:T151I	151	ORF3a	T151I	ORF3A:T151I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25906	.	G	C	3750	PASS	323	0.427245	0	"185,0,138,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	25996	.	G	T	3647	PASS	355	0.402817	0	"212,0,143,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	26177	.	C	CA	5206	PASS	2589	0.075319	0	"2393,0,195,0"	TRUE	CA	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.787dupA	p.Ile263fs	788/828	788/828	263/275	263	275		"INFO_REALIGN_3_PRIME,CA"	del263	C26177CA	del263	ORF3A:DEL263	263	ORF3a	del263	ORF3A:DEL263	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	26257	.	G	GT	7827	PASS	3395	0.082769	0	"3170,0,281,0"	TRUE	GT	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.16dupT	p.Ser6fs	17/228	17/228	6/75	6	75		"INFO_REALIGN_3_PRIME,GT"	del6	G26257GT	del6	E:DEL6	6	E	del6	E:DEL6	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	26501	.	G	GT	195	PASS	5838	0.002398	0	"5824,0,14,0"	TRUE	GT	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-22_-21insT						NA	21	",GT"	del	G26501GT	del	M:DEL	NA	M	del	M:DEL	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	26512	.	T	C	219	PASS	5867	0.01159	0	"5791,0,68,0"	FALSE	C	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-11T>C						NA	11	",C"		T26512C		NA	NA	M		NA	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	26729	.	TG	T	267	PASS	4283	0.004203	0	"4265,0,18,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.208delG	p.Val70fs	208/669	208/669	70/222	70	222		",T"	del70	TG26729T	del70	M:DEL70	70	M	del70	M:DEL70	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	26735	.	C	T	49314	PASS	4332	0.430517	0	"2462,0,1865,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	26801	.	C	G	5022	PASS	3431	0.087147	0	"3127,0,299,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	26876	.	T	C	17318	PASS	1660	0.401807	0	"993,0,667,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	27118	.	A	G	77	PASS	368	0.021739	0	"360,0,8,0"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.596A>G	p.Tyr199Cys	596/669	596/669	199/222	199	222		",G"	Y199C	A27118G	Y199C	M:Y199C	199	M	Y199C	M:Y199C	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	27382	.	GATTA	G	5813	PASS	3274	0.070861	0	"3087,0,232,0"	TRUE	G	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.170_173delTTAA	p.Pro57fs	170/186	170/186	57/61	57	61		"INFO_REALIGN_3_PRIME,G"	del57	GATTA27382G	del57	ORF6:DEL57	57	ORF6	del57	ORF6:DEL57	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	27434	.	C	T	2489	PASS	3256	0.060504	0	"3053,0,197,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	27707	.	C	T	4613	PASS	4999	0.072214	0	"4622,0,361,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	27709	.	G	T	3129	PASS	5060	0.053953	0	"4780,0,273,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.316G>T	p.Ala106Ser	316/366	316/366	106/121	106	121		",T"	A106S	G27709T	A106S	ORF7A:A106S	106	ORF7a	A106S	ORF7A:A106S	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	27716	.	TG	T	8530	PASS	4867	0.073762	0	"4575,0,359,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.324delG	p.Phe109fs	324/366	324/366	108/121	108	121		",T"	del109	TG27716T	del109	ORF7A:DEL109	109	ORF7a	del109	ORF7A:DEL109	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	27797	.	A	G	201	PASS	4149	0.0094	0	"4101,0,39,0"	FALSE	G	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.42A>G	p.Leu14Leu	42/132	42/132	14/43	14	43		",G"	L14L	A27797G	L14L	ORF7B:L14L	14	ORF7b	L14L	ORF7B:L14L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	27944	.	C	T	6783	PASS	3156	0.119455	0	"2776,0,377,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28464	.	T	A	87	PASS	2141	0.010276	0	"2117,0,22,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.191T>A	p.Leu64His	191/1260	191/1260	64/419	64	419		",A"	L64H	T28464A	L64H	N:L64H	64	N	L64H	N:L64H	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28582	.	T	G	1521	PASS	3545	0.046827	0	"3373,0,166,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.309T>G	p.Asp103Glu	309/1260	309/1260	103/419	103	419		",G"	D103E	T28582G	D103E	N:D103E	103	N	D103E	N:D103E	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28651	.	C	T	49314	PASS	4440	0.464865	0	"2368,0,2064,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28669	.	G	T	3786	PASS	4881	0.067609	0	"4548,0,330,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.396G>T	p.Trp132Cys	396/1260	396/1260	132/419	132	419		",T"	W132C	G28669T	W132C	N:W132C	132	N	W132C	N:W132C	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28776	.	CA	C	156	PASS	7015	0.001853	0	"7002,0,13,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28812	.	G	T	4288	PASS	7028	0.049659	0	"6676,0,349,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.539G>T	p.Ser180Ile	539/1260	539/1260	180/419	180	419		",T"	S180I	G28812T	S180I	N:S180I	180	N	S180I	N:S180I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28854	.	CA	C	9587	PASS	6751	0.055695	0	"6375,0,376,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.583delA	p.Arg195fs	583/1260	583/1260	195/419	195	419		"INFO_REALIGN_3_PRIME,C"	del195	CA28854C	del195	N:DEL195	195	N	del195	N:DEL195	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28869	.	C	T	49314	PASS	6681	0.458165	0	"3610,0,3061,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28881	.	G	A	1653	PASS	6480	0.031327	0	"6256,0,203,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28882	.	G	A	1394	PASS	6533	0.030767	0	"6316,0,201,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28883	.	G	C	1556	PASS	6531	0.031695	0	"6307,0,207,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28887	.	C	T	12661	PASS	6400	0.117188	0	"5642,0,750,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28932	.	C	T	4346	PASS	6484	0.056138	0	"6111,0,364,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28975	.	G	C	49314	PASS	6209	0.337574	0	"4105,0,2096,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28977	.	C	T	2467	PASS	6034	0.036626	0	"5801,0,221,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28978	.	T	A	2386	PASS	6041	0.037411	0	"5805,0,226,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	28987	.	CCAA	C	329	PASS	5681	0.003697	0	"5696,0,21,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	29051	.	C	CA	8948	PASS	5153	0.069086	0	"4795,0,356,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET42-1	NC_045512.2	29147	.	A	G	1924	PASS	2720	0.063235	0	"2539,0,172,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.874A>G	p.Ile292Val	874/1260	874/1260	292/419	292	419		",G"	I292V	A29147G	I292V	N:I292V	292	N	I292V	N:I292V	PET42-1	PETANGE	2021-01-11T00:00:00Z	31.47625	34.46333333	x	1022021	2021-01-11
PET47-2	NC_045512.2	61	.	G	A	1056	PASS	135	0.296296	0	"91,4,38,2"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>A						NA	205	",A"		G61A		NA	NA	NA		NA	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	241	.	C	T	13394	PASS	378	1	0	"0,0,289,89"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	335	.	C	T	2290	PASS	339	0.268437	0	"137,111,50,41"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	685	.	AAAGTCATTT	A	2045	PASS	405	0.175309	20	"139,219,16,55"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.421_429delAAGTCATTT	p.Lys141_Phe143del	421/21291	421/21291	141/7096	141	7096		",A"	del141/143	AAAGTCATTT685A	del141/143	ORF1AB:DEL141/143	141/143	ORF1a	del141/143	ORF1A:DEL141/143	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	686	.	A	G	82	PASS	405	0.019753	3	"136,190,2,6"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.421A>G	p.Lys141Glu	421/21291	421/21291	141/7096	141	7096		",G"	K141E	A686G	K141E	ORF1AB:K141E	141	ORF1a	K141E	ORF1A:K141E	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	847	.	T	C	1561	PASS	337	0.204748	3	"87,181,19,50"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>C	p.Asp194Asp	582/21291	582/21291	194/7096	194	7096		",C"	D194D	T847C	D194D	ORF1AB:D194D	194	ORF1a	D194D	ORF1A:D194D	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	913	.	C	T	2795	PASS	149	0.597315	1	"45,15,64,25"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	1059	.	C	T	1081	PASS	206	0.223301	4	"92,68,30,16"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.794C>T	p.Thr265Ile	794/21291	794/21291	265/7096	265	7096		",T"	T265I	C1059T	T265I	ORF1AB:T265I	265	ORF1a	T265I	ORF1A:T265I	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	1274	.	G	A	702	PASS	424	0.087264	75	"276,111,9,28"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1009G>A	p.Val337Ile	1009/21291	1009/21291	337/7096	337	7096		",A"	V337I	G1274A	V337I	ORF1AB:V337I	337	ORF1a	V337I	ORF1A:V337I	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	1406	.	G	T	400	PASS	452	0.061947	32	"202,222,4,24"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1141G>T	p.Glu381*	1141/21291	1141/21291	381/7096	381	7096		",T"	E381*	G1406T	E381*	ORF1AB:E381*	381	ORF1a	E381*	ORF1A:E381*	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	3037	.	C	T	4365	PASS	121	1	0	"0,0,36,85"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	3267	.	C	T	206	PASS	12	0.583333	6	"5,0,4,3"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	4977	.	T	C	283	PASS	55	0.236364	7	"26,16,11,2"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4712T>C	p.Phe1571Ser	4712/21291	4712/21291	1571/7096	1571	7096		",C"	F1571S	T4977C	F1571S	ORF1AB:F1571S	1571	ORF1a	F1571S	ORF1A:F1571S	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	5178	.	C	T	204	PASS	59	0.152542	0	"25,25,5,4"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4913C>T	p.Thr1638Ile	4913/21291	4913/21291	1638/7096	1638	7096		",T"	T1638I	C5178T	T1638I	ORF1AB:T1638I	1638	ORF1a	T1638I	ORF1A:T1638I	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	5353	.	A	G	176	PASS	42	0.190476	7	"10,24,0,8"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5088A>G	p.Gln1696Gln	5088/21291	5088/21291	1696/7096	1696	7096		",G"	Q1696Q	A5353G	Q1696Q	ORF1AB:Q1696Q	1696	ORF1a	Q1696Q	ORF1A:Q1696Q	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	5388	.	C	A	401	PASS	40	0.4	5	"9,15,3,13"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	5884	.	C	T	434	PASS	80	0.225	0	"61,1,18,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	5986	.	C	T	1838	PASS	196	0.346939	12	"117,11,67,1"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5721C>T	p.Phe1907Phe	5721/21291	5721/21291	1907/7096	1907	7096		",T"	F1907F	C5986T	F1907F	ORF1AB:F1907F	1907	ORF1a	F1907F	ORF1A:F1907F	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	6392	.	G	A	1681	PASS	193	0.331606	5	"65,63,38,26"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6127G>A	p.Asp2043Asn	6127/21291	6127/21291	2043/7096	2043	7096		",A"	D2043N	G6392A	D2043N	ORF1AB:D2043N	2043	ORF1a	D2043N	ORF1A:D2043N	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	6954	.	T	C	74	PASS	15	0.2	0	"4,8,1,2"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	7019	.	G	A	81	PASS	18	0.166667	13	"4,11,3,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6754G>A	p.Val2252Ile	6754/21291	6754/21291	2252/7096	2252	7096		",A"	V2252I	G7019A	V2252I	ORF1AB:V2252I	2252	ORF1a	V2252I	ORF1A:V2252I	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	7020	.	T	C	72	PASS	18	0.166667	13	"4,11,3,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6755T>C	p.Val2252Ala	6755/21291	6755/21291	2252/7096	2252	7096		",C"	V2252A	T7020C	V2252A	ORF1AB:V2252A	2252	ORF1a	V2252A	ORF1A:V2252A	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	7162	.	C	T	283	PASS	45	0.244444	0	"26,8,8,3"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6897C>T	p.Asp2299Asp	6897/21291	6897/21291	2299/7096	2299	7096		",T"	D2299D	C7162T	D2299D	ORF1AB:D2299D	2299	ORF1a	D2299D	ORF1A:D2299D	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	7529	.	GA	G	262	PASS	29	0.275862	0	"8,13,3,5"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7266delA	p.Glu2422fs	7266/21291	7266/21291	2422/7096	2422	7096		"INFO_REALIGN_3_PRIME,G"	del2422	GA7529G	del2422	ORF1AB:DEL2422	2422	ORF1a	del2422	ORF1A:DEL2422	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	7595	.	T	C	110	PASS	67	0.104478	15	"44,16,2,5"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7330T>C	p.Phe2444Leu	7330/21291	7330/21291	2444/7096	2444	7096		",C"	F2444L	T7595C	F2444L	ORF1AB:F2444L	2444	ORF1a	F2444L	ORF1A:F2444L	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	8019	.	A	T	398	PASS	72	0.25	3	"29,25,12,6"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7754A>T	p.Glu2585Val	7754/21291	7754/21291	2585/7096	2585	7096		",T"	E2585V	A8019T	E2585V	ORF1AB:E2585V	2585	ORF1a	E2585V	ORF1A:E2585V	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	11067	.	C	CT	1217	PASS	35	0.885714	10	"3,1,8,23"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10805dupT	p.Leu3602fs	10806/21291	10806/21291	3602/7096	3602	7096		"INFO_REALIGN_3_PRIME,CT"	del3602	C11067CT	del3602	ORF1AB:DEL3602	3602	ORF1a	del3602	ORF1A:DEL3602	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	13569	.	TGG	T	2171	PASS	280	0.242857	21	"165,47,63,5"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13306_13307delGG	p.Gly4436fs	13306/21291	13306/21291	4436/7096	4436	7096		",T"	del4436	TGG13569T	del4436	ORF1AB:DEL4436	35	ORF1b	del35	ORF1B:DEL35	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	13694	.	C	T	1384	PASS	276	0.202899	1	"83,137,19,37"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13430C>T	p.Thr4477Ile	13430/21291	13430/21291	4477/7096	4477	7096		",T"	T4477I	C13694T	T4477I	ORF1AB:T4477I	76	ORF1b	T76I	ORF1B:T76I	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	13904	.	AT	A	36	PASS	274	0.007299	0	"127,147,1,1"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13642delT	p.Tyr4548fs	13642/21291	13642/21291	4548/7096	4548	7096		"INFO_REALIGN_3_PRIME,A"	del4548	AT13904A	del4548	ORF1AB:DEL4548	147	ORF1b	del147	ORF1B:DEL147	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	14097	.	CG	C	1452	PASS	181	0.259668	4	"13,123,2,45"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13835delG	p.Gly4612fs	13835/21291	13835/21291	4612/7096	4612	7096		"INFO_REALIGN_3_PRIME,C"	del4612	CG14097C	del4612	ORF1AB:DEL4612	211	ORF1b	del211	ORF1B:DEL211	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	14110	.	C	A	1473	PASS	177	0.322034	0	"8,112,4,53"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13846C>A	p.Gln4616Lys	13846/21291	13846/21291	4616/7096	4616	7096		",A"	Q4616K	C14110A	Q4616K	ORF1AB:Q4616K	215	ORF1b	Q215K	ORF1B:Q215K	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	14676	.	C	T	3758	PASS	412	0.334951	0	"220,54,109,29"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	15150	.	G	GT	2414	PASS	282	0.27305	2	"65,143,21,56"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14889dupT	p.His4964fs	14890/21291	14890/21291	4964/7096	4964	7096		"INFO_REALIGN_3_PRIME,GT"	del4964	G15150GT	del4964	ORF1AB:DEL4964	563	ORF1b	del563	ORF1B:DEL563	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	15168	.	G	A	157	PASS	330	0.057576	7	"72,239,7,12"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	15279	.	C	T	2345	PASS	269	0.349442	2	"17,157,12,82"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	17268	.	TA	T	329	PASS	17	0.529412	0	"5,3,6,3"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17007delA	p.Lys5669fs	17007/21291	17007/21291	5669/7096	5669	7096		"INFO_REALIGN_3_PRIME,T"	del5669	TA17268T	del5669	ORF1AB:DEL5669	1268	ORF1b	del1268	ORF1B:DEL1268	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	18132	.	T	C	157	PASS	225	0.048889	36	"54,159,9,2"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17868T>C	p.Thr5956Thr	17868/21291	17868/21291	5956/7096	5956	7096		",C"	T5956T	T18132C	T5956T	ORF1AB:T5956T	1555	ORF1b	T1555T	ORF1B:T1555T	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	18728	.	CTA	C	116	PASS	57	0.070175	23	"12,43,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18466_18467delAT	p.Ile6156fs	18466/21291	18466/21291	6156/7096	6156	7096		"INFO_REALIGN_3_PRIME,C"	del6156	CTA18728C	del6156	ORF1AB:DEL6156	1755	ORF1b	del1755	ORF1B:DEL1755	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	21578	.	G	GT	150	PASS	176	0.034091	31	"50,126,6,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.20dupT	p.Leu7fs	21/3822	21/3822	7/1273	7	1273		"INFO_REALIGN_3_PRIME,GT"	del7	G21578GT	del7	S:DEL7	7	S	del7	S:DEL7	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	21594	.	T	C	1673	PASS	175	0.36	22	"33,79,7,56"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.32T>C	p.Val11Ala	32/3822	32/3822	11/1273	11	1273		",C"	V11A	T21594C	V11A	S:V11A	11	S	V11A	S:V11A	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	21614	.	C	T	4821	PASS	142	0.950704	32	"6,1,26,109"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.52C>T	p.Leu18Phe	52/3822	52/3822	18/1273	18	1273		",T"	L18F	C21614T	L18F	S:L18F	18	S	L18F	S:L18F	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	21801	.	A	C	151	PASS	27	0.222222	1	"10,11,4,2"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.239A>C	p.Asp80Ala	239/3822	239/3822	80/1273	80	1273		",C"	D80A	A21801C	D80A	S:D80A	80	S	D80A	S:D80A	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	22206	.	A	G	218	PASS	39	0.230769	18	"14,16,0,9"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.644A>G	p.Asp215Gly	644/3822	644/3822	215/1273	215	1273		",G"	D215G	A22206G	D215G	S:D215G	215	S	D215G	S:D215G	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	22280	.	ACTTTACTTG	A	63	PASS	21	0.095238	3	"9,11,0,2"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.725_733delTTGCTTTAC	p.Leu242_Leu244del	725/3822	725/3822	242/1273	242	1273		"INFO_REALIGN_3_PRIME,A"	del242/244	ACTTTACTTG22280A	del242/244	S:DEL242/244	242/244	S	del242/244	S:DEL242/244	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	22450	.	C	T	730	PASS	20	1	0	"0,0,15,5"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.888C>T	p.Leu296Leu	888/3822	888/3822	296/1273	296	1273		",T"	L296L	C22450T	L296L	S:L296L	296	S	L296L	S:L296L	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	24058	.	C	T	304	PASS	38	0.315789	13	"14,12,2,10"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2496C>T	p.Gly832Gly	2496/3822	2496/3822	832/1273	832	1273		",T"	G832G	C24058T	G832G	S:G832G	832	S	G832G	S:G832G	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	24373	.	A	G	949	PASS	121	0.31405	4	"63,20,32,6"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2811A>G	p.Ser937Ser	2811/3822	2811/3822	937/1273	937	1273		",G"	S937S	A24373G	S937S	S:S937S	937	S	S937S	S:S937S	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	24781	.	G	T	4316	PASS	248	0.568548	5	"55,52,82,59"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3219G>T	p.Lys1073Asn	3219/3822	3219/3822	1073/1273	1073	1273		",T"	K1073N	G24781T	K1073N	S:K1073N	1073	S	K1073N	S:K1073N	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	25522	.	G	A	1305	PASS	120	0.391667	6	"22,51,9,38"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.130G>A	p.Gly44Arg	130/828	130/828	44/275	44	275		",A"	G44R	G25522A	G44R	ORF3A:G44R	44	ORF3a	G44R	ORF3A:G44R	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	25563	.	G	T	1324	PASS	110	0.427273	7	"18,45,8,39"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	25839	.	G	T	515	PASS	29	0.551724	0	"8,5,9,7"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.447G>T	p.Trp149Cys	447/828	447/828	149/275	149	275		",T"	W149C	G25839T	W149C	ORF3A:W149C	149	ORF3a	W149C	ORF3A:W149C	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	26038	.	T	C	281	PASS	43	0.255814	0	"20,11,7,4"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	26197	.	A	C	78	PASS	261	0.02682	27	"190,63,1,6"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.805A>C	p.Thr269Pro	805/828	805/828	269/275	269	275		",C"	T269P	A26197C	T269P	ORF3A:T269P	269	ORF3a	T269P	ORF3A:T269P	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	26213	.	CT	C	257	PASS	270	0.037037	39	"187,73,1,9"	TRUE	C	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.824delT	p.Leu275fs	824/828	824/828	275/275	275	275		"INFO_REALIGN_3_PRIME,C"	del275	CT26213C	del275	ORF3A:DEL275	275	ORF3a	del275	ORF3A:DEL275	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	26645	.	C	T	1158	PASS	372	0.145161	62	"142,176,44,10"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.123C>T	p.Asn41Asn	123/669	123/669	41/222	41	222		",T"	N41N	C26645T	N41N	M:N41N	41	M	N41N	M:N41N	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	27437	.	GT	G	710	PASS	192	0.135417	21	"46,122,1,25"	TRUE	G	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.45delT	p.Cys15fs	45/366	45/366	15/121	15	121		",G"	del15	GT27437G	del15	ORF7A:DEL15	15	ORF7a	del15	ORF7A:DEL15	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	27879	.	C	A	590	PASS	188	0.138298	33	"68,94,2,24"	FALSE	A	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.124C>A	p.His42Asn	124/132	124/132	42/43	42	43		",A"	H42N	C27879A	H42N	ORF7B:H42N	42	ORF7b	H42N	ORF7B:H42N	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	27972	.	C	T	3296	PASS	194	0.541237	4	"37,52,37,68"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28048	.	G	T	2604	PASS	141	0.58156	23	"29,30,60,22"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28111	.	A	G	2081	PASS	132	0.530303	1	"42,20,50,20"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28253	.	CA	C	1820	PASS	104	0.548077	4	"24,24,23,34"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361delA	p.Ile121fs	361/366	361/366	121/121	121	121		",C"	del121	CA28253C	del121	ORF8:DEL121	121	ORF8	del121	ORF8:DEL121	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28270	.	TA	T	1000	PASS	109	0.412844	9	"20,44,21,24"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28280	.	G	C	959	PASS	103	0.446602	1	"23,34,21,25"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28281	.	A	T	974	PASS	104	0.442308	1	"24,34,21,25"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28282	.	T	A	971	PASS	106	0.45283	1	"24,34,22,26"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28396	.	G	T	1221	PASS	194	0.283505	42	"102,37,23,32"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.123G>T	p.Arg41Arg	123/1260	123/1260	41/419	41	419		",T"	R41R	G28396T	R41R	N:R41R	41	N	R41R	N:R41R	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28614	.	G	T	2797	PASS	567	0.208113	13	"261,188,81,37"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.341G>T	p.Gly114Val	341/1260	341/1260	114/419	114	419		",T"	G114V	G28614T	G114V	N:G114V	114	N	G114V	N:G114V	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28657	.	C	T	4094	PASS	531	0.288136	0	"226,152,91,62"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28862	.	T	A	5470	PASS	662	0.312689	2	2.11241E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.589T>A	p.Ser197Thr	589/1260	589/1260	197/419	197	419		",A"	S197T	T28862A	S197T	N:S197T	197	N	S197T	N:S197T	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28881	.	G	A	13360	PASS	559	0.72093	8	"63,92,194,209"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28882	.	G	A	13037	PASS	556	0.721223	8	"63,92,192,209"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28883	.	G	C	13172	PASS	557	0.725314	8	"62,91,192,212"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28887	.	C	T	3120	PASS	602	0.239203	12	"228,230,58,86"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28975	.	GTCT	G	2498	PASS	519	0.163776	0	"110,328,21,64"	TRUE	G	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.703_705delTCT	p.Ser235del	703/1260	703/1260	235/419	235	419		",G"	del235	GTCT28975G	del235	N:DEL235	235	N	del235	N:DEL235	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28977	.	C	T	5182	PASS	520	0.361538	1	"64,183,46,142"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET47-2	NC_045512.2	28987	.	CCAA	C	153	PASS	470	0.014894	1	"108,361,2,5"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	PET47-2	PETANGE	2021-02-17T00:00:00Z	32.09	35.28333333	To be done	NA	2021-02-17
PET48-1	NC_045512.2	61	.	G	A	437	PASS	202	0.113861	7	"142,8,20,3"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>A						NA	205	",A"		G61A		NA	NA	NA		NA	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	61	.	G	T	594	PASS	202	0.143564	1	"142,8,27,2"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>T						NA	205	",T"		G61T		NA	NA	NA		NA	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	236	.	G	T	3134	PASS	937	0.147279	7	"563,236,105,33"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-30G>T						NA	30	",T"		G236T		NA	NA	NA		NA	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	241	.	C	T	33869	PASS	951	0.998948	0	"0,0,653,297"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	252	.	G	T	1625	PASS	973	0.093525	1	"595,287,64,27"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-14G>T						NA	14	",T"		G252T		NA	NA	NA		NA	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	346	.	CG	C	3181	PASS	955	0.126702	3	"365,469,57,64"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.82delG	p.Val28fs	82/21291	82/21291	28/7096	28	7096		",C"	del28	CG346C	del28	ORF1AB:DEL28	28	ORF1a	del28	ORF1A:DEL28	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	367	.	CG	C	3076	PASS	962	0.117464	2	"420,431,52,61"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.103delG	p.Val35fs	103/21291	103/21291	35/7096	35	7096		",C"	del35	CG367C	del35	ORF1AB:DEL35	35	ORF1a	del35	ORF1A:DEL35	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	434	.	GA	G	84	PASS	855	0.005848	0	"406,444,2,3"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	799	.	CGGA	C	866	PASS	910	0.038462	42	"231,646,21,14"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537_539delAGG	p.Gly180del	537/21291	537/21291	179/7096	179	7096		"INFO_REALIGN_3_PRIME,C"	del180	CGGA799C	del180	ORF1AB:DEL180	180	ORF1a	del180	ORF1A:DEL180	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	823	.	C	T	774	PASS	932	0.050429	28	"247,638,24,23"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	847	.	T	C	1430	PASS	901	0.084351	23	"246,579,35,41"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>C	p.Asp194Asp	582/21291	582/21291	194/7096	194	7096		",C"	D194D	T847C	D194D	ORF1AB:D194D	194	ORF1a	D194D	ORF1A:D194D	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	913	.	C	T	1184	PASS	418	0.129187	3	"216,148,29,25"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	925	.	C	T	1055	PASS	410	0.12439	3	"205,154,26,25"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.660C>T	p.Asp220Asp	660/21291	660/21291	220/7096	220	7096		",T"	D220D	C925T	D220D	ORF1AB:D220D	220	ORF1a	D220D	ORF1A:D220D	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	1093	.	C	T	1501	PASS	438	0.164384	0	"148,218,29,43"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.828C>T	p.Pro276Pro	828/21291	828/21291	276/7096	276	7096		",T"	P276P	C1093T	P276P	ORF1AB:P276P	276	ORF1a	P276P	ORF1A:P276P	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	1181	.	G	T	1170	PASS	448	0.122768	18	"192,201,37,18"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.916G>T	p.Val306Phe	916/21291	916/21291	306/7096	306	7096		",T"	V306F	G1181T	V306F	ORF1AB:V306F	306	ORF1a	V306F	ORF1A:V306F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	1592	.	T	C	20145	PASS	560	0.998214	0	"1,0,387,172"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1327T>C	p.Ser443Pro	1327/21291	1327/21291	443/7096	443	7096		",C"	S443P	T1592C	S443P	ORF1AB:S443P	443	ORF1a	S443P	ORF1A:S443P	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	1782	.	G	T	5202	PASS	544	0.340074	2	"163,196,78,107"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1517G>T	p.Cys506Phe	1517/21291	1517/21291	506/7096	506	7096		",T"	C506F	G1782T	C506F	ORF1AB:C506F	506	ORF1a	C506F	ORF1A:C506F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	2112	.	T	C	631	PASS	17	1	0	"0,0,14,3"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1847T>C	p.Ile616Thr	1847/21291	1847/21291	616/7096	616	7096		",C"	I616T	T2112C	I616T	ORF1AB:I616T	616	ORF1a	I616T	ORF1A:I616T	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	2453	.	C	T	510	PASS	107	0.196262	3	"74,12,20,1"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2188C>T	p.Leu730Phe	2188/21291	2188/21291	730/7096	730	7096		",T"	L730F	C2453T	L730F	ORF1AB:L730F	730	ORF1a	L730F	ORF1A:L730F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	3025	.	G	T	915	PASS	160	0.21875	1	"38,87,12,23"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2760G>T	p.Met920Ile	2760/21291	2760/21291	920/7096	920	7096		",T"	M920I	G3025T	M920I	ORF1AB:M920I	920	ORF1a	M920I	ORF1A:M920I	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	3037	.	C	T	5025	PASS	138	1	0	"0,0,44,94"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	3188	.	C	CAAG	48	PASS	71	0.028169	0	"10,59,0,2"	TRUE	CAAG	disruptive_inframe_insertion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2931_2933dupAGA	p.Glu977dup	2934/21291	2934/21291	978/7096	978	7096		"INFO_REALIGN_3_PRIME,CAAG"	del977	C3188CAAG	del977	ORF1AB:DEL977	977	ORF1a	del977	ORF1A:DEL977	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	3199	.	TTG	T	47	PASS	68	0.029412	0	"9,59,0,2"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2935_2936delTG	p.Trp979fs	2935/21291	2935/21291	979/7096	979	7096		",T"	del979	TTG3199T	del979	ORF1AB:DEL979	979	ORF1a	del979	ORF1A:DEL979	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	5272	.	G	C	174	PASS	138	0.086957	2	"56,68,7,5"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5007G>C	p.Trp1669Cys	5007/21291	5007/21291	1669/7096	1669	7096		",C"	W1669C	G5272C	W1669C	ORF1AB:W1669C	1669	ORF1a	W1669C	ORF1A:W1669C	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	6241	.	G	T	1364	PASS	636	0.122642	0	"309,247,44,34"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5976G>T	p.Trp1992Cys	5976/21291	5976/21291	1992/7096	1992	7096		",T"	W1992C	G6241T	W1992C	ORF1AB:W1992C	1992	ORF1a	W1992C	ORF1A:W1992C	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	6680	.	G	C	269	PASS	280	0.064286	10	"43,218,0,18"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6415G>C	p.Ala2139Pro	6415/21291	6415/21291	2139/7096	2139	7096		",C"	A2139P	G6680C	A2139P	ORF1AB:A2139P	2139	ORF1a	A2139P	ORF1A:A2139P	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	6696	.	C	CT	118	PASS	204	0.02451	2	"40,171,0,5"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	6696	.	C	T	520	PASS	216	0.12963	9	"38,150,2,26"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	7674	.	CGA	C	237	PASS	171	0.052632	8	"101,62,3,6"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7414_7415delGA	p.Asp2472fs	7414/21291	7414/21291	2472/7096	2472	7096		"INFO_REALIGN_3_PRIME,C"	del2472	CGA7674C	del2472	ORF1AB:DEL2472	2472	ORF1a	del2472	ORF1A:DEL2472	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	9063	.	G	T	119	PASS	40	0.125	1	"20,15,2,3"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8798G>T	p.Cys2933Phe	8798/21291	8798/21291	2933/7096	2933	7096		",T"	C2933F	G9063T	C2933F	ORF1AB:C2933F	2933	ORF1a	C2933F	ORF1A:C2933F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	9267	.	G	T	115	PASS	48	0.104167	4	"22,21,1,4"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9002G>T	p.Ser3001Ile	9002/21291	9002/21291	3001/7096	3001	7096		",T"	S3001I	G9267T	S3001I	ORF1AB:S3001I	3001	ORF1a	S3001I	ORF1A:S3001I	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	9502	.	C	T	130	PASS	41	0.121951	4	"13,23,3,2"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9237C>T	p.Ala3079Ala	9237/21291	9237/21291	3079/7096	3079	7096		",T"	A3079A	C9502T	A3079A	ORF1AB:A3079A	3079	ORF1a	A3079A	ORF1A:A3079A	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	9526	.	G	T	1441	PASS	42	0.952381	2	"0,2,14,26"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	9693	.	C	T	625	PASS	17	1	0	"0,0,5,12"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9428C>T	p.Ala3143Val	9428/21291	9428/21291	3143/7096	3143	7096		",T"	A3143V	C9693T	A3143V	ORF1AB:A3143V	3143	ORF1a	A3143V	ORF1A:A3143V	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	10405	.	T	C	13610	PASS	593	0.716695	31	59109215210	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10140T>C	p.Cys3380Cys	10140/21291	10140/21291	3380/7096	3380	7096		",C"	C3380C	T10405C	C3380C	ORF1AB:C3380C	3380	ORF1a	C3380C	ORF1A:C3380C	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	10423	.	T	G	1266	PASS	568	0.107394	5	"247,260,25,36"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10158T>G	p.Ser3386Ser	10158/21291	10158/21291	3386/7096	3386	7096		",G"	S3386S	T10423G	S3386S	ORF1AB:S3386S	3386	ORF1a	S3386S	ORF1A:S3386S	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	10500	.	G	GT	890	PASS	525	0.066667	43	"305,185,9,26"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10239dupT	p.Asn3414fs	10240/21291	10240/21291	3414/7096	3414	7096		"INFO_REALIGN_3_PRIME,GT"	del3414	G10500GT	del3414	ORF1AB:DEL3414	3414	ORF1a	del3414	ORF1A:DEL3414	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	10519	.	CTG	C	708	PASS	536	0.052239	40	"327,215,6,22"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10258_10259delGT	p.Val3420fs	10258/21291	10258/21291	3420/7096	3420	7096		"INFO_REALIGN_3_PRIME,C"	del3420	CTG10519C	del3420	ORF1AB:DEL3420	3420	ORF1a	del3420	ORF1A:DEL3420	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	10527	.	C	T	505	PASS	534	0.059925	57	"326,176,7,25"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10262C>T	p.Ser3421Phe	10262/21291	10262/21291	3421/7096	3421	7096		",T"	S3421F	C10527T	S3421F	ORF1AB:S3421F	3421	ORF1a	S3421F	ORF1A:S3421F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	10616	.	A	G	133	PASS	488	0.020492	17	"183,294,0,10"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10351A>G	p.Arg3451Gly	10351/21291	10351/21291	3451/7096	3451	7096		",G"	R3451G	A10616G	R3451G	ORF1AB:R3451G	3451	ORF1a	R3451G	ORF1A:R3451G	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	11264	.	TTG	T	229	PASS	104	0.076923	8	"16,81,3,5"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11000_11001delTG	p.Leu3667fs	11000/21291	11000/21291	3667/7096	3667	7096		",T"	del3667	TTG11264T	del3667	ORF1AB:DEL3667	3667	ORF1a	del3667	ORF1A:DEL3667	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	11287	.	GTCTGGTTTT	G	232	PASS	63	0.126984	0	"20,37,3,5"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	11451	.	A	G	241	PASS	49	0.183673	0	"16,24,3,6"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11186A>G	p.Gln3729Arg	11186/21291	11186/21291	3729/7096	3729	7096		",G"	Q3729R	A11451G	Q3729R	ORF1AB:Q3729R	3729	ORF1a	Q3729R	ORF1A:Q3729R	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	11497	.	C	T	911	PASS	54	0.537037	13	"13,12,7,22"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	12320	.	G	T	2410	PASS	269	0.32342	20	"92,90,59,28"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12055G>T	p.Glu4019*	12055/21291	12055/21291	4019/7096	4019	7096		",T"	E4019*	G12320T	E4019*	ORF1AB:E4019*	4019	ORF1a	E4019*	ORF1A:E4019*	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	12602	.	G	A	2795	PASS	394	0.269036	15	"129,159,61,45"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12337G>A	p.Glu4113Lys	12337/21291	12337/21291	4113/7096	4113	7096		",A"	E4113K	G12602A	E4113K	ORF1AB:E4113K	4113	ORF1a	E4113K	ORF1A:E4113K	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	13017	.	G	T	5417	PASS	425	0.444706	1	"148,88,122,67"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12752G>T	p.Arg4251Leu	12752/21291	12752/21291	4251/7096	4251	7096		",T"	R4251L	G13017T	R4251L	ORF1AB:R4251L	4251	ORF1a	R4251L	ORF1A:R4251L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	13247	.	C	T	3844	PASS	519	0.285164	1	"196,174,81,67"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12982C>T	p.Leu4328Leu	12982/21291	12982/21291	4328/7096	4328	7096		",T"	L4328L	C13247T	L4328L	ORF1AB:L4328L	4328	ORF1a	L4328L	ORF1A:L4328L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	13453	.	AC	A	2533	PASS	554	0.158845	203	"128,341,71,17"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13189delC	p.Gln4397fs	13189/21291	13189/21291	4397/7096	4397	7096		",A"	del4397	AC13453A	del4397	ORF1AB:DEL4397	4397	ORF1a	del4397	ORF1A:DEL4397	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	13993	.	G	T	2896	PASS	203	0.492611	3	"36,67,40,60"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	14676	.	C	T	802	PASS	374	0.106952	0	"237,97,28,12"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	15096	.	T	C	152	PASS	448	0.029018	36	"213,222,13,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14832T>C	p.Asn4944Asn	14832/21291	14832/21291	4944/7096	4944	7096		",C"	N4944N	T15096C	N4944N	ORF1AB:N4944N	543	ORF1b	N543N	ORF1B:N543N	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	15168	.	G	A	70	PASS	441	0.027211	32	"203,226,0,12"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	15173	.	C	A	82	PASS	447	0.03132	37	"203,230,0,14"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14909C>A	p.Ser4970*	14909/21291	14909/21291	4970/7096	4970	7096		",A"	S4970*	C15173A	S4970*	ORF1AB:S4970*	569	ORF1b	S569*	ORF1B:S569*	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	15279	.	C	T	1906	PASS	405	0.207407	15	"68,253,28,56"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	15446	.	G	T	592	PASS	159	0.169811	5	"73,59,18,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15182G>T	p.Cys5061Phe	15182/21291	15182/21291	5061/7096	5061	7096		",T"	C5061F	G15446T	C5061F	ORF1AB:C5061F	660	ORF1b	C660F	ORF1B:C660F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	15656	.	CAG	C	522	PASS	148	0.121622	0	"49,82,7,11"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15394_15395delGA	p.Asp5132fs	15394/21291	15394/21291	5132/7096	5132	7096		"INFO_REALIGN_3_PRIME,C"	del5132	CAG15656C	del5132	ORF1AB:DEL5132	731	ORF1b	del731	ORF1B:DEL731	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	15766	.	G	T	2068	PASS	125	0.56	0	"14,41,17,53"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	16889	.	A	G	21941	PASS	592	0.993243	1	"1,3,237,351"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	16961	.	CA	C	3801	PASS	560	0.2375	13	"125,304,27,106"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16698delA	p.Gln5567fs	16698/21291	16698/21291	5566/7096	5566	7096		",C"	del5567	CA16961C	del5567	ORF1AB:DEL5567	1166	ORF1b	del1166	ORF1B:DEL1166	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	17019	.	G	T	14610	PASS	402	0.995025	0	"0,1,46,354"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	17048	.	AG	A	2919	PASS	367	0.256131	5	"13,260,7,87"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16786delG	p.Val5596fs	16786/21291	16786/21291	5596/7096	5596	7096		"INFO_REALIGN_3_PRIME,A"	del5596	AG17048A	del5596	ORF1AB:DEL5596	1195	ORF1b	del1195	ORF1B:DEL1195	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	18255	.	G	GT	1531	PASS	308	0.159091	37	"70,194,2,47"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17994dupT	p.Ile5999fs	17995/21291	17995/21291	5999/7096	5999	7096		"INFO_REALIGN_3_PRIME,GT"	del5999	G18255GT	del5999	ORF1AB:DEL5999	1598	ORF1b	del1598	ORF1B:DEL1598	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	18368	.	G	T	1059	PASS	88	0.409091	9	"18,34,19,17"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18104G>T	p.Gly6035Val	18104/21291	18104/21291	6035/7096	6035	7096		",T"	G6035V	G18368T	G6035V	ORF1AB:G6035V	1634	ORF1b	G1634V	ORF1B:G1634V	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	18382	.	G	T	1821	PASS	93	0.623656	2	"17,18,24,34"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18118G>T	p.Val6040Phe	18118/21291	18118/21291	6040/7096	6040	7096		",T"	V6040F	G18382T	V6040F	ORF1AB:V6040F	1639	ORF1b	V1639F	ORF1B:V1639F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	18514	.	TG	T	1069	PASS	84	0.392857	0	"30,21,18,15"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18252delG	p.Trp6084fs	18252/21291	18252/21291	6084/7096	6084	7096		"INFO_REALIGN_3_PRIME,T"	del6084	TG18514T	del6084	ORF1AB:DEL6084	1683	ORF1b	del1683	ORF1B:DEL1683	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	18658	.	TG	T	358	PASS	105	0.12381	6	"46,46,4,9"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18395delG	p.Cys6132fs	18395/21291	18395/21291	6132/7096	6132	7096		",T"	del6132	TG18658T	del6132	ORF1AB:DEL6132	1731	ORF1b	del1731	ORF1B:DEL1731	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	18877	.	C	T	1692	PASS	84	0.642857	0	"15,15,25,29"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	19252	.	G	T	155	PASS	102	0.078431	5	"59,35,7,1"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18988G>T	p.Val6330Leu	18988/21291	18988/21291	6330/7096	6330	7096		",T"	V6330L	G19252T	V6330L	ORF1AB:V6330L	1929	ORF1b	V1929L	ORF1B:V1929L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	19287	.	TG	T	47	PASS	111	0.018018	0	"75,35,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19025delG	p.Gly6342fs	19025/21291	19025/21291	6342/7096	6342	7096		"INFO_REALIGN_3_PRIME,T"	del6342	TG19287T	del6342	ORF1AB:DEL6342	1941	ORF1b	del1941	ORF1B:DEL1941	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	19626	.	AG	A	674	PASS	117	0.205128	9	"57,37,19,5"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19363delG	p.Glu6455fs	19363/21291	19363/21291	6455/7096	6455	7096		",A"	del6455	AG19626A	del6455	ORF1AB:DEL6455	2054	ORF1b	del2054	ORF1B:DEL2054	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	19893	.	TG	T	300	PASS	86	0.116279	4	"3,73,1,9"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19630delG	p.Ala6544fs	19630/21291	19630/21291	6544/7096	6544	7096		",T"	del6544	TG19893T	del6544	ORF1AB:DEL6544	2143	ORF1b	del2143	ORF1B:DEL2143	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	20883	.	TA	T	72	PASS	852	0.004695	0	"387,467,2,2"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20622delA	p.Gly6875fs	20622/21291	20622/21291	6874/7096	6874	7096		"INFO_REALIGN_3_PRIME,T"	del6875	TA20883T	del6875	ORF1AB:DEL6875	2474	ORF1b	del2474	ORF1B:DEL2474	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	20980	.	G	T	3055	PASS	702	0.185185	19	"265,305,44,86"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20716G>T	p.Asp6906Tyr	20716/21291	20716/21291	6906/7096	6906	7096		",T"	D6906Y	G20980T	D6906Y	ORF1AB:D6906Y	2505	ORF1b	D2505Y	ORF1B:D2505Y	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	21123	.	G	T	1977	PASS	564	0.166667	24	"100,370,8,86"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20859G>T	p.Gly6953Gly	20859/21291	20859/21291	6953/7096	6953	7096		",T"	G6953G	G21123T	G6953G	ORF1AB:G6953G	2552	ORF1b	G2552G	ORF1B:G2552G	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	22450	.	C	T	196	PASS	12	0.5	0	"6,0,5,1"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.888C>T	p.Leu296Leu	888/3822	888/3822	296/1273	296	1273		",T"	L296L	C22450T	L296L	S:L296L	296	S	L296L	S:L296L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	22705	.	AG	A	162	PASS	28	0.178571	5	"15,8,5,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1144delG	p.Val382fs	1144/3822	1144/3822	382/1273	382	1273		",A"	del382	AG22705A	del382	S:DEL382	382	S	del382	S:DEL382	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	22964	.	AT	A	62	PASS	21	0.095238	0	"9,10,1,1"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1405delT	p.Ser469fs	1405/3822	1405/3822	469/1273	469	1273		"INFO_REALIGN_3_PRIME,A"	del469	AT22964A	del469	S:DEL469	469	S	del469	S:DEL469	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	22992	.	G	A	735	PASS	22	0.954545	0	"0,0,12,9"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	23022	.	AT	A	62	PASS	22	0.090909	0	"12,8,1,1"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1462delT	p.Cys488fs	1462/3822	1462/3822	488/1273	488	1273		"INFO_REALIGN_3_PRIME,A"	del488	AT23022A	del488	S:DEL488	488	S	del488	S:DEL488	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	23294	.	G	C	222	PASS	30	0.266667	4	"7,15,1,7"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1732G>C	p.Asp578His	1732/3822	1732/3822	578/1273	578	1273		",C"	D578H	G23294C	D578H	S:D578H	578	S	D578H	S:D578H	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	23403	.	A	G	1049	PASS	31	0.967742	0	"0,0,9,21"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	23608	.	G	T	118	PASS	12	0.333333	2	"5,3,1,3"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2046G>T	p.Arg682Arg	2046/3822	2046/3822	682/1273	682	1273		",T"	R682R	G23608T	R682R	S:R682R	682	S	R682R	S:R682R	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	23667	.	A	T	397	PASS	11	1	0	"0,0,7,4"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2105A>T	p.Glu702Val	2105/3822	2105/3822	702/1273	702	1273		",T"	E702V	A23667T	E702V	S:E702V	702	S	E702V	S:E702V	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	24305	.	G	T	315	PASS	52	0.230769	9	"19,21,9,3"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2743G>T	p.Val915Phe	2743/3822	2743/3822	915/1273	915	1273		",T"	V915F	G24305T	V915F	S:V915F	915	S	V915F	S:V915F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	24373	.	A	G	542	PASS	129	0.170543	71	"98,9,8,14"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2811A>G	p.Ser937Ser	2811/3822	2811/3822	937/1273	937	1273		",G"	S937S	A24373G	S937S	S:S937S	937	S	S937S	S:S937S	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	25013	.	GA	G	1643	PASS	548	0.118613	158	"413,73,23,42"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3452delA	p.Glu1151fs	3452/3822	3452/3822	1151/1273	1151	1273		",G"	del1151	GA25013G	del1151	S:DEL1151	1151	S	del1151	S:DEL1151	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	25555	.	G	GT	58	PASS	325	0.009231	14	"102,220,3,0"	TRUE	GT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.168dupT	p.Gln57fs	169/828	169/828	57/275	57	275		"INFO_REALIGN_3_PRIME,GT"	del57	G25555GT	del57	ORF3A:DEL57	57	ORF3a	del57	ORF3A:DEL57	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	25563	.	G	T	7198	PASS	326	0.690184	0	"31,70,74,151"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	25710	.	C	T	5023	PASS	230	0.691304	3	"10,61,30,129"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	25721	.	C	T	92	PASS	208	0.033654	36	"34,167,6,1"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.329C>T	p.Ala110Val	329/828	329/828	110/275	110	275		",T"	A110V	C25721T	A110V	ORF3A:A110V	110	ORF3a	A110V	ORF3A:A110V	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	25733	.	T	C	164	PASS	199	0.060302	29	"38,148,8,4"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.341T>C	p.Phe114Ser	341/828	341/828	114/275	114	275		",C"	F114S	T25733C	F114S	ORF3A:F114S	114	ORF3a	F114S	ORF3A:F114S	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	25839	.	G	T	284	PASS	70	0.171429	6	"32,26,4,8"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.447G>T	p.Trp149Cys	447/828	447/828	149/275	149	275		",T"	W149C	G25839T	W149C	ORF3A:W149C	149	ORF3a	W149C	ORF3A:W149C	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26068	.	G	T	294	PASS	311	0.067524	5	"260,29,17,4"	FALSE	T	stop_gained	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.676G>T	p.Glu226*	676/828	676/828	226/275	226	275		",T"	E226*	G26068T	E226*	ORF3A:E226*	226	ORF3a	E226*	ORF3A:E226*	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26109	.	G	T	16436	PASS	562	0.866548	0	"67,8,438,49"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.717G>T	p.Glu239Asp	717/828	717/828	239/275	239	275		",T"	E239D	G26109T	E239D	ORF3A:E239D	239	ORF3a	E239D	ORF3A:E239D	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26257	.	G	GT	2423	PASS	1074	0.080074	0	"554,444,47,39"	TRUE	GT	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.16dupT	p.Ser6fs	17/228	17/228	6/75	6	75		"INFO_REALIGN_3_PRIME,GT"	del6	G26257GT	del6	E:DEL6	6	E	del6	E:DEL6	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26315	.	T	C	29855	PASS	969	0.889577	0	"52,55,419,443"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.71T>C	p.Val24Ala	71/228	71/228	24/75	24	75		",C"	V24A	T26315C	V24A	E:V24A	24	E	V24A	E:V24A	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26349	.	TG	T	4100	PASS	1071	0.135387	3	"536,401,88,57"	TRUE	T	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.106delG	p.Ala36fs	106/228	106/228	36/75	36	75		",T"	del36	TG26349T	del36	E:DEL36	36	E	del36	E:DEL36	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26483	.	TA	T	3729	PASS	1022	0.135029	8	"485,416,65,73"	TRUE	T	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-39delA						NA	39	",T"	del	TA26483T	del	M:DEL	NA	M	del	M:DEL	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26711	.	TTG	T	3283	PASS	836	0.133971	5	"308,428,40,72"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.191_192delGT	p.Cys64fs	191/669	191/669	64/222	64	222		"INFO_REALIGN_3_PRIME,T"	del64	TTG26711T	del64	M:DEL64	64	M	del64	M:DEL64	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26735	.	C	T	23082	PASS	821	0.818514	17	"72,76,254,418"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26840	.	G	T	1328	PASS	867	0.085352	22	"224,569,10,64"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.318G>T	p.Thr106Thr	318/669	318/669	106/222	106	222		",T"	T106T	G26840T	T106T	M:T106T	106	M	T106T	M:T106T	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26876	.	T	C	19759	PASS	772	0.76943	70	75103126468	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	26989	.	TAG	T	893	PASS	231	0.12987	4	"110,100,19,11"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.468_469delAG	p.Gly157fs	468/669	468/669	156/222	156	222		",T"	del157	TAG26989T	del157	M:DEL157	157	M	del157	M:DEL157	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	27058	.	AC	A	863	PASS	221	0.135747	4	"89,102,17,13"	TRUE	A	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.537delC	p.Tyr179fs	537/669	537/669	179/222	179	222		",A"	del179	AC27058A	del179	M:DEL179	179	M	del179	M:DEL179	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	27133	.	ATAAAT	A	120	PASS	245	0.020408	1	"127,113,2,3"	TRUE	A	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.616_620delTTAAA	p.Leu206fs	616/669	616/669	206/222	206	222		"INFO_REALIGN_3_PRIME,A"	del206	ATAAAT27133A	del206	M:DEL206	206	M	del206	M:DEL206	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	27281	.	G	T	406	PASS	314	0.070064	23	"179,112,20,2"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.80G>T	p.Trp27Leu	80/186	80/186	27/61	27	61		",T"	W27L	G27281T	W27L	ORF6:W27L	27	ORF6	W27L	ORF6:W27L	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	27288	.	TG	T	738	PASS	324	0.08642	33	"189,107,8,20"	TRUE	T	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.88delG	p.Asp30fs	88/186	88/186	30/61	30	61		",T"	del30	TG27288T	del30	ORF6:DEL30	30	ORF6	del30	ORF6:DEL30	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	27299	.	T	TA	653	PASS	331	0.072508	38	"184,127,23,1"	TRUE	TA	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.101dupA	p.Asn34fs	102/186	102/186	34/61	34	61		"INFO_REALIGN_3_PRIME,TA"	del34	T27299TA	del34	ORF6:DEL34	34	ORF6	del34	ORF6:DEL34	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	27366	.	G	C	826	PASS	398	0.105528	57	"133,223,32,10"	FALSE	C	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.165G>C	p.Glu55Asp	165/186	165/186	55/61	55	61		",C"	E55D	G27366C	E55D	ORF6:E55D	55	ORF6	E55D	ORF6:E55D	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28048	.	G	T	1165	PASS	420	0.12619	21	"196,170,39,14"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28111	.	A	G	1354	PASS	435	0.149425	3	"223,147,43,22"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28270	.	TA	T	1921	PASS	470	0.197872	120	"160,218,77,16"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28280	.	G	C	1677	PASS	501	0.185629	115	"178,229,77,16"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28281	.	A	T	1685	PASS	505	0.182178	119	"181,232,77,15"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28282	.	T	A	1722	PASS	508	0.183071	117	"180,235,77,16"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28292	.	C	A	1651	PASS	586	0.136519	14	"305,201,38,42"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.19C>A	p.Gln7Lys	19/1260	19/1260	7/419	7	419		",A"	Q7K	C28292A	Q7K	N:Q7K	7	N	Q7K	N:Q7K	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28310	.	C	T	6253	PASS	652	0.349693	25	2.61163E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.37C>T	p.Pro13Ser	37/1260	37/1260	13/419	13	419		",T"	P13S	C28310T	P13S	N:P13S	13	N	P13S	N:P13S	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28541	.	G	C	474	PASS	1759	0.02672	86	"1039,672,8,39"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.268G>C	p.Ala90Pro	268/1260	268/1260	90/419	90	419		",C"	A90P	G28541C	A90P	N:A90P	90	N	A90P	N:A90P	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28584	.	T	G	2483	PASS	1447	0.096061	24	"563,744,78,61"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.311T>G	p.Leu104Arg	311/1260	311/1260	104/419	104	419		",G"	L104R	T28584G	L104R	N:L104R	104	N	L104R	N:L104R	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28657	.	C	T	4166	PASS	1363	0.144534	13	"566,600,80,117"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28698	.	CA	C	2880	PASS	1412	0.076487	2	"760,558,59,49"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.429delA	p.Asp144fs	429/1260	429/1260	143/419	143	419		"INFO_REALIGN_3_PRIME,C"	del144	CA28698C	del144	N:DEL144	144	N	del144	N:DEL144	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28698	.	CA	C	59	PASS	1419	0.015504	0	"800,600,13,9"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.429delA	p.Asp144fs	429/1260	429/1260	143/419	143	419		"INFO_REALIGN_3_PRIME,C"	del144	CA28698C	del144	N:DEL144	144	N	del144	N:DEL144	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28701	.	A	T	243	PASS	1432	0.076117	1	"741,558,60,49"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.428A>T	p.Lys143Ile	428/1260	428/1260	143/419	143	419		",T"	K143I	A28701T	K143I	N:K143I	143	N	K143I	N:K143I	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28763	.	G	C	4046	PASS	1596	0.117794	40	"759,648,130,58"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.490G>C	p.Gly164Arg	490/1260	490/1260	164/419	164	419		",C"	G164R	G28763C	G164R	N:G164R	164	N	G164R	N:G164R	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28862	.	T	A	4124	PASS	1420	0.134507	1	"531,697,86,105"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.589T>A	p.Ser197Thr	589/1260	589/1260	197/419	197	419		",A"	S197T	T28862A	S197T	N:S197T	197	N	S197T	N:S197T	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28881	.	G	A	17692	PASS	1308	0.453364	5	3.08406E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28882	.	G	A	17115	PASS	1313	0.450114	6	3.1041E+11	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28883	.	G	C	17218	PASS	1309	0.456073	5	3.06405E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28975	.	G	C	14962	PASS	1293	0.439288	32	2.30488E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	28977	.	C	T	14704	PASS	1283	0.420109	34	3.01441E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	29090	.	G	T	1674	PASS	954	0.096436	4	"172,688,14,78"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.817G>T	p.Ala273Ser	817/1260	817/1260	273/419	273	419		",T"	A273S	G29090T	A273S	N:A273S	273	N	A273S	N:A273S	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	29155	.	A	AG	76	PASS	667	0.005997	29	"44,619,3,1"	TRUE	AG	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.884dupG	p.Thr296fs	885/1260	885/1260	295/419	295	419		"INFO_REALIGN_3_PRIME,AG"	del296	A29155AG	del296	N:DEL296	296	N	del296	N:DEL296	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-1	NC_045512.2	29191	.	A	G	9250	PASS	555	0.545946	2	"17,235,26,277"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.918A>G	p.Gln306Gln	918/1260	918/1260	306/419	306	419		",G"	Q306Q	A29191G	Q306Q	N:Q306Q	306	N	Q306Q	N:Q306Q	PET48-1	PETANGE	2021-02-21T00:00:00Z	30.59	32.93333333	To be done	NA	2021-02-21
PET48-2	NC_045512.2	61	.	G	A	1366	PASS	163	0.331288	10	"102,7,54,0"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>A						NA	205	",A"		G61A		NA	NA	NA		NA	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	210	.	G	T	5610	PASS	635	0.337008	0	"359,61,181,33"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-56G>T						NA	56	",T"		G210T		NA	NA	NA		NA	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	241	.	C	T	29608	PASS	828	0.998792	0	"1,0,584,243"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	616	.	T	C	2804	PASS	772	0.164508	1	"339,306,64,63"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.351T>C	p.Ala117Ala	351/21291	351/21291	117/7096	117	7096		",C"	A117A	T616C	A117A	ORF1AB:A117A	117	ORF1a	A117A	ORF1A:A117A	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	667	.	T	C	1085	PASS	748	0.072193	4	"303,391,20,34"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.402T>C	p.His134His	402/21291	402/21291	134/7096	134	7096		",C"	H134H	T667C	H134H	ORF1AB:H134H	134	ORF1a	H134H	ORF1A:H134H	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	843	.	C	A	4355	PASS	686	0.247813	140	"110,406,91,79"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.578C>A	p.Pro193His	578/21291	578/21291	193/7096	193	7096		",A"	P193H	C843A	P193H	ORF1AB:P193H	193	ORF1a	P193H	ORF1A:P193H	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	847	.	T	C	1338	PASS	687	0.097525	21	"192,428,10,57"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>C	p.Asp194Asp	582/21291	582/21291	194/7096	194	7096		",C"	D194D	T847C	D194D	ORF1AB:D194D	194	ORF1a	D194D	ORF1A:D194D	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	913	.	C	T	2852	PASS	321	0.317757	24	"138,81,46,56"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	1277	.	A	AT	1637	PASS	791	0.078382	43	"541,194,59,3"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1012_1013insT	p.Lys338fs	1013/21291	1013/21291	338/7096	338	7096		",AT"	del338	A1277AT	del338	ORF1AB:DEL338	338	ORF1a	del338	ORF1A:DEL338	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	1589	.	G	A	9002	PASS	1201	0.286428	13	5.573E+11	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1324G>A	p.Gly442Ser	1324/21291	1324/21291	442/7096	442	7096		",A"	G442S	G1589A	G442S	ORF1AB:G442S	442	ORF1a	G442S	ORF1A:G442S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	1730	.	G	A	1606	PASS	1048	0.081107	19	"440,523,51,34"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1465G>A	p.Glu489Lys	1465/21291	1465/21291	489/7096	489	7096		",A"	E489K	G1730A	E489K	ORF1AB:E489K	489	ORF1a	E489K	ORF1A:E489K	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	2421	.	AGT	A	195	PASS	131	0.053435	63	"120,5,1,6"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2161_2162delGT	p.Val721fs	2161/21291	2161/21291	721/7096	721	7096		"INFO_REALIGN_3_PRIME,A"	del721	AGT2421A	del721	ORF1AB:DEL721	721	ORF1a	del721	ORF1A:DEL721	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	2453	.	C	T	445	PASS	170	0.117647	4	"137,13,20,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2188C>T	p.Leu730Phe	2188/21291	2188/21291	730/7096	730	7096		",T"	L730F	C2453T	L730F	ORF1AB:L730F	730	ORF1a	L730F	ORF1A:L730F	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	3036	.	TC	T	851	PASS	210	0.142857	13	"51,129,3,27"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	3037	.	C	T	6569	PASS	212	0.853774	0	"0,0,51,130"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	3267	.	C	T	115	PASS	22	0.181818	2	"8,10,1,3"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	3627	.	A	G	256	PASS	15	0.533333	0	"1,6,2,6"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3362A>G	p.Asn1121Ser	3362/21291	3362/21291	1121/7096	1121	7096		",G"	N1121S	A3627G	N1121S	ORF1AB:N1121S	1121	ORF1a	N1121S	ORF1A:N1121S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	4851	.	A	G	536	PASS	134	0.186567	1	"96,13,23,2"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4586A>G	p.Lys1529Arg	4586/21291	4586/21291	1529/7096	1529	7096		",G"	K1529R	A4851G	K1529R	ORF1AB:K1529R	1529	ORF1a	K1529R	ORF1A:K1529R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	5178	.	C	T	2041	PASS	176	0.409091	4	"60,44,36,36"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4913C>T	p.Thr1638Ile	4913/21291	4913/21291	1638/7096	1638	7096		",T"	T1638I	C5178T	T1638I	ORF1AB:T1638I	1638	ORF1a	T1638I	ORF1A:T1638I	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	5353	.	A	G	1429	PASS	143	0.363636	8	"33,58,12,40"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5088A>G	p.Gln1696Gln	5088/21291	5088/21291	1696/7096	1696	7096		",G"	Q1696Q	A5353G	Q1696Q	ORF1AB:Q1696Q	1696	ORF1a	Q1696Q	ORF1A:Q1696Q	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	5388	.	C	A	1464	PASS	120	0.433333	3	"21,47,20,32"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	5548	.	C	T	661	PASS	75	0.36	0	"0,47,0,27"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5283C>T	p.Thr1761Thr	5283/21291	5283/21291	1761/7096	1761	7096		",T"	T1761T	C5548T	T1761T	ORF1AB:T1761T	1761	ORF1a	T1761T	ORF1A:T1761T	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	6593	.	C	T	603	PASS	69	0.318841	2	"35,12,18,4"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6328C>T	p.Pro2110Ser	6328/21291	6328/21291	2110/7096	2110	7096		",T"	P2110S	C6593T	P2110S	ORF1AB:P2110S	2110	ORF1a	P2110S	ORF1A:P2110S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	6954	.	T	C	1403	PASS	96	0.46875	3	"15,36,10,35"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	7267	.	C	T	389	PASS	85	0.223529	5	"43,22,10,9"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7002C>T	p.Phe2334Phe	7002/21291	7002/21291	2334/7096	2334	7096		",T"	F2334F	C7267T	F2334F	ORF1AB:F2334F	2334	ORF1a	F2334F	ORF1A:F2334F	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	7431	.	C	T	513	PASS	111	0.18018	3	"28,63,8,12"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7166C>T	p.Ser2389Leu	7166/21291	7166/21291	2389/7096	2389	7096		",T"	S2389L	C7431T	S2389L	ORF1AB:S2389L	2389	ORF1a	S2389L	ORF1A:S2389L	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	7456	.	T	C	600	PASS	108	0.212963	9	"22,63,10,13"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7191T>C	p.Tyr2397Tyr	7191/21291	7191/21291	2397/7096	2397	7096		",C"	Y2397Y	T7456C	Y2397Y	ORF1AB:Y2397Y	2397	ORF1a	Y2397Y	ORF1A:Y2397Y	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	7492	.	T	C	611	PASS	101	0.227723	0	"31,47,9,14"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7227T>C	p.Cys2409Cys	7227/21291	7227/21291	2409/7096	2409	7096		",C"	C2409C	T7492C	C2409C	ORF1AB:C2409C	2409	ORF1a	C2409C	ORF1A:C2409C	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	7870	.	AT	A	807	PASS	200	0.135	0	"70,104,10,17"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7607delT	p.Leu2536fs	7607/21291	7607/21291	2536/7096	2536	7096		"INFO_REALIGN_3_PRIME,A"	del2536	AT7870A	del2536	ORF1AB:DEL2536	2536	ORF1a	del2536	ORF1A:DEL2536	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	8334	.	C	T	344	PASS	94	0.180851	0	"1,76,0,17"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8069C>T	p.Ala2690Val	8069/21291	8069/21291	2690/7096	2690	7096		",T"	A2690V	C8334T	A2690V	ORF1AB:A2690V	2690	ORF1a	A2690V	ORF1A:A2690V	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	8806	.	T	C	391	PASS	27	0.481481	0	"14,0,13,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8541T>C	p.Asn2847Asn	8541/21291	8541/21291	2847/7096	2847	7096		",C"	N2847N	T8806C	N2847N	ORF1AB:N2847N	2847	ORF1a	N2847N	ORF1A:N2847N	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	8905	.	C	CT	258	PASS	64	0.140625	0	"49,6,8,1"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8645dupT	p.Leu2882fs	8646/21291	8646/21291	2882/7096	2882	7096		"INFO_REALIGN_3_PRIME,CT"	del2882	C8905CT	del2882	ORF1AB:DEL2882	2882	ORF1a	del2882	ORF1A:DEL2882	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	8927	.	G	GT	269	PASS	66	0.136364	0	"45,12,7,2"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8667dupT	p.Ser2890fs	8668/21291	8668/21291	2890/7096	2890	7096		"INFO_REALIGN_3_PRIME,GT"	del2890	G8927GT	del2890	ORF1AB:DEL2890	2890	ORF1a	del2890	ORF1A:DEL2890	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	9038	.	G	C	232	PASS	68	0.161765	1	"27,30,6,5"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8773G>C	p.Ala2925Pro	8773/21291	8773/21291	2925/7096	2925	7096		",C"	A2925P	G9038C	A2925P	ORF1AB:A2925P	2925	ORF1a	A2925P	ORF1A:A2925P	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	9454	.	T	C	145	PASS	72	0.097222	1	"17,48,1,6"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9189T>C	p.Tyr3063Tyr	9189/21291	9189/21291	3063/7096	3063	7096		",C"	Y3063Y	T9454C	Y3063Y	ORF1AB:Y3063Y	3063	ORF1a	Y3063Y	ORF1A:Y3063Y	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	11152	.	C	A	77	PASS	274	0.029197	3	"117,149,5,3"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10887C>A	p.Val3629Val	10887/21291	10887/21291	3629/7096	3629	7096		",A"	V3629V	C11152A	V3629V	ORF1AB:V3629V	3629	ORF1a	V3629V	ORF1A:V3629V	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	11287	.	GTCTGGTTTT	G	2413	PASS	256	0.316406	13	"90,88,30,51"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	11383	.	G	A	630	PASS	309	0.110032	5	"138,137,21,13"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11118G>A	p.Arg3706Arg	11118/21291	11118/21291	3706/7096	3706	7096		",A"	R3706R	G11383A	R3706R	ORF1AB:R3706R	3706	ORF1a	R3706R	ORF1A:R3706R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	11451	.	A	G	1687	PASS	274	0.237226	4	"111,98,30,35"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11186A>G	p.Gln3729Arg	11186/21291	11186/21291	3729/7096	3729	7096		",G"	Q3729R	A11451G	Q3729R	ORF1AB:Q3729R	3729	ORF1a	Q3729R	ORF1A:Q3729R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	11644	.	CT	C	277	PASS	194	0.056701	1	"49,137,2,9"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11382delT	p.Phe3794fs	11382/21291	11382/21291	3794/7096	3794	7096		"INFO_REALIGN_3_PRIME,C"	del3794	CT11644C	del3794	ORF1AB:DEL3794	3794	ORF1a	del3794	ORF1A:DEL3794	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	14120	.	C	T	1984	PASS	344	0.226744	3	"23,243,4,74"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13856C>T	p.Pro4619Leu	13856/21291	13856/21291	4619/7096	4619	7096		",T"	P4619L	C14120T	P4619L	ORF1AB:P4619L	218	ORF1b	P218L	ORF1B:P218L	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	14408	.	C	T	800	PASS	21	1	0	"0,0,5,16"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	14599	.	C	T	1293	PASS	519	0.109827	18	"421,41,57,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14335C>T	p.Leu4779Leu	14335/21291	14335/21291	4779/7096	4779	7096		",T"	L4779L	C14599T	L4779L	ORF1AB:L4779L	378	ORF1b	L378L	ORF1B:L378L	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	14676	.	C	T	4492	PASS	514	0.330739	4	"266,78,138,32"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	15174	.	A	T	838	PASS	672	0.06994	8	"289,335,16,31"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14910A>T	p.Ser4970Ser	14910/21291	14910/21291	4970/7096	4970	7096		",T"	S4970S	A15174T	S4970S	ORF1AB:S4970S	569	ORF1b	S569S	ORF1B:S569S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	15245	.	TA	T	574	PASS	772	0.032383	55	"247,501,20,5"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14986delA	p.Thr4996fs	14986/21291	14986/21291	4996/7096	4996	7096		"INFO_REALIGN_3_PRIME,T"	del4996	TA15245T	del4996	ORF1AB:DEL4996	595	ORF1b	del595	ORF1B:DEL595	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	15279	.	C	T	3874	PASS	671	0.23845	38	"169,341,28,132"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	15324	.	C	T	787	PASS	537	0.078212	13	"177,317,22,20"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	15678	.	C	T	697	PASS	290	0.117241	2	"91,165,10,24"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15414C>T	p.Tyr5138Tyr	15414/21291	15414/21291	5138/7096	5138	7096		",T"	Y5138Y	C15678T	Y5138Y	ORF1AB:Y5138Y	737	ORF1b	Y737Y	ORF1B:Y737Y	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	16872	.	AG	A	109	PASS	1009	0.005946	1	"385,621,3,3"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16610delG	p.Gly5537fs	16610/21291	16610/21291	5537/7096	5537	7096		"INFO_REALIGN_3_PRIME,A"	del5537	AG16872A	del5537	ORF1AB:DEL5537	1136	ORF1b	del1136	ORF1B:DEL1136	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	16938	.	A	AT	4000	PASS	951	0.138801	0	"235,586,39,93"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16676dupT	p.Leu5559fs	16677/21291	16677/21291	5559/7096	5559	7096		"INFO_REALIGN_3_PRIME,AT"	del5559	A16938AT	del5559	ORF1AB:DEL5559	1158	ORF1b	del1158	ORF1B:DEL1158	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	17430	.	C	T	5548	PASS	349	0.527221	10	"151,14,157,27"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17166C>T	p.Tyr5722Tyr	17166/21291	17166/21291	5722/7096	5722	7096		",T"	Y5722Y	C17430T	Y5722Y	ORF1AB:Y5722Y	1321	ORF1b	Y1321Y	ORF1B:Y1321Y	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	17685	.	TG	T	51	PASS	808	0.003713	10	"454,352,0,3"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17422delG	p.Val5808fs	17422/21291	17422/21291	5808/7096	5808	7096		",T"	del5808	TG17685T	del5808	ORF1AB:DEL5808	1407	ORF1b	del1407	ORF1B:DEL1407	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	17939	.	CA	C	3160	PASS	939	0.118211	2	"478,358,67,44"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17679delA	p.Val5894fs	17679/21291	17679/21291	5893/7096	5893	7096		"INFO_REALIGN_3_PRIME,C"	del5894	CA17939C	del5894	ORF1AB:DEL5894	1493	ORF1b	del1493	ORF1B:DEL1493	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	18215	.	G	GT	1497	PASS	465	0.116129	45	"98,315,1,53"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17955dupT	p.Lys5986fs	17956/21291	17956/21291	5986/7096	5986	7096		"INFO_REALIGN_3_PRIME,GT"	del5986	G18215GT	del5986	ORF1AB:DEL5986	1585	ORF1b	del1585	ORF1B:DEL1585	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	18215	.	G	T	239	PASS	467	0.038544	78	"84,365,15,3"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17951G>T	p.Gly5984Val	17951/21291	17951/21291	5984/7096	5984	7096		",T"	G5984V	G18215T	G5984V	ORF1AB:G5984V	1583	ORF1b	G1583V	ORF1B:G1583V	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	18316	.	G	T	1001	PASS	154	0.25974	3	"58,56,17,23"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18052G>T	p.Gly6018Trp	18052/21291	18052/21291	6018/7096	6018	7096		",T"	G6018W	G18316T	G6018W	ORF1AB:G6018W	1617	ORF1b	G1617W	ORF1B:G1617W	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	19419	.	G	A	116	PASS	142	0.049296	13	"57,78,0,7"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19155G>A	p.Val6385Val	19155/21291	19155/21291	6385/7096	6385	7096		",A"	V6385V	G19419A	V6385V	ORF1AB:V6385V	1984	ORF1b	V1984V	ORF1B:V1984V	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	19567	.	G	T	442	PASS	164	0.128049	0	"91,52,14,7"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19303G>T	p.Val6435Phe	19303/21291	19303/21291	6435/7096	6435	7096		",T"	V6435F	G19567T	V6435F	ORF1AB:V6435F	2034	ORF1b	V2034F	ORF1B:V2034F	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	19718	.	C	T	1434	PASS	151	0.331126	2	"39,62,22,28"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19454C>T	p.Thr6485Ile	19454/21291	19454/21291	6485/7096	6485	7096		",T"	T6485I	C19718T	T6485I	ORF1AB:T6485I	2084	ORF1b	T2084I	ORF1B:T2084I	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	19727	.	A	T	570	PASS	162	0.154321	4	"53,84,12,13"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19463A>T	p.Asp6488Val	19463/21291	19463/21291	6488/7096	6488	7096		",T"	D6488V	A19727T	D6488V	ORF1AB:D6488V	2087	ORF1b	D2087V	ORF1B:D2087V	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	19884	.	C	T	1264	PASS	93	0.44086	8	"4,48,0,41"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19620C>T	p.Tyr6540Tyr	19620/21291	19620/21291	6540/7096	6540	7096		",T"	Y6540Y	C19884T	Y6540Y	ORF1AB:Y6540Y	2139	ORF1b	Y2139Y	ORF1B:Y2139Y	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	20503	.	ATT	A	3660	PASS	574	0.21777	9	"422,30,111,14"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20240_20241delTT	p.Ile6747fs	20240/21291	20240/21291	6747/7096	6747	7096		",A"	del6747	ATT20503A	del6747	ORF1AB:DEL6747	2346	ORF1b	del2346	ORF1B:DEL2346	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	20640	.	A	AT	2545	PASS	702	0.123932	18	"351,267,37,50"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20380dupT	p.Tyr6794fs	20381/21291	20381/21291	6794/7096	6794	7096		"INFO_REALIGN_3_PRIME,AT"	del6794	A20640AT	del6794	ORF1AB:DEL6794	2393	ORF1b	del2393	ORF1B:DEL2393	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	21614	.	C	T	4174	PASS	332	0.427711	27	"85,104,40,102"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.52C>T	p.Leu18Phe	52/3822	52/3822	18/1273	18	1273		",T"	L18F	C21614T	L18F	S:L18F	18	S	L18F	S:L18F	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	21639	.	C	T	6544	PASS	397	0.541562	5	"43,139,62,153"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.77C>T	p.Pro26Leu	77/3822	77/3822	26/1273	26	1273		",T"	P26L	C21639T	P26L	S:P26L	26	S	P26L	S:P26L	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	21764	.	ATACATG	A	670	PASS	229	0.100437	33	"56,153,15,8"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	21990	.	TTTA	T	838	PASS	142	0.183099	1	"61,55,12,14"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.432_434delTTA	p.Tyr145del	432/3822	432/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,T"	del145	TTTA21990T	del145	S:DEL145	145	S	del145	S:DEL145	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	22139	.	G	C	81	PASS	138	0.036232	27	"35,98,5,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.577G>C	p.Val193Leu	577/3822	577/3822	193/1273	193	1273		",C"	V193L	G22139C	V193L	S:V193L	193	S	V193L	S:V193L	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	22450	.	C	T	387	PASS	45	0.311111	2	"16,15,9,5"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.888C>T	p.Leu296Leu	888/3822	888/3822	296/1273	296	1273		",T"	L296L	C22450T	L296L	S:L296L	296	S	L296L	S:L296L	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	22882	.	T	G	120	PASS	38	0.157895	1	"10,22,1,5"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1320T>G	p.Asn440Lys	1320/3822	1320/3822	440/1273	440	1273		",G"	N440K	T22882G	N440K	S:N440K	440	S	N440K	S:N440K	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	23063	.	A	T	373	PASS	48	0.291667	1	"19,15,7,7"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	23126	.	G	T	693	PASS	47	0.489362	8	"17,7,21,2"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1564G>T	p.Ala522Ser	1564/3822	1564/3822	522/1273	522	1273		",T"	A522S	G23126T	A522S	S:A522S	522	S	A522S	S:A522S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	23271	.	C	A	392	PASS	43	0.325581	9	"4,25,5,9"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>A	p.Ala570Asp	1709/3822	1709/3822	570/1273	570	1273		",A"	A570D	C23271A	A570D	S:A570D	570	S	A570D	S:A570D	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	23403	.	A	G	1261	PASS	34	1	0	"0,0,10,24"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	23604	.	C	A	120	PASS	13	0.307692	0	"4,5,2,2"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	23608	.	G	T	116	PASS	14	0.285714	0	"4,6,2,2"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2046G>T	p.Arg682Arg	2046/3822	2046/3822	682/1273	682	1273		",T"	R682R	G23608T	R682R	S:R682R	682	S	R682R	S:R682R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	23670	.	A	G	106	PASS	14	0.285714	0	"4,6,1,3"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2108A>G	p.Asn703Ser	2108/3822	2108/3822	703/1273	703	1273		",G"	N703S	A23670G	N703S	S:N703S	703	S	N703S	S:N703S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	23709	.	C	T	211	PASS	15	0.466667	11	"0,8,3,4"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2147C>T	p.Thr716Ile	2147/3822	2147/3822	716/1273	716	1273		",T"	T716I	C23709T	T716I	S:T716I	716	S	T716I	S:T716I	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	24373	.	A	G	5164	PASS	439	0.421412	0	"222,32,161,24"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2811A>G	p.Ser937Ser	2811/3822	2811/3822	937/1273	937	1273		",G"	S937S	A24373G	S937S	S:S937S	937	S	S937S	S:S937S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	24438	.	T	TA	51	PASS	855	0.012865	55	"712,132,2,9"	TRUE	TA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2879dupA	p.Asn960fs	2880/3822	2880/3822	960/1273	960	1273		"INFO_REALIGN_3_PRIME,TA"	del960	T24438TA	del960	S:DEL960	960	S	del960	S:DEL960	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	24506	.	T	G	4562	PASS	849	0.221437	2	"514,147,143,45"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	24914	.	G	C	6177	PASS	1152	0.226562	15	"386,504,93,168"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	24971	.	G	GT	736	PASS	1193	0.025985	11	"627,540,11,20"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3412dupT	p.Tyr1138fs	3413/3822	3413/3822	1138/1273	1138	1273		"INFO_REALIGN_3_PRIME,GT"	del1138	G24971GT	del1138	S:DEL1138	1138	S	del1138	S:DEL1138	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	25137	.	A	AT	1314	PASS	1114	0.046679	73	"357,705,1,51"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3578dupT	p.Leu1193fs	3579/3822	3579/3822	1193/1273	1193	1273		"INFO_REALIGN_3_PRIME,AT"	del1193	A25137AT	del1193	S:DEL1193	1193	S	del1193	S:DEL1193	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	25454	.	A	G	81	PASS	527	0.01518	1	"204,315,4,4"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.62A>G	p.Lys21Arg	62/828	62/828	21/275	21	275		",G"	K21R	A25454G	K21R	ORF3A:K21R	21	ORF3a	K21R	ORF3A:K21R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	25580	.	TA	T	1897	PASS	418	0.15311	8	"102,252,12,52"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.190delA	p.Thr64fs	190/828	190/828	64/275	64	275		"INFO_REALIGN_3_PRIME,T"	del64	TA25580T	del64	ORF3A:DEL64	64	ORF3a	del64	ORF3A:DEL64	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	25785	.	G	T	331	PASS	186	0.086022	5	"93,77,11,5"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.393G>T	p.Trp131Cys	393/828	393/828	131/275	131	275		",T"	W131C	G25785T	W131C	ORF3A:W131C	131	ORF3a	W131C	ORF3A:W131C	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	25839	.	G	T	620	PASS	161	0.167702	0	"75,59,14,13"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.447G>T	p.Trp149Cys	447/828	447/828	149/275	149	275		",T"	W149C	G25839T	W149C	ORF3A:W149C	149	ORF3a	W149C	ORF3A:W149C	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	25906	.	G	T	1695	PASS	171	0.356725	5	"53,57,35,26"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>T	p.Gly172Cys	514/828	514/828	172/275	172	275		",T"	G172C	G25906T	G172C	ORF3A:G172C	172	ORF3a	G172C	ORF3A:G172C	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	25927	.	A	AT	473	PASS	178	0.089888	0	"72,90,7,9"	TRUE	AT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.538dupT	p.Ser180fs	539/828	539/828	180/275	180	275		"INFO_REALIGN_3_PRIME,AT"	del180	A25927AT	del180	ORF3A:DEL180	180	ORF3a	del180	ORF3A:DEL180	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26058	.	C	T	1299	PASS	249	0.220884	5	"133,61,33,22"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.666C>T	p.Asp222Asp	666/828	666/828	222/275	222	275		",T"	D222D	C26058T	D222D	ORF3A:D222D	222	ORF3a	D222D	ORF3A:D222D	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26062	.	G	T	826	PASS	303	0.135314	4	"193,69,27,14"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26109	.	G	T	164	PASS	708	0.024011	26	"612,78,10,7"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.717G>T	p.Glu239Asp	717/828	717/828	239/275	239	275		",T"	E239D	G26109T	E239D	ORF3A:E239D	239	ORF3a	E239D	ORF3A:E239D	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26158	.	G	T	500	PASS	1028	0.035019	14	"831,161,25,11"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.766G>T	p.Val256Phe	766/828	766/828	256/275	256	275		",T"	V256F	G26158T	V256F	ORF3A:V256F	256	ORF3a	V256F	ORF3A:V256F	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26315	.	T	C	107	PASS	1127	0.012422	5	"491,620,4,10"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.71T>C	p.Val24Ala	71/228	71/228	24/75	24	75		",C"	V24A	T26315C	V24A	E:V24A	24	E	V24A	E:V24A	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26374	.	T	C	1805	PASS	1044	0.087165	6	"604,349,64,27"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.130T>C	p.Cys44Arg	130/228	130/228	44/75	44	75		",C"	C44R	T26374C	C44R	E:C44R	44	E	C44R	E:C44R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26726	.	TG	T	3256	PASS	961	0.117586	79	"430,425,25,88"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.205delG	p.Ala69fs	205/669	205/669	69/222	69	222		",T"	del69	TG26726T	del69	M:DEL69	69	M	del69	M:DEL69	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26785	.	T	C	501	PASS	1299	0.030023	101	"414,845,33,6"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.263T>C	p.Val88Ala	263/669	263/669	88/222	88	222		",C"	V88A	T26785C	V88A	M:V88A	88	M	V88A	M:V88A	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	26876	.	T	C	484	PASS	1057	0.035951	32	"306,711,22,16"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	27019	.	AAG	A	1245	PASS	442	0.099548	6	"236,170,21,23"	TRUE	A	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.499_500delGA	p.Glu167fs	499/669	499/669	167/222	167	222		"INFO_REALIGN_3_PRIME,A"	del167	AAG27019A	del167	M:DEL167	167	M	del167	M:DEL167	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	27312	.	T	TA	363	PASS	515	0.031068	26	"328,171,4,12"	TRUE	TA	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.116dupA	p.Asn39fs	117/186	117/186	39/61	39	61		"INFO_REALIGN_3_PRIME,TA"	del39	T27312TA	del39	ORF6:DEL39	39	ORF6	del39	ORF6:DEL39	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	27498	.	CTCT	C	1131	PASS	418	0.093301	3	"177,205,21,18"	TRUE	C	conservative_inframe_deletion	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.109_111delTCT	p.Ser37del	109/366	109/366	37/121	37	121		"INFO_REALIGN_3_PRIME,C"	del37	CTCT27498C	del37	ORF7A:DEL37	37	ORF7a	del37	ORF7A:DEL37	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	27758	.	G	T	1424	PASS	388	0.162371	0	"175,150,34,29"	FALSE	T	stop_lost&splice_region_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.365G>T	p.Ter122Leuext*?	365/366	365/366	122/121	122	121		",T"	startorstoploss	G27758T	NA	NA	NA	ORF7a	NA	NA	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28048	.	G	T	1093	PASS	310	0.154839	53	"167,95,13,35"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28111	.	A	G	89	PASS	290	0.024138	0	"194,89,5,2"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28253	.	CA	C	134	PASS	315	0.019048	9	"159,150,1,5"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361delA	p.Ile121fs	361/366	361/366	121/121	121	121		",C"	del121	CA28253C	del121	ORF8:DEL121	121	ORF8	del121	ORF8:DEL121	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28257	.	T	TA	1284	PASS	479	0.091858	11	"293,143,23,21"	TRUE	TA	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.355_356insA	p.Asp119fs	356/366	356/366	119/121	119	121		"INFO_REALIGN_3_PRIME,TA"	del119	T28257TA	del119	ORF8:DEL119	119	ORF8	del119	ORF8:DEL119	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28270	.	TA	T	826	PASS	524	0.080153	43	"292,190,38,4"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28310	.	C	T	6045	PASS	747	0.301205	12	"346,176,132,93"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.37C>T	p.Pro13Ser	37/1260	37/1260	13/419	13	419		",T"	P13S	C28310T	P13S	N:P13S	13	N	P13S	N:P13S	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28396	.	G	T	9053	PASS	1056	0.344697	18	4.53237E+11	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.123G>T	p.Arg41Arg	123/1260	123/1260	41/419	41	419		",T"	R41R	G28396T	R41R	N:R41R	41	N	R41R	N:R41R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28657	.	C	T	15033	PASS	1215	0.43786	8	3.07376E+11	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28862	.	T	A	20250	PASS	1246	0.52809	6	2.72311E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.589T>A	p.Ser197Thr	589/1260	589/1260	197/419	197	419		",A"	S197T	T28862A	S197T	N:S197T	197	N	S197T	N:S197T	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28881	.	G	A	39116	PASS	1038	1	0	"0,0,488,550"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28882	.	G	A	38025	PASS	1038	0.998073	0	"0,0,488,548"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28883	.	G	C	38725	PASS	1046	0.999044	0	"0,0,487,558"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	28977	.	C	T	15160	PASS	1121	0.473684	39	2.38352E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET48-2	NC_045512.2	29051	.	C	CA	5829	PASS	933	0.207931	2	"185,557,53,141"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	PET48-2	PETANGE	2021-02-23T00:00:00Z	30.644	33.68666667	To be done	NA	2021-02-23
PET49-1	NC_045512.2	61	.	G	A	1517	PASS	187	0.31016	1	"122,7,54,4"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>A						NA	205	",A"		G61A		NA	NA	NA		NA	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	113	.	A	G	1333	PASS	398	0.153266	7	"300,37,58,3"	FALSE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-153A>G						NA	153	",G"		A113G		NA	NA	NA		NA	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	174	.	G	T	3753	PASS	633	0.233807	1	"424,61,131,17"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-92G>T						NA	92	",T"		G174T		NA	NA	NA		NA	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	210	.	G	T	6768	PASS	594	0.409091	1	"280,71,198,45"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-56G>T						NA	56	",T"		G210T		NA	NA	NA		NA	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	241	.	C	T	25047	PASS	701	1	0	"0,0,496,205"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	541	.	CG	C	3748	PASS	690	0.188406	4	"258,303,66,64"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.277delG	p.Glu93fs	277/21291	277/21291	93/7096	93	7096		",C"	del93	CG541C	del93	ORF1AB:DEL93	93	ORF1a	del93	ORF1A:DEL93	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	823	.	C	T	942	PASS	758	0.069921	18	"211,494,25,28"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	847	.	T	C	2116	PASS	715	0.142657	1	"202,411,31,71"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>C	p.Asp194Asp	582/21291	582/21291	194/7096	194	7096		",C"	D194D	T847C	D194D	ORF1AB:D194D	194	ORF1a	D194D	ORF1A:D194D	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	913	.	C	T	11890	PASS	395	0.858228	16	"43,13,206,133"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	1274	.	G	A	4791	PASS	816	0.226716	10	"383,247,126,59"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1009G>A	p.Val337Ile	1009/21291	1009/21291	337/7096	337	7096		",A"	V337I	G1274A	V337I	ORF1AB:V337I	337	ORF1a	V337I	ORF1A:V337I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	2245	.	CG	C	201	PASS	14	0.428571	0	"5,3,4,2"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1982delG	p.Gly661fs	1982/21291	1982/21291	661/7096	661	7096		"INFO_REALIGN_3_PRIME,C"	del661	CG2245C	del661	ORF1AB:DEL661	661	ORF1a	del661	ORF1A:DEL661	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	2453	.	C	T	496	PASS	200	0.115	4	"145,32,21,2"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2188C>T	p.Leu730Phe	2188/21291	2188/21291	730/7096	730	7096		",T"	L730F	C2453T	L730F	ORF1AB:L730F	730	ORF1a	L730F	ORF1A:L730F	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	2736	.	CT	C	960	PASS	301	0.116279	0	"139,128,19,16"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2475delT	p.Phe825fs	2475/21291	2475/21291	825/7096	825	7096		"INFO_REALIGN_3_PRIME,C"	del825	CT2736C	del825	ORF1AB:DEL825	825	ORF1a	del825	ORF1A:DEL825	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	3037	.	C	T	10175	PASS	275	1	0	"0,0,112,163"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	3124	.	TG	T	90	PASS	219	0.022831	16	"58,157,4,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2860delG	p.Asp954fs	2860/21291	2860/21291	954/7096	954	7096		",T"	del954	TG3124T	del954	ORF1AB:DEL954	954	ORF1a	del954	ORF1A:DEL954	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	3267	.	C	T	1161	PASS	66	0.545455	3	"19,11,19,17"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	3638	.	G	T	121	PASS	48	0.125	2	"8,34,2,4"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3373G>T	p.Gly1125Cys	3373/21291	3373/21291	1125/7096	1125	7096		",T"	G1125C	G3638T	G1125C	ORF1AB:G1125C	1125	ORF1a	G1125C	ORF1A:G1125C	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	4893	.	C	T	463	PASS	79	0.21519	5	"40,22,8,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4628C>T	p.Thr1543Ile	4628/21291	4628/21291	1543/7096	1543	7096		",T"	T1543I	C4893T	T1543I	ORF1AB:T1543I	1543	ORF1a	T1543I	ORF1A:T1543I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	5388	.	C	A	2279	PASS	62	0.983871	5	"1,0,18,43"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	5986	.	C	T	16438	PASS	437	0.997712	0	"1,0,381,55"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5721C>T	p.Phe1907Phe	5721/21291	5721/21291	1907/7096	1907	7096		",T"	F1907F	C5986T	F1907F	ORF1AB:F1907F	1907	ORF1a	F1907F	ORF1A:F1907F	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	6954	.	T	C	1719	PASS	62	0.790323	2	"5,8,14,35"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	6961	.	GT	G	516	PASS	61	0.262295	2	"13,32,6,10"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6701delT	p.Leu2234fs	6701/21291	6701/21291	2234/7096	2234	7096		"INFO_REALIGN_3_PRIME,G"	del2234	GT6961G	del2234	ORF1AB:DEL2234	2234	ORF1a	del2234	ORF1A:DEL2234	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	7622	.	GTTAA	G	326	PASS	243	0.049383	11	"143,88,4,8"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7360_7363delAATT	p.Asn2454fs	7360/21291	7360/21291	2454/7096	2454	7096		"INFO_REALIGN_3_PRIME,G"	del2454	GTTAA7622G	del2454	ORF1AB:DEL2454	2454	ORF1a	del2454	ORF1A:DEL2454	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	7798	.	G	T	379	PASS	189	0.095238	0	"88,83,9,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7533G>T	p.Lys2511Asn	7533/21291	7533/21291	2511/7096	2511	7096		",T"	K2511N	G7798T	K2511N	ORF1AB:K2511N	2511	ORF1a	K2511N	ORF1A:K2511N	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	8905	.	C	CTT	90	PASS	28	0.107143	0	"19,6,3,0"	TRUE	CTT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8644_8645dupTT	p.Leu2882fs	8646/21291	8646/21291	2882/7096	2882	7096		"INFO_REALIGN_3_PRIME,CTT"	del2882	C8905CTT	del2882	ORF1AB:DEL2882	2882	ORF1a	del2882	ORF1A:DEL2882	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	9454	.	T	C	143	PASS	65	0.107692	0	"16,42,2,5"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9189T>C	p.Tyr3063Tyr	9189/21291	9189/21291	3063/7096	3063	7096		",C"	Y3063Y	T9454C	Y3063Y	ORF1AB:Y3063Y	3063	ORF1a	Y3063Y	ORF1A:Y3063Y	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	9502	.	C	T	64	PASS	48	0.0625	2	"14,31,0,3"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9237C>T	p.Ala3079Ala	9237/21291	9237/21291	3079/7096	3079	7096		",T"	A3079A	C9502T	A3079A	ORF1AB:A3079A	3079	ORF1a	A3079A	ORF1A:A3079A	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	9867	.	T	C	1428	PASS	282	0.212766	8	"205,17,59,1"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9602T>C	p.Leu3201Pro	9602/21291	9602/21291	3201/7096	3201	7096		",C"	L3201P	T9867C	L3201P	ORF1AB:L3201P	3201	ORF1a	L3201P	ORF1A:L3201P	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	10065	.	G	A	109	PASS	677	0.016248	1	"329,337,6,5"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9800G>A	p.Arg3267Lys	9800/21291	9800/21291	3267/7096	3267	7096		",A"	R3267K	G10065A	R3267K	ORF1AB:R3267K	3267	ORF1a	R3267K	ORF1A:R3267K	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	10076	.	T	C	1680	PASS	675	0.117037	6	"285,311,44,35"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9811T>C	p.Phe3271Leu	9811/21291	9811/21291	3271/7096	3271	7096		",C"	F3271L	T10076C	F3271L	ORF1AB:F3271L	3271	ORF1a	F3271L	ORF1A:F3271L	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	10355	.	T	C	1729	PASS	800	0.11	10	"269,442,42,46"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10090T>C	p.Tyr3364His	10090/21291	10090/21291	3364/7096	3364	7096		",C"	Y3364H	T10355C	Y3364H	ORF1AB:Y3364H	3364	ORF1a	Y3364H	ORF1A:Y3364H	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	10452	.	A	AT	2353	PASS	805	0.100621	12	"377,348,33,48"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10190dupT	p.Thr3398fs	10191/21291	10191/21291	3397/7096	3397	7096		"INFO_REALIGN_3_PRIME,AT"	del3398	A10452AT	del3398	ORF1AB:DEL3398	3398	ORF1a	del3398	ORF1A:DEL3398	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	10619	.	C	CA	1477	PASS	786	0.06743	37	"283,452,7,46"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10357dupA	p.Thr3453fs	10358/21291	10358/21291	3453/7096	3453	7096		"INFO_REALIGN_3_PRIME,CA"	del3453	C10619CA	del3453	ORF1AB:DEL3453	3453	ORF1a	del3453	ORF1A:DEL3453	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	10811	.	CT	C	2200	PASS	448	0.158482	8	"201,177,31,40"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10549delT	p.Ser3517fs	10549/21291	10549/21291	3517/7096	3517	7096		"INFO_REALIGN_3_PRIME,C"	del3517	CT10811C	del3517	ORF1AB:DEL3517	3517	ORF1a	del3517	ORF1A:DEL3517	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	11230	.	G	T	321	PASS	320	0.059375	7	"77,224,2,17"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10965G>T	p.Met3655Ile	10965/21291	10965/21291	3655/7096	3655	7096		",T"	M3655I	G11230T	M3655I	ORF1AB:M3655I	3655	ORF1a	M3655I	ORF1A:M3655I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	11287	.	GTCTGGTTTT	G	3064	PASS	142	0.676056	2	"22,29,47,49"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	11451	.	A	G	598	PASS	172	0.151163	8	"66,80,16,10"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11186A>G	p.Gln3729Arg	11186/21291	11186/21291	3729/7096	3729	7096		",G"	Q3729R	A11451G	Q3729R	ORF1AB:Q3729R	3729	ORF1a	Q3729R	ORF1A:Q3729R	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	12319	.	TGAG	T	1781	PASS	396	0.146465	13	"185,155,40,18"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12057_12059delGGA	p.Glu4019del	12057/21291	12057/21291	4019/7096	4019	7096		"INFO_REALIGN_3_PRIME,T"	del4019	TGAG12319T	del4019	ORF1AB:DEL4019	4019	ORF1a	del4019	ORF1A:DEL4019	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	12835	.	T	C	3942	PASS	1237	0.14713	253	"745,309,53,129"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12570T>C	p.Asp4190Asp	12570/21291	12570/21291	4190/7096	4190	7096		",C"	D4190D	T12835C	D4190D	ORF1AB:D4190D	4190	ORF1a	D4190D	ORF1A:D4190D	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	13011	.	C	T	10639	PASS	1196	0.327759	9	5.29275E+11	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12746C>T	p.Thr4249Ile	12746/21291	12746/21291	4249/7096	4249	7096		",T"	T4249I	C13011T	T4249I	ORF1AB:T4249I	4249	ORF1a	T4249I	ORF1A:T4249I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	13350	.	G	GT	187	PASS	1004	0.00996	13	"449,558,8,2"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13089dupT	p.Thr4364fs	13090/21291	13090/21291	4364/7096	4364	7096		"INFO_REALIGN_3_PRIME,GT"	del4364	G13350GT	del4364	ORF1AB:DEL4364	4364	ORF1a	del4364	ORF1A:DEL4364	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	13694	.	C	T	4800	PASS	785	0.231847	3	"221,382,72,110"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13430C>T	p.Thr4477Ile	13430/21291	13430/21291	4477/7096	4477	7096		",T"	T4477I	C13694T	T4477I	ORF1AB:T4477I	76	ORF1b	T76I	ORF1B:T76I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	13993	.	G	T	613	PASS	704	0.059659	3	"185,477,14,28"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	14028	.	G	C	1385	PASS	671	0.122206	2	"127,461,20,62"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13764G>C	p.Met4588Ile	13764/21291	13764/21291	4588/7096	4588	7096		",C"	M4588I	G14028C	M4588I	ORF1AB:M4588I	187	ORF1b	M187I	ORF1B:M187I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	14408	.	C	T	627	PASS	17	1	0	"0,0,10,7"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	14625	.	C	CT	5062	PASS	949	0.172813	8	"664,122,146,18"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14365dupT	p.Ser4789fs	14366/21291	14366/21291	4789/7096	4789	7096		"INFO_REALIGN_3_PRIME,CT"	del4789	C14625CT	del4789	ORF1AB:DEL4789	388	ORF1b	del388	ORF1B:DEL388	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	14676	.	C	T	18824	PASS	915	0.643716	10	"235,89,394,195"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	15279	.	C	T	11802	PASS	640	0.6	8	"46,209,52,332"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	15406	.	G	T	893	PASS	106	0.311321	2	"41,32,21,12"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15142G>T	p.Ala5048Ser	15142/21291	15142/21291	5048/7096	5048	7096		",T"	A5048S	G15406T	A5048S	ORF1AB:A5048S	647	ORF1b	A647S	ORF1B:A647S	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	15906	.	G	T	269	PASS	48	0.208333	0	"6,32,1,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15642G>T	p.Gln5214His	15642/21291	15642/21291	5214/7096	5214	7096		",T"	Q5214H	G15906T	Q5214H	ORF1AB:Q5214H	813	ORF1b	Q813H	ORF1B:Q813H	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	16837	.	G	GA	5548	PASS	1065	0.173709	12	"369,515,63,122"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578dupA	p.Gly5527fs	16579/21291	16579/21291	5527/7096	5527	7096		"INFO_REALIGN_3_PRIME,GA"	del5527	G16837GA	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	16889	.	A	G	4018	PASS	1017	0.158309	3	"324,532,56,105"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	17019	.	G	T	2537	PASS	763	0.144168	9	"149,504,17,93"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	18132	.	T	C	5457	PASS	420	0.445238	114	"130,103,42,145"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17868T>C	p.Thr5956Thr	17868/21291	17868/21291	5956/7096	5956	7096		",C"	T5956T	T18132C	T5956T	ORF1AB:T5956T	1555	ORF1b	T1555T	ORF1B:T1555T	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	19604	.	C	CT	1120	PASS	147	0.238095	3	"70,43,19,16"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19344dupT	p.Thr6449fs	19345/21291	19345/21291	6449/7096	6449	7096		"INFO_REALIGN_3_PRIME,CT"	del6449	C19604CT	del6449	ORF1AB:DEL6449	2048	ORF1b	del2048	ORF1B:DEL2048	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	19884	.	C	T	168	PASS	110	0.081818	0	"16,85,1,8"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19620C>T	p.Tyr6540Tyr	19620/21291	19620/21291	6540/7096	6540	7096		",T"	Y6540Y	C19884T	Y6540Y	ORF1AB:Y6540Y	2139	ORF1b	Y2139Y	ORF1B:Y2139Y	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	20398	.	G	A	2151	PASS	723	0.139696	5	"552,69,94,7"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20134G>A	p.Glu6712Lys	20134/21291	20134/21291	6712/7096	6712	7096		",A"	E6712K	G20398A	E6712K	ORF1AB:E6712K	2311	ORF1b	E2311K	ORF1B:E2311K	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	20781	.	G	T	4555	PASS	1392	0.145115	7	"515,675,98,104"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20517G>T	p.Met6839Ile	20517/21291	20517/21291	6839/7096	6839	7096		",T"	M6839I	G20781T	M6839I	ORF1AB:M6839I	2438	ORF1b	M2438I	ORF1B:M2438I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	21101	.	G	GT	5569	PASS	936	0.232906	12	"173,550,38,180"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843dupT	p.Thr6949fs	20844/21291	20844/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,GT"	del6949	G21101GT	del6949	ORF1AB:DEL6949	2548	ORF1b	del2548	ORF1B:DEL2548	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	21614	.	C	T	911	PASS	134	0.261194	95	"22,77,29,6"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.52C>T	p.Leu18Phe	52/3822	52/3822	18/1273	18	1273		",T"	L18F	C21614T	L18F	S:L18F	18	S	L18F	S:L18F	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	22450	.	C	T	216	PASS	50	0.18	3	"24,17,4,5"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.888C>T	p.Leu296Leu	888/3822	888/3822	296/1273	296	1273		",T"	L296L	C22450T	L296L	S:L296L	296	S	L296L	S:L296L	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	22882	.	T	G	159	PASS	25	0.24	0	"6,13,2,4"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1320T>G	p.Asn440Lys	1320/3822	1320/3822	440/1273	440	1273		",G"	N440K	T22882G	N440K	S:N440K	440	S	N440K	S:N440K	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	22992	.	G	A	87	PASS	25	0.16	5	"7,14,3,1"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23061	.	C	T	88	PASS	26	0.153846	0	"12,10,2,2"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1499C>T	p.Thr500Ile	1499/3822	1499/3822	500/1273	500	1273		",T"	T500I	C23061T	T500I	S:T500I	500	S	T500I	S:T500I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23063	.	A	T	535	PASS	26	0.653846	3	"6,3,8,9"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23271	.	C	A	723	PASS	34	0.647059	3	"8,4,11,11"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>A	p.Ala570Asp	1709/3822	1709/3822	570/1273	570	1273		",A"	A570D	C23271A	A570D	S:A570D	570	S	A570D	S:A570D	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23403	.	A	G	1285	PASS	37	1	0	"0,0,17,20"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23604	.	C	A	601	PASS	17	0.941176	0	"1,0,8,8"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23664	.	C	T	92	PASS	22	0.227273	0	"9,8,3,2"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2102C>T	p.Ala701Val	2102/3822	2102/3822	701/1273	701	1273		",T"	A701V	C23664T	A701V	S:A701V	701	S	A701V	S:A701V	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23709	.	C	T	548	PASS	24	0.708333	1	"4,3,7,10"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2147C>T	p.Thr716Ile	2147/3822	2147/3822	716/1273	716	1273		",T"	T716I	C23709T	T716I	S:T716I	716	S	T716I	S:T716I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23825	.	C	CA	223	PASS	51	0.137255	3	"32,12,4,3"	TRUE	CA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2265dupA	p.Tyr756fs	2266/3822	2266/3822	756/1273	756	1273		"INFO_REALIGN_3_PRIME,CA"	del756	C23825CA	del756	S:DEL756	756	S	del756	S:DEL756	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	23903	.	GT	G	48	PASS	50	0.04	0	"29,19,1,1"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2346delT	p.Phe782fs	2346/3822	2346/3822	782/1273	782	1273		"INFO_REALIGN_3_PRIME,G"	del782	GT23903G	del782	S:DEL782	782	S	del782	S:DEL782	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	24373	.	A	G	196	PASS	329	0.045593	29	"278,35,8,7"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2811A>G	p.Ser937Ser	2811/3822	2811/3822	937/1273	937	1273		",G"	S937S	A24373G	S937S	S:S937S	937	S	S937S	S:S937S	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	24492	.	T	TA	2403	PASS	755	0.109934	8	"504,168,69,14"	TRUE	TA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2933dupA	p.Asn978fs	2934/3822	2934/3822	978/1273	978	1273		"INFO_REALIGN_3_PRIME,TA"	del978	T24492TA	del978	S:DEL978	978	S	del978	S:DEL978	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	24506	.	T	G	27014	PASS	758	0.974934	62	"4,15,571,168"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	24585	.	T	C	560	PASS	903	0.040975	2	"521,345,24,13"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3023T>C	p.Val1008Ala	3023/3822	3023/3822	1008/1273	1008	1273		",C"	V1008A	T24585C	V1008A	S:V1008A	1008	S	V1008A	S:V1008A	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	24750	.	T	G	3907	PASS	992	0.170363	8	"484,338,89,80"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3188T>G	p.Leu1063Trp	3188/3822	3188/3822	1063/1273	1063	1273		",G"	L1063W	T24750G	L1063W	S:L1063W	1063	S	L1063W	S:L1063W	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	24914	.	G	C	32572	PASS	1052	0.937262	164	"59,7,373,613"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	25164	.	A	T	2116	PASS	713	0.13324	32	"137,481,7,88"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3602A>T	p.Gln1201Leu	3602/3822	3602/3822	1201/1273	1201	1273		",T"	Q1201L	A25164T	Q1201L	S:Q1201L	1201	S	Q1201L	S:Q1201L	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	25563	.	G	T	2496	PASS	295	0.305085	12	"99,106,32,58"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	25785	.	G	T	879	PASS	118	0.288136	9	"42,42,23,11"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.393G>T	p.Trp131Cys	393/828	393/828	131/275	131	275		",T"	W131C	G25785T	W131C	ORF3A:W131C	131	ORF3a	W131C	ORF3A:W131C	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	25839	.	G	T	192	PASS	107	0.102804	2	"58,38,8,3"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.447G>T	p.Trp149Cys	447/828	447/828	149/275	149	275		",T"	W149C	G25839T	W149C	ORF3A:W149C	149	ORF3a	W149C	ORF3A:W149C	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	25916	.	C	T	531	PASS	184	0.130435	10	"92,68,9,15"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.524C>T	p.Thr175Ile	524/828	524/828	175/275	175	275		",T"	T175I	C25916T	T175I	ORF3A:T175I	175	ORF3a	T175I	ORF3A:T175I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	25996	.	G	A	565	PASS	221	0.131222	3	"100,92,18,11"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>A	p.Val202Ile	604/828	604/828	202/275	202	275		",A"	V202I	G25996A	V202I	ORF3A:V202I	202	ORF3a	V202I	ORF3A:V202I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	26106	.	TGAG	T	1956	PASS	734	0.099455	13	"480,182,61,12"	TRUE	T	conservative_inframe_deletion	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.715_717delGAG	p.Glu239del	715/828	715/828	239/275	239	275		",T"	del239	TGAG26106T	del239	ORF3A:DEL239	239	ORF3a	del239	ORF3A:DEL239	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	26110	.	C	T	292	PASS	812	0.034483	7	"599,184,18,10"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.718C>T	p.Pro240Ser	718/828	718/828	240/275	240	275		",T"	P240S	C26110T	P240S	ORF3A:P240S	240	ORF3a	P240S	ORF3A:P240S	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	26158	.	G	T	236	PASS	1021	0.019589	3	"733,268,13,7"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.766G>T	p.Val256Phe	766/828	766/828	256/275	256	275		",T"	V256F	G26158T	V256F	ORF3A:V256F	256	ORF3a	V256F	ORF3A:V256F	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	26227	.	G	C	327	PASS	1149	0.02611	7	"633,486,13,17"	FALSE	C	upstream_gene_variant	MODIFIER	E	GU280_gp04	transcript	GU280_gp04	protein_coding		c.-18G>C						NA	18	",C"		G26227C		NA	NA	E		NA	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	26456	.	C	T	4977	PASS	1302	0.173579	0	5.43533E+11	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.212C>T	p.Pro71Leu	212/228	212/228	71/75	71	75		",T"	P71L	C26456T	P71L	E:P71L	71	E	P71L	E:P71L	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	26484	.	A	T	3568	PASS	1336	0.127994	3	"591,573,93,78"	FALSE	T	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-39A>T						NA	39	",T"		A26484T		NA	NA	M		NA	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	26645	.	C	T	3188	PASS	932	0.149142	11	"362,430,52,87"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.123C>T	p.Asn41Asn	123/669	123/669	41/222	41	222		",T"	N41N	C26645T	N41N	M:N41N	41	M	N41N	M:N41N	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	26897	.	TG	T	904	PASS	651	0.053763	16	"182,435,17,18"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.377delG	p.Gly126fs	377/669	377/669	126/222	126	222		"INFO_REALIGN_3_PRIME,T"	del126	TG26897T	del126	M:DEL126	126	M	del126	M:DEL126	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	27147	.	G	T	3763	PASS	451	0.303769	125	"149,165,114,23"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.625G>T	p.Asp209Tyr	625/669	625/669	209/222	209	222		",T"	D209Y	G27147T	D209Y	M:D209Y	209	M	D209Y	M:D209Y	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	27188	.	G	T	697	PASS	459	0.08061	3	"257,164,20,17"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.666G>T	p.Gln222His	666/669	666/669	222/222	222	222		",T"	Q222H	G27188T	Q222H	M:Q222H	222	M	Q222H	M:Q222H	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	27312	.	T	TA	3378	PASS	800	0.1475	44	"413,270,47,71"	TRUE	TA	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.116dupA	p.Asn39fs	117/186	117/186	39/61	39	61		"INFO_REALIGN_3_PRIME,TA"	del39	T27312TA	del39	ORF6:DEL39	39	ORF6	del39	ORF6:DEL39	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	27434	.	C	T	236	PASS	778	0.025707	15	"254,504,2,18"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	27575	.	C	T	1390	PASS	505	0.130693	3	"284,155,39,27"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.182C>T	p.Thr61Ile	182/366	182/366	61/121	61	121		",T"	T61I	C27575T	T61I	ORF7A:T61I	61	ORF7a	T61I	ORF7A:T61I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	27877	.	G	T	513	PASS	833	0.04922	14	"385,407,13,28"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.122G>T	p.Cys41Phe	122/132	122/132	41/43	41	43		",T"	C41F	G27877T	C41F	ORF7B:C41F	41	ORF7b	C41F	ORF7B:C41F	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	27972	.	C	T	22389	PASS	969	0.69969	16	1.40151E+11	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28005	.	C	T	217	PASS	813	0.02706	38	"381,408,2,20"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.112C>T	p.Pro38Ser	112/366	112/366	38/121	38	121		",T"	P38S	C28005T	P38S	ORF8:P38S	38	ORF8	P38S	ORF8:P38S	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28028	.	G	T	1257	PASS	764	0.089005	5	"369,325,41,27"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.135G>T	p.Trp45Cys	135/366	135/366	45/121	45	121		",T"	W45C	G28028T	W45C	ORF8:W45C	45	ORF8	W45C	ORF8:W45C	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28048	.	G	T	17478	PASS	796	0.665829	3	1.59107E+11	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28095	.	A	T	2013	PASS	721	0.12344	2	"405,226,54,35"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.202A>T	p.Lys68*	202/366	202/366	68/121	68	121		",T"	K68*	A28095T	K68*	ORF8:K68*	68	ORF8	K68*	ORF8:K68*	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28111	.	A	G	13547	PASS	742	0.603774	2	"196,96,290,158"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28253	.	CA	C	3303	PASS	535	0.205607	4	"173,254,39,71"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361delA	p.Ile121fs	361/366	361/366	121/121	121	121		",C"	del121	CA28253C	del121	ORF8:DEL121	121	ORF8	del121	ORF8:DEL121	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28270	.	TA	T	6222	PASS	642	0.44081	29	1.36225E+11	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28280	.	G	C	5707	PASS	613	0.458401	0	1.67162E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28281	.	A	T	5697	PASS	614	0.456026	0	1.69163E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28282	.	T	A	5835	PASS	623	0.460674	1	1.69165E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28310	.	C	T	9386	PASS	795	0.41761	6	2.5321E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.37C>T	p.Pro13Ser	37/1260	37/1260	13/419	13	419		",T"	P13S	C28310T	P13S	N:P13S	13	N	P13S	N:P13S	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28473	.	C	T	2959	PASS	1710	0.090643	32	"1025,530,123,32"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.200C>T	p.Pro67Leu	200/1260	200/1260	67/419	67	419		",T"	P67L	C28473T	P67L	N:P67L	67	N	P67L	N:P67L	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28489	.	T	C	461	PASS	1812	0.025386	31	"1174,591,19,27"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.216T>C	p.Val72Val	216/1260	216/1260	72/419	72	419		",C"	V72V	T28489C	V72V	N:V72V	72	N	V72V	N:V72V	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28657	.	C	T	12475	PASS	1626	0.298893	24	5.42598E+11	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28817	.	G	C	4653	PASS	1622	0.138101	7	6.96702E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.544G>C	p.Ala182Pro	544/1260	544/1260	182/419	182	419		",C"	A182P	G28817C	A182P	N:A182P	182	N	A182P	N:A182P	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28862	.	T	A	10449	PASS	1541	0.26087	5	5.35603E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.589T>A	p.Ser197Thr	589/1260	589/1260	197/419	197	419		",A"	S197T	T28862A	S197T	N:S197T	197	N	S197T	N:S197T	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28881	.	G	A	29298	PASS	1352	0.661243	6	2.05253E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28882	.	G	A	28572	PASS	1356	0.657817	6	2.06256E+11	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28883	.	G	C	28781	PASS	1364	0.662023	4	2.05255E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28887	.	C	T	9933	PASS	1462	0.291382	4	5.18518E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-1	NC_045512.2	28977	.	C	T	18485	PASS	1356	0.477139	34	2.71437E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	PET49-1	PETANGE	2021-03-01T00:00:00Z	30.54575	34.61333333	To be done	NA	2021-03-01
PET49-2	NC_045512.2	61	.	G	A	760	PASS	21	1	0	"0,0,19,2"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>A						NA	205	",A"		G61A		NA	NA	NA		NA	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	241	.	C	T	1832	PASS	51	1	0	"0,0,34,17"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	847	.	T	C	784	PASS	44	0.568182	32	"11,8,2,23"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>C	p.Asp194Asp	582/21291	582/21291	194/7096	194	7096		",C"	D194D	T847C	D194D	ORF1AB:D194D	194	ORF1a	D194D	ORF1A:D194D	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	913	.	C	T	644	PASS	17	1	0	"0,0,11,6"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	6954	.	T	C	442	PASS	12	1	0	"0,0,3,9"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	10427	.	G	GT	629	PASS	55	0.327273	10	"23,14,6,12"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10165dupT	p.Tyr3389fs	10166/21291	10166/21291	3389/7096	3389	7096		"INFO_REALIGN_3_PRIME,GT"	del3389	G10427GT	del3389	ORF1AB:DEL3389	3389	ORF1a	del3389	ORF1A:DEL3389	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	10605	.	CT	C	272	PASS	52	0.173077	3	"18,25,2,7"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10344delT	p.Phe3448fs	10344/21291	10344/21291	3448/7096	3448	7096		"INFO_REALIGN_3_PRIME,C"	del3448	CT10605C	del3448	ORF1AB:DEL3448	3448	ORF1a	del3448	ORF1A:DEL3448	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	10681	.	C	T	67	PASS	43	0.069767	0	"16,24,1,2"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10416C>T	p.Tyr3472Tyr	10416/21291	10416/21291	3472/7096	3472	7096		",T"	Y3472Y	C10681T	Y3472Y	ORF1AB:Y3472Y	3472	ORF1a	Y3472Y	ORF1A:Y3472Y	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	11287	.	GTCTGGTTTT	G	332	PASS	11	0.909091	6	"2,1,2,8"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	12133	.	T	C	91	PASS	10	0.4	0	"6,0,4,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11868T>C	p.Ala3956Ala	11868/21291	11868/21291	3956/7096	3956	7096		",C"	A3956A	T12133C	A3956A	ORF1AB:A3956A	3956	ORF1a	A3956A	ORF1A:A3956A	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	12331	.	G	T	251	PASS	51	0.235294	1	"25,14,7,5"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12066G>T	p.Arg4022Ser	12066/21291	12066/21291	4022/7096	4022	7096		",T"	R4022S	G12331T	R4022S	ORF1AB:R4022S	4022	ORF1a	R4022S	ORF1A:R4022S	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	12682	.	A	G	68	PASS	56	0.053571	2	"21,32,2,1"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12417A>G	p.Leu4139Leu	12417/21291	12417/21291	4139/7096	4139	7096		",G"	L4139L	A12682G	L4139L	ORF1AB:L4139L	4139	ORF1a	L4139L	ORF1A:L4139L	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	12835	.	T	C	230	PASS	96	0.104167	10	"45,41,2,8"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12570T>C	p.Asp4190Asp	12570/21291	12570/21291	4190/7096	4190	7096		",C"	D4190D	T12835C	D4190D	ORF1AB:D4190D	4190	ORF1a	D4190D	ORF1A:D4190D	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	13329	.	C	T	505	PASS	66	0.287879	1	"22,25,8,11"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13064C>T	p.Thr4355Ile	13064/21291	13064/21291	4355/7096	4355	7096		",T"	T4355I	C13329T	T4355I	ORF1AB:T4355I	4355	ORF1a	T4355I	ORF1A:T4355I	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	13694	.	C	T	575	PASS	119	0.184874	3	"40,57,7,15"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13430C>T	p.Thr4477Ile	13430/21291	13430/21291	4477/7096	4477	7096		",T"	T4477I	C13694T	T4477I	ORF1AB:T4477I	76	ORF1b	T76I	ORF1B:T76I	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	13768	.	A	C	527	PASS	127	0.181102	9	"47,57,6,17"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13504A>C	p.Met4502Leu	13504/21291	13504/21291	4502/7096	4502	7096		",C"	M4502L	A13768C	M4502L	ORF1AB:M4502L	101	ORF1b	M101L	ORF1B:M101L	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	14537	.	T	C	921	PASS	80	0.4	5	"45,3,32,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14273T>C	p.Leu4758Pro	14273/21291	14273/21291	4758/7096	4758	7096		",C"	L4758P	T14537C	L4758P	ORF1AB:L4758P	357	ORF1b	L357P	ORF1B:L357P	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	14676	.	C	T	2228	PASS	136	0.514706	1	"47,19,47,23"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	15096	.	T	C	879	PASS	105	0.32381	12	"28,41,21,13"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14832T>C	p.Asn4944Asn	14832/21291	14832/21291	4944/7096	4944	7096		",C"	N4944N	T15096C	N4944N	ORF1AB:N4944N	543	ORF1b	N543N	ORF1B:N543N	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	15279	.	C	T	1249	PASS	74	0.554054	0	"2,31,3,38"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	17090	.	G	A	747	PASS	32	0.6875	1	"3,7,5,17"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16826G>A	p.Gly5609Asp	16826/21291	16826/21291	5609/7096	5609	7096		",A"	G5609D	G17090A	G5609D	ORF1AB:G5609D	1208	ORF1b	G1208D	ORF1B:G1208D	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	18215	.	GT	G	52	PASS	63	0.031746	0	"20,41,1,1"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17955delT	p.Phe5985fs	17955/21291	17955/21291	5985/7096	5985	7096		"INFO_REALIGN_3_PRIME,G"	del5985	GT18215G	del5985	ORF1AB:DEL5985	1584	ORF1b	del1584	ORF1B:DEL1584	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	20398	.	G	A	412	PASS	108	0.157407	2	"85,6,17,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20134G>A	p.Glu6712Lys	20134/21291	20134/21291	6712/7096	6712	7096		",A"	E6712K	G20398A	E6712K	ORF1AB:E6712K	2311	ORF1b	E2311K	ORF1B:E2311K	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	20578	.	G	T	1836	PASS	248	0.282258	11	"115,63,54,16"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20314G>T	p.Val6772Leu	20314/21291	20314/21291	6772/7096	6772	7096		",T"	V6772L	G20578T	V6772L	ORF1AB:V6772L	2371	ORF1b	V2371L	ORF1B:V2371L	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	21764	.	ATACATG	A	734	PASS	23	0.869565	0	"1,2,7,13"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	21990	.	TTTA	T	679	PASS	24	0.75	4	"4,2,7,11"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.432_434delTTA	p.Tyr145del	432/3822	432/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,T"	del145	TTTA21990T	del145	S:DEL145	145	S	del145	S:DEL145	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	24506	.	T	G	3789	PASS	105	0.990476	4	"0,1,68,36"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	24662	.	C	T	1125	PASS	145	0.289655	1	"55,48,24,18"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3100C>T	p.Leu1034Phe	3100/3822	3100/3822	1034/1273	1034	1273		",T"	L1034F	C24662T	L1034F	S:L1034F	1034	S	L1034F	S:L1034F	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	24804	.	T	C	921	PASS	146	0.232877	1	"58,54,19,15"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3242T>C	p.Ile1081Thr	3242/3822	3242/3822	1081/1273	1081	1273		",C"	I1081T	T24804C	I1081T	S:I1081T	1081	S	I1081T	S:I1081T	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	24914	.	G	C	4081	PASS	129	0.945736	1	"4,3,54,68"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	25563	.	G	T	315	PASS	31	0.354839	8	"12,8,3,8"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	25790	.	G	T	95	PASS	22	0.181818	2	"9,9,3,1"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.398G>T	p.Cys133Phe	398/828	398/828	133/275	133	275		",T"	C133F	G25790T	C133F	ORF3A:C133F	133	ORF3a	C133F	ORF3A:C133F	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	25904	.	C	T	81	PASS	19	0.157895	0	"9,7,2,1"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.512C>T	p.Ser171Leu	512/828	512/828	171/275	171	275		",T"	S171L	C25904T	S171L	ORF3A:S171L	171	ORF3a	S171L	ORF3A:S171L	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	26383	.	G	C	943	PASS	225	0.173333	2	"123,63,28,11"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.139G>C	p.Val47Leu	139/228	139/228	47/75	47	75		",C"	V47L	G26383C	V47L	E:V47L	47	E	V47L	E:V47L	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	26456	.	C	T	563	PASS	237	0.122363	17	"110,98,8,21"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.212C>T	p.Pro71Leu	212/228	212/228	71/75	71	75		",T"	P71L	C26456T	P71L	E:P71L	71	E	P71L	E:P71L	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	26645	.	C	T	574	PASS	185	0.145946	3	"81,77,11,16"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.123C>T	p.Asn41Asn	123/669	123/669	41/222	41	222		",T"	N41N	C26645T	N41N	M:N41N	41	M	N41N	M:N41N	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	26654	.	GT	G	40	PASS	212	0.009434	0	"98,112,1,1"	TRUE	G	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.137delT	p.Leu46fs	137/669	137/669	46/222	46	222		"INFO_REALIGN_3_PRIME,G"	del46	GT26654G	del46	M:DEL46	46	M	del46	M:DEL46	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	26740	.	T	TA	872	PASS	197	0.142132	0	"48,123,7,21"	TRUE	TA	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.221dupA	p.Asn74fs	222/669	222/669	74/222	74	222		"INFO_REALIGN_3_PRIME,TA"	del74	T26740TA	del74	M:DEL74	74	M	del74	M:DEL74	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	27972	.	C	T	3556	PASS	130	0.823077	19	"2,21,39,68"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28048	.	G	T	2487	PASS	78	0.897436	8	"2,6,40,30"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28111	.	A	G	2497	PASS	71	1	0	"0,0,41,30"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28253	.	CA	C	241	PASS	46	0.173913	1	"19,19,5,3"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361delA	p.Ile121fs	361/366	361/366	121/121	121	121		",C"	del121	CA28253C	del121	ORF8:DEL121	121	ORF8	del121	ORF8:DEL121	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28270	.	TA	T	1399	PASS	66	0.939394	17	"0,4,41,21"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28280	.	G	C	1327	PASS	60	0.983333	0	"0,0,39,20"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28281	.	A	T	1292	PASS	60	0.983333	0	"1,0,39,20"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28282	.	T	A	1333	PASS	62	0.983871	0	"1,0,40,21"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28344	.	C	T	342	PASS	95	0.157895	11	"48,32,13,2"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.71C>T	p.Thr24Ile	71/1260	71/1260	24/419	24	419		",T"	T24I	C28344T	T24I	N:T24I	24	N	T24I	N:T24I	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28473	.	C	T	442	PASS	269	0.081784	12	"174,73,11,11"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.200C>T	p.Pro67Leu	200/1260	200/1260	67/419	67	419		",T"	P67L	C28473T	P67L	N:P67L	67	N	P67L	N:P67L	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28624	.	AG	A	376	PASS	298	0.050336	48	"152,131,0,15"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.352delG	p.Glu118fs	352/1260	352/1260	118/419	118	419		",A"	del118	AG28624A	del118	N:DEL118	118	N	del118	N:DEL118	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28657	.	C	T	725	PASS	271	0.125461	0	"120,117,18,16"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28862	.	T	A	846	PASS	243	0.156379	0	"96,109,17,21"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.589T>A	p.Ser197Thr	589/1260	589/1260	197/419	197	419		",A"	S197T	T28862A	S197T	N:S197T	197	N	S197T	N:S197T	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28881	.	G	A	4733	PASS	212	0.693396	14	"23,41,76,71"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28882	.	G	A	4684	PASS	211	0.696682	12	"23,40,76,71"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28883	.	G	C	4609	PASS	212	0.698113	12	"23,40,76,72"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28884	.	G	C	360	PASS	233	0.11588	0	"104,102,13,14"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.611G>C	p.Gly204Ala	611/1260	611/1260	204/419	204	419		",C"	G204A	G28884C	G204A	N:G204A	204	N	G204A	N:G204A	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28887	.	C	T	922	PASS	239	0.221757	12	"105,81,22,31"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28936	.	G	T	56	PASS	192	0.041667	33	"68,115,8,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.663G>T	p.Leu221Phe	663/1260	663/1260	221/419	221	419		",T"	L221F	G28936T	L221F	N:L221F	221	N	L221F	N:L221F	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
PET49-2	NC_045512.2	28977	.	C	T	4831	PASS	212	0.716981	26	"30,30,41,111"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	PET49-2	PETANGE	2021-03-04T00:00:00Z	31.5715	33.87666667	To be done	NA	2021-03-04
SCH17	NC_045512.2	241	.	C	T	49314	PASS	4591	0.998257	0	"1,0,4583,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	295	.	G	GA	19304	PASS	4327	0.151606	0	"3670,0,656,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.34dupA	p.Thr12fs	35/21291	35/21291	12/7096	12	7096		"INFO_REALIGN_3_PRIME,GA"	del12	G295GA	del12	ORF1AB:DEL12	12	ORF1a	del12	ORF1A:DEL12	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	323	.	G	GT	20713	PASS	4463	0.155053	0	"3773,0,692,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.62dupT	p.Leu21fs	63/21291	63/21291	21/7096	21	7096		"INFO_REALIGN_3_PRIME,GT"	del21	G323GT	del21	ORF1AB:DEL21	21	ORF1a	del21	ORF1A:DEL21	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	323	.	G	T	122	PASS	4465	0.008287	0	"4428,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.58G>T	p.Val20Phe	58/21291	58/21291	20/7096	20	7096		",T"	V20F	G323T	V20F	ORF1AB:V20F	20	ORF1a	V20F	ORF1A:V20F	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	393	.	G	A	14107	PASS	4986	0.132371	0	"4321,0,660,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.128G>A	p.Arg43His	128/21291	128/21291	43/7096	43	7096		",A"	R43H	G393A	R43H	ORF1AB:R43H	43	ORF1a	R43H	ORF1A:R43H	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	505	.	T	C	39873	PASS	5431	0.28503	0	"3880,0,1548,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.240T>C	p.Pro80Pro	240/21291	240/21291	80/7096	80	7096		",C"	P80P	T505C	P80P	ORF1AB:P80P	80	ORF1a	P80P	ORF1A:P80P	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	553	.	G	T	19778	PASS	5053	0.165842	0	"4213,0,838,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.288G>T	p.Gln96His	288/21291	288/21291	96/7096	96	7096		",T"	Q96H	G553T	Q96H	ORF1AB:Q96H	96	ORF1a	Q96H	ORF1A:Q96H	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	740	.	G	GA	24163	PASS	4820	0.165353	0	"4030,0,797,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.479dupA	p.Asn160fs	480/21291	480/21291	160/7096	160	7096		"INFO_REALIGN_3_PRIME,GA"	del160	G740GA	del160	ORF1AB:DEL160	160	ORF1a	del160	ORF1A:DEL160	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	872	.	G	T	30526	PASS	1638	0.612332	0	"635,0,1003,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.607G>T	p.Asp203Tyr	607/21291	607/21291	203/7096	203	7096		",T"	D203Y	G872T	D203Y	ORF1AB:D203Y	203	ORF1a	D203Y	ORF1A:D203Y	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	1315	.	TA	T	56	PASS	1994	0.002006	0	"1990,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1053delA	p.Glu352fs	1053/21291	1053/21291	351/7096	351	7096		"INFO_REALIGN_3_PRIME,T"	del352	TA1315T	del352	ORF1AB:DEL352	352	ORF1a	del352	ORF1A:DEL352	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	1349	.	C	CA	1172	PASS	2059	0.025255	0	"2007,0,52,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1088dupA	p.Asn363fs	1089/21291	1089/21291	363/7096	363	7096		"INFO_REALIGN_3_PRIME,CA"	del363	C1349CA	del363	ORF1AB:DEL363	363	ORF1a	del363	ORF1A:DEL363	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	1438	.	TG	T	13997	PASS	1764	0.248866	0	"1325,0,439,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1175delG	p.Gly392fs	1175/21291	1175/21291	392/7096	392	7096		"INFO_REALIGN_3_PRIME,T"	del392	TG1438T	del392	ORF1AB:DEL392	392	ORF1a	del392	ORF1A:DEL392	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	1606	.	TG	T	20263	PASS	2577	0.262709	0	"1997,0,677,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1342delG	p.Asp448fs	1342/21291	1342/21291	448/7096	448	7096		",T"	del448	TG1606T	del448	ORF1AB:DEL448	448	ORF1a	del448	ORF1A:DEL448	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	1607	.	G	A	137	PASS	2580	0.010465	0	"1873,0,27,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1342G>A	p.Asp448Asn	1342/21291	1342/21291	448/7096	448	7096		",A"	D448N	G1607A	D448N	ORF1AB:D448N	448	ORF1a	D448N	ORF1A:D448N	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	2441	.	G	GA	753	PASS	450	0.062222	0	"423,0,28,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2179dupA	p.Thr727fs	2180/21291	2180/21291	727/7096	727	7096		"INFO_REALIGN_3_PRIME,GA"	del727	G2441GA	del727	ORF1AB:DEL727	727	ORF1a	del727	ORF1A:DEL727	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	3037	.	C	T	17920	PASS	511	1	2147483647	"0,0,511,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	3261	.	C	T	2990	PASS	185	0.535135	0	"86,0,99,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2996C>T	p.Thr999Ile	2996/21291	2996/21291	999/7096	999	7096		",T"	T999I	C3261T	T999I	ORF1AB:T999I	999	ORF1a	T999I	ORF1A:T999I	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4066	.	TG	T	1457	PASS	111	0.414414	0	"66,0,46,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3802delG	p.Ala1268fs	3802/21291	3802/21291	1268/7096	1268	7096		",T"	del1268	TG4066T	del1268	ORF1AB:DEL1268	1268	ORF1a	del1268	ORF1A:DEL1268	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4148	.	G	GT	48	PASS	100	0.02	0	"98,0,2,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3887dupT	p.Leu1296fs	3888/21291	3888/21291	1296/7096	1296	7096		"INFO_REALIGN_3_PRIME,GT"	del1296	G4148GT	del1296	ORF1AB:DEL1296	1296	ORF1a	del1296	ORF1A:DEL1296	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4169	.	CCTA	C	109	PASS	89	0.044944	0	"94,0,4,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3908_3910delCTA	p.Thr1303del	3908/21291	3908/21291	1303/7096	1303	7096		"INFO_REALIGN_3_PRIME,C"	del1303	CCTA4169C	del1303	ORF1AB:DEL1303	1303	ORF1a	del1303	ORF1A:DEL1303	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4207	.	G	T	147	PASS	84	0.083333	0	"77,0,7,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3942G>T	p.Ala1314Ala	3942/21291	3942/21291	1314/7096	1314	7096		",T"	A1314A	G4207T	A1314A	ORF1AB:A1314A	1314	ORF1a	A1314A	ORF1A:A1314A	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4300	.	G	T	172	PASS	37	0.189189	0	"30,0,7,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4035G>T	p.Val1345Val	4035/21291	4035/21291	1345/7096	1345	7096		",T"	V1345V	G4300T	V1345V	ORF1AB:V1345V	1345	ORF1a	V1345V	ORF1A:V1345V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4308	.	A	G	74	PASS	30	0.1	0	"27,0,3,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4043A>G	p.Lys1348Arg	4043/21291	4043/21291	1348/7096	1348	7096		",G"	K1348R	A4308G	K1348R	ORF1AB:K1348R	1348	ORF1a	K1348R	ORF1A:K1348R	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4694	.	G	T	386	PASS	51	0.294118	0	"36,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4429G>T	p.Val1477Phe	4429/21291	4429/21291	1477/7096	1477	7096		",T"	V1477F	G4694T	V1477F	ORF1AB:V1477F	1477	ORF1a	V1477F	ORF1A:V1477F	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4849	.	TAAG	T	3678	PASS	277	0.393502	0	"168,0,109,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4586_4588delAGA	p.Lys1529del	4586/21291	4586/21291	1529/7096	1529	7096		"INFO_REALIGN_3_PRIME,T"	del1529	TAAG4849T	del1529	ORF1AB:DEL1529	1529	ORF1a	del1529	ORF1A:DEL1529	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	4943	.	C	T	3432	PASS	309	0.391586	0	"186,0,121,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4678C>T	p.Leu1560Phe	4678/21291	4678/21291	1560/7096	1560	7096		",T"	L1560F	C4943T	L1560F	ORF1AB:L1560F	1560	ORF1a	L1560F	ORF1A:L1560F	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	6696	.	C	CT	2361	PASS	360	0.211111	0	"284,0,76,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	6701	.	C	T	694	PASS	310	0.270968	0	"226,0,84,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	6763	.	T	TA	4856	PASS	146	0.890411	0	"16,0,130,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6500dupA	p.Asn2167fs	6501/21291	6501/21291	2167/7096	2167	7096		"INFO_REALIGN_3_PRIME,TA"	del2167	T6763TA	del2167	ORF1AB:DEL2167	2167	ORF1a	del2167	ORF1A:DEL2167	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	7133	.	G	T	647	PASS	1343	0.039464	0	"1290,0,53,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6868G>T	p.Val2290Phe	6868/21291	6868/21291	2290/7096	2290	7096		",T"	V2290F	G7133T	V2290F	ORF1AB:V2290F	2290	ORF1a	V2290F	ORF1A:V2290F	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	7613	.	T	C	5994	PASS	1974	0.134245	0	"1707,0,265,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7348T>C	p.Trp2450Arg	7348/21291	7348/21291	2450/7096	2450	7096		",C"	W2450R	T7613C	W2450R	ORF1AB:W2450R	2450	ORF1a	W2450R	ORF1A:W2450R	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	7674	.	CG	C	10643	PASS	1922	0.194589	0	"1552,0,374,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7410delG	p.Arg2471fs	7410/21291	7410/21291	2470/7096	2470	7096		",C"	del2471	CG7674C	del2471	ORF1AB:DEL2471	2471	ORF1a	del2471	ORF1A:DEL2471	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	9421	.	T	C	1189	PASS	752	0.083777	0	"688,0,63,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9156T>C	p.Ile3052Ile	9156/21291	9156/21291	3052/7096	3052	7096		",C"	I3052I	T9421C	I3052I	ORF1AB:I3052I	3052	ORF1a	I3052I	ORF1A:I3052I	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	9872	.	C	A	1604	PASS	672	0.11756	0	"592,0,79,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9607C>A	p.Gln3203Lys	9607/21291	9607/21291	3203/7096	3203	7096		",A"	Q3203K	C9872A	Q3203K	ORF1AB:Q3203K	3203	ORF1a	Q3203K	ORF1A:Q3203K	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	10065	.	GA	G	110	PASS	1363	0.005136	0	"1357,0,7,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9805delA	p.Met3269fs	9805/21291	9805/21291	3269/7096	3269	7096		"INFO_REALIGN_3_PRIME,G"	del3269	GA10065G	del3269	ORF1AB:DEL3269	3269	ORF1a	del3269	ORF1A:DEL3269	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	10138	.	C	T	20348	PASS	1529	0.459778	0	"822,0,703,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9873C>T	p.Asn3291Asn	9873/21291	9873/21291	3291/7096	3291	7096		",T"	N3291N	C10138T	N3291N	ORF1AB:N3291N	3291	ORF1a	N3291N	ORF1A:N3291N	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	10833	.	C	T	14471	PASS	2204	0.269964	0	"1604,0,595,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10568C>T	p.Ala3523Val	10568/21291	10568/21291	3523/7096	3523	7096		",T"	A3523V	C10833T	A3523V	ORF1AB:A3523V	3523	ORF1a	A3523V	ORF1A:A3523V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	10870	.	G	T	19277	PASS	2452	0.305465	0	"1700,0,749,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10605G>T	p.Leu3535Leu	10605/21291	10605/21291	3535/7096	3535	7096		",T"	L3535L	G10870T	L3535L	ORF1AB:L3535L	3535	ORF1a	L3535L	ORF1A:L3535L	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	11074	.	CT	C	4885	PASS	1710	0.152047	0	"1450,0,260,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	11095	.	C	CT	8727	PASS	1989	0.152841	0	"1685,0,304,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835dupT	p.Leu3612fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,CT"	del3612	C11095CT	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	11095	.	C	T	9671	PASS	1989	0.218703	0	"1554,0,435,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10830C>T	p.Ala3610Ala	10830/21291	10830/21291	3610/7096	3610	7096		",T"	A3610A	C11095T	A3610A	ORF1AB:A3610A	3610	ORF1a	A3610A	ORF1A:A3610A	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	11594	.	CA	C	84	PASS	399	0.010025	0	"395,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11330delA	p.Gln3777fs	11330/21291	11330/21291	3777/7096	3777	7096		",C"	del3777	CA11594C	del3777	ORF1AB:DEL3777	3777	ORF1a	del3777	ORF1A:DEL3777	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	12296	.	C	CA	115	PASS	64	0.0625	0	"60,0,4,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12034dupA	p.Met4012fs	12035/21291	12035/21291	4012/7096	4012	7096		"INFO_REALIGN_3_PRIME,CA"	del4012	C12296CA	del4012	ORF1AB:DEL4012	4012	ORF1a	del4012	ORF1A:DEL4012	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	12553	.	G	T	2778	PASS	79	1	2147483647	"0,0,79,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12288G>T	p.Trp4096Cys	12288/21291	12288/21291	4096/7096	4096	7096		",T"	W4096C	G12553T	W4096C	ORF1AB:W4096C	4096	ORF1a	W4096C	ORF1A:W4096C	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	12554	.	G	A	2824	PASS	78	1	2147483647	"0,0,78,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12289G>A	p.Glu4097Lys	12289/21291	12289/21291	4097/7096	4097	7096		",A"	E4097K	G12554A	E4097K	ORF1AB:E4097K	4097	ORF1a	E4097K	ORF1A:E4097K	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	12796	.	A	T	8127	PASS	1425	0.229474	0	"1097,0,327,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12531A>T	p.Gly4177Gly	12531/21291	12531/21291	4177/7096	4177	7096		",T"	G4177G	A12796T	G4177G	ORF1AB:G4177G	4177	ORF1a	G4177G	ORF1A:G4177G	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	12797	.	G	T	8083	PASS	1426	0.229313	0	"1098,0,327,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12532G>T	p.Gly4178Cys	12532/21291	12532/21291	4178/7096	4178	7096		",T"	G4178C	G12797T	G4178C	ORF1AB:G4178C	4178	ORF1a	G4178C	ORF1A:G4178C	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	13123	.	TG	T	48	PASS	4375	0.001143	0	"4439,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	13334	.	G	T	21155	PASS	2974	0.27505	0	"2156,0,818,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13069G>T	p.Ala4357Ser	13069/21291	13069/21291	4357/7096	4357	7096		",T"	A4357S	G13334T	A4357S	ORF1AB:A4357S	4357	ORF1a	A4357S	ORF1A:A4357S	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	14408	.	C	T	3604	PASS	99	1	2147483647	"0,0,99,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	14711	.	T	C	338	PASS	2178	0.017447	0	"2140,0,38,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14447T>C	p.Val4816Ala	14447/21291	14447/21291	4816/7096	4816	7096		",C"	V4816A	T14711C	V4816A	ORF1AB:V4816A	415	ORF1b	V415A	ORF1B:V415A	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	14984	.	AT	A	49	PASS	3259	0.001227	0	"3294,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14722delT	p.Tyr4908fs	14722/21291	14722/21291	4908/7096	4908	7096		"INFO_REALIGN_3_PRIME,A"	del4908	AT14984A	del4908	ORF1AB:DEL4908	507	ORF1b	del507	ORF1B:DEL507	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15324	.	C	T	18996	PASS	2098	0.337941	0	"1388,0,709,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15600	.	C	T	13908	PASS	2044	0.271526	0	"1487,0,555,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15336C>T	p.Val5112Val	15336/21291	15336/21291	5112/7096	5112	7096		",T"	V5112V	C15600T	V5112V	ORF1AB:V5112V	711	ORF1b	V711V	ORF1B:V711V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15690	.	T	A	8446	PASS	1648	0.205704	0	"1309,0,339,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15426T>A	p.Arg5142Arg	15426/21291	15426/21291	5142/7096	5142	7096		",A"	R5142R	T15690A	R5142R	ORF1AB:R5142R	741	ORF1b	R741R	ORF1B:R741R	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15814	.	GT	G	56	PASS	1328	0.003012	0	"1328,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15555delT	p.Phe5185fs	15555/21291	15555/21291	5185/7096	5185	7096		"INFO_REALIGN_3_PRIME,G"	del5185	GT15814G	del5185	ORF1AB:DEL5185	784	ORF1b	del784	ORF1B:DEL784	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15857	.	C	T	7416	PASS	1017	0.274336	0	"738,0,279,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15593C>T	p.Thr5198Ile	15593/21291	15593/21291	5198/7096	5198	7096		",T"	T5198I	C15857T	T5198I	ORF1AB:T5198I	797	ORF1b	T797I	ORF1B:T797I	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15904	.	CA	C	2652	PASS	508	0.183071	0	"415,0,93,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15641delA	p.Gln5214fs	15641/21291	15641/21291	5214/7096	5214	7096		",C"	del5214	CA15904C	del5214	ORF1AB:DEL5214	813	ORF1b	del813	ORF1B:DEL813	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15905	.	A	G	88	PASS	508	0.025591	0	"401,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15641A>G	p.Gln5214Arg	15641/21291	15641/21291	5214/7096	5214	7096		",G"	Q5214R	A15905G	Q5214R	ORF1AB:Q5214R	813	ORF1b	Q813R	ORF1B:Q813R	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15913	.	GATT	G	2707	PASS	459	0.20915	0	"365,0,96,0"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15652_15654delTAT	p.Tyr5218del	15652/21291	15652/21291	5218/7096	5218	7096		"INFO_REALIGN_3_PRIME,G"	del5218	GATT15913G	del5218	ORF1AB:DEL5218	817	ORF1b	del817	ORF1B:DEL817	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15916	.	T	G	198	PASS	407	0.044226	0	"293,0,18,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15652T>G	p.Tyr5218Asp	15652/21291	15652/21291	5218/7096	5218	7096		",G"	Y5218D	T15916G	Y5218D	ORF1AB:Y5218D	817	ORF1b	Y817D	ORF1B:Y817D	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	15984	.	A	T	129	PASS	14	0.357143	0	"9,0,5,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15720A>T	p.Val5240Val	15720/21291	15720/21291	5240/7096	5240	7096		",T"	V5240V	A15984T	V5240V	ORF1AB:V5240V	839	ORF1b	V839V	ORF1B:V839V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	16837	.	GA	G	49	PASS	2028	0.001972	0	"2028,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16578delA	p.Gly5527fs	16578/21291	16578/21291	5526/7096	5526	7096		"INFO_REALIGN_3_PRIME,G"	del5527	GA16837G	del5527	ORF1AB:DEL5527	1126	ORF1b	del1126	ORF1B:DEL1126	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	16863	.	T	C	364	PASS	2011	0.020885	0	"1967,0,42,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16599T>C	p.Val5533Val	16599/21291	16599/21291	5533/7096	5533	7096		",C"	V5533V	T16863C	V5533V	ORF1AB:V5533V	1132	ORF1b	V1132V	ORF1B:V1132V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	18684	.	A	G	2043	PASS	669	0.146487	0	"571,0,98,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18420A>G	p.Thr6140Thr	18420/21291	18420/21291	6140/7096	6140	7096		",G"	T6140T	A18684G	T6140T	ORF1AB:T6140T	1739	ORF1b	T1739T	ORF1B:T1739T	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	19035	.	TGG	T	10408	PASS	1106	0.301989	0	"803,0,334,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18772_18773delGG	p.Gly6258fs	18772/21291	18772/21291	6258/7096	6258	7096		",T"	del6258	TGG19035T	del6258	ORF1AB:DEL6258	1857	ORF1b	del1857	ORF1B:DEL1857	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	19839	.	T	C	107	PASS	178	0.039326	0	"171,0,7,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19575T>C	p.Asn6525Asn	19575/21291	19575/21291	6525/7096	6525	7096		",C"	N6525N	T19839C	N6525N	ORF1AB:N6525N	2124	ORF1b	N2124N	ORF1B:N2124N	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	20946	.	C	T	49314	PASS	2287	0.999125	0	"1,0,2285,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20682C>T	p.Val6894Val	20682/21291	20682/21291	6894/7096	6894	7096		",T"	V6894V	C20946T	V6894V	ORF1AB:V6894V	2493	ORF1b	V2493V	ORF1B:V2493V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	22000	.	C	CA	2277	PASS	178	0.382022	0	"109,0,68,0"	TRUE	CA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.443dupA	p.Asn148fs	444/3822	444/3822	148/1273	148	1273		"INFO_REALIGN_3_PRIME,CA"	del148	C22000CA	del148	S:DEL148	148	S	del148	S:DEL148	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	22075	.	C	T	6739	PASS	292	0.729452	0	"79,0,213,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.513C>T	p.Val171Val	513/3822	513/3822	171/1273	171	1273		",T"	V171V	C22075T	V171V	S:V171V	171	S	V171V	S:V171V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	22104	.	G	A	1386	PASS	306	0.196078	0	"245,0,60,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.542G>A	p.Gly181Glu	542/3822	542/3822	181/1273	181	1273		",A"	G181E	G22104A	G181E	S:G181E	181	S	G181E	S:G181E	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	22685	.	T	C	1322	PASS	277	0.205776	0	"220,0,57,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1123T>C	p.Ser375Pro	1123/3822	1123/3822	375/1273	375	1273		",C"	S375P	T22685C	S375P	S:S375P	375	S	S375P	S:S375P	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	22763	.	G	T	970	PASS	278	0.154676	0	"234,0,43,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1201G>T	p.Val401Leu	1201/3822	1201/3822	401/1273	401	1273		",T"	V401L	G22763T	V401L	S:V401L	401	S	V401L	S:V401L	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	23403	.	A	G	1851	PASS	52	1	2147483647	"0,0,52,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25210	.	T	C	120	PASS	865	0.015029	0	"850,0,13,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3648T>C	p.Ile1216Ile	3648/3822	3648/3822	1216/1273	1216	1273		",C"	I1216I	T25210C	I1216I	S:I1216I	1216	S	I1216I	S:I1216I	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25216	.	A	T	180	PASS	889	0.031496	0	"860,0,28,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25225	.	A	C	98	PASS	905	0.023204	0	"880,0,21,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25240	.	C	A	149	PASS	921	0.034745	0	"887,0,32,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25244	.	G	T	132	PASS	955	0.030366	0	"926,0,29,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25247	.	A	T	200	PASS	961	0.040583	0	"921,0,39,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25252	.	G	C	69	PASS	985	0.024365	0	"945,0,24,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3690G>C	p.Val1230Val	3690/3822	3690/3822	1230/1273	1230	1273		",C"	V1230V	G25252C	V1230V	S:V1230V	1230	S	V1230V	S:V1230V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25254	.	C	A	178	PASS	1028	0.037938	0	"988,0,39,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25273	.	G	C	102	PASS	993	0.032226	0	"957,0,32,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25274	.	A	C	93	PASS	999	0.029029	0	"968,0,29,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3712A>C	p.Thr1238Pro	3712/3822	3712/3822	1238/1273	1238	1273		",C"	T1238P	A25274C	T1238P	S:T1238P	1238	S	T1238P	S:T1238P	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25277	.	A	T	286	PASS	992	0.058468	0	"916,0,58,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25286	.	A	T	284	PASS	1023	0.056696	0	"949,0,58,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25296	.	A	C	656	PASS	1033	0.095837	0	"892,0,99,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25296	.	A	T	100	PASS	1033	0.035818	0	"892,0,37,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25301	.	TG	T	205	PASS	1016	0.010827	0	"1005,0,11,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3740delG	p.Cys1247fs	3740/3822	3740/3822	1247/1273	1247	1273		",T"	del1247	TG25301T	del1247	S:DEL1247	1247	S	del1247	S:DEL1247	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25312	.	T	G	80	PASS	1066	0.031895	0	"1031,0,34,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25314	.	G	T	123	PASS	1059	0.040604	0	"1006,0,43,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25323	.	G	C	249	PASS	1043	0.061361	0	"960,0,64,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25324	.	C	A	1862	PASS	1047	0.181471	0	"857,0,190,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25327	.	A	T	181	PASS	1030	0.052427	0	"975,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25331	.	G	T	149	PASS	1016	0.052165	0	"950,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25334	.	G	C	293	PASS	1004	0.073705	0	"910,0,74,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25336	.	A	C	1087	PASS	1013	0.148075	0	"860,0,150,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25337	.	G	C	401	PASS	963	0.090343	0	"876,0,87,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	25711	.	T	C	602	PASS	485	0.074227	0	"449,0,36,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.319T>C	p.Tyr107His	319/828	319/828	107/275	107	275		",C"	Y107H	T25711C	Y107H	ORF3A:Y107H	107	ORF3a	Y107H	ORF3A:Y107H	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	26795	.	G	T	3473	PASS	3018	0.063618	0	"2824,0,192,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.273G>T	p.Met91Ile	273/669	273/669	91/222	91	222		",T"	M91I	G26795T	M91I	M:M91I	91	M	M91I	M:M91I	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	26846	.	C	T	3958	PASS	2335	0.090792	0	"2118,0,212,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.324C>T	p.Ser108Ser	324/669	324/669	108/222	108	222		",T"	S108S	C26846T	S108S	M:S108S	108	M	S108S	M:S108S	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	27017	.	TA	T	10180	PASS	1798	0.183537	0	"1468,0,330,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.498delA	p.Glu167fs	498/669	498/669	166/222	166	222		"INFO_REALIGN_3_PRIME,T"	del167	TA27017T	del167	M:DEL167	167	M	del167	M:DEL167	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	27175	.	CT	C	7659	PASS	2313	0.11284	0	"2052,0,261,0"	TRUE	C	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.656delT	p.Leu219fs	656/669	656/669	219/222	219	222		"INFO_REALIGN_3_PRIME,C"	del219	CT27175C	del219	M:DEL219	219	M	del219	M:DEL219	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	27182	.	TG	T	7172	PASS	2294	0.115083	0	"2054,0,264,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.661delG	p.Val221fs	661/669	661/669	221/222	221	222		",T"	del221	TG27182T	del221	M:DEL221	221	M	del221	M:DEL221	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	27597	.	T	C	1578	PASS	1954	0.048618	0	"1857,0,95,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.204T>C	p.Pro68Pro	204/366	204/366	68/121	68	121		",C"	P68P	T27597C	P68P	ORF7A:P68P	68	ORF7a	P68P	ORF7A:P68P	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	27945	.	C	T	49314	PASS	2327	0.99957	2147483647	"0,0,2326,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.52C>T	p.Gln18*	52/366	52/366	18/121	18	121		",T"	Q18*	C27945T	Q18*	ORF8:Q18*	18	ORF8	Q18*	ORF8:Q18*	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28048	.	G	A	768	PASS	1961	0.029577	0	"1902,0,58,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>A	p.Arg52Lys	155/366	155/366	52/121	52	121		",A"	R52K	G28048A	R52K	ORF8:R52K	52	ORF8	R52K	ORF8:R52K	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28221	.	G	T	27343	PASS	2329	0.416488	0	"1358,0,970,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.328G>T	p.Glu110*	328/366	328/366	110/121	110	121		",T"	E110*	G28221T	E110*	ORF8:E110*	110	ORF8	E110*	ORF8:E110*	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28246	.	T	C	556	PASS	2269	0.019833	0	"2224,0,45,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.353T>C	p.Leu118Ser	353/366	353/366	118/121	118	121		",C"	L118S	T28246C	L118S	ORF8:L118S	118	ORF8	L118S	ORF8:L118S	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28254	.	A	C	74	PASS	2273	0.007039	0	"2255,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28492	.	A	G	201	PASS	3285	0.009741	0	"3252,0,32,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.219A>G	p.Pro73Pro	219/1260	219/1260	73/419	73	419		",G"	P73P	A28492G	P73P	N:P73P	73	N	P73P	N:P73P	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28881	.	G	A	49314	PASS	2579	0.999224	2147483647	"0,0,2577,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28882	.	G	A	49314	PASS	2578	0.998448	0	"1,0,2574,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28883	.	G	C	49314	PASS	2602	0.999231	2147483647	"0,0,2600,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	28987	.	CCAA	C	104	PASS	2625	0.002667	0	"2639,0,7,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH17	NC_045512.2	29554	.	G	T	100	PASS	12	0.333333	0	"8,0,4,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF10	GU280_gp11	transcript	GU280_gp11	protein_coding		c.-4G>T						NA	4	",T"		G29554T		NA	NA	ORF10		NA	SCH17	SCHIFFLANGE	2020-07-18T00:00:00Z	33.166	34.69666667	NA	14122020	2020-07-18
SCH31	NC_045512.2	219	.	G	T	13250	PASS	3525	0.168227	0	"2930,0,593,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-47G>T						NA	47	",T"		G219T		NA	NA	NA		NA	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	222	.	C	T	4640	PASS	3659	0.071878	0	"3393,0,263,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-44C>T						NA	44	",T"		C222T		NA	NA	NA		NA	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	240	.	TC	T	10186	PASS	3890	0.098715	0	"3543,0,384,0"	TRUE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25delC						NA	25	",T"	del	TC240T	del	ORF1AB:DEL	NA	NA	del	NA:DEL	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	335	.	C	T	17848	PASS	3996	0.187437	0	"3244,0,749,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	434	.	GA	G	105	PASS	4468	0.002014	0	"4478,0,9,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	445	.	T	C	42636	PASS	4650	0.352043	0	"2997,0,1637,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	487	.	G	T	6107	PASS	4828	0.07208	0	"4478,0,348,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.222G>T	p.Ser74Ser	222/21291	222/21291	74/7096	74	7096		",T"	S74S	G487T	S74S	ORF1AB:S74S	74	ORF1a	S74S	ORF1A:S74S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	593	.	C	T	5374	PASS	3769	0.077474	0	"3474,0,292,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	712	.	T	C	4363	PASS	4230	0.063593	0	"3961,0,269,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.447T>C	p.Leu149Leu	447/21291	447/21291	149/7096	149	7096		",C"	L149L	T712C	L149L	ORF1AB:L149L	149	ORF1a	L149L	ORF1A:L149L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	726	.	A	G	291	PASS	4315	0.012283	0	"4258,0,53,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.461A>G	p.Tyr154Cys	461/21291	461/21291	154/7096	154	7096		",G"	Y154C	A726G	Y154C	ORF1AB:Y154C	154	ORF1a	Y154C	ORF1A:Y154C	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	740	.	GA	G	2163	PASS	4430	0.022122	0	"4349,0,98,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.479delA	p.Asn160fs	479/21291	479/21291	160/7096	160	7096		"INFO_REALIGN_3_PRIME,G"	del160	GA740G	del160	ORF1AB:DEL160	160	ORF1a	del160	ORF1A:DEL160	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	793	.	G	T	1726	PASS	3457	0.035291	0	"3335,0,122,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.528G>T	p.Glu176Asp	528/21291	528/21291	176/7096	176	7096		",T"	E176D	G793T	E176D	ORF1AB:E176D	176	ORF1a	E176D	ORF1A:E176D	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	840	.	G	A	1620	PASS	2831	0.039915	0	"2714,0,113,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.575G>A	p.Gly192Asp	575/21291	575/21291	192/7096	192	7096		",A"	G192D	G840A	G192D	ORF1AB:G192D	192	ORF1a	G192D	ORF1A:G192D	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	1113	.	C	T	4402	PASS	2725	0.084404	0	"2493,0,230,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.848C>T	p.Thr283Ile	848/21291	848/21291	283/7096	283	7096		",T"	T283I	C1113T	T283I	ORF1AB:T283I	283	ORF1a	T283I	ORF1A:T283I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	1136	.	A	G	3558	PASS	2518	0.078634	0	"2319,0,198,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.871A>G	p.Lys291Glu	871/21291	871/21291	291/7096	291	7096		",G"	K291E	A1136G	K291E	ORF1AB:K291E	291	ORF1a	K291E	ORF1A:K291E	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	1220	.	A	G	611	PASS	2642	0.029902	0	"2558,0,79,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.955A>G	p.Thr319Ala	955/21291	955/21291	319/7096	319	7096		",G"	T319A	A1220G	T319A	ORF1AB:T319A	319	ORF1a	T319A	ORF1A:T319A	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	1346	.	C	G	1763	PASS	3608	0.039634	0	"3459,0,143,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1081C>G	p.Pro361Ala	1081/21291	1081/21291	361/7096	361	7096		",G"	P361A	C1346G	P361A	ORF1AB:P361A	361	ORF1a	P361A	ORF1A:P361A	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	1432	.	TG	T	6737	PASS	2948	0.08616	0	"2701,0,254,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1168delG	p.Glu390fs	1168/21291	1168/21291	390/7096	390	7096		",T"	del390	TG1432T	del390	ORF1AB:DEL390	390	ORF1a	del390	ORF1A:DEL390	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	1513	.	C	T	4038	PASS	3332	0.072329	0	"3089,0,241,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1248C>T	p.Cys416Cys	1248/21291	1248/21291	416/7096	416	7096		",T"	C416C	C1513T	C416C	ORF1AB:C416C	416	ORF1a	C416C	ORF1A:C416C	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	1813	.	TA	T	47	PASS	3040	0.002303	0	"3032,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1554delA	p.Gly519fs	1554/21291	1554/21291	518/7096	518	7096		"INFO_REALIGN_3_PRIME,T"	del519	TA1813T	del519	ORF1AB:DEL519	519	ORF1a	del519	ORF1A:DEL519	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	2023	.	CA	C	2458	PASS	941	0.099894	0	"847,0,94,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1759delA	p.Thr587fs	1759/21291	1759/21291	587/7096	587	7096		",C"	del587	CA2023C	del587	ORF1AB:DEL587	587	ORF1a	del587	ORF1A:DEL587	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	2790	.	C	CT	5111	PASS	1809	0.100055	0	"1628,0,181,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2529dupT	p.Glu844fs	2530/21291	2530/21291	844/7096	844	7096		"INFO_REALIGN_3_PRIME,CT"	del844	C2790CT	del844	ORF1AB:DEL844	844	ORF1a	del844	ORF1A:DEL844	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	3037	.	C	T	47682	PASS	1357	0.997052	2147483647	"0,0,1353,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	3602	.	C	T	260	PASS	89	0.123596	0	"78,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	3621	.	GC	G	127	PASS	94	0.053191	0	"90,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3359delC	p.Pro1120fs	3359/21291	3359/21291	1120/7096	1120	7096		"INFO_REALIGN_3_PRIME,G"	del1120	GC3621G	del1120	ORF1AB:DEL1120	1120	ORF1a	del1120	ORF1A:DEL1120	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	4040	.	A	G	1274	PASS	182	0.263736	0	"134,0,48,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	4148	.	G	GT	197	PASS	182	0.043956	0	"174,0,8,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3887dupT	p.Leu1296fs	3888/21291	3888/21291	1296/7096	1296	7096		"INFO_REALIGN_3_PRIME,GT"	del1296	G4148GT	del1296	ORF1AB:DEL1296	1296	ORF1a	del1296	ORF1A:DEL1296	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	4196	.	GAAATGCTAGCGAAAGCTTT	G	97	PASS	203	0.019704	0	"199,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3932_3950delAAATGCTAGCGAAAGCTTT	p.Glu1311fs	3932/21291	3932/21291	1311/7096	1311	7096		",G"	del1311	GAAATGCTAGCGAAAGCTTT4196G	del1311	ORF1AB:DEL1311	1311	ORF1a	del1311	ORF1A:DEL1311	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	4543	.	C	T	6517	PASS	253	0.778656	0	"56,0,197,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	4864	.	A	G	349	PASS	932	0.031116	0	"902,0,29,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4599A>G	p.Lys1533Lys	4599/21291	4599/21291	1533/7096	1533	7096		",G"	K1533K	A4864G	K1533K	ORF1AB:K1533K	1533	ORF1a	K1533K	ORF1A:K1533K	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	4865	.	A	T	378	PASS	935	0.032086	0	"904,0,30,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4600A>T	p.Ser1534Cys	4600/21291	4600/21291	1534/7096	1534	7096		",T"	S1534C	A4865T	S1534C	ORF1AB:S1534C	1534	ORF1a	S1534C	ORF1A:S1534C	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	4868	.	G	A	404	PASS	957	0.033438	0	"924,0,32,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4603G>A	p.Val1535Ile	4603/21291	4603/21291	1535/7096	1535	7096		",A"	V1535I	G4868A	V1535I	ORF1AB:V1535I	1535	ORF1a	V1535I	ORF1A:V1535I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	4886	.	C	T	425	PASS	914	0.033917	0	"882,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4621C>T	p.Pro1541Ser	4621/21291	4621/21291	1541/7096	1541	7096		",T"	P1541S	C4886T	P1541S	ORF1AB:P1541S	1541	ORF1a	P1541S	ORF1A:P1541S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	5051	.	C	T	626	PASS	1348	0.034125	0	"1300,0,46,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4786C>T	p.Pro1596Ser	4786/21291	4786/21291	1596/7096	1596	7096		",T"	P1596S	C5051T	P1596S	ORF1AB:P1596S	1596	ORF1a	P1596S	ORF1A:P1596S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	5104	.	T	A	8218	PASS	1472	0.224185	0	"1141,0,330,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4839T>A	p.His1613Gln	4839/21291	4839/21291	1613/7096	1613	7096		",A"	H1613Q	T5104A	H1613Q	ORF1AB:H1613Q	1613	ORF1a	H1613Q	ORF1A:H1613Q	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	5470	.	G	GT	1372	PASS	877	0.058153	0	"837,0,51,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5208dupT	p.Gln1737fs	5209/21291	5209/21291	1737/7096	1737	7096		"INFO_REALIGN_3_PRIME,GT"	del1737	G5470GT	del1737	ORF1AB:DEL1737	1737	ORF1a	del1737	ORF1A:DEL1737	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	5497	.	CA	C	669	PASS	840	0.033333	0	"812,0,28,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5236delA	p.Arg1746fs	5236/21291	5236/21291	1746/7096	1746	7096		"INFO_REALIGN_3_PRIME,C"	del1746	CA5497C	del1746	ORF1AB:DEL1746	1746	ORF1a	del1746	ORF1A:DEL1746	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	5629	.	G	T	12898	PASS	691	0.600579	0	"276,0,415,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	5927	.	GT	G	558	PASS	598	0.036789	0	"579,0,22,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5665delT	p.Cys1889fs	5665/21291	5665/21291	1889/7096	1889	7096		"INFO_REALIGN_3_PRIME,G"	del1889	GT5927G	del1889	ORF1AB:DEL1889	1889	ORF1a	del1889	ORF1A:DEL1889	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	5991	.	A	G	213	PASS	674	0.032641	0	"652,0,22,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5726A>G	p.Glu1909Gly	5726/21291	5726/21291	1909/7096	1909	7096		",G"	E1909G	A5991G	E1909G	ORF1AB:E1909G	1909	ORF1a	E1909G	ORF1A:E1909G	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	6264	.	A	T	1971	PASS	515	0.174757	0	"425,0,90,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5999A>T	p.Lys2000Ile	5999/21291	5999/21291	2000/7096	2000	7096		",T"	K2000I	A6264T	K2000I	ORF1AB:K2000I	2000	ORF1a	K2000I	ORF1A:K2000I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	6286	.	C	T	2989	PASS	498	0.240964	0	"375,0,120,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	6696	.	C	CT	2225	PASS	428	0.170561	0	"355,0,73,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	6701	.	C	T	98	PASS	434	0.034562	0	"419,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	6729	.	A	T	611	PASS	501	0.073852	0	"464,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6464A>T	p.Asn2155Ile	6464/21291	6464/21291	2155/7096	2155	7096		",T"	N2155I	A6729T	N2155I	ORF1AB:N2155I	2155	ORF1a	N2155I	ORF1A:N2155I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	6941	.	C	T	1894	PASS	680	0.130882	0	"591,0,89,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	8202	.	T	C	296	PASS	702	0.029915	0	"680,0,21,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7937T>C	p.Val2646Ala	7937/21291	7937/21291	2646/7096	2646	7096		",C"	V2646A	T8202C	V2646A	ORF1AB:V2646A	2646	ORF1a	V2646A	ORF1A:V2646A	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	8376	.	CA	C	1332	PASS	329	0.139818	0	"283,0,46,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	8978	.	TAC	T	428	PASS	299	0.053512	0	"283,0,16,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8716_8717delAC	p.Thr2906fs	8716/21291	8716/21291	2906/7096	2906	7096		"INFO_REALIGN_3_PRIME,T"	del2906	TAC8978T	del2906	ORF1AB:DEL2906	2906	ORF1a	del2906	ORF1A:DEL2906	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	9129	.	T	C	522	PASS	323	0.083591	0	"296,0,27,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8864T>C	p.Val2955Ala	8864/21291	8864/21291	2955/7096	2955	7096		",C"	V2955A	T9129C	V2955A	ORF1AB:V2955A	2955	ORF1a	V2955A	ORF1A:V2955A	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	9526	.	G	T	27100	PASS	1903	0.494482	0	"959,0,941,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10043	.	G	C	1253	PASS	1921	0.047892	0	"1828,0,92,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9778G>C	p.Ala3260Pro	9778/21291	9778/21291	3260/7096	3260	7096		",C"	A3260P	G10043C	A3260P	ORF1AB:A3260P	3260	ORF1a	A3260P	ORF1A:A3260P	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10065	.	GA	G	3879	PASS	1865	0.079357	0	"1718,0,148,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9805delA	p.Met3269fs	9805/21291	9805/21291	3269/7096	3269	7096		"INFO_REALIGN_3_PRIME,G"	del3269	GA10065G	del3269	ORF1AB:DEL3269	3269	ORF1a	del3269	ORF1A:DEL3269	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10097	.	G	A	498	PASS	1706	0.028136	0	"1654,0,48,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9832G>A	p.Gly3278Ser	9832/21291	9832/21291	3278/7096	3278	7096		",A"	G3278S	G10097A	G3278S	ORF1AB:G3278S	3278	ORF1a	G3278S	ORF1A:G3278S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10117	.	T	C	3238	PASS	1580	0.100633	0	"1417,0,159,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9852T>C	p.Thr3284Thr	9852/21291	9852/21291	3284/7096	3284	7096		",C"	T3284T	T10117C	T3284T	ORF1AB:T3284T	3284	ORF1a	T3284T	ORF1A:T3284T	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10123	.	TA	T	4558	PASS	1634	0.104651	0	"1491,0,171,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9859delA	p.Thr3287fs	9859/21291	9859/21291	3287/7096	3287	7096		",T"	del3287	TA10123T	del3287	ORF1AB:DEL3287	3287	ORF1a	del3287	ORF1A:DEL3287	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10250	.	T	C	4284	PASS	1995	0.108271	0	"1777,0,216,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9985T>C	p.Phe3329Leu	9985/21291	9985/21291	3329/7096	3329	7096		",C"	F3329L	T10250C	F3329L	ORF1AB:F3329L	3329	ORF1a	F3329L	ORF1A:F3329L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10252	.	C	T	3702	PASS	2009	0.10005	0	"1806,0,201,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9987C>T	p.Phe3329Phe	9987/21291	9987/21291	3329/7096	3329	7096		",T"	F3329F	C10252T	F3329F	ORF1AB:F3329F	3329	ORF1a	F3329F	ORF1A:F3329F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10279	.	C	T	3318	PASS	1928	0.091805	0	"1749,0,177,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10014C>T	p.Leu3338Leu	10014/21291	10014/21291	3338/7096	3338	7096		",T"	L3338L	C10279T	L3338L	ORF1AB:L3338L	3338	ORF1a	L3338L	ORF1A:L3338L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	10624	.	A	G	1754	PASS	900	0.098889	0	"810,0,89,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10359A>G	p.Thr3453Thr	10359/21291	10359/21291	3453/7096	3453	7096		",G"	T3453T	A10624G	T3453T	ORF1AB:T3453T	3453	ORF1a	T3453T	ORF1A:T3453T	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	11074	.	CT	C	558	PASS	743	0.05249	0	"704,0,39,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	11175	.	G	GT	607	PASS	655	0.036641	0	"631,0,24,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10913dupT	p.Leu3638fs	10914/21291	10914/21291	3638/7096	3638	7096		"INFO_REALIGN_3_PRIME,GT"	del3638	G11175GT	del3638	ORF1AB:DEL3638	3638	ORF1a	del3638	ORF1A:DEL3638	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	11497	.	C	T	20818	PASS	760	0.823684	0	"134,0,626,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	11654	.	T	C	375	PASS	605	0.039669	0	"581,0,24,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11389T>C	p.Phe3797Leu	11389/21291	11389/21291	3797/7096	3797	7096		",C"	F3797L	T11654C	F3797L	ORF1AB:F3797L	3797	ORF1a	F3797L	ORF1A:F3797L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	11747	.	C	T	220	PASS	300	0.043333	0	"287,0,13,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11482C>T	p.Leu3828Leu	11482/21291	11482/21291	3828/7096	3828	7096		",T"	L3828L	C11747T	L3828L	ORF1AB:L3828L	3828	ORF1a	L3828L	ORF1A:L3828L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	12333	.	CA	C	3307	PASS	596	0.182886	0	"487,0,109,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12072delA	p.Val4025fs	12072/21291	12072/21291	4024/7096	4024	7096		"INFO_REALIGN_3_PRIME,C"	del4025	CA12333C	del4025	ORF1AB:DEL4025	4025	ORF1a	del4025	ORF1A:DEL4025	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	12748	.	T	C	184	PASS	1420	0.012676	0	"1401,0,18,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12483T>C	p.Thr4161Thr	12483/21291	12483/21291	4161/7096	4161	7096		",C"	T4161T	T12748C	T4161T	ORF1AB:T4161T	4161	ORF1a	T4161T	ORF1A:T4161T	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	12782	.	A	G	1794	PASS	1937	0.058338	0	"1824,0,113,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12517A>G	p.Asn4173Asp	12517/21291	12517/21291	4173/7096	4173	7096		",G"	N4173D	A12782G	N4173D	ORF1AB:N4173D	4173	ORF1a	N4173D	ORF1A:N4173D	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	12936	.	A	G	6338	PASS	2761	0.110829	0	"2454,0,306,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12671A>G	p.Lys4224Arg	12671/21291	12671/21291	4224/7096	4224	7096		",G"	K4224R	A12936G	K4224R	ORF1AB:K4224R	4224	ORF1a	K4224R	ORF1A:K4224R	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	13182	.	A	G	93	PASS	3899	0.004873	0	"3878,0,19,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12917A>G	p.Gln4306Arg	12917/21291	12917/21291	4306/7096	4306	7096		",G"	Q4306R	A13182G	Q4306R	ORF1AB:Q4306R	4306	ORF1a	Q4306R	ORF1A:Q4306R	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	13358	.	C	CT	13221	PASS	3308	0.137545	0	"2853,0,455,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13095dupT	p.Lys4366fs	13096/21291	13096/21291	4366/7096	4366	7096		"INFO_REALIGN_3_PRIME,CT"	del4366	C13358CT	del4366	ORF1AB:DEL4366	4366	ORF1a	del4366	ORF1A:DEL4366	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	13459	.	G	T	1985	PASS	2995	0.04374	0	"2863,0,131,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13194G>T	p.Ser4398Ser	13194/21291	13194/21291	4398/7096	4398	7096		",T"	S4398S	G13459T	S4398S	ORF1AB:S4398S	4398	ORF1a	S4398S	ORF1A:S4398S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	13536	.	C	T	2398	PASS	1790	0.075978	0	"1651,0,136,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13272C>T	p.Tyr4424Tyr	13272/21291	13272/21291	4424/7096	4424	7096		",T"	Y4424Y	C13536T	Y4424Y	ORF1AB:Y4424Y	23	ORF1b	Y23Y	ORF1B:Y23Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	13541	.	C	T	1095	PASS	1653	0.045372	0	"1577,0,75,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13277C>T	p.Ala4426Val	13277/21291	13277/21291	4426/7096	4426	7096		",T"	A4426V	C13541T	A4426V	ORF1AB:A4426V	25	ORF1b	A25V	ORF1B:A25V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	13555	.	A	G	2007	PASS	1593	0.069052	0	"1480,0,110,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13291A>G	p.Asn4431Asp	13291/21291	13291/21291	4431/7096	4431	7096		",G"	N4431D	A13555G	N4431D	ORF1AB:N4431D	30	ORF1b	N30D	ORF1B:N30D	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	13744	.	T	G	4017	PASS	1457	0.129032	0	"1268,0,188,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13480T>G	p.Phe4494Val	13480/21291	13480/21291	4494/7096	4494	7096		",G"	F4494V	T13744G	F4494V	ORF1AB:F4494V	93	ORF1b	F93V	ORF1B:F93V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	13993	.	G	T	20908	PASS	1089	0.628099	0	"405,0,684,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	14408	.	C	T	649	PASS	18	1	2147483647	"0,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	14724	.	C	T	2892	PASS	1646	0.092345	0	"1491,0,152,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14460C>T	p.Phe4820Phe	14460/21291	14460/21291	4820/7096	4820	7096		",T"	F4820F	C14724T	F4820F	ORF1AB:F4820F	419	ORF1b	F419F	ORF1B:F419F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	15324	.	C	T	7088	PASS	976	0.279713	0	"701,0,273,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	15598	.	G	A	1125	PASS	775	0.07871	0	"714,0,61,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15334G>A	p.Val5112Ile	15334/21291	15334/21291	5112/7096	5112	7096		",A"	V5112I	G15598A	V5112I	ORF1AB:V5112I	711	ORF1b	V711I	ORF1B:V711I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	15766	.	G	T	8480	PASS	590	0.488136	0	"302,0,288,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	15805	.	CA	C	724	PASS	469	0.059701	0	"441,0,28,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15545delA	p.Asn5182fs	15545/21291	15545/21291	5182/7096	5182	7096		"INFO_REALIGN_3_PRIME,C"	del5182	CA15805C	del5182	ORF1AB:DEL5182	781	ORF1b	del781	ORF1B:DEL781	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	15972	.	A	G	144	PASS	19	0.263158	0	"14,0,5,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15708A>G	p.Val5236Val	15708/21291	15708/21291	5236/7096	5236	7096		",G"	V5236V	A15972G	V5236V	ORF1AB:V5236V	835	ORF1b	V835V	ORF1B:V835V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	16206	.	G	T	273	PASS	43	0.232558	0	"33,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15942G>T	p.Glu5314Asp	15942/21291	15942/21291	5314/7096	5314	7096		",T"	E5314D	G16206T	E5314D	ORF1AB:E5314D	913	ORF1b	E913D	ORF1B:E913D	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	16381	.	G	GT	6514	PASS	3294	0.071038	0	"3063,0,234,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16120dupT	p.Cys5374fs	16121/21291	16121/21291	5374/7096	5374	7096		"INFO_REALIGN_3_PRIME,GT"	del5374	G16381GT	del5374	ORF1AB:DEL5374	973	ORF1b	del973	ORF1B:DEL973	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	16755	.	ACCACCACTTAACCGAAATTATGT	A	54	PASS	5145	0.000972	0	"5292,0,5,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16493_16515delCACCACTTAACCGAAATTATGTC	p.Pro5498fs	16493/21291	16493/21291	5498/7096	5498	7096		"INFO_REALIGN_3_PRIME,A"	del5498	ACCACCACTTAACCGAAATTATGT16755A	del5498	ORF1AB:DEL5498	1097	ORF1b	del1097	ORF1B:DEL1097	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	16889	.	A	G	49314	PASS	3853	0.643914	0	"1369,0,2481,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	17010	.	C	T	5304	PASS	2038	0.120216	0	"1793,0,245,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16746C>T	p.Ile5582Ile	16746/21291	16746/21291	5582/7096	5582	7096		",T"	I5582I	C17010T	I5582I	ORF1AB:I5582I	1181	ORF1b	I1181I	ORF1B:I1181I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	17019	.	G	T	33433	PASS	1832	0.595524	0	"740,0,1091,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	17104	.	C	T	1200	PASS	149	0.302013	0	"104,0,45,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	17549	.	T	C	5248	PASS	1875	0.126933	0	"1636,0,238,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17285T>C	p.Leu5762Pro	17285/21291	17285/21291	5762/7096	5762	7096		",C"	L5762P	T17549C	L5762P	ORF1AB:L5762P	1361	ORF1b	L1361P	ORF1B:L1361P	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	18474	.	A	G	225	PASS	167	0.071856	0	"154,0,12,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18210A>G	p.Gln6070Gln	18210/21291	18210/21291	6070/7096	6070	7096		",G"	Q6070Q	A18474G	Q6070Q	ORF1AB:Q6070Q	1669	ORF1b	Q1669Q	ORF1B:Q1669Q	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	18689	.	T	C	3661	PASS	1649	0.111583	0	"1463,0,184,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18425T>C	p.Phe6142Ser	18425/21291	18425/21291	6142/7096	6142	7096		",C"	F6142S	T18689C	F6142S	ORF1AB:F6142S	1741	ORF1b	F1741S	ORF1B:F1741S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	18877	.	C	T	48250	PASS	3117	0.519731	0	"1495,0,1620,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	18981	.	C	T	8567	PASS	4383	0.099703	0	"3944,0,437,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18717C>T	p.His6239His	18717/21291	18717/21291	6239/7096	6239	7096		",T"	H6239H	C18981T	H6239H	ORF1AB:H6239H	1838	ORF1b	H1838H	ORF1B:H1838H	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	19114	.	A	G	154	PASS	4098	0.006345	0	"4068,0,26,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18850A>G	p.Lys6284Glu	18850/21291	18850/21291	6284/7096	6284	7096		",G"	K6284E	A19114G	K6284E	ORF1AB:K6284E	1883	ORF1b	K1883E	ORF1B:K1883E	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	19208	.	A	G	86	PASS	3640	0.00467	0	"3621,0,17,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18944A>G	p.Asp6315Gly	18944/21291	18944/21291	6315/7096	6315	7096		",G"	D6315G	A19208G	D6315G	ORF1AB:D6315G	1914	ORF1b	D1914G	ORF1B:D1914G	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	19524	.	C	T	2457	PASS	1437	0.088379	0	"1307,0,127,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	19613	.	G	A	2514	PASS	1380	0.08913	0	"1254,0,123,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19349G>A	p.Arg6450Lys	19349/21291	19349/21291	6450/7096	6450	7096		",A"	R6450K	G19613A	R6450K	ORF1AB:R6450K	2049	ORF1b	R2049K	ORF1B:R2049K	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	19984	.	T	C	77	PASS	240	0.020833	0	"235,0,5,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19720T>C	p.Phe6574Leu	19720/21291	19720/21291	6574/7096	6574	7096		",C"	F6574L	T19984C	F6574L	ORF1AB:F6574L	2173	ORF1b	F2173L	ORF1B:F2173L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	20661	.	T	C	2244	PASS	1377	0.088598	0	"1254,0,122,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20397T>C	p.Ser6799Ser	20397/21291	20397/21291	6799/7096	6799	7096		",C"	S6799S	T20661C	S6799S	ORF1AB:S6799S	2398	ORF1b	S2398S	ORF1B:S2398S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	21133	.	CA	C	4368	PASS	1795	0.092479	0	"1629,0,166,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20873delA	p.Lys6958fs	20873/21291	20873/21291	6958/7096	6958	7096		"INFO_REALIGN_3_PRIME,C"	del6958	CA21133C	del6958	ORF1AB:DEL6958	2557	ORF1b	del2557	ORF1B:DEL2557	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	21855	.	C	T	301	PASS	80	0.1625	0	"67,0,13,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	21892	.	A	G	302	PASS	82	0.158537	0	"69,0,13,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.330A>G	p.Leu110Leu	330/3822	330/3822	110/1273	110	1273		",G"	L110L	A21892G	L110L	S:L110L	110	S	L110L	S:L110L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	22227	.	C	T	71	PASS	37	0.081081	0	"34,0,3,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	22879	.	C	A	293	PASS	123	0.113821	0	"109,0,14,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1317C>A	p.Asn439Lys	1317/3822	1317/3822	439/1273	439	1273		",A"	N439K	C22879A	N439K	S:N439K	439	S	N439K	S:N439K	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	22925	.	T	C	143	PASS	128	0.0625	0	"120,0,8,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1363T>C	p.Leu455Leu	1363/3822	1363/3822	455/1273	455	1273		",C"	L455L	T22925C	L455L	S:L455L	455	S	L455L	S:L455L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	22992	.	G	A	1865	PASS	159	0.415094	0	"93,0,66,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	23403	.	A	G	8566	PASS	246	0.995935	2147483647	"0,0,245,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	23997	.	CAA	C	61	PASS	78	0.038462	0	"75,0,3,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2436_2437delAA	p.Ser813fs	2436/3822	2436/3822	812/1273	812	1273		",C"	del813	CAA23997C	del813	S:DEL813	813	S	del813	S:DEL813	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	24996	.	TA	T	2158	PASS	824	0.095874	0	"763,0,79,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3435delA	p.Asp1146fs	3435/3822	3435/3822	1145/1273	1145	1273		",T"	del1146	TA24996T	del1146	S:DEL1146	1146	S	del1146	S:DEL1146	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25160	.	C	T	1329	PASS	581	0.108434	0	"518,0,63,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3598C>T	p.Leu1200Phe	3598/3822	3598/3822	1200/1273	1200	1273		",T"	L1200F	C25160T	L1200F	S:L1200F	1200	S	L1200F	S:L1200F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25216	.	A	T	87	PASS	456	0.032895	0	"436,0,15,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25240	.	C	A	87	PASS	484	0.039256	0	"465,0,19,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25254	.	C	A	108	PASS	528	0.039773	0	"507,0,21,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25277	.	A	T	199	PASS	517	0.065764	0	"480,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25286	.	A	T	239	PASS	532	0.073308	0	"484,0,39,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25296	.	A	C	340	PASS	512	0.097656	0	"438,0,50,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25296	.	A	T	91	PASS	512	0.046875	0	"438,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25312	.	T	G	89	PASS	530	0.043396	0	"507,0,23,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25323	.	G	C	224	PASS	538	0.083643	0	"488,0,45,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25324	.	C	A	1145	PASS	540	0.194444	0	"435,0,105,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25327	.	A	T	128	PASS	535	0.063551	0	"501,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25331	.	G	T	146	PASS	525	0.068571	0	"483,0,36,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25334	.	G	C	169	PASS	516	0.075581	0	"465,0,39,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25336	.	A	C	576	PASS	523	0.14914	0	"445,0,78,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25337	.	G	C	232	PASS	500	0.094	0	"453,0,47,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25461	.	T	C	2252	PASS	532	0.178571	0	"437,0,95,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.69T>C	p.Ala23Ala	69/828	69/828	23/275	23	275		",C"	A23A	T25461C	A23A	ORF3A:A23A	23	ORF3a	A23A	ORF3A:A23A	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25505	.	A	G	3432	PASS	449	0.287305	0	"319,0,129,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25563	.	G	T	3671	PASS	476	0.287815	0	"339,0,137,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25710	.	C	T	5338	PASS	437	0.423341	0	"252,0,185,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25886	.	C	T	575	PASS	332	0.084337	0	"304,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25906	.	G	C	337	PASS	341	0.055718	0	"322,0,19,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	25996	.	G	T	531	PASS	342	0.078947	0	"315,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	26154	.	AGTT	A	1819	PASS	1041	0.064361	0	"977,0,67,0"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.766_768delGTT	p.Val256del	766/828	766/828	256/275	256	275		"INFO_REALIGN_3_PRIME,A"	del256	AGTT26154A	del256	ORF3A:DEL256	256	ORF3a	del256	ORF3A:DEL256	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	26271	.	A	G	168	PASS	1526	0.01114	0	"1509,0,17,0"	FALSE	G	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.27A>G	p.Thr9Thr	27/228	27/228	9/75	9	75		",G"	T9T	A26271G	T9T	E:T9T	9	E	T9T	E:T9T	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	26565	.	A	G	4508	PASS	2281	0.106971	0	"2037,0,244,0"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.43A>G	p.Lys15Glu	43/669	43/669	15/222	15	222		",G"	K15E	A26565G	K15E	M:K15E	15	M	K15E	M:K15E	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	26735	.	C	T	20605	PASS	1759	0.41444	0	"1029,0,729,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	26801	.	C	G	13775	PASS	1545	0.324919	0	"1042,0,502,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	26876	.	T	C	8130	PASS	768	0.389323	0	"469,0,299,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27143	.	C	T	440	PASS	158	0.120253	0	"139,0,19,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.621C>T	p.Asn207Asn	621/669	621/669	207/222	207	222		",T"	N207N	C27143T	N207N	M:N207N	207	M	N207N	M:N207N	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27232	.	A	G	1500	PASS	590	0.115254	0	"521,0,68,0"	FALSE	G	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.31A>G	p.Ile11Val	31/186	31/186	11/61	11	61		",G"	I11V	A27232G	I11V	ORF6:I11V	11	ORF6	I11V	ORF6:I11V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27289	.	G	T	4979	PASS	1029	0.199223	0	"823,0,205,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.88G>T	p.Asp30Tyr	88/186	88/186	30/61	30	61		",T"	D30Y	G27289T	D30Y	ORF6:D30Y	30	ORF6	D30Y	ORF6:D30Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27442	.	C	T	3979	PASS	1390	0.134532	0	"1200,0,187,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.49C>T	p.Leu17Phe	49/366	49/366	17/121	17	121		",T"	L17F	C27442T	L17F	ORF7A:L17F	17	ORF7a	L17F	ORF7A:L17F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27528	.	A	T	2466	PASS	2003	0.068397	0	"1865,0,137,0"	FALSE	T	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.135A>T	p.Pro45Pro	135/366	135/366	45/121	45	121		",T"	P45P	A27528T	P45P	ORF7A:P45P	45	ORF7a	P45P	ORF7A:P45P	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27598	.	G	T	3047	PASS	2316	0.070812	0	"2150,0,164,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.205G>T	p.Asp69Tyr	205/366	205/366	69/121	69	121		",T"	D69Y	G27598T	D69Y	ORF7A:D69Y	69	ORF7a	D69Y	ORF7A:D69Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27837	.	T	C	173	PASS	1860	0.009677	0	"1842,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.82T>C	p.Phe28Leu	82/132	82/132	28/43	28	43		",C"	F28L	T27837C	F28L	ORF7B:F28L	28	ORF7b	F28L	ORF7B:F28L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27877	.	G	T	4759	PASS	1984	0.115927	0	"1754,0,230,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.122G>T	p.Cys41Phe	122/132	122/132	41/43	41	43		",T"	C41F	G27877T	C41F	ORF7B:C41F	41	ORF7b	C41F	ORF7B:C41F	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27879	.	C	T	164	PASS	1957	0.009709	0	"1936,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.124C>T	p.His42Tyr	124/132	124/132	42/43	42	43		",T"	H42Y	C27879T	H42Y	ORF7B:H42Y	42	ORF7b	H42Y	ORF7B:H42Y	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27880	.	A	C	1963	PASS	1956	0.064417	0	"1828,0,126,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.125A>C	p.His42Pro	125/132	125/132	42/43	42	43		",C"	H42P	A27880C	H42P	ORF7B:H42P	42	ORF7b	H42P	ORF7B:H42P	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27944	.	C	T	8708	PASS	1959	0.182746	0	"1599,0,358,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	27945	.	C	T	5801	PASS	1959	0.137315	0	"1685,0,269,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.52C>T	p.Gln18*	52/366	52/366	18/121	18	121		",T"	Q18*	C27945T	Q18*	ORF8:Q18*	18	ORF8	Q18*	ORF8:Q18*	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28045	.	C	T	1376	PASS	1147	0.067132	0	"1070,0,77,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28346	.	G	T	1608	PASS	1637	0.064753	0	"1528,0,106,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.73G>T	p.Gly25Cys	73/1260	73/1260	25/419	25	419		",T"	G25C	G28346T	G25C	N:G25C	25	N	G25C	N:G25C	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28378	.	G	T	1377	PASS	1635	0.053211	0	"1546,0,87,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28615	.	A	G	835	PASS	3094	0.025533	0	"3012,0,79,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.342A>G	p.Gly114Gly	342/1260	342/1260	114/419	114	419		",G"	G114G	A28615G	G114G	N:G114G	114	N	G114G	N:G114G	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28616	.	A	G	597	PASS	3087	0.025915	0	"3003,0,80,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.343A>G	p.Thr115Ala	343/1260	343/1260	115/419	115	419		",G"	T115A	A28616G	T115A	N:T115A	115	N	T115A	N:T115A	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28617	.	C	T	837	PASS	2972	0.026581	0	"2893,0,79,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.344C>T	p.Thr115Ile	344/1260	344/1260	115/419	115	419		",T"	T115I	C28617T	T115I	N:T115I	115	N	T115I	N:T115I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28651	.	C	T	22288	PASS	3286	0.265368	0	"2413,0,872,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28759	.	T	C	4149	PASS	4566	0.052343	0	"4325,0,239,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.486T>C	p.Pro162Pro	486/1260	486/1260	162/419	162	419		",C"	P162P	T28759C	P162P	N:P162P	162	N	P162P	N:P162P	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28869	.	C	T	32542	PASS	4320	0.289815	0	"3064,0,1252,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28881	.	G	A	630	PASS	4171	0.018221	0	"4091,0,76,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28882	.	G	A	572	PASS	4227	0.01798	0	"4143,0,76,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28883	.	G	C	665	PASS	4204	0.019267	0	"4119,0,81,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28932	.	C	T	16487	PASS	4222	0.175272	0	"3478,0,740,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28939	.	G	A	4357	PASS	4180	0.06244	0	"3917,0,261,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.666G>A	p.Leu222Leu	666/1260	666/1260	222/419	222	419		",A"	L222L	G28939A	L222L	N:L222L	222	N	L222L	N:L222L	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28975	.	G	C	49314	PASS	3976	0.49673	0	"1998,0,1975,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	28987	.	CCAA	C	263	PASS	3656	0.004376	0	"3660,0,16,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	29051	.	C	CA	10255	PASS	3127	0.118644	0	"2756,0,371,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH31	NC_045512.2	29057	.	C	A	72	PASS	3091	0.007441	0	"3067,0,23,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.784C>A	p.Arg262Ser	784/1260	784/1260	262/419	262	419		",A"	R262S	C29057A	R262S	N:R262S	262	N	R262S	N:R262S	SCH31	SCHIFFLANGE	2020-10-26T00:00:00Z	29.54	32.38666667	x	14122020	2020-10-26
SCH32	NC_045512.2	241	.	C	T	49314	PASS	3675	0.998912	0	"1,0,3671,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	335	.	C	T	9299	PASS	3848	0.115904	0	"3400,0,446,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	445	.	T	C	41838	PASS	4653	0.344294	0	"3048,0,1602,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	518	.	ATGGTT	A	11302	PASS	4487	0.093827	0	"4190,0,421,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.254_258delTGGTT	p.Met85fs	254/21291	254/21291	85/7096	85	7096		",A"	del85	ATGGTT518A	del85	ORF1AB:DEL85	85	ORF1a	del85	ORF1A:DEL85	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	593	.	C	T	10677	PASS	3732	0.131029	0	"3242,0,489,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	1291	.	AT	A	198	PASS	2303	0.005211	0	"2297,0,12,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1030delT	p.Cys344fs	1030/21291	1030/21291	344/7096	344	7096		"INFO_REALIGN_3_PRIME,A"	del344	AT1291A	del344	ORF1AB:DEL344	344	ORF1a	del344	ORF1A:DEL344	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	1513	.	C	T	8289	PASS	2825	0.144779	0	"2414,0,409,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1248C>T	p.Cys416Cys	1248/21291	1248/21291	416/7096	416	7096		",T"	C416C	C1513T	C416C	ORF1AB:C416C	416	ORF1a	C416C	ORF1A:C416C	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	2531	.	G	GT	3501	PASS	1159	0.105263	0	"1053,0,122,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2268dupT	p.Val757fs	2269/21291	2269/21291	757/7096	757	7096		"INFO_REALIGN_3_PRIME,GT"	del757	G2531GT	del757	ORF1AB:DEL757	757	ORF1a	del757	ORF1A:DEL757	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	3009	.	A	G	4140	PASS	1696	0.125	0	"1478,0,212,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2744A>G	p.Lys915Arg	2744/21291	2744/21291	915/7096	915	7096		",G"	K915R	A3009G	K915R	ORF1AB:K915R	915	ORF1a	K915R	ORF1A:K915R	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	3037	.	C	T	49314	PASS	1553	0.999356	2147483647	"0,0,1552,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	3141	.	CT	C	108	PASS	961	0.006243	0	"955,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2879delT	p.Leu960fs	2879/21291	2879/21291	960/7096	960	7096		"INFO_REALIGN_3_PRIME,C"	del960	CT3141C	del960	ORF1AB:DEL960	960	ORF1a	del960	ORF1A:DEL960	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	3231	.	G	T	292	PASS	187	0.085561	0	"171,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2966G>T	p.Gly989Val	2966/21291	2966/21291	989/7096	989	7096		",T"	G989V	G3231T	G989V	ORF1AB:G989V	989	ORF1a	G989V	ORF1A:G989V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	3329	.	A	G	196	PASS	26	0.269231	0	"19,0,7,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3064A>G	p.Thr1022Ala	3064/21291	3064/21291	1022/7096	1022	7096		",G"	T1022A	A3329G	T1022A	ORF1AB:T1022A	1022	ORF1a	T1022A	ORF1A:T1022A	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	3592	.	T	C	79	PASS	56	0.071429	0	"52,0,4,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	3602	.	C	T	599	PASS	77	0.285714	0	"55,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	3737	.	C	T	164	PASS	185	0.075676	0	"170,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3472C>T	p.Pro1158Ser	3472/21291	3472/21291	1158/7096	1158	7096		",T"	P1158S	C3737T	P1158S	ORF1AB:P1158S	1158	ORF1a	P1158S	ORF1A:P1158S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	4002	.	C	T	713	PASS	265	0.124528	0	"232,0,33,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3737C>T	p.Thr1246Ile	3737/21291	3737/21291	1246/7096	1246	7096		",T"	T1246I	C4002T	T1246I	ORF1AB:T1246I	1246	ORF1a	T1246I	ORF1A:T1246I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	4244	.	A	G	107	PASS	254	0.03937	0	"244,0,10,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3979A>G	p.Thr1327Ala	3979/21291	3979/21291	1327/7096	1327	7096		",G"	T1327A	A4244G	T1327A	ORF1AB:T1327A	1327	ORF1a	T1327A	ORF1A:T1327A	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	4543	.	C	T	1368	PASS	163	0.319018	0	"111,0,52,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	5157	.	CT	C	90	PASS	1751	0.003427	0	"1745,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4896delT	p.Phe1632fs	4896/21291	4896/21291	1632/7096	1632	7096		"INFO_REALIGN_3_PRIME,C"	del1632	CT5157C	del1632	ORF1AB:DEL1632	1632	ORF1a	del1632	ORF1A:DEL1632	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	5629	.	G	T	5883	PASS	445	0.444944	0	"247,0,198,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	5950	.	G	T	1487	PASS	493	0.133874	0	"427,0,66,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5685G>T	p.Lys1895Asn	5685/21291	5685/21291	1895/7096	1895	7096		",T"	K1895N	G5950T	K1895N	ORF1AB:K1895N	1895	ORF1a	K1895N	ORF1A:K1895N	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	5966	.	A	G	462	PASS	524	0.049618	0	"498,0,26,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5701A>G	p.Lys1901Glu	5701/21291	5701/21291	1901/7096	1901	7096		",G"	K1901E	A5966G	K1901E	ORF1AB:K1901E	1901	ORF1a	K1901E	ORF1A:K1901E	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	6286	.	C	T	6375	PASS	589	0.385399	0	"361,0,227,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	6686	.	T	C	72	PASS	510	0.011765	0	"504,0,6,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6421T>C	p.Tyr2141His	6421/21291	6421/21291	2141/7096	2141	7096		",C"	Y2141H	T6686C	Y2141H	ORF1AB:Y2141H	2141	ORF1a	Y2141H	ORF1A:Y2141H	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	6941	.	C	T	4629	PASS	689	0.261248	0	"509,0,180,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	7621	.	T	C	334	PASS	426	0.051643	0	"403,0,22,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7356T>C	p.Cys2452Cys	7356/21291	7356/21291	2452/7096	2452	7096		",C"	C2452C	T7621C	C2452C	ORF1AB:C2452C	2452	ORF1a	C2452C	ORF1A:C2452C	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	8202	.	T	C	1324	PASS	817	0.086903	0	"745,0,71,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7937T>C	p.Val2646Ala	7937/21291	7937/21291	2646/7096	2646	7096		",C"	V2646A	T8202C	V2646A	ORF1AB:V2646A	2646	ORF1a	V2646A	ORF1A:V2646A	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	8853	.	G	T	109	PASS	504	0.021825	0	"493,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8588G>T	p.Gly2863Val	8588/21291	8588/21291	2863/7096	2863	7096		",T"	G2863V	G8853T	G2863V	ORF1AB:G2863V	2863	ORF1a	G2863V	ORF1A:G2863V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	8927	.	GT	G	1059	PASS	420	0.092857	0	"383,0,39,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8667delT	p.Phe2889fs	8667/21291	8667/21291	2889/7096	2889	7096		"INFO_REALIGN_3_PRIME,G"	del2889	GT8927G	del2889	ORF1AB:DEL2889	2889	ORF1a	del2889	ORF1A:DEL2889	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	8983	.	T	G	1856	PASS	417	0.199041	0	"333,0,83,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	9526	.	G	T	17303	PASS	3005	0.233943	0	"2299,0,703,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	9660	.	T	C	92	PASS	4036	0.005203	0	"4014,0,21,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9395T>C	p.Phe3132Ser	9395/21291	9395/21291	3132/7096	3132	7096		",C"	F3132S	T9660C	F3132S	ORF1AB:F3132S	3132	ORF1a	F3132S	ORF1A:F3132S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	9699	.	T	C	126	PASS	3493	0.005439	0	"3469,0,19,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9434T>C	p.Ile3145Thr	9434/21291	9434/21291	3145/7096	3145	7096		",C"	I3145T	T9699C	I3145T	ORF1AB:I3145T	3145	ORF1a	I3145T	ORF1A:I3145T	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	9791	.	G	T	6534	PASS	3499	0.096599	0	"3160,0,338,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9526G>T	p.Glu3176*	9526/21291	9526/21291	3176/7096	3176	7096		",T"	E3176*	G9791T	E3176*	ORF1AB:E3176*	3176	ORF1a	E3176*	ORF1A:E3176*	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	9967	.	C	T	4992	PASS	3258	0.078269	0	"3001,0,255,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9702C>T	p.Leu3234Leu	9702/21291	9702/21291	3234/7096	3234	7096		",T"	L3234L	C9967T	L3234L	ORF1AB:L3234L	3234	ORF1a	L3234L	ORF1A:L3234L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	10301	.	CA	C	6728	PASS	3253	0.07716	0	"3002,0,251,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10040delA	p.Asn3347fs	10040/21291	10040/21291	3347/7096	3347	7096		"INFO_REALIGN_3_PRIME,C"	del3347	CA10301C	del3347	ORF1AB:DEL3347	3347	ORF1a	del3347	ORF1A:DEL3347	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	10427	.	G	GT	304	PASS	2558	0.006646	0	"2567,0,17,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10165dupT	p.Tyr3389fs	10166/21291	10166/21291	3389/7096	3389	7096		"INFO_REALIGN_3_PRIME,GT"	del3389	G10427GT	del3389	ORF1AB:DEL3389	3389	ORF1a	del3389	ORF1A:DEL3389	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	10427	.	G	T	3800	PASS	2584	0.077786	0	"2383,0,201,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10162G>T	p.Val3388Phe	10162/21291	10162/21291	3388/7096	3388	7096		",T"	V3388F	G10427T	V3388F	ORF1AB:V3388F	3388	ORF1a	V3388F	ORF1A:V3388F	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	11497	.	C	T	13054	PASS	1436	0.331476	0	"959,0,476,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	11650	.	C	T	1550	PASS	1032	0.088178	0	"938,0,91,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11385C>T	p.Gly3795Gly	11385/21291	11385/21291	3795/7096	3795	7096		",T"	G3795G	C11650T	G3795G	ORF1AB:G3795G	3795	ORF1a	G3795G	ORF1A:G3795G	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	11747	.	C	T	1220	PASS	502	0.111554	0	"446,0,56,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11482C>T	p.Leu3828Leu	11482/21291	11482/21291	3828/7096	3828	7096		",T"	L3828L	C11747T	L3828L	ORF1AB:L3828L	3828	ORF1a	L3828L	ORF1A:L3828L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	12333	.	CA	C	2886	PASS	835	0.120958	0	"734,0,101,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12072delA	p.Val4025fs	12072/21291	12072/21291	4024/7096	4024	7096		"INFO_REALIGN_3_PRIME,C"	del4025	CA12333C	del4025	ORF1AB:DEL4025	4025	ORF1a	del4025	ORF1A:DEL4025	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	13123	.	TG	T	106	PASS	4168	0.002159	0	"4214,0,9,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	13517	.	C	T	5495	PASS	2581	0.104611	0	"2309,0,270,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	13541	.	C	T	2341	PASS	2055	0.06618	0	"1916,0,136,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13277C>T	p.Ala4426Val	13277/21291	13277/21291	4426/7096	4426	7096		",T"	A4426V	C13541T	A4426V	ORF1AB:A4426V	25	ORF1b	A25V	ORF1B:A25V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	13571	.	G	T	259	PASS	1949	0.016419	0	"1915,0,32,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13307G>T	p.Gly4436Val	13307/21291	13307/21291	4436/7096	4436	7096		",T"	G4436V	G13571T	G4436V	ORF1AB:G4436V	35	ORF1b	G35V	ORF1B:G35V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	13993	.	G	T	22891	PASS	1693	0.47785	0	"884,0,809,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	14408	.	C	T	675	PASS	19	1	2147483647	"0,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	14703	.	CT	C	3508	PASS	2610	0.052107	0	"2474,0,136,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14442delT	p.Phe4814fs	14442/21291	14442/21291	4814/7096	4814	7096		"INFO_REALIGN_3_PRIME,C"	del4814	CT14703C	del4814	ORF1AB:DEL4814	413	ORF1b	del413	ORF1B:DEL413	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	14982	.	T	C	6878	PASS	3857	0.091781	0	"3501,0,354,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14718T>C	p.Leu4906Leu	14718/21291	14718/21291	4906/7096	4906	7096		",C"	L4906L	T14982C	L4906L	ORF1AB:L4906L	505	ORF1b	L505L	ORF1B:L505L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	15018	.	A	G	3799	PASS	3653	0.066247	0	"3407,0,242,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14754A>G	p.Ala4918Ala	14754/21291	14754/21291	4918/7096	4918	7096		",G"	A4918A	A15018G	A4918A	ORF1AB:A4918A	517	ORF1b	A517A	ORF1B:A517A	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	15157	.	CA	C	8456	PASS	2941	0.107446	0	"2625,0,316,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14898delA	p.Lys4966fs	14898/21291	14898/21291	4966/7096	4966	7096		"INFO_REALIGN_3_PRIME,C"	del4966	CA15157C	del4966	ORF1AB:DEL4966	565	ORF1b	del565	ORF1B:DEL565	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	15216	.	CA	C	807	PASS	2869	0.013942	0	"2829,0,40,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14955delA	p.Lys4985fs	14955/21291	14955/21291	4985/7096	4985	7096		"INFO_REALIGN_3_PRIME,C"	del4985	CA15216C	del4985	ORF1AB:DEL4985	584	ORF1b	del584	ORF1B:DEL584	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	15324	.	C	T	7907	PASS	1096	0.278285	0	"790,0,305,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	15653	.	A	G	996	PASS	560	0.098214	0	"505,0,55,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15389A>G	p.Asp5130Gly	15389/21291	15389/21291	5130/7096	5130	7096		",G"	D5130G	A15653G	D5130G	ORF1AB:D5130G	729	ORF1b	D729G	ORF1B:D729G	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	15766	.	G	T	4319	PASS	536	0.300373	0	"375,0,161,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	16505	.	T	C	89	PASS	4879	0.004714	0	"4853,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16241T>C	p.Phe5414Ser	16241/21291	16241/21291	5414/7096	5414	7096		",C"	F5414S	T16505C	F5414S	ORF1AB:F5414S	1013	ORF1b	F1013S	ORF1B:F1013S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	16795	.	G	T	24211	PASS	6047	0.172978	0	"4998,0,1046,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16531G>T	p.Val5511Leu	16531/21291	16531/21291	5511/7096	5511	7096		",T"	V5511L	G16795T	V5511L	ORF1AB:V5511L	1110	ORF1b	V1110L	ORF1B:V1110L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	16889	.	A	G	49314	PASS	4610	0.390022	0	"2807,0,1798,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	17019	.	G	T	22967	PASS	2270	0.363877	0	"1442,0,826,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	17059	.	CA	C	3573	PASS	1650	0.079394	0	"1519,0,131,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799delA	p.Lys5600fs	16799/21291	16799/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,C"	del5600	CA17059C	del5600	ORF1AB:DEL5600	1199	ORF1b	del1199	ORF1B:DEL1199	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	18688	.	T	C	165	PASS	1826	0.010953	0	"1805,0,20,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18424T>C	p.Phe6142Leu	18424/21291	18424/21291	6142/7096	6142	7096		",C"	F6142L	T18688C	F6142L	ORF1AB:F6142L	1741	ORF1b	F1741L	ORF1B:F1741L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	18877	.	C	T	16297	PASS	3923	0.173592	0	"3239,0,681,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	18916	.	A	T	8877	PASS	4753	0.096781	0	"4291,0,460,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18652A>T	p.Thr6218Ser	18652/21291	18652/21291	6218/7096	6218	7096		",T"	T6218S	A18916T	T6218S	ORF1AB:T6218S	1817	ORF1b	T1817S	ORF1B:T1817S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	19117	.	G	T	18955	PASS	5147	0.158345	0	"4331,0,815,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18853G>T	p.Ala6285Ser	18853/21291	18853/21291	6285/7096	6285	7096		",T"	A6285S	G19117T	A6285S	ORF1AB:A6285S	1884	ORF1b	A1884S	ORF1B:A1884S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	19164	.	CAA	C	17869	PASS	4899	0.127373	0	"4275,0,624,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18902_18903delAA	p.Lys6301fs	18902/21291	18902/21291	6301/7096	6301	7096		"INFO_REALIGN_3_PRIME,C"	del6301	CAA19164C	del6301	ORF1AB:DEL6301	1900	ORF1b	del1900	ORF1B:DEL1900	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	19735	.	G	T	2827	PASS	1351	0.105848	0	"1206,0,143,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19471G>T	p.Asp6491Tyr	19471/21291	19471/21291	6491/7096	6491	7096		",T"	D6491Y	G19735T	D6491Y	ORF1AB:D6491Y	2090	ORF1b	D2090Y	ORF1B:D2090Y	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	20648	.	C	CA	4954	PASS	1975	0.091139	0	"1795,0,180,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20388dupA	p.Leu6797fs	20389/21291	20389/21291	6797/7096	6797	7096		"INFO_REALIGN_3_PRIME,CA"	del6797	C20648CA	del6797	ORF1AB:DEL6797	2396	ORF1b	del2396	ORF1B:DEL2396	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	20711	.	A	G	4023	PASS	2420	0.085124	0	"2214,0,206,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20447A>G	p.Gln6816Arg	20447/21291	20447/21291	6816/7096	6816	7096		",G"	Q6816R	A20711G	Q6816R	ORF1AB:Q6816R	2415	ORF1b	Q2415R	ORF1B:Q2415R	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	21045	.	TG	T	2311	PASS	2693	0.035277	0	"2600,0,95,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20782delG	p.Asp6928fs	20782/21291	20782/21291	6928/7096	6928	7096		",T"	del6928	TG21045T	del6928	ORF1AB:DEL6928	2527	ORF1b	del2527	ORF1B:DEL2527	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	21101	.	GT	G	56	PASS	2216	0.003159	0	"2214,0,7,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843delT	p.Phe6948fs	20843/21291	20843/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,G"	del6948	GT21101G	del6948	ORF1AB:DEL6948	2547	ORF1b	del2547	ORF1B:DEL2547	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	21152	.	G	T	225	PASS	2257	0.013292	0	"2227,0,30,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20888G>T	p.Gly6963Val	20888/21291	20888/21291	6963/7096	6963	7096		",T"	G6963V	G21152T	G6963V	ORF1AB:G6963V	2562	ORF1b	G2562V	ORF1B:G2562V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	21255	.	G	C	28558	PASS	2549	0.408788	0	"1503,0,1042,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	21258	.	A	G	5222	PASS	2598	0.109315	0	"2311,0,284,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20994A>G	p.Ser6998Ser	20994/21291	20994/21291	6998/7096	6998	7096		",G"	S6998S	A21258G	S6998S	ORF1AB:S6998S	2597	ORF1b	S2597S	ORF1B:S2597S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	21855	.	C	T	748	PASS	81	0.333333	0	"54,0,27,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	22227	.	C	T	379	PASS	43	0.348837	0	"28,0,15,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	22346	.	G	T	104	PASS	11	0.363636	0	"7,0,4,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.784G>T	p.Ala262Ser	784/3822	784/3822	262/1273	262	1273		",T"	A262S	G22346T	A262S	S:A262S	262	S	A262S	S:A262S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	22377	.	C	T	177	PASS	16	0.375	0	"10,0,6,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.815C>T	p.Pro272Leu	815/3822	815/3822	272/1273	272	1273		",T"	P272L	C22377T	P272L	S:P272L	272	S	P272L	S:P272L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	22482	.	C	T	116	PASS	15	0.266667	0	"11,0,4,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.920C>T	p.Thr307Ile	920/3822	920/3822	307/1273	307	1273		",T"	T307I	C22482T	T307I	S:T307I	307	S	T307I	S:T307I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	22992	.	G	A	1182	PASS	226	0.207965	0	"179,0,47,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	23127	.	C	T	555	PASS	214	0.121495	0	"188,0,26,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1565C>T	p.Ala522Val	1565/3822	1565/3822	522/1273	522	1273		",T"	A522V	C23127T	A522V	S:A522V	522	S	A522V	S:A522V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	23403	.	A	G	20785	PASS	588	1	2147483647	"0,0,588,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	23508	.	G	GT	1566	PASS	704	0.079545	0	"648,0,56,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1949dupT	p.Leu650fs	1950/3822	1950/3822	650/1273	650	1273		"INFO_REALIGN_3_PRIME,GT"	del650	G23508GT	del650	S:DEL650	650	S	del650	S:DEL650	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	23829	.	A	G	1366	PASS	530	0.115094	0	"469,0,61,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2267A>G	p.Tyr756Cys	2267/3822	2267/3822	756/1273	756	1273		",G"	Y756C	A23829G	Y756C	S:Y756C	756	S	Y756C	S:Y756C	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	23894	.	A	T	527	PASS	494	0.068826	0	"459,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2332A>T	p.Thr778Ser	2332/3822	2332/3822	778/1273	778	1273		",T"	T778S	A23894T	T778S	S:T778S	778	S	T778S	S:T778S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	23997	.	C	T	554	PASS	153	0.156863	0	"129,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2435C>T	p.Pro812Leu	2435/3822	2435/3822	812/1273	812	1273		",T"	P812L	C23997T	P812L	S:P812L	812	S	P812L	S:P812L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	24139	.	TG	T	83	PASS	24	0.125	0	"21,0,3,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2578delG	p.Val860fs	2578/3822	2578/3822	860/1273	860	1273		",T"	del860	TG24139T	del860	S:DEL860	860	S	del860	S:DEL860	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25114	.	C	T	2695	PASS	1459	0.094585	0	"1319,0,138,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3552C>T	p.Asp1184Asp	3552/3822	3552/3822	1184/1273	1184	1273		",T"	D1184D	C25114T	D1184D	S:D1184D	1184	S	D1184D	S:D1184D	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25216	.	A	T	127	PASS	1228	0.023616	0	"1190,0,29,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25225	.	A	C	101	PASS	1251	0.019984	0	"1220,0,25,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25228	.	T	G	81	PASS	1242	0.017713	0	"1219,0,22,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25234	.	G	T	74	PASS	1267	0.018153	0	"1244,0,23,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3672G>T	p.Leu1224Phe	3672/3822	3672/3822	1224/1273	1224	1273		",T"	L1224F	G25234T	L1224F	S:L1224F	1224	S	L1224F	S:L1224F	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25240	.	C	A	75	PASS	1259	0.021446	0	"1231,0,27,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25244	.	G	T	131	PASS	1301	0.023828	0	"1269,0,31,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25247	.	A	T	215	PASS	1306	0.034456	0	"1258,0,45,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25254	.	C	A	284	PASS	1374	0.037846	0	"1322,0,52,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25273	.	G	C	68	PASS	1326	0.021116	0	"1289,0,28,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25277	.	A	T	397	PASS	1313	0.055598	0	"1221,0,73,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25280	.	T	G	77	PASS	1338	0.023169	0	"1304,0,31,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25286	.	A	T	256	PASS	1347	0.046028	0	"1261,0,62,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25289	.	T	G	69	PASS	1324	0.023414	0	"1288,0,31,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25296	.	A	C	747	PASS	1346	0.087667	0	"1170,0,118,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25296	.	A	T	151	PASS	1346	0.03789	0	"1170,0,51,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25312	.	T	G	132	PASS	1405	0.034875	0	"1356,0,49,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25314	.	G	T	89	PASS	1406	0.031294	0	"1349,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25316	.	T	C	91	PASS	1444	0.032548	0	"1363,0,47,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3754T>C	p.Ser1252Pro	3754/3822	3754/3822	1252/1273	1252	1273		",C"	S1252P	T25316C	S1252P	S:S1252P	1252	S	S1252P	S:S1252P	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25323	.	G	C	431	PASS	1393	0.07107	0	"1272,0,99,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25324	.	C	A	2922	PASS	1398	0.194564	0	"1126,0,272,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25327	.	A	T	271	PASS	1383	0.054953	0	"1305,0,76,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25331	.	G	T	230	PASS	1362	0.055066	0	"1271,0,75,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25334	.	G	C	380	PASS	1352	0.071746	0	"1201,0,97,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25334	.	G	T	105	PASS	1352	0.039941	0	"1201,0,54,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25336	.	A	C	1280	PASS	1368	0.137427	0	"1178,0,188,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25337	.	G	C	522	PASS	1291	0.088304	0	"1177,0,114,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25494	.	G	T	3584	PASS	1448	0.114641	0	"1281,0,166,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.102G>T	p.Thr34Thr	102/828	102/828	34/275	34	275		",T"	T34T	G25494T	T34T	ORF3A:T34T	34	ORF3a	T34T	ORF3A:T34T	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25505	.	A	G	16315	PASS	1223	0.45789	0	"659,0,560,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25563	.	G	T	12091	PASS	1201	0.361366	0	"766,0,434,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25710	.	C	T	8761	PASS	891	0.352413	0	"576,0,314,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25844	.	C	T	990	PASS	515	0.095146	0	"466,0,49,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.452C>T	p.Thr151Ile	452/828	452/828	151/275	151	275		",T"	T151I	C25844T	T151I	ORF3A:T151I	151	ORF3a	T151I	ORF3A:T151I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25886	.	C	T	3383	PASS	532	0.242481	0	"402,0,129,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25906	.	G	C	4409	PASS	551	0.30127	0	"385,0,166,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	25996	.	G	T	4485	PASS	567	0.305115	0	"394,0,173,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	26062	.	G	T	397	PASS	436	0.055046	0	"412,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	26126	.	A	G	74	PASS	1088	0.008272	0	"1079,0,9,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.734A>G	p.Gln245Arg	734/828	734/828	245/275	245	275		",G"	Q245R	A26126G	Q245R	ORF3A:Q245R	245	ORF3a	Q245R	ORF3A:Q245R	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	26735	.	C	T	14082	PASS	2088	0.265805	0	"1532,0,555,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	26801	.	C	G	9632	PASS	1810	0.21547	0	"1419,0,390,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	26876	.	T	C	6733	PASS	1006	0.271372	0	"733,0,273,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	26895	.	C	T	179	PASS	681	0.024963	0	"662,0,17,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.373C>T	p.His125Tyr	373/669	373/669	125/222	125	222		",T"	H125Y	C26895T	H125Y	M:H125Y	125	M	H125Y	M:H125Y	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	27338	.	A	G	2081	PASS	2786	0.044867	0	"2659,0,125,0"	FALSE	G	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.137A>G	p.Glu46Gly	137/186	137/186	46/61	46	61		",G"	E46G	A27338G	E46G	ORF6:E46G	46	ORF6	E46G	ORF6:E46G	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	27342	.	TA	T	49	PASS	2888	0.001385	0	"2889,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.144delA	p.Lys48fs	144/186	144/186	48/61	48	61		"INFO_REALIGN_3_PRIME,T"	del48	TA27342T	del48	ORF6:DEL48	48	ORF6	del48	ORF6:DEL48	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	27596	.	C	G	2335	PASS	3811	0.041721	0	"3649,0,159,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.203C>G	p.Pro68Arg	203/366	203/366	68/121	68	121		",G"	P68R	C27596G	P68R	ORF7A:P68R	68	ORF7a	P68R	ORF7A:P68R	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	27598	.	G	T	2307	PASS	3846	0.040042	0	"3690,0,154,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.205G>T	p.Asp69Tyr	205/366	205/366	69/121	69	121		",T"	D69Y	G27598T	D69Y	ORF7A:D69Y	69	ORF7a	D69Y	ORF7A:D69Y	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	27639	.	T	C	4082	PASS	3737	0.069039	0	"3476,0,258,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.246T>C	p.Val82Val	246/366	246/366	82/121	82	121		",C"	V82V	T27639C	V82V	ORF7A:V82V	82	ORF7a	V82V	ORF7A:V82V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	27670	.	G	T	4288	PASS	3765	0.064276	0	"3522,0,242,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.277G>T	p.Val93Phe	277/366	277/366	93/121	93	121		",T"	V93F	G27670T	V93F	ORF7A:V93F	93	ORF7a	V93F	ORF7A:V93F	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	27815	.	T	C	431	PASS	3109	0.013509	0	"3065,0,42,0"	FALSE	C	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.60T>C	p.Leu20Leu	60/132	60/132	20/43	20	43		",C"	L20L	T27815C	L20L	ORF7B:L20L	20	ORF7b	L20L	ORF7B:L20L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	27944	.	C	T	25825	PASS	3130	0.306709	0	"2169,0,960,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28016	.	CTA	C	416	PASS	1834	0.01145	0	"1813,0,21,0"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.125_126delAT	p.Tyr42fs	125/366	125/366	42/121	42	121		"INFO_REALIGN_3_PRIME,C"	del42	CTA28016C	del42	ORF8:DEL42	42	ORF8	del42	ORF8:DEL42	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28045	.	C	T	10214	PASS	1538	0.262679	0	"1133,0,404,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28133	.	A	T	6218	PASS	1662	0.157641	0	"1399,0,262,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28147	.	C	CT	2090	PASS	1610	0.050932	0	"1528,0,82,0"	TRUE	CT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.258dupT	p.Thr87fs	259/366	259/366	87/121	87	121		"INFO_REALIGN_3_PRIME,CT"	del87	C28147CT	del87	ORF8:DEL87	87	ORF8	del87	ORF8:DEL87	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28378	.	G	T	11759	PASS	2493	0.204573	0	"1981,0,510,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28396	.	G	A	221	PASS	2244	0.012478	0	"2214,0,28,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.123G>A	p.Arg41Arg	123/1260	123/1260	41/419	41	419		",A"	R41R	G28396A	R41R	N:R41R	41	N	R41R	N:R41R	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28570	.	TA	T	983	PASS	4249	0.012003	0	"4229,0,51,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.301delA	p.Met101fs	301/1260	301/1260	101/419	101	419		"INFO_REALIGN_3_PRIME,T"	del101	TA28570T	del101	N:DEL101	101	N	del101	N:DEL101	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28651	.	C	T	40272	PASS	4438	0.336638	0	"2938,0,1494,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28658	.	G	T	2960	PASS	4263	0.049496	0	"4050,0,211,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.385G>T	p.Gly129Cys	385/1260	385/1260	129/419	129	419		",T"	G129C	G28658T	G129C	N:G129C	129	N	G129C	N:G129C	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28680	.	AG	A	56	PASS	4980	0.001004	0	"4979,0,5,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.410delG	p.Gly137fs	410/1260	410/1260	137/419	137	419		"INFO_REALIGN_3_PRIME,A"	del137	AG28680A	del137	N:DEL137	137	N	del137	N:DEL137	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28721	.	A	G	135	PASS	5890	0.004924	0	"5857,0,29,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.448A>G	p.Asn150Asp	448/1260	448/1260	150/419	150	419		",G"	N150D	A28721G	N150D	N:N150D	150	N	N150D	N:N150D	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28724	.	C	T	18388	PASS	6111	0.135002	0	"5285,0,825,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.451C>T	p.Pro151Ser	451/1260	451/1260	151/419	151	419		",T"	P151S	C28724T	P151S	N:P151S	151	N	P151S	N:P151S	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28748	.	C	T	12574	PASS	6397	0.097702	0	"5768,0,625,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.475C>T	p.Leu159Leu	475/1260	475/1260	159/419	159	419		",T"	L159L	C28748T	L159L	N:L159L	159	N	L159L	N:L159L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28869	.	C	T	49314	PASS	6012	0.340319	0	"3962,0,2046,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28898	.	A	G	171	PASS	5857	0.005293	0	"5824,0,31,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.625A>G	p.Arg209Gly	625/1260	625/1260	209/419	209	419		",G"	R209G	A28898G	R209G	N:R209G	209	N	R209G	N:R209G	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28932	.	C	T	49314	PASS	5843	0.455759	0	"3178,0,2663,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28957	.	C	T	4591	PASS	5478	0.056042	0	"5163,0,307,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28975	.	G	C	30711	PASS	5388	0.229027	0	"4152,0,1234,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH32	NC_045512.2	28987	.	CCAA	C	302	PASS	4893	0.003883	0	"4908,0,19,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH32	SCHIFFLANGE	2020-11-01T00:00:00Z	30.27575	34.62666667	x	14122020	2020-11-01
SCH33-3	NC_045512.2	156	.	A	G	336	PASS	1413	0.041047	0	"1348,0,58,0"	FALSE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-110A>G						NA	110	",G"		A156G		NA	NA	NA		NA	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	241	.	C	T	49314	PASS	2147	0.997671	0	"1,0,2142,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	265	.	G	T	2037	PASS	2072	0.065154	0	"1934,0,135,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-1G>T						NA	1	",T"		G265T		NA	NA	NA		NA	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	335	.	C	T	3893	PASS	2146	0.107642	0	"1907,0,231,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	445	.	T	C	11382	PASS	2496	0.241587	0	"1880,0,603,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	487	.	G	T	2955	PASS	2533	0.082116	0	"2322,0,208,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.222G>T	p.Ser74Ser	222/21291	222/21291	74/7096	74	7096		",T"	S74S	G487T	S74S	ORF1AB:S74S	74	ORF1a	S74S	ORF1A:S74S	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	539	.	C	T	2729	PASS	2327	0.079072	0	"2140,0,184,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.274C>T	p.Leu92Phe	274/21291	274/21291	92/7096	92	7096		",T"	L92F	C539T	L92F	ORF1AB:L92F	92	ORF1a	L92F	ORF1A:L92F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	542	.	G	T	2436	PASS	2312	0.071367	0	"2146,0,165,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.277G>T	p.Glu93*	277/21291	277/21291	93/7096	93	7096		",T"	E93*	G542T	E93*	ORF1AB:E93*	93	ORF1a	E93*	ORF1A:E93*	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	593	.	C	T	2284	PASS	2038	0.075074	0	"1882,0,153,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	662	.	G	T	306	PASS	2711	0.018075	0	"2660,0,49,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.397G>T	p.Gly133Cys	397/21291	397/21291	133/7096	133	7096		",T"	G133C	G662T	G133C	ORF1AB:G133C	133	ORF1a	G133C	ORF1A:G133C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	671	.	T	C	2772	PASS	2850	0.07193	0	"2640,0,205,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.406T>C	p.Tyr136His	406/21291	406/21291	136/7096	136	7096		",C"	Y136H	T671C	Y136H	ORF1AB:Y136H	136	ORF1a	Y136H	ORF1A:Y136H	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	802	.	A	C	112	PASS	2539	0.010634	0	"2504,0,27,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	811	.	C	T	836	PASS	2687	0.032378	0	"2596,0,87,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.546C>T	p.Tyr182Tyr	546/21291	546/21291	182/7096	182	7096		",T"	Y182Y	C811T	Y182Y	ORF1AB:Y182Y	182	ORF1a	Y182Y	ORF1A:Y182Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	823	.	C	T	3643	PASS	2532	0.089652	0	"2299,0,227,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	872	.	G	T	804	PASS	2426	0.036274	0	"2336,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.607G>T	p.Asp203Tyr	607/21291	607/21291	203/7096	203	7096		",T"	D203Y	G872T	D203Y	ORF1AB:D203Y	203	ORF1a	D203Y	ORF1A:D203Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	875	.	C	A	2759	PASS	2379	0.088693	0	"2168,0,211,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	906	.	C	CT	1259	PASS	2275	0.024176	0	"2220,0,55,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.644dupT	p.Leu215fs	645/21291	645/21291	215/7096	215	7096		"INFO_REALIGN_3_PRIME,CT"	del215	C906CT	del215	ORF1AB:DEL215	215	ORF1a	del215	ORF1A:DEL215	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1026	.	C	CT	1395	PASS	2770	0.023105	0	"2706,0,64,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.765dupT	p.Glu256fs	766/21291	766/21291	256/7096	256	7096		"INFO_REALIGN_3_PRIME,CT"	del256	C1026CT	del256	ORF1AB:DEL256	256	ORF1a	del256	ORF1A:DEL256	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1098	.	A	T	1436	PASS	2955	0.050423	0	"2803,0,149,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.833A>T	p.Asn278Ile	833/21291	833/21291	278/7096	278	7096		",T"	N278I	A1098T	N278I	ORF1AB:N278I	278	ORF1a	N278I	ORF1A:N278I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1265	.	G	T	667	PASS	2222	0.041404	0	"2130,0,92,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1000G>T	p.Gly334Cys	1000/21291	1000/21291	334/7096	334	7096		",T"	G334C	G1265T	G334C	ORF1AB:G334C	334	ORF1a	G334C	ORF1A:G334C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1368	.	T	A	378	PASS	1702	0.027615	0	"1654,0,47,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1103T>A	p.Ile368Asn	1103/21291	1103/21291	368/7096	368	7096		",A"	I368N	T1368A	I368N	ORF1AB:I368N	368	ORF1a	I368N	ORF1A:I368N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1369	.	T	A	458	PASS	1696	0.028892	0	"1647,0,49,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1104T>A	p.Ile368Ile	1104/21291	1104/21291	368/7096	368	7096		",A"	I368I	T1369A	I368I	ORF1AB:I368I	368	ORF1a	I368I	ORF1A:I368I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1370	.	T	A	324	PASS	1691	0.027794	0	"1644,0,47,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1105T>A	p.Tyr369Asn	1105/21291	1105/21291	369/7096	369	7096		",A"	Y369N	T1370A	Y369N	ORF1AB:Y369N	369	ORF1a	Y369N	ORF1A:Y369N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1437	.	C	T	512	PASS	922	0.048807	0	"875,0,45,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1172C>T	p.Ser391Phe	1172/21291	1172/21291	391/7096	391	7096		",T"	S391F	C1437T	S391F	ORF1AB:S391F	391	ORF1a	S391F	ORF1A:S391F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1513	.	C	T	4843	PASS	789	0.285171	0	"560,0,225,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1248C>T	p.Cys416Cys	1248/21291	1248/21291	416/7096	416	7096		",T"	C416C	C1513T	C416C	ORF1AB:C416C	416	ORF1a	C416C	ORF1A:C416C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	1884	.	C	T	1504	PASS	592	0.146959	0	"505,0,87,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1619C>T	p.Ala540Val	1619/21291	1619/21291	540/7096	540	7096		",T"	A540V	C1884T	A540V	ORF1AB:A540V	540	ORF1a	A540V	ORF1A:A540V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	2416	.	C	T	184	PASS	264	0.05303	0	"250,0,14,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	3037	.	C	T	32248	PASS	948	0.99789	2147483647	"0,0,946,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	3101	.	C	CA	1472	PASS	952	0.058824	0	"896,0,56,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2838dupA	p.Tyr947fs	2839/21291	2839/21291	947/7096	947	7096		"INFO_REALIGN_3_PRIME,CA"	del947	C3101CA	del947	ORF1AB:DEL947	947	ORF1a	del947	ORF1A:DEL947	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	3125	.	GA	G	1376	PASS	699	0.078684	0	"652,0,55,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2861delA	p.Asp954fs	2861/21291	2861/21291	954/7096	954	7096		",G"	del954	GA3125G	del954	ORF1AB:DEL954	954	ORF1a	del954	ORF1A:DEL954	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	3602	.	C	T	333	PASS	60	0.233333	0	"46,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	3695	.	C	T	124	PASS	70	0.1	0	"63,0,7,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3430C>T	p.Leu1144Leu	3430/21291	3430/21291	1144/7096	1144	7096		",T"	L1144L	C3695T	L1144L	ORF1AB:L1144L	1144	ORF1a	L1144L	ORF1A:L1144L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	3722	.	A	AT	47	PASS	57	0.035088	0	"55,0,2,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3462dupT	p.Gly1155fs	3463/21291	3463/21291	1155/7096	1155	7096		"INFO_REALIGN_3_PRIME,AT"	del1155	A3722AT	del1155	ORF1AB:DEL1155	1155	ORF1a	del1155	ORF1A:DEL1155	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4006	.	G	T	209	PASS	78	0.141026	0	"66,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3741G>T	p.Lys1247Asn	3741/21291	3741/21291	1247/7096	1247	7096		",T"	K1247N	G4006T	K1247N	ORF1AB:K1247N	1247	ORF1a	K1247N	ORF1A:K1247N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4040	.	A	G	249	PASS	86	0.127907	0	"75,0,11,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3775A>G	p.Ile1259Val	3775/21291	3775/21291	1259/7096	1259	7096		",G"	I1259V	A4040G	I1259V	ORF1AB:I1259V	1259	ORF1a	I1259V	ORF1A:I1259V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4171	.	T	C	83	PASS	190	0.036842	0	"182,0,7,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3906T>C	p.Pro1302Pro	3906/21291	3906/21291	1302/7096	1302	7096		",C"	P1302P	T4171C	P1302P	ORF1AB:P1302P	1302	ORF1a	P1302P	ORF1A:P1302P	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4312	.	TA	T	640	PASS	366	0.065574	0	"367,0,24,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4051delA	p.Ser1351fs	4051/21291	4051/21291	1351/7096	1351	7096		"INFO_REALIGN_3_PRIME,T"	del1351	TA4312T	del1351	ORF1AB:DEL1351	1351	ORF1a	del1351	ORF1A:DEL1351	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4522	.	TG	T	797	PASS	519	0.065511	0	"486,0,34,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4258delG	p.Ala1420fs	4258/21291	4258/21291	1420/7096	1420	7096		",T"	del1420	TG4522T	del1420	ORF1AB:DEL1420	1420	ORF1a	del1420	ORF1A:DEL1420	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4535	.	T	C	459	PASS	512	0.068359	0	"476,0,35,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4270T>C	p.Phe1424Leu	4270/21291	4270/21291	1424/7096	1424	7096		",C"	F1424L	T4535C	F1424L	ORF1AB:F1424L	1424	ORF1a	F1424L	ORF1A:F1424L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4543	.	C	T	6814	PASS	519	0.487476	0	"264,0,253,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4584	.	A	T	292	PASS	539	0.057514	0	"506,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4319A>T	p.Asp1440Val	4319/21291	4319/21291	1440/7096	1440	7096		",T"	D1440V	A4584T	D1440V	ORF1AB:D1440V	1440	ORF1a	D1440V	ORF1A:D1440V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4657	.	GTA	G	882	PASS	498	0.068273	0	"464,0,34,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4396_4397delAT	p.Met1466fs	4396/21291	4396/21291	1466/7096	1466	7096		"INFO_REALIGN_3_PRIME,G"	del1466	GTA4657G	del1466	ORF1AB:DEL1466	1466	ORF1a	del1466	ORF1A:DEL1466	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	4929	.	A	C	68	PASS	437	0.022883	0	"427,0,10,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4664A>C	p.Asn1555Thr	4664/21291	4664/21291	1555/7096	1555	7096		",C"	N1555T	A4929C	N1555T	ORF1AB:N1555T	1555	ORF1a	N1555T	ORF1A:N1555T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	5086	.	A	T	262	PASS	420	0.052381	0	"398,0,22,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4821A>T	p.Ile1607Ile	4821/21291	4821/21291	1607/7096	1607	7096		",T"	I1607I	A5086T	I1607I	ORF1AB:I1607I	1607	ORF1a	I1607I	ORF1A:I1607I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	5104	.	T	A	891	PASS	430	0.113953	0	"381,0,49,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4839T>A	p.His1613Gln	4839/21291	4839/21291	1613/7096	1613	7096		",A"	H1613Q	T5104A	H1613Q	ORF1AB:H1613Q	1613	ORF1a	H1613Q	ORF1A:H1613Q	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	5170	.	C	T	1010	PASS	455	0.136264	0	"390,0,62,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4905C>T	p.Tyr1635Tyr	4905/21291	4905/21291	1635/7096	1635	7096		",T"	Y1635Y	C5170T	Y1635Y	ORF1AB:Y1635Y	1635	ORF1a	Y1635Y	ORF1A:Y1635Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	5629	.	G	T	7814	PASS	572	0.477273	0	"297,0,273,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	5884	.	C	T	2315	PASS	506	0.201581	0	"403,0,102,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6139	.	A	AT	380	PASS	158	0.088608	0	"144,0,14,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5879dupT	p.Asp1962fs	5880/21291	5880/21291	1960/7096	1960	7096		"INFO_REALIGN_3_PRIME,AT"	del1962	A6139AT	del1962	ORF1AB:DEL1962	1962	ORF1a	del1962	ORF1A:DEL1962	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6286	.	C	T	2346	PASS	240	0.408333	0	"142,0,98,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6369	.	G	T	133	PASS	207	0.05314	0	"196,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6104G>T	p.Gly2035Val	6104/21291	6104/21291	2035/7096	2035	7096		",T"	G2035V	G6369T	G2035V	ORF1AB:G2035V	2035	ORF1a	G2035V	ORF1A:G2035V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6422	.	GA	G	282	PASS	208	0.052885	0	"197,0,11,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6161delA	p.Asn2054fs	6161/21291	6161/21291	2054/7096	2054	7096		"INFO_REALIGN_3_PRIME,G"	del2054	GA6422G	del2054	ORF1AB:DEL2054	2054	ORF1a	del2054	ORF1A:DEL2054	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6504	.	C	T	76	PASS	358	0.02514	0	"346,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6239C>T	p.Ala2080Val	6239/21291	6239/21291	2080/7096	2080	7096		",T"	A2080V	C6504T	A2080V	ORF1AB:A2080V	2080	ORF1a	A2080V	ORF1A:A2080V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6512	.	A	G	107	PASS	408	0.031863	0	"394,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6247A>G	p.Ser2083Gly	6247/21291	6247/21291	2083/7096	2083	7096		",G"	S2083G	A6512G	S2083G	ORF1AB:S2083G	2083	ORF1a	S2083G	ORF1A:S2083G	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6555	.	C	T	294	PASS	460	0.06087	0	"430,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6604	.	AT	A	77	PASS	406	0.009852	0	"407,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6340delT	p.Ser2114fs	6340/21291	6340/21291	2114/7096	2114	7096		",A"	del2114	AT6604A	del2114	ORF1AB:DEL2114	2114	ORF1a	del2114	ORF1A:DEL2114	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6696	.	C	CT	342	PASS	359	0.038997	0	"345,0,14,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	6941	.	C	T	517	PASS	571	0.071804	0	"526,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	7086	.	C	T	287	PASS	370	0.064865	0	"343,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6821C>T	p.Thr2274Ile	6821/21291	6821/21291	2274/7096	2274	7096		",T"	T2274I	C7086T	T2274I	ORF1AB:T2274I	2274	ORF1a	T2274I	ORF1A:T2274I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	7784	.	A	G	189	PASS	608	0.034539	0	"586,0,21,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7519A>G	p.Lys2507Glu	7519/21291	7519/21291	2507/7096	2507	7096		",G"	K2507E	A7784G	K2507E	ORF1AB:K2507E	2507	ORF1a	K2507E	ORF1A:K2507E	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	7834	.	C	T	543	PASS	704	0.068182	0	"653,0,48,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7569C>T	p.Asn2523Asn	7569/21291	7569/21291	2523/7096	2523	7096		",T"	N2523N	C7834T	N2523N	ORF1AB:N2523N	2523	ORF1a	N2523N	ORF1A:N2523N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	7889	.	G	T	826	PASS	909	0.068207	0	"847,0,62,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7624G>T	p.Val2542Phe	7624/21291	7624/21291	2542/7096	2542	7096		",T"	V2542F	G7889T	V2542F	ORF1AB:V2542F	2542	ORF1a	V2542F	ORF1A:V2542F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	8022	.	T	A	657	PASS	887	0.074408	0	"821,0,66,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7757T>A	p.Val2586Asp	7757/21291	7757/21291	2586/7096	2586	7096		",A"	V2586D	T8022A	V2586D	ORF1AB:V2586D	2586	ORF1a	V2586D	ORF1A:V2586D	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	8178	.	G	A	1094	PASS	866	0.086605	0	"789,0,75,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7913G>A	p.Arg2638Gln	7913/21291	7913/21291	2638/7096	2638	7096		",A"	R2638Q	G8178A	R2638Q	ORF1AB:R2638Q	2638	ORF1a	R2638Q	ORF1A:R2638Q	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	8983	.	T	G	2570	PASS	650	0.201538	0	"518,0,131,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	9245	.	G	T	261	PASS	545	0.049541	0	"518,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8980G>T	p.Ala2994Ser	8980/21291	8980/21291	2994/7096	2994	7096		",T"	A2994S	G9245T	A2994S	ORF1AB:A2994S	2994	ORF1a	A2994S	ORF1A:A2994S	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	9355	.	G	GT	1160	PASS	992	0.046371	0	"949,0,46,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9093dupT	p.Thr3032fs	9094/21291	9094/21291	3032/7096	3032	7096		"INFO_REALIGN_3_PRIME,GT"	del3032	G9355GT	del3032	ORF1AB:DEL3032	3032	ORF1a	del3032	ORF1A:DEL3032	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	9385	.	T	C	85	PASS	1099	0.019108	0	"1074,0,21,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9120T>C	p.Ala3040Ala	9120/21291	9120/21291	3040/7096	3040	7096		",C"	A3040A	T9385C	A3040A	ORF1AB:A3040A	3040	ORF1a	A3040A	ORF1A:A3040A	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	9387	.	T	C	126	PASS	1102	0.019964	0	"1076,0,22,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9122T>C	p.Leu3041Ser	9122/21291	9122/21291	3041/7096	3041	7096		",C"	L3041S	T9387C	L3041S	ORF1AB:L3041S	3041	ORF1a	L3041S	ORF1A:L3041S	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	9430	.	C	G	187	PASS	1073	0.021435	0	"1046,0,23,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9165C>G	p.Ile3055Met	9165/21291	9165/21291	3055/7096	3055	7096		",G"	I3055M	C9430G	I3055M	ORF1AB:I3055M	3055	ORF1a	I3055M	ORF1A:I3055M	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	9502	.	C	CT	295	PASS	1029	0.013605	0	"1015,0,14,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9240dupT	p.Asn3081fs	9241/21291	9241/21291	3081/7096	3081	7096		"INFO_REALIGN_3_PRIME,CT"	del3081	C9502CT	del3081	ORF1AB:DEL3081	3081	ORF1a	del3081	ORF1A:DEL3081	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	9526	.	G	T	20222	PASS	1230	0.59187	0	"500,0,728,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	9667	.	T	G	1628	PASS	1486	0.074024	0	"1374,0,110,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9402T>G	p.Pro3134Pro	9402/21291	9402/21291	3134/7096	3134	7096		",G"	P3134P	T9667G	P3134P	ORF1AB:P3134P	3134	ORF1a	P3134P	ORF1A:P3134P	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	10073	.	G	A	3699	PASS	1362	0.160793	0	"1136,0,219,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9808G>A	p.Ala3270Thr	9808/21291	9808/21291	3270/7096	3270	7096		",A"	A3270T	G10073A	A3270T	ORF1AB:A3270T	3270	ORF1a	A3270T	ORF1A:A3270T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	10332	.	C	T	3661	PASS	1651	0.12659	0	"1437,0,209,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10067C>T	p.Thr3356Ile	10067/21291	10067/21291	3356/7096	3356	7096		",T"	T3356I	C10332T	T3356I	ORF1AB:T3356I	3356	ORF1a	T3356I	ORF1A:T3356I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	10386	.	CT	C	207	PASS	1457	0.008236	0	"1445,0,12,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10126delT	p.Ser3376fs	10126/21291	10126/21291	3376/7096	3376	7096		"INFO_REALIGN_3_PRIME,C"	del3376	CT10386C	del3376	ORF1AB:DEL3376	3376	ORF1a	del3376	ORF1A:DEL3376	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	10812	.	T	C	149	PASS	180	0.066667	0	"168,0,12,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10547T>C	p.Leu3516Pro	10547/21291	10547/21291	3516/7096	3516	7096		",C"	L3516P	T10812C	L3516P	ORF1AB:L3516P	3516	ORF1a	L3516P	ORF1A:L3516P	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	10909	.	T	C	264	PASS	147	0.115646	0	"130,0,17,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10644T>C	p.Ala3548Ala	10644/21291	10644/21291	3548/7096	3548	7096		",C"	A3548A	T10909C	A3548A	ORF1AB:A3548A	3548	ORF1a	A3548A	ORF1A:A3548A	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	10982	.	A	G	74	PASS	353	0.022663	0	"345,0,8,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10717A>G	p.Lys3573Glu	10717/21291	10717/21291	3573/7096	3573	7096		",G"	K3573E	A10982G	K3573E	ORF1AB:K3573E	3573	ORF1a	K3573E	ORF1A:K3573E	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	11082	.	TG	T	140	PASS	1388	0.006484	0	"1379,0,9,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	11083	.	G	T	2309	PASS	1390	0.119424	0	"1214,0,166,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	11287	.	GTCTGGTTTT	G	4671	PASS	1586	0.115385	0	"1409,0,183,0"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	11497	.	C	T	12325	PASS	1648	0.3125	0	"1127,0,515,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	11654	.	T	C	801	PASS	1212	0.051155	0	"1147,0,62,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11389T>C	p.Phe3797Leu	11389/21291	11389/21291	3797/7096	3797	7096		",C"	F3797L	T11654C	F3797L	ORF1AB:F3797L	3797	ORF1a	F3797L	ORF1A:F3797L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	12242	.	C	T	471	PASS	725	0.05931	0	"677,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11977C>T	p.Arg3993Cys	11977/21291	11977/21291	3993/7096	3993	7096		",T"	R3993C	C12242T	R3993C	ORF1AB:R3993C	3993	ORF1a	R3993C	ORF1A:R3993C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	12436	.	T	C	302	PASS	1331	0.031555	0	"1284,0,42,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	12717	.	A	G	911	PASS	1420	0.057746	0	"1329,0,82,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12452A>G	p.Gln4151Arg	12452/21291	12452/21291	4151/7096	4151	7096		",G"	Q4151R	A12717G	Q4151R	ORF1AB:Q4151R	4151	ORF1a	Q4151R	ORF1A:Q4151R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	12725	.	T	C	214	PASS	1387	0.024513	0	"1351,0,34,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12460T>C	p.Cys4154Arg	12460/21291	12460/21291	4154/7096	4154	7096		",C"	C4154R	T12725C	C4154R	ORF1AB:C4154R	4154	ORF1a	C4154R	ORF1A:C4154R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	12907	.	GT	G	1132	PASS	1697	0.028874	0	"1703,0,49,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12645delT	p.Phe4215fs	12645/21291	12645/21291	4215/7096	4215	7096		"INFO_REALIGN_3_PRIME,G"	del4215	GT12907G	del4215	ORF1AB:DEL4215	4215	ORF1a	del4215	ORF1A:DEL4215	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	13123	.	TG	T	96	PASS	2234	0.003133	0	"2256,0,7,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	13258	.	T	C	2785	PASS	2071	0.113472	0	"1822,0,235,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12993T>C	p.Arg4331Arg	12993/21291	12993/21291	4331/7096	4331	7096		",C"	R4331R	T13258C	R4331R	ORF1AB:R4331R	4331	ORF1a	R4331R	ORF1A:R4331R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	13296	.	A	T	3837	PASS	2020	0.120792	0	"1771,0,244,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13031A>T	p.Asp4344Val	13031/21291	13031/21291	4344/7096	4344	7096		",T"	D4344V	A13296T	D4344V	ORF1AB:D4344V	4344	ORF1a	D4344V	ORF1A:D4344V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	13993	.	G	T	13322	PASS	1259	0.409849	0	"742,0,516,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	14102	.	A	AT	1604	PASS	655	0.087023	0	"601,0,57,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13841dupT	p.Ile4615fs	13842/21291	13842/21291	4614/7096	4614	7096		"INFO_REALIGN_3_PRIME,AT"	del4615	A14102AT	del4615	ORF1AB:DEL4615	214	ORF1b	del214	ORF1B:DEL214	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	14657	.	C	T	1159	PASS	813	0.093481	0	"734,0,76,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14393C>T	p.Ala4798Val	14393/21291	14393/21291	4798/7096	4798	7096		",T"	A4798V	C14657T	A4798V	ORF1AB:A4798V	397	ORF1b	A397V	ORF1B:A397V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	15089	.	CA	C	2069	PASS	1129	0.069088	0	"1051,0,78,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14828delA	p.Lys4943fs	14828/21291	14828/21291	4943/7096	4943	7096		"INFO_REALIGN_3_PRIME,C"	del4943	CA15089C	del4943	ORF1AB:DEL4943	542	ORF1b	del542	ORF1B:DEL542	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	15324	.	C	T	3057	PASS	402	0.323383	0	"271,0,130,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	15489	.	AG	A	172	PASS	199	0.040201	0	"192,0,8,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15226delG	p.Asp5076fs	15226/21291	15226/21291	5076/7096	5076	7096		",A"	del5076	AG15489A	del5076	ORF1AB:DEL5076	675	ORF1b	del675	ORF1B:DEL675	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	15512	.	A	AT	264	PASS	228	0.04386	0	"218,0,10,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15249dupT	p.Ser5084fs	15250/21291	15250/21291	5084/7096	5084	7096		"INFO_REALIGN_3_PRIME,AT"	del5084	A15512AT	del5084	ORF1AB:DEL5084	683	ORF1b	del683	ORF1B:DEL683	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	15766	.	G	T	4512	PASS	277	0.574007	0	"116,0,159,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	15858	.	T	A	90	PASS	213	0.042254	0	"204,0,9,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15594T>A	p.Thr5198Thr	15594/21291	15594/21291	5198/7096	5198	7096		",A"	T5198T	T15858A	T5198T	ORF1AB:T5198T	797	ORF1b	T797T	ORF1B:T797T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	15965	.	G	GT	366	PASS	103	0.126214	0	"90,0,13,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15705dupT	p.Val5236fs	15706/21291	15706/21291	5236/7096	5236	7096		"INFO_REALIGN_3_PRIME,GT"	del5236	G15965GT	del5236	ORF1AB:DEL5236	835	ORF1b	del835	ORF1B:DEL835	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	16792	.	CG	C	2364	PASS	2158	0.044949	0	"2061,0,97,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16529delG	p.Arg5510fs	16529/21291	16529/21291	5510/7096	5510	7096		",C"	del5510	CG16792C	del5510	ORF1AB:DEL5510	1109	ORF1b	del1109	ORF1B:DEL1109	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	16795	.	G	T	1425	PASS	2187	0.057156	0	"2056,0,125,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16531G>T	p.Val5511Leu	16531/21291	16531/21291	5511/7096	5511	7096		",T"	V5511L	G16795T	V5511L	ORF1AB:V5511L	1110	ORF1b	V1110L	ORF1B:V1110L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	16889	.	A	G	28694	PASS	1809	0.54063	0	"830,0,978,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	17019	.	G	GT	371	PASS	1020	0.038235	0	"987,0,39,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16759dupT	p.Ser5587fs	16760/21291	16760/21291	5587/7096	5587	7096		"INFO_REALIGN_3_PRIME,GT"	del5587	G17019GT	del5587	ORF1AB:DEL5587	1186	ORF1b	del1186	ORF1B:DEL1186	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	17019	.	G	T	12118	PASS	1026	0.491228	0	"519,0,504,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	17044	.	CA	C	1085	PASS	852	0.051643	0	"808,0,44,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16784delA	p.Lys5595fs	16784/21291	16784/21291	5595/7096	5595	7096		"INFO_REALIGN_3_PRIME,C"	del5595	CA17044C	del5595	ORF1AB:DEL5595	1194	ORF1b	del1194	ORF1B:DEL1194	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	17091	.	T	A	234	PASS	347	0.04611	0	"331,0,16,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16827T>A	p.Gly5609Gly	16827/21291	16827/21291	5609/7096	5609	7096		",A"	G5609G	T17091A	G5609G	ORF1AB:G5609G	1208	ORF1b	G1208G	ORF1B:G1208G	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	17615	.	A	G	3218	PASS	803	0.199253	0	"640,0,160,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	17945	.	T	C	641	PASS	1197	0.047619	0	"1139,0,57,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17681T>C	p.Val5894Ala	17681/21291	17681/21291	5894/7096	5894	7096		",C"	V5894A	T17945C	V5894A	ORF1AB:V5894A	1493	ORF1b	V1493A	ORF1B:V1493A	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	18232	.	C	T	617	PASS	428	0.091121	0	"389,0,39,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17968C>T	p.Gln5990*	17968/21291	17968/21291	5990/7096	5990	7096		",T"	Q5990*	C18232T	Q5990*	ORF1AB:Q5990*	1589	ORF1b	Q1589*	ORF1B:Q1589*	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	18404	.	C	T	130	PASS	101	0.089109	0	"92,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18140C>T	p.Thr6047Ile	18140/21291	18140/21291	6047/7096	6047	7096		",T"	T6047I	C18404T	T6047I	ORF1AB:T6047I	1646	ORF1b	T1646I	ORF1B:T1646I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	18877	.	C	T	178	PASS	825	0.025455	0	"799,0,21,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	18937	.	G	T	4829	PASS	1066	0.212946	0	"838,0,227,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18673G>T	p.Gly6225Cys	18673/21291	18673/21291	6225/7096	6225	7096		",T"	G6225C	G18937T	G6225C	ORF1AB:G6225C	1824	ORF1b	G1824C	ORF1B:G1824C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	18973	.	G	T	4652	PASS	1110	0.207207	0	"880,0,230,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18709G>T	p.Val6237Phe	18709/21291	18709/21291	6237/7096	6237	7096		",T"	V6237F	G18973T	V6237F	ORF1AB:V6237F	1836	ORF1b	V1836F	ORF1B:V1836F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	19524	.	C	T	8588	PASS	1974	0.198582	0	"1579,0,392,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	19645	.	G	T	1108	PASS	1908	0.052411	0	"1801,0,100,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19381G>T	p.Val6461Phe	19381/21291	19381/21291	6461/7096	6461	7096		",T"	V6461F	G19645T	V6461F	ORF1AB:V6461F	2060	ORF1b	V2060F	ORF1B:V2060F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	19718	.	CA	C	5088	PASS	1719	0.108202	0	"1533,0,186,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19458delA	p.Val6487fs	19458/21291	19458/21291	6486/7096	6486	7096		"INFO_REALIGN_3_PRIME,C"	del6487	CA19718C	del6487	ORF1AB:DEL6487	2086	ORF1b	del2086	ORF1B:DEL2086	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	19732	.	G	T	1069	PASS	1724	0.052784	0	"1632,0,91,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19468G>T	p.Val6490Phe	19468/21291	19468/21291	6490/7096	6490	7096		",T"	V6490F	G19732T	V6490F	ORF1AB:V6490F	2089	ORF1b	V2089F	ORF1B:V2089F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	19839	.	T	C	521	PASS	1452	0.044077	0	"1386,0,64,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19575T>C	p.Asn6525Asn	19575/21291	19575/21291	6525/7096	6525	7096		",C"	N6525N	T19839C	N6525N	ORF1AB:N6525N	2124	ORF1b	N2124N	ORF1B:N2124N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	19983	.	C	T	351	PASS	281	0.113879	0	"249,0,32,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19719C>T	p.Val6573Val	19719/21291	19719/21291	6573/7096	6573	7096		",T"	V6573V	C19983T	V6573V	ORF1AB:V6573V	2172	ORF1b	V2172V	ORF1B:V2172V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	20488	.	T	C	488	PASS	1076	0.051115	0	"1017,0,55,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20224T>C	p.Cys6742Arg	20224/21291	20224/21291	6742/7096	6742	7096		",C"	C6742R	T20488C	C6742R	ORF1AB:C6742R	2341	ORF1b	C2341R	ORF1B:C2341R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	20703	.	CA	C	2928	PASS	1743	0.064831	0	"1630,0,113,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20443delA	p.Met6815fs	20443/21291	20443/21291	6815/7096	6815	7096		"INFO_REALIGN_3_PRIME,C"	del6815	CA20703C	del6815	ORF1AB:DEL6815	2414	ORF1b	del2414	ORF1B:DEL2414	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	20709	.	G	T	1177	PASS	1794	0.061315	0	"1681,0,110,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20445G>T	p.Met6815Ile	20445/21291	20445/21291	6815/7096	6815	7096		",T"	M6815I	G20709T	M6815I	ORF1AB:M6815I	2414	ORF1b	M2414I	ORF1B:M2414I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	20823	.	C	T	2594	PASS	1615	0.107121	0	"1440,0,173,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20559C>T	p.Asn6853Asn	20559/21291	20559/21291	6853/7096	6853	7096		",T"	N6853N	C20823T	N6853N	ORF1AB:N6853N	2452	ORF1b	N2452N	ORF1B:N2452N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	21079	.	A	G	179	PASS	1134	0.021164	0	"1108,0,24,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20815A>G	p.Lys6939Glu	20815/21291	20815/21291	6939/7096	6939	7096		",G"	K6939E	A21079G	K6939E	ORF1AB:K6939E	2538	ORF1b	K2538E	ORF1B:K2538E	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	21101	.	GT	G	302	PASS	1021	0.019589	0	"1004,0,20,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20843delT	p.Phe6948fs	20843/21291	20843/21291	6948/7096	6948	7096		"INFO_REALIGN_3_PRIME,G"	del6948	GT21101G	del6948	ORF1AB:DEL6948	2547	ORF1b	del2547	ORF1B:DEL2547	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	21222	.	A	T	1356	PASS	652	0.119632	0	"573,0,78,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	21255	.	G	C	4394	PASS	778	0.245501	0	"585,0,191,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	21440	.	C	A	982	PASS	562	0.115658	0	"497,0,65,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21176C>A	p.Ser7059Tyr	21176/21291	21176/21291	7059/7096	7059	7096		",A"	S7059Y	C21440A	S7059Y	ORF1AB:S7059Y	2658	ORF1b	S2658Y	ORF1B:S2658Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	21855	.	C	T	1175	PASS	197	0.274112	0	"141,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	22009	.	CA	C	451	PASS	186	0.091398	0	"169,0,17,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.451delA	p.Ser151fs	451/3822	451/3822	151/1273	151	1273		"INFO_REALIGN_3_PRIME,C"	del151	CA22009C	del151	S:DEL151	151	S	del151	S:DEL151	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	22218	.	G	GT	516	PASS	112	0.160714	0	"103,0,18,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.661dupT	p.Ser221fs	662/3822	662/3822	221/1273	221	1273		"INFO_REALIGN_3_PRIME,GT"	del221	G22218GT	del221	S:DEL221	221	S	del221	S:DEL221	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	22227	.	C	T	852	PASS	102	0.392157	0	"61,0,40,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	22992	.	G	A	1063	PASS	93	0.483871	0	"47,0,45,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	23403	.	A	G	4105	PASS	122	1	2147483647	"0,0,122,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	23604	.	C	A	220	PASS	128	0.117188	0	"113,0,15,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	23948	.	G	T	176	PASS	97	0.113402	0	"86,0,11,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	24580	.	A	T	362	PASS	396	0.063131	0	"369,0,25,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3018A>T	p.Thr1006Thr	3018/3822	3018/3822	1006/1273	1006	1273		",T"	T1006T	A24580T	T1006T	S:T1006T	1006	S	T1006T	S:T1006T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	24794	.	G	T	218	PASS	524	0.045802	0	"498,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3232G>T	p.Ala1078Ser	3232/3822	3232/3822	1078/1273	1078	1273		",T"	A1078S	G24794T	A1078S	S:A1078S	1078	S	A1078S	S:A1078S	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	24848	.	G	GT	788	PASS	541	0.057301	0	"518,0,31,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3289dupT	p.Ser1097fs	3290/3822	3290/3822	1097/1273	1097	1273		"INFO_REALIGN_3_PRIME,GT"	del1097	G24848GT	del1097	S:DEL1097	1097	S	del1097	S:DEL1097	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25207	.	C	T	864	PASS	697	0.1033	0	"617,0,72,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3645C>T	p.Tyr1215Tyr	3645/3822	3645/3822	1215/1273	1215	1273		",T"	Y1215Y	C25207T	Y1215Y	S:Y1215Y	1215	S	Y1215Y	S:Y1215Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25277	.	A	T	71	PASS	830	0.028916	0	"792,0,24,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25296	.	A	C	143	PASS	843	0.04745	0	"788,0,40,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25324	.	C	A	431	PASS	843	0.075919	0	"778,0,64,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25327	.	A	T	100	PASS	833	0.034814	0	"804,0,29,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25336	.	A	C	70	PASS	829	0.037394	0	"787,0,31,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25494	.	G	T	1552	PASS	819	0.102564	0	"735,0,84,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.102G>T	p.Thr34Thr	102/828	102/828	34/275	34	275		",T"	T34T	G25494T	T34T	ORF3A:T34T	34	ORF3a	T34T	ORF3A:T34T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25505	.	A	G	2083	PASS	690	0.163768	0	"576,0,113,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25563	.	G	T	16058	PASS	787	0.670902	0	"258,0,528,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25682	.	T	G	125	PASS	703	0.034139	0	"675,0,24,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.290T>G	p.Val97Gly	290/828	290/828	97/275	97	275		",G"	V97G	T25682G	V97G	ORF3A:V97G	97	ORF3a	V97G	ORF3A:V97G	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25710	.	C	T	13318	PASS	662	0.663142	0	"220,0,439,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25771	.	C	A	267	PASS	513	0.044834	0	"490,0,23,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.379C>A	p.Leu127Ile	379/828	379/828	127/275	127	275		",A"	L127I	C25771A	L127I	ORF3A:L127I	127	ORF3a	L127I	ORF3A:L127I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	25996	.	G	T	103	PASS	583	0.022298	0	"568,0,13,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	26038	.	T	C	453	PASS	483	0.066253	0	"450,0,32,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	26060	.	C	T	491	PASS	467	0.08137	0	"427,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.668C>T	p.Thr223Ile	668/828	668/828	223/275	223	275		",T"	T223I	C26060T	T223I	ORF3A:T223I	223	ORF3a	T223I	ORF3A:T223I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	26062	.	G	T	1779	PASS	470	0.187234	0	"380,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	26600	.	C	T	3672	PASS	1873	0.115857	0	"1654,0,217,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	26735	.	C	T	14669	PASS	1504	0.375	0	"933,0,564,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	26801	.	C	G	2297	PASS	1322	0.103631	0	"1182,0,137,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	26876	.	T	C	6432	PASS	672	0.372024	0	"420,0,250,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	26885	.	C	T	1306	PASS	578	0.124567	0	"506,0,72,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.363C>T	p.Asn121Asn	363/669	363/669	121/222	121	222		",T"	N121N	C26885T	N121N	M:N121N	121	M	N121N	M:N121N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27342	.	T	C	988	PASS	1687	0.048607	0	"1601,0,82,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.141T>C	p.Asn47Asn	141/186	141/186	47/61	47	61		",C"	N47N	T27342C	N47N	ORF6:N47N	47	ORF6	N47N	ORF6:N47N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27434	.	C	T	378	PASS	1561	0.030109	0	"1508,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27694	.	T	C	1217	PASS	2471	0.04573	0	"2351,0,113,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.301T>C	p.Phe101Leu	301/366	301/366	101/121	101	121		",C"	F101L	T27694C	F101L	ORF7A:F101L	101	ORF7a	F101L	ORF7A:F101L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27737	.	C	T	1379	PASS	2466	0.051095	0	"2331,0,126,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.344C>T	p.Thr115Ile	344/366	344/366	115/121	115	121		",T"	T115I	C27737T	T115I	ORF7A:T115I	115	ORF7a	T115I	ORF7A:T115I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27789	.	T	A	652	PASS	2202	0.035876	0	"2121,0,79,0"	FALSE	A	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.34T>A	p.Cys12Ser	34/132	34/132	12/43	12	43		",A"	C12S	T27789A	C12S	ORF7B:C12S	12	ORF7b	C12S	ORF7B:C12S	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27793	.	TTTTAGCC	T	1935	PASS	2068	0.038201	0	"2009,0,79,0"	TRUE	T	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.42_48delAGCCTTT	p.Leu14fs	42/132	42/132	14/43	14	43		"INFO_REALIGN_3_PRIME,T"	del14	TTTTAGCC27793T	del14	ORF7B:DEL14	14	ORF7b	del14	ORF7B:DEL14	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27906	.	G	GT	222	PASS	2095	0.006205	0	"2089,0,13,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.17dupT	p.Gly8fs	18/366	18/366	6/121	6	121		"INFO_REALIGN_3_PRIME,GT"	del8	G27906GT	del8	ORF8:DEL8	8	ORF8	del8	ORF8:DEL8	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27938	.	A	T	1141	PASS	1880	0.051064	0	"1781,0,96,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.45A>T	p.Ala15Ala	45/366	45/366	15/121	15	121		",T"	A15A	A27938T	A15A	ORF8:A15A	15	ORF8	A15A	ORF8:A15A	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27944	.	C	T	1360	PASS	1825	0.061918	0	"1707,0,113,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27959	.	A	T	703	PASS	1704	0.036972	0	"1641,0,63,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.66A>T	p.Leu22Phe	66/366	66/366	22/121	22	121		",T"	L22F	A27959T	L22F	ORF8:L22F	22	ORF8	L22F	ORF8:L22F	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	27970	.	C	A	4784	PASS	1543	0.156189	0	"1299,0,241,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28001	.	G	A	85	PASS	1102	0.015426	0	"1085,0,17,0"	FALSE	A	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.108G>A	p.Pro36Pro	108/366	108/366	36/121	36	121		",A"	P36P	G28001A	P36P	ORF8:P36P	36	ORF8	P36P	ORF8:P36P	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28045	.	C	T	73	PASS	671	0.019374	0	"657,0,13,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28048	.	G	T	264	PASS	678	0.038348	0	"652,0,26,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28079	.	G	T	129	PASS	592	0.030405	0	"574,0,18,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.186G>T	p.Val62Val	186/366	186/366	62/121	62	121		",T"	V62V	G28079T	V62V	ORF8:V62V	62	ORF8	V62V	ORF8:V62V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28111	.	A	G	256	PASS	709	0.042313	0	"677,0,30,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28133	.	A	T	1705	PASS	656	0.131098	0	"570,0,86,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28270	.	TA	T	177	PASS	1059	0.009443	0	"1048,0,10,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28384	.	A	T	2785	PASS	1597	0.110833	0	"1420,0,177,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28404	.	G	T	81	PASS	1667	0.011998	0	"1644,0,20,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.131G>T	p.Gly44Val	131/1260	131/1260	44/419	44	419		",T"	G44V	G28404T	G44V	N:G44V	44	N	G44V	N:G44V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28570	.	TA	T	96	PASS	2828	0.002475	0	"2842,0,7,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.301delA	p.Met101fs	301/1260	301/1260	101/419	101	419		"INFO_REALIGN_3_PRIME,T"	del101	TA28570T	del101	N:DEL101	101	N	del101	N:DEL101	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28645	.	T	C	346	PASS	2764	0.025687	0	"2672,0,71,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.372T>C	p.Gly124Gly	372/1260	372/1260	124/419	124	419		",C"	G124G	T28645C	G124G	N:G124G	124	N	G124G	N:G124G	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28651	.	C	T	22483	PASS	2931	0.313545	0	"2011,0,919,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28658	.	G	C	960	PASS	2814	0.041933	0	"2689,0,118,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.385G>C	p.Gly129Arg	385/1260	385/1260	129/419	129	419		",C"	G129R	G28658C	G129R	N:G129R	129	N	G129R	N:G129R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28695	.	C	T	4364	PASS	3653	0.082946	0	"3341,0,303,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.422C>T	p.Thr141Ile	422/1260	422/1260	141/419	141	419		",T"	T141I	C28695T	T141I	N:T141I	141	N	T141I	N:T141I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28857	.	G	T	1150	PASS	4201	0.030945	0	"4069,0,130,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.584G>T	p.Arg195Ile	584/1260	584/1260	195/419	195	419		",T"	R195I	G28857T	R195I	N:R195I	195	N	R195I	N:R195I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28869	.	C	T	30673	PASS	4233	0.304985	0	"2933,0,1291,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28881	.	G	A	881	PASS	4107	0.030436	0	"3969,0,125,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28882	.	G	A	750	PASS	4162	0.030514	0	"4020,0,127,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28883	.	G	C	883	PASS	4182	0.031086	0	"4037,0,130,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28884	.	G	A	759	PASS	4231	0.029544	0	"4089,0,125,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.611G>A	p.Gly204Glu	611/1260	611/1260	204/419	204	419		",A"	G204E	G28884A	G204E	N:G204E	204	N	G204E	N:G204E	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28887	.	C	T	12700	PASS	4092	0.167155	0	"3396,0,684,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28905	.	C	T	625	PASS	3983	0.023349	0	"3877,0,93,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.632C>T	p.Ala211Val	632/1260	632/1260	211/419	211	419		",T"	A211V	C28905T	A211V	N:A211V	211	N	A211V	N:A211V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28932	.	C	T	2085	PASS	4054	0.050074	0	"3841,0,203,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28957	.	C	T	2561	PASS	3873	0.058869	0	"3625,0,228,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.684C>T	p.Asn228Asn	684/1260	684/1260	228/419	228	419		",T"	N228N	C28957T	N228N	N:N228N	228	N	N228N	N:N228N	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28975	.	G	C	44841	PASS	3840	0.432031	0	"2171,0,1659,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	28987	.	CCAA	C	1251	PASS	3532	0.016421	0	"3492,0,58,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	29140	.	G	T	427	PASS	1819	0.026388	0	"1770,0,48,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.867G>T	p.Gln289His	867/1260	867/1260	289/419	289	419		",T"	Q289H	G29140T	Q289H	N:Q289H	289	N	Q289H	N:Q289H	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33-3	NC_045512.2	29197	.	C	T	371	PASS	749	0.046729	0	"713,0,35,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.924C>T	p.Ala308Ala	924/1260	924/1260	308/419	308	419		",T"	A308A	C29197T	A308A	N:A308A	308	N	A308A	N:A308A	SCH33-3	SCHIFFLANGE	2020-11-12T00:00:00Z	30.319	35.08666667	x	1022021	2020-11-12
SCH33	NC_045512.2	61	.	G	T	2518	PASS	867	0.134948	3	"665,85,101,16"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>T						NA	205	",T"		G61T		NA	NA	NA		NA	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	241	.	C	T	49314	PASS	3911	0.999489	5	"0,1,2739,1170"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	335	.	C	T	34407	PASS	4102	0.310824	15	"1544,1281,649,626"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	370	.	G	T	8143	PASS	4501	0.093757	3	"2171,1906,234,188"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.105G>T	p.Val35Val	105/21291	105/21291	35/7096	35	7096		",T"	V35V	G370T	V35V	ORF1AB:V35V	35	ORF1a	V35V	ORF1A:V35V	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	487	.	G	T	23623	PASS	4898	0.198857	12	"1797,2126,480,494"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.222G>T	p.Ser74Ser	222/21291	222/21291	74/7096	74	7096		",T"	S74S	G487T	S74S	ORF1AB:S74S	74	ORF1a	S74S	ORF1A:S74S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	539	.	C	T	22191	PASS	4598	0.200957	2	"1616,2053,417,507"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.274C>T	p.Leu92Phe	274/21291	274/21291	92/7096	92	7096		",T"	L92F	C539T	L92F	ORF1AB:L92F	92	ORF1a	L92F	ORF1A:L92F	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	571	.	G	A	11015	PASS	4543	0.112481	22	"1930,2102,278,233"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	660	.	G	A	8107	PASS	5402	0.082007	38	"2794,2163,208,235"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.395G>A	p.Gly132Asp	395/21291	395/21291	132/7096	132	7096		",A"	G132D	G660A	G132D	ORF1AB:G132D	132	ORF1a	G132D	ORF1A:G132D	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	712	.	T	C	5208	PASS	6120	0.051307	64	"2696,3109,100,214"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.447T>C	p.Leu149Leu	447/21291	447/21291	149/7096	149	7096		",C"	L149L	T712C	L149L	ORF1AB:L149L	149	ORF1a	L149L	ORF1A:L149L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	1285	.	T	C	4052	PASS	4680	0.054487	92	"2388,2033,87,168"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1020T>C	p.Thr340Thr	1020/21291	1020/21291	340/7096	340	7096		",C"	T340T	T1285C	T340T	ORF1AB:T340T	340	ORF1a	T340T	ORF1A:T340T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	1559	.	G	A	13811	PASS	3604	0.164262	6	"1744,1263,360,232"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1294G>A	p.Gly432Ser	1294/21291	1294/21291	432/7096	432	7096		",A"	G432S	G1559A	G432S	ORF1AB:G432S	432	ORF1a	G432S	ORF1A:G432S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	2416	.	C	T	5623	PASS	779	0.274711	2	"504,61,194,20"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2151C>T	p.Tyr717Tyr	2151/21291	2151/21291	717/7096	717	7096		",T"	Y717Y	C2416T	Y717Y	ORF1AB:Y717Y	717	ORF1a	Y717Y	ORF1A:Y717Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	3012	.	T	C	84	PASS	1906	0.006821	0	"787,1106,5,8"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2747T>C	p.Leu916Ser	2747/21291	2747/21291	916/7096	916	7096		",C"	L916S	T3012C	L916S	ORF1AB:L916S	916	ORF1a	L916S	ORF1A:L916S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	3037	.	C	T	49314	PASS	1801	0.99889	0	"0,1,713,1086"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	3272	.	C	T	318	PASS	76	0.197368	0	"28,33,7,8"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3007C>T	p.Gln1003*	3007/21291	3007/21291	1003/7096	1003	7096		",T"	Q1003*	C3272T	Q1003*	ORF1AB:Q1003*	1003	ORF1a	Q1003*	ORF1A:Q1003*	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	3273	.	A	C	351	PASS	75	0.2	0	"28,32,7,8"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3008A>C	p.Gln1003Pro	3008/21291	3008/21291	1003/7096	1003	7096		",C"	Q1003P	A3273C	Q1003P	ORF1AB:Q1003P	1003	ORF1a	Q1003P	ORF1A:Q1003P	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	3592	.	T	C	118	PASS	84	0.071429	3	"48,30,5,1"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	3602	.	C	T	341	PASS	94	0.159574	17	"55,24,5,10"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	4203	.	TAG	T	162	PASS	111	0.054054	1	"52,53,4,2"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3939_3940delAG	p.Ala1314fs	3939/21291	3939/21291	1313/7096	1313	7096		",T"	del1314	TAG4203T	del1314	ORF1AB:DEL1314	1314	ORF1a	del1314	ORF1A:DEL1314	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	4543	.	C	T	463	PASS	45	0.377778	1	"15,13,10,7"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	4719	.	CG	C	1909	PASS	451	0.144124	4	"330,56,59,6"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4455delG	p.Tyr1486fs	4455/21291	4455/21291	1485/7096	1485	7096		",C"	del1486	CG4719C	del1486	ORF1AB:DEL1486	1486	ORF1a	del1486	ORF1A:DEL1486	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	4866	.	G	T	129	PASS	1077	0.012071	14	"722,342,5,8"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4601G>T	p.Ser1534Ile	4601/21291	4601/21291	1534/7096	1534	7096		",T"	S1534I	G4866T	S1534I	ORF1AB:S1534I	1534	ORF1a	S1534I	ORF1A:S1534I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	5629	.	G	T	1740	PASS	221	0.289593	6	"54,103,28,36"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	5835	.	C	T	1574	PASS	163	0.355828	0	"57,48,32,26"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5570C>T	p.Ser1857Leu	5570/21291	5570/21291	1857/7096	1857	7096		",T"	S1857L	C5835T	S1857L	ORF1AB:S1857L	1857	ORF1a	S1857L	ORF1A:S1857L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	5884	.	C	T	3335	PASS	418	0.296651	12	"219,75,103,21"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	6033	.	CA	C	1400	PASS	809	0.064277	8	"484,274,39,13"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5770delA	p.Ser1924fs	5770/21291	5770/21291	1924/7096	1924	7096		"INFO_REALIGN_3_PRIME,C"	del1924	CA6033C	del1924	ORF1AB:DEL1924	1924	ORF1a	del1924	ORF1A:DEL1924	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	6070	.	CA	C	1451	PASS	820	0.065854	2	"419,351,32,22"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5808delA	p.Lys1936fs	5808/21291	5808/21291	1936/7096	1936	7096		"INFO_REALIGN_3_PRIME,C"	del1936	CA6070C	del1936	ORF1AB:DEL1936	1936	ORF1a	del1936	ORF1A:DEL1936	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	6153	.	TA	T	2393	PASS	840	0.104762	25	"327,447,52,36"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5891delA	p.Asn1964fs	5891/21291	5891/21291	1964/7096	1964	7096		"INFO_REALIGN_3_PRIME,T"	del1964	TA6153T	del1964	ORF1AB:DEL1964	1964	ORF1a	del1964	ORF1A:DEL1964	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	6263	.	A	G	3405	PASS	920	0.16413	0	"374,395,73,78"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5998A>G	p.Lys2000Glu	5998/21291	5998/21291	2000/7096	2000	7096		",G"	K2000E	A6263G	K2000E	ORF1AB:K2000E	2000	ORF1a	K2000E	ORF1A:K2000E	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	6286	.	C	T	5555	PASS	954	0.233753	2	3.85344E+11	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	6588	.	A	G	2562	PASS	876	0.131279	10	"162,598,16,99"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6323A>G	p.Lys2108Arg	6323/21291	6323/21291	2108/7096	2108	7096		",G"	K2108R	A6588G	K2108R	ORF1AB:K2108R	2108	ORF1a	K2108R	ORF1A:K2108R	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	6696	.	C	CT	1128	PASS	341	0.11437	0	"51,260,6,33"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	7019	.	G	A	121	PASS	87	0.068966	21	"33,48,6,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6754G>A	p.Val2252Ile	6754/21291	6754/21291	2252/7096	2252	7096		",A"	V2252I	G7019A	V2252I	ORF1AB:V2252I	2252	ORF1a	V2252I	ORF1A:V2252I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	7032	.	A	T	221	PASS	102	0.098039	10	"43,49,8,2"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6767A>T	p.Asn2256Ile	6767/21291	6767/21291	2256/7096	2256	7096		",T"	N2256I	A7032T	N2256I	ORF1AB:N2256I	2256	ORF1a	N2256I	ORF1A:N2256I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	7203	.	C	T	271	PASS	327	0.051988	5	"230,80,15,2"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6938C>T	p.Ser2313Phe	6938/21291	6938/21291	2313/7096	2313	7096		",T"	S2313F	C7203T	S2313F	ORF1AB:S2313F	2313	ORF1a	S2313F	ORF1A:S2313F	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	8299	.	CA	C	571	PASS	490	0.044898	32	"168,313,16,6"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8037delA	p.Val2680fs	8037/21291	8037/21291	2679/7096	2679	7096		"INFO_REALIGN_3_PRIME,C"	del2680	CA8299C	del2680	ORF1AB:DEL2680	2680	ORF1a	del2680	ORF1A:DEL2680	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	8618	.	G	A	3211	PASS	263	0.422053	6	"71,81,61,50"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	8983	.	T	G	7706	PASS	803	0.352428	0	3.25195E+11	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	9526	.	G	T	29374	PASS	2634	0.403189	21	7.86786E+11	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	9628	.	T	C	12489	PASS	2522	0.204203	0	1.01399E+12	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9363T>C	p.Ser3121Ser	9363/21291	9363/21291	3121/7096	3121	7096		",C"	S3121S	T9628C	S3121S	ORF1AB:S3121S	3121	ORF1a	S3121S	ORF1A:S3121S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	10619	.	C	CA	4249	PASS	2213	0.069589	65	"770,1291,27,127"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10357dupA	p.Thr3453fs	10358/21291	10358/21291	3453/7096	3453	7096		"INFO_REALIGN_3_PRIME,CA"	del3453	C10619CA	del3453	ORF1AB:DEL3453	3453	ORF1a	del3453	ORF1A:DEL3453	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	10619	.	CA	C	4016	PASS	2213	0.067781	111	"703,1362,94,56"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10357delA	p.Thr3453fs	10357/21291	10357/21291	3453/7096	3453	7096		"INFO_REALIGN_3_PRIME,C"	del3453	CA10619C	del3453	ORF1AB:DEL3453	3453	ORF1a	del3453	ORF1A:DEL3453	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	10933	.	T	C	3864	PASS	1169	0.143713	0	"417,583,69,99"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10668T>C	p.Pro3556Pro	10668/21291	10668/21291	3556/7096	3556	7096		",C"	P3556P	T10933C	P3556P	ORF1AB:P3556P	3556	ORF1a	P3556P	ORF1A:P3556P	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	11038	.	T	C	2480	PASS	1431	0.092243	33	"828,471,63,69"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10773T>C	p.Leu3591Leu	10773/21291	10773/21291	3591/7096	3591	7096		",C"	L3591L	T11038C	L3591L	ORF1AB:L3591L	3591	ORF1a	L3591L	ORF1A:L3591L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	11074	.	C	CT	1929	PASS	1378	0.087808	26	"797,464,59,62"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817dupT	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,CT"	del3606	C11074CT	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	11074	.	CT	C	119	PASS	1378	0.010885	0	"848,522,9,6"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	11082	.	TG	T	61	PASS	1537	0.002602	0	"837,700,2,2"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	11083	.	G	T	2703	PASS	1543	0.104342	22	"767,611,71,90"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	11327	.	G	T	1218	PASS	611	0.099836	12	"259,291,37,24"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11062G>T	p.Ala3688Ser	11062/21291	11062/21291	3688/7096	3688	7096		",T"	A3688S	G11327T	A3688S	ORF1AB:A3688S	3688	ORF1a	A3688S	ORF1A:A3688S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	11497	.	C	T	3826	PASS	488	0.293033	2	"168,177,65,78"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	12332	.	G	A	344	PASS	1217	0.024651	0	"673,514,17,13"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12067G>A	p.Ala4023Thr	12067/21291	12067/21291	4023/7096	4023	7096		",A"	A4023T	G12332A	A4023T	ORF1AB:A4023T	4023	ORF1a	A4023T	ORF1A:A4023T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	12766	.	T	C	1057	PASS	2911	0.029543	36	"1811,1012,38,48"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12501T>C	p.Asn4167Asn	12501/21291	12501/21291	4167/7096	4167	7096		",C"	N4167N	T12766C	N4167N	ORF1AB:N4167N	4167	ORF1a	N4167N	ORF1A:N4167N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	12803	.	T	C	3930	PASS	3845	0.082445	96	"2336,1187,263,54"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12538T>C	p.Phe4180Leu	12538/21291	12538/21291	4180/7096	4180	7096		",C"	F4180L	T12803C	F4180L	ORF1AB:F4180L	4180	ORF1a	F4180L	ORF1A:F4180L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	12896	.	CCA	C	5098	PASS	4813	0.042177	50	"3007,1737,159,44"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12633_12634delAC	p.Pro4212fs	12633/21291	12633/21291	4211/7096	4211	7096		"INFO_REALIGN_3_PRIME,C"	del4212	CCA12896C	del4212	ORF1AB:DEL4212	4212	ORF1a	del4212	ORF1A:DEL4212	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	13183	.	G	T	10172	PASS	5323	0.097314	17	"2418,2382,290,228"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12918G>T	p.Gln4306His	12918/21291	12918/21291	4306/7096	4306	7096		",T"	Q4306H	G13183T	Q4306H	ORF1AB:Q4306H	4306	ORF1a	Q4306H	ORF1A:Q4306H	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	13459	.	G	GT	10739	PASS	4151	0.095881	89	"1221,2582,71,327"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13199dupT	p.Leu4400fs	13200/21291	13200/21291	4400/7096	4400	7096		"INFO_REALIGN_3_PRIME,GT"	del4400	G13459GT	del4400	ORF1AB:DEL4400	4400	ORF1a	del4400	ORF1A:DEL4400	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	13722	.	A	G	6038	PASS	1319	0.188021	16	"465,606,88,160"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13458A>G	p.Pro4486Pro	13458/21291	13458/21291	4486/7096	4486	7096		",G"	P4486P	A13722G	P4486P	ORF1AB:P4486P	85	ORF1b	P85P	ORF1B:P85P	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	13880	.	T	C	129	PASS	1306	0.01072	0	"660,632,7,7"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13616T>C	p.Val4539Ala	13616/21291	13616/21291	4539/7096	4539	7096		",C"	V4539A	T13880C	V4539A	ORF1AB:V4539A	138	ORF1b	V138A	ORF1B:V138A	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	13993	.	G	T	5808	PASS	1084	0.214022	0	"285,567,78,154"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	14000	.	TA	T	96	PASS	1044	0.005747	17	"336,702,5,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13741delA	p.Thr4581fs	13741/21291	13741/21291	4581/7096	4581	7096		"INFO_REALIGN_3_PRIME,T"	del4581	TA14000T	del4581	ORF1AB:DEL4581	180	ORF1b	del180	ORF1B:DEL180	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	14322	.	C	T	325	PASS	89	0.146067	0	"31,45,5,8"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14058C>T	p.Tyr4686Tyr	14058/21291	14058/21291	4686/7096	4686	7096		",T"	Y4686Y	C14322T	Y4686Y	ORF1AB:Y4686Y	285	ORF1b	Y285Y	ORF1B:Y285Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	14408	.	C	T	3236	PASS	92	1	0	"0,0,33,59"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	14414	.	G	T	110	PASS	93	0.064516	1	"32,55,3,3"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14150G>T	p.Ser4717Ile	14150/21291	14150/21291	4717/7096	4717	7096		",T"	S4717I	G14414T	S4717I	ORF1AB:S4717I	316	ORF1b	S316I	ORF1B:S316I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	14662	.	CA	C	7955	PASS	2466	0.1103	18	"1552,647,211,61"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14401delA	p.Thr4801fs	14401/21291	14401/21291	4801/7096	4801	7096		"INFO_REALIGN_3_PRIME,C"	del4801	CA14662C	del4801	ORF1AB:DEL4801	400	ORF1b	del400	ORF1B:DEL400	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	14771	.	A	G	7824	PASS	2759	0.12867	9	"1166,1237,156,199"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14507A>G	p.Gln4836Arg	14507/21291	14507/21291	4836/7096	4836	7096		",G"	Q4836R	A14771G	Q4836R	ORF1AB:Q4836R	435	ORF1b	Q435R	ORF1B:Q435R	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	15085	.	A	G	6595	PASS	2507	0.120463	12	"935,1270,111,191"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14821A>G	p.Ser4941Gly	14821/21291	14821/21291	4941/7096	4941	7096		",G"	S4941G	A15085G	S4941G	ORF1AB:S4941G	540	ORF1b	S540G	ORF1B:S540G	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	15091	.	A	G	5709	PASS	2540	0.107087	5	"1001,1265,111,161"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14827A>G	p.Lys4943Glu	14827/21291	14827/21291	4943/7096	4943	7096		",G"	K4943E	A15091G	K4943E	ORF1AB:K4943E	542	ORF1b	K542E	ORF1B:K542E	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	15239	.	A	G	1034	PASS	3080	0.028247	132	"1087,1904,67,20"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14975A>G	p.Asn4992Ser	14975/21291	14975/21291	4992/7096	4992	7096		",G"	N4992S	A15239G	N4992S	ORF1AB:N4992S	591	ORF1b	N591S	ORF1B:N591S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	15252	.	TG	T	5668	PASS	2913	0.074494	73	"976,1723,40,177"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14989delG	p.Val4997fs	14989/21291	14989/21291	4997/7096	4997	7096		",T"	del4997	TG15252T	del4997	ORF1AB:DEL4997	596	ORF1b	del596	ORF1B:DEL596	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	15324	.	C	T	27727	PASS	2116	0.451796	15	4.88669E+11	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	15579	.	C	T	4665	PASS	1233	0.15734	1	"545,494,98,96"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	15665	.	T	C	84	PASS	1224	0.010621	2	"495,716,4,9"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15401T>C	p.Val5134Ala	15401/21291	15401/21291	5134/7096	5134	7096		",C"	V5134A	T15665C	V5134A	ORF1AB:V5134A	733	ORF1b	V733A	ORF1B:V733A	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	15766	.	G	T	9856	PASS	1181	0.308213	6	2.6655E+11	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	16197	.	G	GT	270	PASS	61	0.147541	8	"15,37,5,4"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15937dupT	p.Tyr5313fs	15938/21291	15938/21291	5313/7096	5313	7096		"INFO_REALIGN_3_PRIME,GT"	del5313	G16197GT	del5313	ORF1AB:DEL5313	912	ORF1b	del912	ORF1B:DEL912	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	16581	.	A	G	98	PASS	6059	0.003961	1	"3050,2981,11,13"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16317A>G	p.Thr5439Thr	16317/21291	16317/21291	5439/7096	5439	7096		",G"	T5439T	A16581G	T5439T	ORF1AB:T5439T	1038	ORF1b	T1038T	ORF1B:T1038T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	16631	.	T	C	8589	PASS	5896	0.078697	4	"2687,2742,240,224"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16367T>C	p.Leu5456Pro	16367/21291	16367/21291	5456/7096	5456	7096		",C"	L5456P	T16631C	L5456P	ORF1AB:L5456P	1055	ORF1b	L1055P	ORF1B:L1055P	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	16889	.	A	G	49314	PASS	4966	0.408981	6	"1054,1878,696,1335"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	16912	.	G	T	17345	PASS	4597	0.161845	2	"1196,2653,240,504"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16648G>T	p.Val5550Leu	16648/21291	16648/21291	5550/7096	5550	7096		",T"	V5550L	G16912T	V5550L	ORF1AB:V5550L	1149	ORF1b	V1149L	ORF1B:V1149L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	17019	.	G	T	34735	PASS	3220	0.384162	14	"393,1587,285,952"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	17178	.	T	G	394	PASS	103	0.174757	10	"65,20,10,8"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16914T>G	p.Val5638Val	16914/21291	16914/21291	5638/7096	5638	7096		",G"	V5638V	T17178G	V5638V	ORF1AB:V5638V	1237	ORF1b	V1237V	ORF1B:V1237V	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	17379	.	T	C	133	PASS	97	0.072165	0	"32,58,2,5"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17115T>C	p.Asn5705Asn	17115/21291	17115/21291	5705/7096	5705	7096		",C"	N5705N	T17379C	N5705N	ORF1AB:N5705N	1304	ORF1b	N1304N	ORF1B:N1304N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	17610	.	TA	T	47	PASS	3621	0.001105	1	"2229,1409,2,2"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17348delA	p.Asn5783fs	17348/21291	17348/21291	5783/7096	5783	7096		"INFO_REALIGN_3_PRIME,T"	del5783	TA17610T	del5783	ORF1AB:DEL5783	1382	ORF1b	del1382	ORF1B:DEL1382	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18045	.	A	G	7948	PASS	4214	0.094684	8	"1292,2518,120,279"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17781A>G	p.Glu5927Glu	17781/21291	17781/21291	5927/7096	5927	7096		",G"	E5927E	A18045G	E5927E	ORF1AB:E5927E	1526	ORF1b	E1526E	ORF1B:E1526E	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18368	.	G	GT	1105	PASS	264	0.147727	3	"115,110,17,22"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18109dupT	p.Ser6037fs	18110/21291	18110/21291	6037/7096	6037	7096		"INFO_REALIGN_3_PRIME,GT"	del6037	G18368GT	del6037	ORF1AB:DEL6037	1636	ORF1b	del1636	ORF1B:DEL1636	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18545	.	TG	T	82	PASS	324	0.012346	13	"148,173,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18282delG	p.Met6094fs	18282/21291	18282/21291	6094/7096	6094	7096		",T"	del6094	TG18545T	del6094	ORF1AB:DEL6094	1693	ORF1b	del1693	ORF1B:DEL1693	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18545	.	T	A	1571	PASS	325	0.196923	9	"128,133,24,40"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18281T>A	p.Met6094Lys	18281/21291	18281/21291	6094/7096	6094	7096		",A"	M6094K	T18545A	M6094K	ORF1AB:M6094K	1693	ORF1b	M1693K	ORF1B:M1693K	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18546	.	G	T	1484	PASS	324	0.194444	9	"124,133,23,40"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18282G>T	p.Met6094Ile	18282/21291	18282/21291	6094/7096	6094	7096		",T"	M6094I	G18546T	M6094I	ORF1AB:M6094I	1693	ORF1b	M1693I	ORF1B:M1693I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18865	.	A	T	6605	PASS	5151	0.067366	10	"2744,2059,215,132"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18601A>T	p.Met6201Leu	18601/21291	18601/21291	6201/7096	6201	7096		",T"	M6201L	A18865T	M6201L	ORF1AB:M6201L	1800	ORF1b	M1800L	ORF1B:M1800L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18877	.	C	T	49314	PASS	5482	0.363553	3	"2096,1391,1175,818"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18894	.	CT	C	53	PASS	5440	0.000919	0	"3269,2188,3,2"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18633delT	p.Phe6211fs	18633/21291	18633/21291	6211/7096	6211	7096		"INFO_REALIGN_3_PRIME,C"	del6211	CT18894C	del6211	ORF1AB:DEL6211	1810	ORF1b	del1810	ORF1B:DEL1810	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	18959	.	C	T	1174	PASS	6116	0.020111	0	"3236,2748,68,55"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18695C>T	p.Ala6232Val	18695/21291	18695/21291	6232/7096	6232	7096		",T"	A6232V	C18959T	A6232V	ORF1AB:A6232V	1831	ORF1b	A1831V	ORF1B:A1831V	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	19323	.	AC	A	53	PASS	5616	0.00089	0	"1946,3709,2,3"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19061delC	p.Pro6354fs	19061/21291	19061/21291	6354/7096	6354	7096		"INFO_REALIGN_3_PRIME,A"	del6354	AC19323A	del6354	ORF1AB:DEL6354	1953	ORF1b	del1953	ORF1B:DEL1953	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	19343	.	CTTTTGTTAA	C	6906	PASS	5455	0.049863	87	"1627,3565,41,231"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19083_19091delTGTTAATTT	p.Phe6361_Asn6363del	19083/21291	19083/21291	6361/7096	6361	7096		"INFO_REALIGN_3_PRIME,C"	del6361/6363	CTTTTGTTAA19343C	del6361/6363	ORF1AB:DEL6361/6363	1960/1962	ORF1b	del1960/1962	ORF1B:DEL1960/1962	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	19524	.	C	T	5197	PASS	1743	0.131956	7	"996,517,141,89"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	19690	.	G	GT	5600	PASS	1540	0.122078	1	"633,732,90,98"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19429dupT	p.Ser6477fs	19430/21291	19430/21291	6477/7096	6477	7096		"INFO_REALIGN_3_PRIME,GT"	del6477	G19690GT	del6477	ORF1AB:DEL6477	2076	ORF1b	del2076	ORF1B:DEL2076	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	19698	.	C	T	1508	PASS	1527	0.057629	20	"688,750,29,59"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19434C>T	p.Ile6478Ile	19434/21291	19434/21291	6478/7096	6478	7096		",T"	I6478I	C19698T	I6478I	ORF1AB:I6478I	2077	ORF1b	I2077I	ORF1B:I2077I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	19983	.	C	CT	76	PASS	632	0.009494	11	"113,531,3,3"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19725dupT	p.Asp6576fs	19726/21291	19726/21291	6576/7096	6576	7096		"INFO_REALIGN_3_PRIME,CT"	del6576	C19983CT	del6576	ORF1AB:DEL6576	2175	ORF1b	del2175	ORF1B:DEL2175	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	20134	.	G	T	340	PASS	103	0.15534	2	"66,21,14,2"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19870G>T	p.Val6624Leu	19870/21291	19870/21291	6624/7096	6624	7096		",T"	V6624L	G20134T	V6624L	ORF1AB:V6624L	2223	ORF1b	V2223L	ORF1B:V2223L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	20864	.	A	T	3697	PASS	2904	0.067837	4	"1381,1326,107,90"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20600A>T	p.His6867Leu	20600/21291	20600/21291	6867/7096	6867	7096		",T"	H6867L	A20864T	H6867L	ORF1AB:H6867L	2466	ORF1b	H2466L	ORF1B:H2466L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	21066	.	TA	T	2362	PASS	4782	0.023421	107	"2478,2196,24,88"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20807delA	p.Asn6936fs	20807/21291	20807/21291	6936/7096	6936	7096		"INFO_REALIGN_3_PRIME,T"	del6936	TA21066T	del6936	ORF1AB:DEL6936	2535	ORF1b	del2535	ORF1B:DEL2535	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	21133	.	CA	C	2236	PASS	4380	0.023744	84	"1988,2297,19,85"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20873delA	p.Lys6958fs	20873/21291	20873/21291	6958/7096	6958	7096		"INFO_REALIGN_3_PRIME,C"	del6958	CA21133C	del6958	ORF1AB:DEL6958	2557	ORF1b	del2557	ORF1B:DEL2557	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	21255	.	G	C	18075	PASS	3444	0.215157	65	"1567,1131,507,234"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	21565	.	GT	G	649	PASS	3116	0.010591	42	"1270,1857,25,8"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.6delT	p.Phe2fs	6/3822	6/3822	2/1273	2	1273		"INFO_REALIGN_3_PRIME,G"	del2	GT21565G	del2	S:DEL2	2	S	del2	S:DEL2	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	21682	.	CA	C	992	PASS	2158	0.020389	23	"535,1579,20,24"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.123delA	p.Val42fs	123/3822	123/3822	41/1273	41	1273		"INFO_REALIGN_3_PRIME,C"	del42	CA21682C	del42	S:DEL42	42	S	del42	S:DEL42	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	21798	.	TTG	T	958	PASS	596	0.062081	3	"313,256,23,14"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.237_238delTG	p.Phe79fs	237/3822	237/3822	79/1273	79	1273		",T"	del79	TTG21798T	del79	S:DEL79	79	S	del79	S:DEL79	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	21855	.	C	T	7263	PASS	661	0.384266	23	2.85122E+11	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	21989	.	G	GT	859	PASS	617	0.051864	4	"306,282,14,18"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.430dupT	p.Tyr144fs	431/3822	431/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,GT"	del144	G21989GT	del144	S:DEL144	144	S	del144	S:DEL144	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	22104	.	GA	G	1147	PASS	626	0.070288	2	"200,396,17,27"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.546delA	p.Lys182fs	546/3822	546/3822	182/1273	182	1273		"INFO_REALIGN_3_PRIME,G"	del182	GA22104G	del182	S:DEL182	182	S	del182	S:DEL182	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	22120	.	CAA	C	1145	PASS	639	0.068858	6	"204,393,11,33"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.562_563delAA	p.Asn188fs	562/3822	562/3822	188/1273	188	1273		"INFO_REALIGN_3_PRIME,C"	del188	CAA22120C	del188	S:DEL188	188	S	del188	S:DEL188	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	22227	.	C	T	2239	PASS	410	0.234146	1	"68,246,22,74"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	22273	.	G	GT	224	PASS	266	0.033835	1	"60,199,1,8"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.714dupT	p.Gln239fs	715/3822	715/3822	239/1273	239	1273		"INFO_REALIGN_3_PRIME,GT"	del239	G22273GT	del239	S:DEL239	239	S	del239	S:DEL239	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	22346	.	G	T	183	PASS	90	0.1	14	"42,39,8,1"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.784G>T	p.Ala262Ser	784/3822	784/3822	262/1273	262	1273		",T"	A262S	G22346T	A262S	S:A262S	262	S	A262S	S:A262S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	22377	.	C	T	201	PASS	94	0.117021	1	"45,38,7,4"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.815C>T	p.Pro272Leu	815/3822	815/3822	272/1273	272	1273		",T"	P272L	C22377T	P272L	S:P272L	272	S	P272L	S:P272L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	22403	.	G	C	145	PASS	96	0.072917	0	"47,42,4,3"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.841G>C	p.Glu281Gln	841/3822	841/3822	281/1273	281	1273		",C"	E281Q	G22403C	E281Q	S:E281Q	281	S	E281Q	S:E281Q	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	22992	.	G	A	7927	PASS	554	0.498195	13	1.04174E+11	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	23114	.	C	T	1349	PASS	548	0.113139	11	"309,177,32,30"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1552C>T	p.Leu518Leu	1552/3822	1552/3822	518/1273	518	1273		",T"	L518L	C23114T	L518L	S:L518L	518	S	L518L	S:L518L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	23403	.	A	G	38200	PASS	1093	0.999085	0	"0,0,541,551"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	23541	.	ATGAGTGTGACATACCCATTGGTGCAGGTATATGCGCTAGTT	A	812	PASS	887	0.036077	5	"441,452,19,13"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1980_2020delTGAGTGTGACATACCCATTGGTGCAGGTATATGCGCTAGTT	p.Tyr660fs	1980/3822	1980/3822	660/1273	660	1273		",A"	del660	ATGAGTGTGACATACCCATTGGTGCAGGTATATGCGCTAGTT23541A	del660	S:DEL660	660	S	del660	S:DEL660	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	23604	.	C	A	1690	PASS	837	0.101553	5	"405,347,51,34"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	23945	.	A	T	1279	PASS	648	0.098765	8	"120,464,8,56"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2383A>T	p.Lys795*	2383/3822	2383/3822	795/1273	795	1273		",T"	K795*	A23945T	K795*	S:K795*	795	S	K795*	S:K795*	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	23948	.	G	T	925	PASS	640	0.071875	3	"114,480,6,40"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	24368	.	G	T	161	PASS	753	0.017264	4	"643,96,10,3"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2806G>T	p.Asp936Tyr	2806/3822	2806/3822	936/1273	936	1273		",T"	D936Y	G24368T	D936Y	S:D936Y	936	S	D936Y	S:D936Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	24398	.	G	A	2209	PASS	1186	0.102024	14	"934,131,114,7"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2836G>A	p.Gly946Arg	2836/3822	2836/3822	946/1273	946	1273		",A"	G946R	G24398A	G946R	S:G946R	946	S	G946R	S:G946R	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	24546	.	G	T	95	PASS	2209	0.00679	0	"1405,788,10,5"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2984G>T	p.Arg995Met	2984/3822	2984/3822	995/1273	995	1273		",T"	R995M	G24546T	R995M	S:R995M	995	S	R995M	S:R995M	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	24794	.	G	T	5808	PASS	3253	0.091915	0	"1647,1304,166,133"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3232G>T	p.Ala1078Ser	3232/3822	3232/3822	1078/1273	1078	1273		",T"	A1078S	G24794T	A1078S	S:A1078S	1078	S	A1078S	S:A1078S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	25135	.	G	T	1902	PASS	2483	0.051551	126	"692,1663,79,49"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3573G>T	p.Lys1191Asn	3573/3822	3573/3822	1191/1273	1191	1273		",T"	K1191N	G25135T	K1191N	S:K1191N	1191	S	K1191N	S:K1191N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	25563	.	G	T	32020	PASS	1202	0.801997	19	1.35102E+11	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	25710	.	C	T	23119	PASS	1057	0.685903	207	1.75157E+11	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	25886	.	C	T	1562	PASS	421	0.15677	2	"178,177,36,30"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	25906	.	G	C	1865	PASS	435	0.181609	0	"163,193,36,43"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	25996	.	G	T	2384	PASS	496	0.199597	2	"189,208,51,48"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	26038	.	T	C	2842	PASS	439	0.250569	15	"159,170,67,43"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	26062	.	G	T	2213	PASS	607	0.159802	7	"363,147,62,35"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	26537	.	C	T	7113	PASS	2587	0.124855	13	"848,1416,102,221"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.15C>T	p.Asn5Asn	15/669	15/669	5/222	5	222		",T"	N5N	C26537T	N5N	M:N5N	5	M	N5N	M:N5N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	26600	.	C	T	7331	PASS	2279	0.14129	30	9.81975E+11	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	26735	.	C	T	24885	PASS	2248	0.394573	17	5.46814E+11	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	26801	.	C	G	8584	PASS	2224	0.165018	28	"460,1397,121,246"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	26876	.	T	C	15244	PASS	1418	0.385755	2	2.24643E+11	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	26895	.	C	T	549	PASS	1084	0.039668	45	"302,739,26,17"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.373C>T	p.His125Tyr	373/669	373/669	125/222	125	222		",T"	H125Y	C26895T	H125Y	M:H125Y	125	M	H125Y	M:H125Y	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	27271	.	G	GT	969	PASS	1502	0.027297	26	"1149,354,22,19"	TRUE	GT	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.73dupT	p.Ser25fs	74/186	74/186	25/61	25	61		"INFO_REALIGN_3_PRIME,GT"	del25	G27271GT	del25	ORF6:DEL25	25	ORF6	del25	ORF6:DEL25	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	27339	.	GAAT	G	644	PASS	2313	0.013403	98	"1508,774,3,28"	TRUE	G	disruptive_inframe_deletion	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.141_143delTAA	p.Asn47del	141/186	141/186	47/61	47	61		"INFO_REALIGN_3_PRIME,G"	del47	GAAT27339G	del47	ORF6:DEL47	47	ORF6	del47	ORF6:DEL47	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	27707	.	C	T	12546	PASS	2484	0.214573	9	9.96954E+11	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	27944	.	C	T	11355	PASS	2720	0.180515	34	"665,1561,107,384"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	27970	.	C	A	718	PASS	2516	0.02345	91	"663,1794,39,20"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28133	.	A	T	6062	PASS	1125	0.209778	0	"549,340,147,89"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28254	.	A	C	104	PASS	1170	0.011111	7	"564,592,9,4"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28378	.	G	T	2063	PASS	1710	0.068421	16	"821,772,47,70"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28384	.	A	T	1553	PASS	1720	0.052326	37	"856,773,29,61"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28651	.	C	T	42546	PASS	5121	0.310486	0	"1884,1643,855,735"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28666	.	A	G	4905	PASS	5201	0.053259	2	"2746,2176,150,127"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.393A>G	p.Ile131Met	393/1260	393/1260	131/419	131	419		",G"	I131M	A28666G	I131M	N:I131M	131	N	I131M	N:I131M	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28855	.	A	C	17813	PASS	5458	0.144009	4	"2208,2463,385,401"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28869	.	C	T	49314	PASS	5526	0.34401	32	"1779,1843,840,1061"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28932	.	C	T	49314	PASS	5700	0.416667	2	"1485,1838,1044,1331"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28975	.	G	C	34795	PASS	5404	0.254071	17	"1548,2481,578,795"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	28987	.	CCAA	C	134	PASS	5022	0.001991	4	"2053,3037,2,8"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH33	NC_045512.2	29051	.	C	CA	5870	PASS	4348	0.054738	0	"1351,2766,78,160"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	SCH33	SCHIFFLANGE	2020-11-08T00:00:00Z	30.173	33.17666667	x	14122020	2020-11-08
SCH35-1	NC_045512.2	241	.	C	T	49314	PASS	1950	0.997949	2147483647	"0,0,1946,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	445	.	T	C	4667	PASS	2276	0.149824	0	"1929,0,341,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	571	.	G	A	4549	PASS	2132	0.120075	0	"1871,0,256,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	593	.	C	T	11341	PASS	1937	0.256066	0	"1438,0,496,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	684	.	TA	T	4993	PASS	1885	0.096552	0	"1703,0,182,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.422delA	p.Lys141fs	422/21291	422/21291	141/7096	141	7096		"INFO_REALIGN_3_PRIME,T"	del141	TA684T	del141	ORF1AB:DEL141	141	ORF1a	del141	ORF1A:DEL141	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	823	.	C	T	2654	PASS	1015	0.139901	0	"870,0,142,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	843	.	C	T	1966	PASS	829	0.13269	0	"716,0,110,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.578C>T	p.Pro193Leu	578/21291	578/21291	193/7096	193	7096		",T"	P193L	C843T	P193L	ORF1AB:P193L	193	ORF1a	P193L	ORF1A:P193L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	1430	.	A	G	830	PASS	947	0.072862	0	"878,0,69,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1165A>G	p.Asn389Asp	1165/21291	1165/21291	389/7096	389	7096		",G"	N389D	A1430G	N389D	ORF1AB:N389D	389	ORF1a	N389D	ORF1A:N389D	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	1781	.	T	G	3520	PASS	1192	0.151846	0	"1010,0,181,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1516T>G	p.Cys506Gly	1516/21291	1516/21291	506/7096	506	7096		",G"	C506G	T1781G	C506G	ORF1AB:C506G	506	ORF1a	C506G	ORF1A:C506G	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	1968	.	C	CA	4751	PASS	807	0.197026	0	"648,0,159,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1705dupA	p.Ile569fs	1706/21291	1706/21291	569/7096	569	7096		"INFO_REALIGN_3_PRIME,CA"	del569	C1968CA	del569	ORF1AB:DEL569	569	ORF1a	del569	ORF1A:DEL569	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	3036	.	TC	T	79	PASS	525	0.007619	0	"522,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	3037	.	C	T	17964	PASS	535	0.988785	2147483647	"0,0,529,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	3352	.	T	G	243	PASS	30	0.3	0	"21,0,9,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3087T>G	p.Ser1029Arg	3087/21291	3087/21291	1029/7096	1029	7096		",G"	S1029R	T3352G	S1029R	ORF1AB:S1029R	1029	ORF1a	S1029R	ORF1A:S1029R	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	3602	.	C	T	596	PASS	31	0.645161	0	"11,0,20,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	4312	.	TA	T	352	PASS	100	0.12	0	"94,0,12,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4051delA	p.Ser1351fs	4051/21291	4051/21291	1351/7096	1351	7096		"INFO_REALIGN_3_PRIME,T"	del1351	TA4312T	del1351	ORF1AB:DEL1351	1351	ORF1a	del1351	ORF1A:DEL1351	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	4543	.	C	T	563	PASS	145	0.2	0	"115,0,29,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	4764	.	A	AT	557	PASS	277	0.075812	0	"256,0,21,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4503dupT	p.Ile1502fs	4504/21291	4504/21291	1502/7096	1502	7096		"INFO_REALIGN_3_PRIME,AT"	del1502	A4764AT	del1502	ORF1AB:DEL1502	1502	ORF1a	del1502	ORF1A:DEL1502	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	4776	.	C	T	588	PASS	283	0.120141	0	"245,0,34,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4511C>T	p.Thr1504Ile	4511/21291	4511/21291	1504/7096	1504	7096		",T"	T1504I	C4776T	T1504I	ORF1AB:T1504I	1504	ORF1a	T1504I	ORF1A:T1504I	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	6930	.	A	AT	2120	PASS	423	0.170213	0	"350,0,72,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6670dupT	p.Ser2224fs	6671/21291	6671/21291	2224/7096	2224	7096		"INFO_REALIGN_3_PRIME,AT"	del2224	A6930AT	del2224	ORF1AB:DEL2224	2224	ORF1a	del2224	ORF1A:DEL2224	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	6941	.	C	T	6117	PASS	443	0.496614	0	"223,0,220,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	6954	.	T	C	944	PASS	427	0.138173	0	"367,0,59,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	7312	.	G	GT	210	PASS	19	0.368421	0	"12,0,7,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7052dupT	p.Ser2352fs	7053/21291	7053/21291	2351/7096	2351	7096		"INFO_REALIGN_3_PRIME,GT"	del2352	G7312GT	del2352	ORF1AB:DEL2352	2352	ORF1a	del2352	ORF1A:DEL2352	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	8051	.	A	G	1894	PASS	320	0.253125	0	"239,0,81,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7786A>G	p.Asn2596Asp	7786/21291	7786/21291	2596/7096	2596	7096		",G"	N2596D	A8051G	N2596D	ORF1AB:N2596D	2596	ORF1a	N2596D	ORF1A:N2596D	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	8983	.	T	G	1803	PASS	309	0.2589	0	"229,0,80,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9102	.	A	G	1250	PASS	315	0.193651	0	"254,0,61,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8837A>G	p.Glu2946Gly	8837/21291	8837/21291	2946/7096	2946	7096		",G"	E2946G	A9102G	E2946G	ORF1AB:E2946G	2946	ORF1a	E2946G	ORF1A:E2946G	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9256	.	T	C	921	PASS	279	0.182796	0	"226,0,51,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8991T>C	p.Cys2997Cys	8991/21291	8991/21291	2997/7096	2997	7096		",C"	C2997C	T9256C	C2997C	ORF1AB:C2997C	2997	ORF1a	C2997C	ORF1A:C2997C	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9433	.	A	G	398	PASS	793	0.042875	0	"759,0,34,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9168A>G	p.Val3056Val	9168/21291	9168/21291	3056/7096	3056	7096		",G"	V3056V	A9433G	V3056V	ORF1AB:V3056V	3056	ORF1a	V3056V	ORF1A:V3056V	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9437	.	A	G	1348	PASS	809	0.12979	0	"701,0,105,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9172A>G	p.Thr3058Ala	9172/21291	9172/21291	3058/7096	3058	7096		",G"	T3058A	A9437G	T3058A	ORF1AB:T3058A	3058	ORF1a	T3058A	ORF1A:T3058A	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9475	.	T	C	1330	PASS	748	0.113636	0	"662,0,85,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9210T>C	p.Ala3070Ala	9210/21291	9210/21291	3070/7096	3070	7096		",C"	A3070A	T9475C	A3070A	ORF1AB:A3070A	3070	ORF1a	A3070A	ORF1A:A3070A	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9526	.	G	T	10870	PASS	971	0.436663	0	"545,0,424,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9604	.	A	T	3897	PASS	1136	0.162852	0	"949,0,185,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9339A>T	p.Thr3113Thr	9339/21291	9339/21291	3113/7096	3113	7096		",T"	T3113T	A9604T	T3113T	ORF1AB:T3113T	3113	ORF1a	T3113T	ORF1A:T3113T	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9637	.	A	G	84	PASS	1206	0.015755	0	"1184,0,19,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9372A>G	p.Ala3124Ala	9372/21291	9372/21291	3124/7096	3124	7096		",G"	A3124A	A9637G	A3124A	ORF1AB:A3124A	3124	ORF1a	A3124A	ORF1A:A3124A	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9899	.	A	G	1140	PASS	1052	0.086502	0	"960,0,91,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9634A>G	p.Asn3212Asp	9634/21291	9634/21291	3212/7096	3212	7096		",G"	N3212D	A9899G	N3212D	ORF1AB:N3212D	3212	ORF1a	N3212D	ORF1A:N3212D	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	9912	.	A	T	2331	PASS	1081	0.120259	0	"951,0,130,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9647A>T	p.Tyr3216Phe	9647/21291	9647/21291	3216/7096	3216	7096		",T"	Y3216F	A9912T	Y3216F	ORF1AB:Y3216F	3216	ORF1a	Y3216F	ORF1A:Y3216F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	10087	.	TA	T	6524	PASS	953	0.231899	0	"744,0,221,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9825delA	p.Val3276fs	9825/21291	9825/21291	3275/7096	3275	7096		"INFO_REALIGN_3_PRIME,T"	del3276	TA10087T	del3276	ORF1AB:DEL3276	3276	ORF1a	del3276	ORF1A:DEL3276	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	10866	.	T	C	155	PASS	171	0.064327	0	"160,0,11,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10601T>C	p.Leu3534Ser	10601/21291	10601/21291	3534/7096	3534	7096		",C"	L3534S	T10866C	L3534S	ORF1AB:L3534S	3534	ORF1a	L3534S	ORF1A:L3534S	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	11075	.	T	C	143	PASS	485	0.049485	0	"459,0,24,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10810T>C	p.Phe3604Leu	10810/21291	10810/21291	3604/7096	3604	7096		",C"	F3604L	T11075C	F3604L	ORF1AB:F3604L	3604	ORF1a	F3604L	ORF1A:F3604L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	11146	.	G	GT	674	PASS	463	0.056156	0	"445,0,26,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10884dupT	p.Val3629fs	10885/21291	10885/21291	3629/7096	3629	7096		"INFO_REALIGN_3_PRIME,GT"	del3629	G11146GT	del3629	ORF1AB:DEL3629	3629	ORF1a	del3629	ORF1A:DEL3629	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	11456	.	A	T	5192	PASS	557	0.37702	0	"344,0,210,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11191A>T	p.Ile3731Phe	11191/21291	11191/21291	3731/7096	3731	7096		",T"	I3731F	A11456T	I3731F	ORF1AB:I3731F	3731	ORF1a	I3731F	ORF1A:I3731F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	11461	.	C	T	2843	PASS	539	0.254174	0	"400,0,137,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11196C>T	p.Ser3732Ser	11196/21291	11196/21291	3732/7096	3732	7096		",T"	S3732S	C11461T	S3732S	ORF1AB:S3732S	3732	ORF1a	S3732S	ORF1A:S3732S	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	12505	.	TA	T	6421	PASS	1038	0.213873	0	"819,0,222,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12245delA	p.Asn4082fs	12245/21291	12245/21291	4082/7096	4082	7096		"INFO_REALIGN_3_PRIME,T"	del4082	TA12505T	del4082	ORF1AB:DEL4082	4082	ORF1a	del4082	ORF1A:DEL4082	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	12802	.	G	GT	2877	PASS	1370	0.078102	0	"1272,0,107,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12540dupT	p.Val4181fs	12541/21291	12541/21291	4181/7096	4181	7096		"INFO_REALIGN_3_PRIME,GT"	del4181	G12802GT	del4181	ORF1AB:DEL4181	4181	ORF1a	del4181	ORF1A:DEL4181	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	13394	.	A	G	385	PASS	2013	0.021858	0	"1965,0,44,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13129A>G	p.Lys4377Glu	13129/21291	13129/21291	4377/7096	4377	7096		",G"	K4377E	A13394G	K4377E	ORF1AB:K4377E	4377	ORF1a	K4377E	ORF1A:K4377E	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	13517	.	C	T	2658	PASS	1566	0.099617	0	"1408,0,156,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	13649	.	TTG	T	7337	PASS	1292	0.194272	0	"1041,0,251,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13387_13388delGT	p.Val4463fs	13387/21291	13387/21291	4463/7096	4463	7096		"INFO_REALIGN_3_PRIME,T"	del4463	TTG13649T	del4463	ORF1AB:DEL4463	62	ORF1b	del62	ORF1B:DEL62	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	13945	.	C	T	13510	PASS	1154	0.440208	0	"644,0,508,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13681C>T	p.Pro4561Ser	13681/21291	13681/21291	4561/7096	4561	7096		",T"	P4561S	C13945T	P4561S	ORF1AB:P4561S	160	ORF1b	P160S	ORF1B:P160S	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	14084	.	A	G	2302	PASS	616	0.189935	0	"498,0,117,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13820A>G	p.Asn4607Ser	13820/21291	13820/21291	4607/7096	4607	7096		",G"	N4607S	A14084G	N4607S	ORF1AB:N4607S	206	ORF1b	N206S	ORF1B:N206S	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	14093	.	A	AT	3513	PASS	533	0.210131	0	"434,0,112,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13832dupT	p.Gly4612fs	13833/21291	13833/21291	4611/7096	4611	7096		"INFO_REALIGN_3_PRIME,AT"	del4612	A14093AT	del4612	ORF1AB:DEL4612	211	ORF1b	del211	ORF1B:DEL211	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	14688	.	CA	C	2304	PASS	408	0.188725	0	"331,0,77,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14427delA	p.Asp4810fs	14427/21291	14427/21291	4809/7096	4809	7096		"INFO_REALIGN_3_PRIME,C"	del4810	CA14688C	del4810	ORF1AB:DEL4810	409	ORF1b	del409	ORF1B:DEL409	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	15324	.	C	T	946	PASS	151	0.271523	0	"110,0,41,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	15360	.	CA	C	439	PASS	50	0.26	0	"37,0,13,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15099delA	p.Lys5033fs	15099/21291	15099/21291	5033/7096	5033	7096		"INFO_REALIGN_3_PRIME,C"	del5033	CA15360C	del5033	ORF1AB:DEL5033	632	ORF1b	del632	ORF1B:DEL632	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	15766	.	G	T	2367	PASS	76	0.907895	0	"7,0,69,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	16103	.	TA	T	60	PASS	28	0.071429	0	"26,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15841delA	p.Arg5281fs	15841/21291	15841/21291	5281/7096	5281	7096		"INFO_REALIGN_3_PRIME,T"	del5281	TA16103T	del5281	ORF1AB:DEL5281	880	ORF1b	del880	ORF1B:DEL880	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	16889	.	A	G	31662	PASS	1135	0.838767	0	"182,0,952,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	17019	.	G	T	13354	PASS	541	0.80037	0	"107,0,433,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	17615	.	A	G	7614	PASS	590	0.479661	0	"304,0,283,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	18877	.	C	T	24121	PASS	1216	0.658717	0	"411,0,801,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	19336	.	A	T	1281	PASS	1533	0.067841	0	"1424,0,104,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19072A>T	p.Lys6358*	19072/21291	19072/21291	6358/7096	6358	7096		",T"	K6358*	A19336T	K6358*	ORF1AB:K6358*	1957	ORF1b	K1957*	ORF1B:K1957*	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	19641	.	T	C	107	PASS	1229	0.017901	0	"1206,0,22,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19377T>C	p.Phe6459Phe	19377/21291	19377/21291	6459/7096	6459	7096		",C"	F6459F	T19641C	F6459F	ORF1AB:F6459F	2058	ORF1b	F2058F	ORF1B:F2058F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	20586	.	T	C	279	PASS	1361	0.025716	0	"1322,0,35,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20322T>C	p.Ile6774Ile	20322/21291	20322/21291	6774/7096	6774	7096		",C"	I6774I	T20586C	I6774I	ORF1AB:I6774I	2373	ORF1b	I2373I	ORF1B:I2373I	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	20742	.	A	C	3888	PASS	1716	0.124709	0	"1497,0,214,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	20925	.	G	T	2711	PASS	1415	0.111661	0	"1256,0,158,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20661G>T	p.Leu6887Phe	20661/21291	20661/21291	6887/7096	6887	7096		",T"	L6887F	G20925T	L6887F	ORF1AB:L6887F	2486	ORF1b	L2486F	ORF1B:L2486F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	21491	.	G	T	393	PASS	513	0.074074	0	"474,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21227G>T	p.Gly7076Val	21227/21291	21227/21291	7076/7096	7076	7096		",T"	G7076V	G21491T	G7076V	ORF1AB:G7076V	2675	ORF1b	G2675V	ORF1B:G2675V	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	21574	.	TC	T	760	PASS	537	0.05959	0	"507,0,32,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13delC	p.Val6fs	13/3822	13/3822	5/1273	5	1273		",T"	del6	TC21574T	del6	S:DEL6	6	S	del6	S:DEL6	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	21575	.	C	T	2097	PASS	537	0.193669	0	"398,0,104,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	21875	.	A	T	1302	PASS	268	0.231343	0	"204,0,62,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.313A>T	p.Ile105Phe	313/3822	313/3822	105/1273	105	1273		",T"	I105F	A21875T	I105F	S:I105F	105	S	I105F	S:I105F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	21964	.	A	AT	1102	PASS	273	0.142857	0	"234,0,39,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.406dupT	p.Cys136fs	407/3822	407/3822	136/1273	136	1273		"INFO_REALIGN_3_PRIME,AT"	del136	A21964AT	del136	S:DEL136	136	S	del136	S:DEL136	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	22161	.	A	AT	1328	PASS	227	0.193833	0	"184,0,44,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.603dupT	p.Lys202fs	604/3822	604/3822	202/1273	202	1273		"INFO_REALIGN_3_PRIME,AT"	del202	A22161AT	del202	S:DEL202	202	S	del202	S:DEL202	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	22227	.	C	T	1018	PASS	133	0.37594	0	"82,0,50,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	22992	.	G	A	347	PASS	91	0.208791	0	"72,0,19,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	23009	.	G	C	247	PASS	83	0.144578	0	"71,0,12,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1447G>C	p.Val483Leu	1447/3822	1447/3822	483/1273	483	1273		",C"	V483L	G23009C	V483L	S:V483L	483	S	V483L	S:V483L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	23254	.	AT	A	49	PASS	116	0.017241	0	"114,0,2,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1695delT	p.Phe565fs	1695/3822	1695/3822	565/1273	565	1273		"INFO_REALIGN_3_PRIME,A"	del565	AT23254A	del565	S:DEL565	565	S	del565	S:DEL565	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	23403	.	A	G	5276	PASS	157	0.993631	2147483647	"0,0,156,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	23604	.	C	A	468	PASS	177	0.152542	0	"150,0,27,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2042C>A	p.Pro681His	2042/3822	2042/3822	681/1273	681	1273		",A"	P681H	C23604A	P681H	S:P681H	681	S	P681H	S:P681H	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	23948	.	G	T	138	PASS	103	0.087379	0	"93,0,9,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	24777	.	A	G	1143	PASS	428	0.154206	0	"360,0,66,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3215A>G	p.Glu1072Gly	3215/3822	3215/3822	1072/1273	1072	1273		",G"	E1072G	A24777G	E1072G	S:E1072G	1072	S	E1072G	S:E1072G	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25296	.	A	C	85	PASS	964	0.036307	0	"909,0,35,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25301	.	T	G	87	PASS	960	0.032292	0	"928,0,31,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25303	.	TTG	T	5416	PASS	1001	0.201798	0	"799,0,202,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3743_3744delGT	p.Cys1248fs	3743/3822	3743/3822	1248/1273	1248	1273		"INFO_REALIGN_3_PRIME,T"	del1248	TTG25303T	del1248	S:DEL1248	1248	S	del1248	S:DEL1248	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25324	.	C	A	385	PASS	997	0.067202	0	"928,0,67,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25336	.	A	C	162	PASS	959	0.052138	0	"900,0,50,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25563	.	G	T	17517	PASS	701	0.796006	0	"142,0,558,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25710	.	C	T	9082	PASS	431	0.679814	0	"137,0,293,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25906	.	G	C	369	PASS	163	0.134969	0	"141,0,22,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	25996	.	G	T	161	PASS	167	0.083832	0	"152,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26038	.	T	C	642	PASS	135	0.251852	0	"101,0,34,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26353	.	C	T	4089	PASS	1733	0.14195	0	"1479,0,246,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.109C>T	p.Leu37Phe	109/228	109/228	37/75	37	75		",T"	L37F	C26353T	L37F	E:L37F	37	E	L37F	E:L37F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26527	.	C	T	7325	PASS	2339	0.165028	0	"1944,0,386,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.5C>T	p.Ala2Val	5/669	5/669	2/222	2	222		",T"	A2V	C26527T	A2V	M:A2V	2	M	A2V	M:A2V	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26600	.	C	T	5998	PASS	2131	0.152511	0	"1800,0,325,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26679	.	T	C	168	PASS	1931	0.016054	0	"1894,0,31,0"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.157T>C	p.Phe53Leu	157/669	157/669	53/222	53	222		",C"	F53L	T26679C	F53L	M:F53L	53	M	F53L	M:F53L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26735	.	C	T	121	PASS	1543	0.016202	0	"1513,0,25,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26801	.	C	G	2732	PASS	1371	0.106492	0	"1225,0,146,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26876	.	T	C	429	PASS	665	0.051128	0	"630,0,34,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	26894	.	C	T	77	PASS	480	0.01875	0	"471,0,9,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.372C>T	p.Leu124Leu	372/669	372/669	124/222	124	222		",T"	L124L	C26894T	L124L	M:L124L	124	M	L124L	M:L124L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	27219	.	C	CT	334	PASS	202	0.059406	0	"190,0,12,0"	TRUE	CT	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.21dupT	p.Gln8fs	22/186	22/186	8/61	8	61		"INFO_REALIGN_3_PRIME,CT"	del8	C27219CT	del8	ORF6:DEL8	8	ORF6	del8	ORF6:DEL8	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	27716	.	T	C	100	PASS	1484	0.016173	0	"1455,0,24,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.323T>C	p.Val108Ala	323/366	323/366	108/121	108	121		",C"	V108A	T27716C	V108A	ORF7A:V108A	108	ORF7a	V108A	ORF7A:V108A	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	27897	.	A	G	101	PASS	1263	0.015044	0	"1239,0,19,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.4A>G	p.Lys2Glu	4/366	4/366	2/121	2	121		",G"	K2E	A27897G	K2E	ORF8:K2E	2	ORF8	K2E	ORF8:K2E	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	27944	.	C	T	625	PASS	1124	0.052491	0	"1063,0,59,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	27970	.	C	A	3854	PASS	1003	0.186441	0	"814,0,187,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28045	.	C	T	512	PASS	546	0.069597	0	"506,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28133	.	A	T	942	PASS	598	0.091973	0	"543,0,55,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28214	.	C	CT	381	PASS	588	0.028912	0	"571,0,17,0"	TRUE	CT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.326dupT	p.Leu109fs	327/366	327/366	109/121	109	121		"INFO_REALIGN_3_PRIME,CT"	del109	C28214CT	del109	ORF8:DEL109	109	ORF8	del109	ORF8:DEL109	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28378	.	G	T	219	PASS	465	0.051613	0	"441,0,24,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28384	.	A	T	1254	PASS	460	0.156522	0	"388,0,72,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28404	.	G	T	611	PASS	620	0.083871	0	"567,0,52,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.131G>T	p.Gly44Val	131/1260	131/1260	44/419	44	419		",T"	G44V	G28404T	G44V	N:G44V	44	N	G44V	N:G44V	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28651	.	C	T	25338	PASS	1887	0.490726	0	"953,0,926,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28869	.	C	T	37433	PASS	2833	0.486057	0	"1450,0,1377,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28880	.	AG	A	8207	PASS	2790	0.109677	0	"2487,0,306,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.611delG	p.Gly204fs	611/1260	611/1260	204/419	204	419		"INFO_REALIGN_3_PRIME,A"	del204	AG28880A	del204	N:DEL204	204	N	del204	N:DEL204	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28887	.	C	T	15911	PASS	2742	0.266958	0	"2001,0,732,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28975	.	G	C	16413	PASS	2705	0.265434	0	"1981,0,718,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	28987	.	CCAA	C	286	PASS	2527	0.006332	0	"2521,0,16,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH35-1	NC_045512.2	29051	.	C	CA	6863	PASS	2167	0.118136	0	"1910,0,256,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	SCH35-1	SCHIFFLANGE	2020-11-22T00:00:00Z	30.5045	32.6	x	1022021	2020-11-22
SCH37-1	NC_045512.2	204	.	G	T	13162	PASS	2417	0.239553	0	"1834,0,579,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	241	.	C	T	49314	PASS	2837	0.994713	0	"1,0,2822,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	245	.	CG	C	19812	PASS	2785	0.240934	0	"2114,0,671,0"	TRUE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-20delG						NA	20	",C"	del	CG245C	del	ORF1AB:DEL	NA	NA	del	NA:DEL	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	445	.	T	C	11497	PASS	3112	0.217545	0	"2420,0,677,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	649	.	TA	T	51	PASS	2598	0.00154	0	"2600,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.387delA	p.Gly130fs	387/21291	387/21291	129/7096	129	7096		"INFO_REALIGN_3_PRIME,T"	del130	TA649T	del130	ORF1AB:DEL130	130	ORF1a	del130	ORF1A:DEL130	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	1430	.	AATG	A	6348	PASS	1504	0.152261	0	"1275,0,229,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1167_1169delTGA	p.Asn389_Glu390delinsLys	1167/21291	1167/21291	389/7096	389	7096		"INFO_REALIGN_3_PRIME,A"	indel	AATG1430A	NA	NA	NA	ORF1a	NA	NA	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	1451	.	A	G	6256	PASS	1573	0.188175	0	"1272,0,296,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1186A>G	p.Ile396Val	1186/21291	1186/21291	396/7096	396	7096		",G"	I396V	A1451G	I396V	ORF1AB:I396V	396	ORF1a	I396V	ORF1A:I396V	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	1590	.	G	A	7467	PASS	2158	0.18165	0	"1758,0,392,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1325G>A	p.Gly442Asp	1325/21291	1325/21291	442/7096	442	7096		",A"	G442D	G1590A	G442D	ORF1AB:G442D	442	ORF1a	G442D	ORF1A:G442D	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	3017	.	T	C	5492	PASS	998	0.259519	0	"735,0,259,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2752T>C	p.Ser918Pro	2752/21291	2752/21291	918/7096	918	7096		",C"	S918P	T3017C	S918P	ORF1AB:S918P	918	ORF1a	S918P	ORF1A:S918P	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	3037	.	C	T	32528	PASS	949	0.996839	2147483647	"0,0,946,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	3136	.	TA	T	4844	PASS	598	0.265886	0	"442,0,159,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2874delA	p.Lys958fs	2874/21291	2874/21291	958/7096	958	7096		"INFO_REALIGN_3_PRIME,T"	del958	TA3136T	del958	ORF1AB:DEL958	958	ORF1a	del958	ORF1A:DEL958	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	3592	.	T	C	191	PASS	48	0.208333	0	"37,0,10,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	3602	.	C	T	130	PASS	51	0.137255	0	"44,0,7,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	5742	.	A	G	271	PASS	24	0.416667	0	"14,0,10,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5477A>G	p.Glu1826Gly	5477/21291	5477/21291	1826/7096	1826	7096		",G"	E1826G	A5742G	E1826G	ORF1AB:E1826G	1826	ORF1a	E1826G	ORF1A:E1826G	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	6226	.	T	TA	1152	PASS	207	0.188406	0	"168,0,39,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5964dupA	p.Pro1989fs	5965/21291	5965/21291	1989/7096	1989	7096		"INFO_REALIGN_3_PRIME,TA"	del1989	T6226TA	del1989	ORF1AB:DEL1989	1989	ORF1a	del1989	ORF1A:DEL1989	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	6696	.	C	CT	627	PASS	43	0.418605	0	"25,0,18,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	8395	.	T	C	979	PASS	274	0.178832	0	"224,0,49,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8130T>C	p.Ala2710Ala	8130/21291	8130/21291	2710/7096	2710	7096		",C"	A2710A	T8395C	A2710A	ORF1AB:A2710A	2710	ORF1a	A2710A	ORF1A:A2710A	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	8927	.	G	GT	370	PASS	313	0.047923	0	"298,0,15,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8667dupT	p.Ser2890fs	8668/21291	8668/21291	2890/7096	2890	7096		"INFO_REALIGN_3_PRIME,GT"	del2890	G8927GT	del2890	ORF1AB:DEL2890	2890	ORF1a	del2890	ORF1A:DEL2890	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	9526	.	G	T	15164	PASS	895	0.6	0	"358,0,537,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	10046	.	G	GT	9972	PASS	1470	0.22381	0	"1139,0,329,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9785dupT	p.Leu3262fs	9786/21291	9786/21291	3262/7096	3262	7096		"INFO_REALIGN_3_PRIME,GT"	del3262	G10046GT	del3262	ORF1AB:DEL3262	3262	ORF1a	del3262	ORF1A:DEL3262	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	10046	.	G	T	70	PASS	1470	0.018367	0	"1441,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9781G>T	p.Val3261Phe	9781/21291	9781/21291	3261/7096	3261	7096		",T"	V3261F	G10046T	V3261F	ORF1AB:V3261F	3261	ORF1a	V3261F	ORF1A:V3261F	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	11095	.	C	CT	7418	PASS	1190	0.213445	0	"935,0,254,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835dupT	p.Leu3612fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,CT"	del3612	C11095CT	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	11497	.	C	T	20242	PASS	1363	0.533382	0	"631,0,727,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	11567	.	A	T	6169	PASS	1089	0.254362	0	"812,0,277,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11302A>T	p.Ile3768Phe	11302/21291	11302/21291	3768/7096	3768	7096		",T"	I3768F	A11567T	I3768F	ORF1AB:I3768F	3768	ORF1a	I3768F	ORF1A:I3768F	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	13993	.	G	T	29684	PASS	888	0.998874	0	"1,0,887,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	14592	.	TG	T	47	PASS	1024	0.00293	0	"1021,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14330delG	p.Gly4777fs	14330/21291	14330/21291	4777/7096	4777	7096		"INFO_REALIGN_3_PRIME,T"	del4777	TG14592T	del4777	ORF1AB:DEL4777	376	ORF1b	del376	ORF1B:DEL376	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	14724	.	C	T	15151	PASS	1681	0.367638	0	"1057,0,618,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14460C>T	p.Phe4820Phe	14460/21291	14460/21291	4820/7096	4820	7096		",T"	F4820F	C14724T	F4820F	ORF1AB:F4820F	419	ORF1b	F419F	ORF1B:F419F	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	15766	.	G	T	1386	PASS	56	0.803571	0	"11,0,45,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	17019	.	G	T	88	PASS	416	0.024038	0	"406,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	17059	.	C	CA	12072	PASS	328	0.945122	0	"17,0,310,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799dupA	p.Tyr5601fs	16800/21291	16800/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,CA"	del5601	C17059CA	del5601	ORF1AB:DEL5601	1200	ORF1b	del1200	ORF1B:DEL1200	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	18629	.	A	AT	578	PASS	241	0.087137	0	"220,0,21,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18369dupT	p.Val6124fs	18370/21291	18370/21291	6124/7096	6124	7096		"INFO_REALIGN_3_PRIME,AT"	del6124	A18629AT	del6124	ORF1AB:DEL6124	1723	ORF1b	del1723	ORF1B:DEL1723	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	18877	.	C	T	12777	PASS	1632	0.311274	0	"1120,0,508,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	19165	.	A	G	16499	PASS	1988	0.332998	0	"1322,0,662,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18901A>G	p.Lys6301Glu	18901/21291	18901/21291	6301/7096	6301	7096		",G"	K6301E	A19165G	K6301E	ORF1AB:K6301E	1900	ORF1b	K1900E	ORF1B:K1900E	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	19170	.	C	T	16414	PASS	2007	0.33433	0	"1330,0,671,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18906C>T	p.Phe6302Phe	18906/21291	18906/21291	6302/7096	6302	7096		",T"	F6302F	C19170T	F6302F	ORF1AB:F6302F	1901	ORF1b	F1901F	ORF1B:F1901F	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	19645	.	G	T	10534	PASS	681	0.537445	0	"314,0,366,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19381G>T	p.Val6461Phe	19381/21291	19381/21291	6461/7096	6461	7096		",T"	V6461F	G19645T	V6461F	ORF1AB:V6461F	2060	ORF1b	V2060F	ORF1B:V2060F	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	20999	.	A	G	2400	PASS	301	0.322259	0	"203,0,97,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20735A>G	p.Asp6912Gly	20735/21291	20735/21291	6912/7096	6912	7096		",G"	D6912G	A20999G	D6912G	ORF1AB:D6912G	2511	ORF1b	D2511G	ORF1B:D2511G	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	21004	.	G	T	6193	PASS	324	0.666667	0	"108,0,216,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20740G>T	p.Ala6914Ser	20740/21291	20740/21291	6914/7096	6914	7096		",T"	A6914S	G21004T	A6914S	ORF1AB:A6914S	2513	ORF1b	A2513S	ORF1B:A2513S	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	21077	.	CA	C	5017	PASS	309	0.478964	0	"161,0,148,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20817delA	p.Glu6940fs	20817/21291	20817/21291	6939/7096	6939	7096		"INFO_REALIGN_3_PRIME,C"	del6940	CA21077C	del6940	ORF1AB:DEL6940	2539	ORF1b	del2539	ORF1B:DEL2539	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	21295	.	G	T	12527	PASS	366	0.989071	2147483647	"0,0,362,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21031G>T	p.Gly7011Cys	21031/21291	21031/21291	7011/7096	7011	7096		",T"	G7011C	G21295T	G7011C	ORF1AB:G7011C	2610	ORF1b	G2610C	ORF1B:G2610C	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	21733	.	T	C	1388	PASS	39	1	2147483647	"0,0,39,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.171T>C	p.Pro57Pro	171/3822	171/3822	57/1273	57	1273		",C"	P57P	T21733C	P57P	S:P57P	57	S	P57P	S:P57P	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	23230	.	CA	C	375	PASS	41	0.292683	0	"29,0,12,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1673delA	p.Lys558fs	1673/3822	1673/3822	558/1273	558	1273		"INFO_REALIGN_3_PRIME,C"	del558	CA23230C	del558	S:DEL558	558	S	del558	S:DEL558	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	23403	.	A	G	2552	PASS	77	1	2147483647	"0,0,77,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	23804	.	G	T	83	PASS	88	0.079545	0	"81,0,7,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2242G>T	p.Glu748*	2242/3822	2242/3822	748/1273	748	1273		",T"	E748*	G23804T	E748*	S:E748*	748	S	E748*	S:E748*	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	23812	.	CA	C	1453	PASS	89	0.516854	0	"43,0,46,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2252delA	p.Asn751fs	2252/3822	2252/3822	751/1273	751	1273		"INFO_REALIGN_3_PRIME,C"	del751	CA23812C	del751	S:DEL751	751	S	del751	S:DEL751	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25207	.	C	T	4618	PASS	845	0.261538	0	"619,0,221,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3645C>T	p.Tyr1215Tyr	3645/3822	3645/3822	1215/1273	1215	1273		",T"	Y1215Y	C25207T	Y1215Y	S:Y1215Y	1215	S	Y1215Y	S:Y1215Y	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25254	.	C	A	89	PASS	1042	0.023992	0	"1014,0,25,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25296	.	A	C	93	PASS	1004	0.035857	0	"947,0,36,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25301	.	T	G	94	PASS	1000	0.035	0	"965,0,35,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25312	.	T	G	99	PASS	1018	0.033399	0	"978,0,34,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25324	.	C	A	464	PASS	1021	0.073457	0	"945,0,75,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25327	.	A	T	134	PASS	1009	0.03667	0	"972,0,37,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25331	.	G	T	76	PASS	1000	0.035	0	"960,0,35,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25336	.	A	C	222	PASS	998	0.061122	0	"931,0,61,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25563	.	G	T	13726	PASS	718	0.633705	0	"263,0,455,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25710	.	C	T	4264	PASS	386	0.409326	0	"227,0,158,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25906	.	G	C	600	PASS	92	0.271739	0	"67,0,25,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25969	.	TG	T	81	PASS	78	0.038462	0	"75,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.580delG	p.Glu194fs	580/828	580/828	194/275	194	275		"INFO_REALIGN_3_PRIME,T"	del194	TG25969T	del194	ORF3A:DEL194	194	ORF3a	del194	ORF3A:DEL194	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	25996	.	G	T	469	PASS	93	0.225806	0	"72,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	26062	.	G	T	1441	PASS	72	0.652778	0	"25,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	26270	.	C	T	10723	PASS	1071	0.379085	0	"665,0,406,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.26C>T	p.Thr9Ile	26/228	26/228	9/75	9	75		",T"	T9I	C26270T	T9I	E:T9I	9	E	T9I	E:T9I	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	26600	.	C	T	6937	PASS	1665	0.196997	0	"1334,0,328,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.78C>T	p.Phe26Phe	78/669	78/669	26/222	26	222		",T"	F26F	C26600T	F26F	M:F26F	26	M	F26F	M:F26F	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	26735	.	C	T	15755	PASS	1309	0.444614	0	"726,0,582,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	26801	.	C	G	12086	PASS	1148	0.390244	0	"694,0,448,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	26876	.	T	C	5435	PASS	542	0.387454	0	"328,0,210,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	26922	.	C	T	909	PASS	93	0.354839	0	"59,0,33,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.400C>T	p.Leu134Leu	400/669	400/669	134/222	134	222		",T"	L134L	C26922T	L134L	M:L134L	134	M	L134L	M:L134L	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	26959	.	G	A	208	PASS	29	0.275862	0	"21,0,8,0"	FALSE	A	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.437G>A	p.Arg146His	437/669	437/669	146/222	146	222		",A"	R146H	G26959A	R146H	M:R146H	146	M	R146H	M:R146H	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	27264	.	T	C	2657	PASS	603	0.205638	0	"478,0,124,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.63T>C	p.Thr21Thr	63/186	63/186	21/61	21	61		",C"	T21T	T27264C	T21T	ORF6:T21T	21	ORF6	T21T	ORF6:T21T	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	27574	.	A	G	117	PASS	1949	0.017958	0	"1907,0,35,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.181A>G	p.Thr61Ala	181/366	181/366	61/121	61	121		",G"	T61A	A27574G	T61A	ORF7A:T61A	61	ORF7a	T61A	ORF7A:T61A	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	27707	.	C	T	8187	PASS	1990	0.207035	0	"1572,0,412,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	27791	.	CT	C	53	PASS	1617	0.002474	0	"1614,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.41delT	p.Leu14fs	41/132	41/132	14/43	14	43		"INFO_REALIGN_3_PRIME,C"	del14	CT27791C	del14	ORF7B:DEL14	14	ORF7b	del14	ORF7B:DEL14	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	27944	.	C	T	14204	PASS	1343	0.398362	0	"804,0,535,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	27970	.	C	A	6087	PASS	1096	0.241788	0	"831,0,265,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28407	.	T	C	159	PASS	413	0.03632	0	"398,0,15,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.134T>C	p.Leu45Ser	134/1260	134/1260	45/419	45	419		",C"	L45S	T28407C	L45S	N:L45S	45	N	L45S	N:L45S	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28531	.	C	T	3427	PASS	2470	0.087449	0	"2249,0,216,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.258C>T	p.Tyr86Tyr	258/1260	258/1260	86/419	86	419		",T"	Y86Y	C28531T	Y86Y	N:Y86Y	86	N	Y86Y	N:Y86Y	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28657	.	C	T	6312	PASS	3064	0.116514	0	"2703,0,357,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28855	.	A	C	39760	PASS	4668	0.342117	0	"3064,0,1597,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28881	.	G	A	16467	PASS	4420	0.186199	0	"3586,0,823,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28882	.	G	A	15040	PASS	4453	0.183921	0	"3614,0,819,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28883	.	G	C	16888	PASS	4458	0.185958	0	"3616,0,829,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28887	.	C	T	11934	PASS	4430	0.147856	0	"3765,0,655,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28932	.	C	T	47591	PASS	4468	0.41786	0	"2589,0,1867,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28975	.	G	C	18806	PASS	4318	0.218157	0	"3366,0,942,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28977	.	C	T	21038	PASS	4127	0.226072	0	"3182,0,933,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28978	.	T	A	20850	PASS	4130	0.226392	0	"3189,0,935,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	28987	.	CCAA	C	200	PASS	3937	0.003302	0	"3950,0,13,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	29051	.	C	CA	24810	PASS	3470	0.239769	0	"2636,0,832,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH37-1	NC_045512.2	29221	.	A	G	454	PASS	277	0.090253	0	"250,0,25,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.948A>G	p.Gly316Gly	948/1260	948/1260	316/419	316	419		",G"	G316G	A29221G	G316G	N:G316G	316	N	G316G	N:G316G	SCH37-1	SCHIFFLANGE	2020-12-06T00:00:00Z	32.264	34.77	x	1022021	2020-12-06
SCH38-1	NC_045512.2	204	.	G	T	4511	PASS	1771	0.136646	0	"1526,0,242,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	241	.	C	T	49314	PASS	2009	0.998009	2147483647	"0,0,2005,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	302	.	C	T	406	PASS	1829	0.025697	0	"1779,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.37C>T	p.His13Tyr	37/21291	37/21291	13/7096	13	7096		",T"	H13Y	C302T	H13Y	ORF1AB:H13Y	13	ORF1a	H13Y	ORF1A:H13Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	335	.	C	T	4982	PASS	2012	0.129225	0	"1747,0,260,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	445	.	T	C	3213	PASS	2267	0.117336	0	"1992,0,266,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	593	.	C	T	10907	PASS	1957	0.241696	0	"1480,0,473,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	685	.	AAAGTCATTT	A	2247	PASS	2354	0.041206	0	"2258,0,97,0"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.421_429delAAGTCATTT	p.Lys141_Phe143del	421/21291	421/21291	141/7096	141	7096		",A"	del141/143	AAAGTCATTT685A	del141/143	ORF1AB:DEL141/143	141/143	ORF1a	del141/143	ORF1A:DEL141/143	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	802	.	A	C	70	PASS	2015	0.009429	0	"1987,0,19,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	823	.	C	T	7626	PASS	2019	0.179297	0	"1650,0,362,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	847	.	T	G	17722	PASS	2012	0.365308	0	"1276,0,735,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>G	p.Asp194Glu	582/21291	582/21291	194/7096	194	7096		",G"	D194E	T847G	D194E	ORF1AB:D194E	194	ORF1a	D194E	ORF1A:D194E	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	875	.	C	A	16294	PASS	1722	0.376307	0	"1073,0,648,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	913	.	C	T	10696	PASS	1639	0.280049	0	"1177,0,459,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	1245	.	G	A	723	PASS	1844	0.04013	0	"1762,0,74,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.980G>A	p.Gly327Asp	980/21291	980/21291	327/7096	327	7096		",A"	G327D	G1245A	G327D	ORF1AB:G327D	327	ORF1a	G327D	ORF1A:G327D	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	1302	.	C	T	692	PASS	2053	0.03848	0	"1966,0,79,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1037C>T	p.Thr346Ile	1037/21291	1037/21291	346/7096	346	7096		",T"	T346I	C1302T	T346I	ORF1AB:T346I	346	ORF1a	T346I	ORF1A:T346I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	1542	.	G	T	4719	PASS	1987	0.129844	0	"1729,0,258,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1277G>T	p.Arg426Leu	1277/21291	1277/21291	426/7096	426	7096		",T"	R426L	G1542T	R426L	ORF1AB:R426L	426	ORF1a	R426L	ORF1A:R426L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	1544	.	G	T	1524	PASS	2003	0.061907	0	"1877,0,124,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1279G>T	p.Ala427Ser	1279/21291	1279/21291	427/7096	427	7096		",T"	A427S	G1544T	A427S	ORF1AB:A427S	427	ORF1a	A427S	ORF1A:A427S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	1813	.	TA	T	51	PASS	1744	0.00344	0	"1738,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1554delA	p.Gly519fs	1554/21291	1554/21291	518/7096	518	7096		"INFO_REALIGN_3_PRIME,T"	del519	TA1813T	del519	ORF1AB:DEL519	519	ORF1a	del519	ORF1A:DEL519	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	2129	.	G	GA	154	PASS	17	0.294118	0	"12,0,5,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1869dupA	p.Leu624fs	1870/21291	1870/21291	624/7096	624	7096		"INFO_REALIGN_3_PRIME,GA"	del624	G2129GA	del624	ORF1AB:DEL624	624	ORF1a	del624	ORF1A:DEL624	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	2388	.	C	T	165	PASS	189	0.05291	0	"179,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2123C>T	p.Thr708Ile	2123/21291	2123/21291	708/7096	708	7096		",T"	T708I	C2388T	T708I	ORF1AB:T708I	708	ORF1a	T708I	ORF1A:T708I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	2467	.	A	G	772	PASS	650	0.098462	0	"585,0,64,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2202A>G	p.Lys734Lys	2202/21291	2202/21291	734/7096	734	7096		",G"	K734K	A2467G	K734K	ORF1AB:K734K	734	ORF1a	K734K	ORF1A:K734K	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	3036	.	TC	T	46	PASS	1168	0.002568	0	"1168,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772delC	p.Tyr925fs	2772/21291	2772/21291	924/7096	924	7096		",T"	del925	TC3036T	del925	ORF1AB:DEL925	925	ORF1a	del925	ORF1A:DEL925	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	3037	.	C	T	40682	PASS	1187	0.995788	2147483647	"0,0,1182,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	3352	.	T	G	820	PASS	218	0.192661	0	"176,0,42,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3087T>G	p.Ser1029Arg	3087/21291	3087/21291	1029/7096	1029	7096		",G"	S1029R	T3352G	S1029R	ORF1AB:S1029R	1029	ORF1a	S1029R	ORF1A:S1029R	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	3602	.	C	T	570	PASS	171	0.169591	0	"140,0,29,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	3634	.	CA	C	93	PASS	182	0.021978	0	"178,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3372delA	p.Gly1125fs	3372/21291	3372/21291	1124/7096	1124	7096		"INFO_REALIGN_3_PRIME,C"	del1125	CA3634C	del1125	ORF1AB:DEL1125	1125	ORF1a	del1125	ORF1A:DEL1125	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	3766	.	T	C	212	PASS	85	0.105882	0	"76,0,9,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3501T>C	p.Asp1167Asp	3501/21291	3501/21291	1167/7096	1167	7096		",C"	D1167D	T3766C	D1167D	ORF1AB:D1167D	1167	ORF1a	D1167D	ORF1A:D1167D	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	4543	.	C	T	499	PASS	158	0.170886	0	"131,0,27,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	4747	.	TA	T	472	PASS	465	0.04086	0	"446,0,19,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4486delA	p.Thr1496fs	4486/21291	4486/21291	1496/7096	1496	7096		"INFO_REALIGN_3_PRIME,T"	del1496	TA4747T	del1496	ORF1AB:DEL1496	1496	ORF1a	del1496	ORF1A:DEL1496	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	4780	.	C	T	303	PASS	565	0.040708	0	"540,0,23,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4515C>T	p.Ile1505Ile	4515/21291	4515/21291	1505/7096	1505	7096		",T"	I1505I	C4780T	I1505I	ORF1AB:I1505I	1505	ORF1a	I1505I	ORF1A:I1505I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	4982	.	A	G	859	PASS	887	0.0823	0	"811,0,73,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4717A>G	p.Thr1573Ala	4717/21291	4717/21291	1573/7096	1573	7096		",G"	T1573A	A4982G	T1573A	ORF1AB:T1573A	1573	ORF1a	T1573A	ORF1A:T1573A	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	5104	.	T	A	1624	PASS	1198	0.084307	0	"1097,0,101,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4839T>A	p.His1613Gln	4839/21291	4839/21291	1613/7096	1613	7096		",A"	H1613Q	T5104A	H1613Q	ORF1AB:H1613Q	1613	ORF1a	H1613Q	ORF1A:H1613Q	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	5386	.	T	C	243	PASS	805	0.037267	0	"773,0,30,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5121T>C	p.Ala1707Ala	5121/21291	5121/21291	1707/7096	1707	7096		",C"	A1707A	T5386C	A1707A	ORF1AB:A1707A	1707	ORF1a	A1707A	ORF1A:A1707A	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	5629	.	G	T	6287	PASS	387	0.550388	0	"173,0,213,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	5884	.	C	T	459	PASS	385	0.080519	0	"352,0,31,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	6044	.	AATT	A	991	PASS	511	0.082192	0	"470,0,42,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5780_5782delATT	p.Asn1927_Phe1928delinsIle	5780/21291	5780/21291	1927/7096	1927	7096		",A"	indel	AATT6044A	NA	NA	NA	ORF1a	NA	NA	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	6047	.	T	A	73	PASS	524	0.020992	0	"471,0,11,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5782T>A	p.Phe1928Ile	5782/21291	5782/21291	1928/7096	1928	7096		",A"	F1928I	T6047A	F1928I	ORF1AB:F1928I	1928	ORF1a	F1928I	ORF1A:F1928I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	6555	.	C	T	525	PASS	664	0.070783	0	"610,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6290C>T	p.Ala2097Val	6290/21291	6290/21291	2097/7096	2097	7096		",T"	A2097V	C6555T	A2097V	ORF1AB:A2097V	2097	ORF1a	A2097V	ORF1A:A2097V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	6907	.	A	T	945	PASS	399	0.122807	0	"350,0,49,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6642A>T	p.Ser2214Ser	6642/21291	6642/21291	2214/7096	2214	7096		",T"	S2214S	A6907T	S2214S	ORF1AB:S2214S	2214	ORF1a	S2214S	ORF1A:S2214S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	6941	.	C	T	5109	PASS	442	0.434389	0	"250,0,192,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	7685	.	T	G	83	PASS	592	0.021959	0	"578,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7420T>G	p.Ser2474Ala	7420/21291	7420/21291	2474/7096	2474	7096		",G"	S2474A	T7685G	S2474A	ORF1AB:S2474A	2474	ORF1a	S2474A	ORF1A:S2474A	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	7834	.	C	T	1950	PASS	652	0.153374	0	"550,0,100,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7569C>T	p.Asn2523Asn	7569/21291	7569/21291	2523/7096	2523	7096		",T"	N2523N	C7834T	N2523N	ORF1AB:N2523N	2523	ORF1a	N2523N	ORF1A:N2523N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	7942	.	T	C	3453	PASS	782	0.21867	0	"608,0,171,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7677T>C	p.Val2559Val	7677/21291	7677/21291	2559/7096	2559	7096		",C"	V2559V	T7942C	V2559V	ORF1AB:V2559V	2559	ORF1a	V2559V	ORF1A:V2559V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	7992	.	T	C	4446	PASS	770	0.251948	0	"575,0,194,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7727T>C	p.Leu2576Ser	7727/21291	7727/21291	2576/7096	2576	7096		",C"	L2576S	T7992C	L2576S	ORF1AB:L2576S	2576	ORF1a	L2576S	ORF1A:L2576S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	8084	.	GA	G	3480	PASS	768	0.157552	0	"650,0,121,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7824delA	p.Lys2608fs	7824/21291	7824/21291	2608/7096	2608	7096		"INFO_REALIGN_3_PRIME,G"	del2608	GA8084G	del2608	ORF1AB:DEL2608	2608	ORF1a	del2608	ORF1A:DEL2608	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	8310	.	A	G	1496	PASS	545	0.148624	0	"461,0,81,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8045A>G	p.Asn2682Ser	8045/21291	8045/21291	2682/7096	2682	7096		",G"	N2682S	A8310G	N2682S	ORF1AB:N2682S	2682	ORF1a	N2682S	ORF1A:N2682S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	8376	.	CA	C	558	PASS	387	0.056848	0	"365,0,22,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	8618	.	G	A	510	PASS	325	0.101538	0	"291,0,33,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8353G>A	p.Ala2785Thr	8353/21291	8353/21291	2785/7096	2785	7096		",A"	A2785T	G8618A	A2785T	ORF1AB:A2785T	2785	ORF1a	A2785T	ORF1A:A2785T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	8638	.	A	G	370	PASS	356	0.095506	0	"321,0,34,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8373A>G	p.Thr2791Thr	8373/21291	8373/21291	2791/7096	2791	7096		",G"	T2791T	A8638G	T2791T	ORF1AB:T2791T	2791	ORF1a	T2791T	ORF1A:T2791T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	8983	.	T	G	3934	PASS	601	0.276206	0	"432,0,166,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	9314	.	G	GT	1331	PASS	953	0.055614	0	"901,0,53,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9053dupT	p.Cys3019fs	9054/21291	9054/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,GT"	del3019	G9314GT	del3019	ORF1AB:DEL3019	3019	ORF1a	del3019	ORF1A:DEL3019	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	9344	.	C	T	861	PASS	1093	0.063129	0	"1021,0,69,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9079C>T	p.Leu3027Phe	9079/21291	9079/21291	3027/7096	3027	7096		",T"	L3027F	C9344T	L3027F	ORF1AB:L3027F	3027	ORF1a	L3027F	ORF1A:L3027F	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	9526	.	G	T	35987	PASS	1861	0.657711	0	"632,0,1224,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	9924	.	CA	C	3709	PASS	1807	0.077476	0	"1667,0,140,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9661delA	p.Met3221fs	9661/21291	9661/21291	3221/7096	3221	7096		"INFO_REALIGN_3_PRIME,C"	del3221	CA9924C	del3221	ORF1AB:DEL3221	3221	ORF1a	del3221	ORF1A:DEL3221	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	10160	.	G	GT	6513	PASS	1668	0.133693	0	"1447,0,223,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9898dupT	p.Tyr3300fs	9899/21291	9899/21291	3300/7096	3300	7096		"INFO_REALIGN_3_PRIME,GT"	del3300	G10160GT	del3300	ORF1AB:DEL3300	3300	ORF1a	del3300	ORF1A:DEL3300	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	10909	.	T	C	947	PASS	824	0.09466	0	"742,0,78,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10644T>C	p.Ala3548Ala	10644/21291	10644/21291	3548/7096	3548	7096		",C"	A3548A	T10909C	A3548A	ORF1AB:A3548A	3548	ORF1a	A3548A	ORF1A:A3548A	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	11082	.	TG	T	505	PASS	1616	0.016089	0	"1594,0,26,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	11083	.	G	T	9742	PASS	1620	0.319136	0	"1075,0,517,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	11497	.	C	T	4260	PASS	1461	0.150582	0	"1238,0,220,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	12242	.	C	T	3946	PASS	1056	0.179924	0	"863,0,190,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11977C>T	p.Arg3993Cys	11977/21291	11977/21291	3993/7096	3993	7096		",T"	R3993C	C12242T	R3993C	ORF1AB:R3993C	3993	ORF1a	R3993C	ORF1A:R3993C	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	12623	.	C	A	2967	PASS	2426	0.089448	0	"2207,0,217,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12358C>A	p.Pro4120Thr	12358/21291	12358/21291	4120/7096	4120	7096		",A"	P4120T	C12623A	P4120T	ORF1AB:P4120T	4120	ORF1a	P4120T	ORF1A:P4120T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	12926	.	A	G	3110	PASS	2691	0.074322	0	"2489,0,200,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12661A>G	p.Lys4221Glu	12661/21291	12661/21291	4221/7096	4221	7096		",G"	K4221E	A12926G	K4221E	ORF1AB:K4221E	4221	ORF1a	K4221E	ORF1A:K4221E	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	13123	.	TG	T	46	PASS	3375	0.001481	0	"3425,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	13576	.	G	T	2989	PASS	1928	0.100104	0	"1732,0,193,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13312G>T	p.Ala4438Ser	13312/21291	13312/21291	4438/7096	4438	7096		",T"	A4438S	G13576T	A4438S	ORF1AB:A4438S	37	ORF1b	A37S	ORF1B:A37S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	13945	.	C	T	17663	PASS	2215	0.325056	0	"1492,0,720,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13681C>T	p.Pro4561Ser	13681/21291	13681/21291	4561/7096	4561	7096		",T"	P4561S	C13945T	P4561S	ORF1AB:P4561S	160	ORF1b	P160S	ORF1B:P160S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	13993	.	G	T	19651	PASS	1813	0.409818	0	"1070,0,743,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	14110	.	C	CA	52	PASS	792	0.003788	0	"789,0,3,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13849dupA	p.Thr4617fs	13850/21291	13850/21291	4617/7096	4617	7096		"INFO_REALIGN_3_PRIME,CA"	del4617	C14110CA	del4617	ORF1AB:DEL4617	216	ORF1b	del216	ORF1B:DEL216	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	14408	.	C	T	1133	PASS	36	0.972222	2147483647	"0,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	14431	.	AG	A	107	PASS	42	0.095238	0	"38,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14168delG	p.Arg4723fs	14168/21291	14168/21291	4723/7096	4723	7096		",A"	del4723	AG14431A	del4723	ORF1AB:DEL4723	322	ORF1b	del322	ORF1B:DEL322	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	15324	.	C	T	2755	PASS	1014	0.146943	0	"859,0,149,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	15579	.	C	T	1117	PASS	947	0.077086	0	"872,0,73,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15315C>T	p.Asn5105Asn	15315/21291	15315/21291	5105/7096	5105	7096		",T"	N5105N	C15579T	N5105N	ORF1AB:N5105N	704	ORF1b	N704N	ORF1B:N704N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	15766	.	G	T	13714	PASS	691	0.674385	0	"222,0,466,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	15789	.	G	T	572	PASS	629	0.065183	0	"588,0,41,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15525G>T	p.Lys5175Asn	15525/21291	15525/21291	5175/7096	5175	7096		",T"	K5175N	G15789T	K5175N	ORF1AB:K5175N	774	ORF1b	K774N	ORF1B:K774N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	15810	.	C	T	344	PASS	534	0.065543	0	"497,0,35,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15546C>T	p.Asn5182Asn	15546/21291	15546/21291	5182/7096	5182	7096		",T"	N5182N	C15810T	N5182N	ORF1AB:N5182N	781	ORF1b	N781N	ORF1B:N781N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	15965	.	G	GT	57	PASS	34	0.058824	0	"32,0,2,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15705dupT	p.Val5236fs	15706/21291	15706/21291	5236/7096	5236	7096		"INFO_REALIGN_3_PRIME,GT"	del5236	G15965GT	del5236	ORF1AB:DEL5236	835	ORF1b	del835	ORF1B:DEL835	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	16040	.	A	AC	126	PASS	35	0.114286	0	"31,0,4,0"	TRUE	AC	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15779dupC	p.Leu5261fs	15780/21291	15780/21291	5260/7096	5260	7096		"INFO_REALIGN_3_PRIME,AC"	del5261	A16040AC	del5261	ORF1AB:DEL5261	860	ORF1b	del860	ORF1B:DEL860	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	16423	.	C	CT	4553	PASS	1640	0.097561	0	"1480,0,160,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16162dupT	p.Tyr5388fs	16163/21291	16163/21291	5388/7096	5388	7096		"INFO_REALIGN_3_PRIME,CT"	del5388	C16423CT	del5388	ORF1AB:DEL5388	987	ORF1b	del987	ORF1B:DEL987	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	16597	.	AT	A	47	PASS	2704	0.001479	0	"2702,0,4,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16337delT	p.Leu5446fs	16337/21291	16337/21291	5446/7096	5446	7096		"INFO_REALIGN_3_PRIME,A"	del5446	AT16597A	del5446	ORF1AB:DEL5446	1045	ORF1b	del1045	ORF1B:DEL1045	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	16887	.	C	T	11409	PASS	2219	0.230284	0	"1703,0,511,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16623C>T	p.Tyr5541Tyr	16623/21291	16623/21291	5541/7096	5541	7096		",T"	Y5541Y	C16887T	Y5541Y	ORF1AB:Y5541Y	1140	ORF1b	Y1140Y	ORF1B:Y1140Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	16889	.	A	G	38028	PASS	2233	0.570085	0	"956,0,1273,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	16935	.	G	T	93	PASS	2091	0.010043	0	"2069,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16671G>T	p.Met5557Ile	16671/21291	16671/21291	5557/7096	5557	7096		",T"	M5557I	G16935T	M5557I	ORF1AB:M5557I	1156	ORF1b	M1156I	ORF1B:M1156I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	16975	.	G	T	71	PASS	1831	0.008738	0	"1813,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16711G>T	p.Val5571Phe	16711/21291	16711/21291	5571/7096	5571	7096		",T"	V5571F	G16975T	V5571F	ORF1AB:V5571F	1170	ORF1b	V1170F	ORF1B:V1170F	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	17019	.	G	T	19813	PASS	1214	0.57084	0	"518,0,693,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	17044	.	CA	C	1501	PASS	1041	0.057637	0	"981,0,60,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16784delA	p.Lys5595fs	16784/21291	16784/21291	5595/7096	5595	7096		"INFO_REALIGN_3_PRIME,C"	del5595	CA17044C	del5595	ORF1AB:DEL5595	1194	ORF1b	del1194	ORF1B:DEL1194	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	17178	.	T	G	477	PASS	298	0.104027	0	"266,0,31,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16914T>G	p.Val5638Val	16914/21291	16914/21291	5638/7096	5638	7096		",G"	V5638V	T17178G	V5638V	ORF1AB:V5638V	1237	ORF1b	V1237V	ORF1B:V1237V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	17304	.	C	T	498	PASS	293	0.109215	0	"260,0,32,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17040C>T	p.Val5680Val	17040/21291	17040/21291	5680/7096	5680	7096		",T"	V5680V	C17304T	V5680V	ORF1AB:V5680V	1279	ORF1b	V1279V	ORF1B:V1279V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	17559	.	T	C	98	PASS	2232	0.010753	0	"2206,0,24,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17295T>C	p.Cys5765Cys	17295/21291	17295/21291	5765/7096	5765	7096		",C"	C5765C	T17559C	C5765C	ORF1AB:C5765C	1364	ORF1b	C1364C	ORF1B:C1364C	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	17615	.	A	G	4508	PASS	1991	0.125565	0	"1739,0,250,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	17658	.	GT	G	67	PASS	2266	0.002207	0	"2264,0,5,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17398delT	p.Tyr5800fs	17398/21291	17398/21291	5800/7096	5800	7096		"INFO_REALIGN_3_PRIME,G"	del5800	GT17658G	del5800	ORF1AB:DEL5800	1399	ORF1b	del1399	ORF1B:DEL1399	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	17773	.	T	C	76	PASS	3235	0.00711	0	"3205,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17509T>C	p.Ser5837Pro	17509/21291	17509/21291	5837/7096	5837	7096		",C"	S5837P	T17773C	S5837P	ORF1AB:S5837P	1436	ORF1b	S1436P	ORF1B:S1436P	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	18348	.	C	T	681	PASS	435	0.101149	0	"389,0,44,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18084C>T	p.Thr6028Thr	18084/21291	18084/21291	6028/7096	6028	7096		",T"	T6028T	C18348T	T6028T	ORF1AB:T6028T	1627	ORF1b	T1627T	ORF1B:T1627T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	18529	.	A	G	533	PASS	540	0.07963	0	"496,0,43,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18265A>G	p.Ile6089Val	18265/21291	18265/21291	6089/7096	6089	7096		",G"	I6089V	A18529G	I6089V	ORF1AB:I6089V	1688	ORF1b	I1688V	ORF1B:I1688V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	18564	.	A	G	1148	PASS	508	0.127953	0	"441,0,65,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18300A>G	p.Lys6100Lys	18300/21291	18300/21291	6100/7096	6100	7096		",G"	K6100K	A18564G	K6100K	ORF1AB:K6100K	1699	ORF1b	K1699K	ORF1B:K1699K	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	18687	.	CT	C	59	PASS	1417	0.002823	0	"1413,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18427delT	p.Ser6143fs	18427/21291	18427/21291	6143/7096	6143	7096		"INFO_REALIGN_3_PRIME,C"	del6143	CT18687C	del6143	ORF1AB:DEL6143	1742	ORF1b	del1742	ORF1B:DEL1742	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	18706	.	A	G	94	PASS	1686	0.012456	0	"1661,0,21,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18442A>G	p.Thr6148Ala	18442/21291	18442/21291	6148/7096	6148	7096		",G"	T6148A	A18706G	T6148A	ORF1AB:T6148A	1747	ORF1b	T1747A	ORF1B:T1747A	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	18877	.	C	T	40295	PASS	2372	0.581366	0	"990,0,1379,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	18948	.	G	T	5173	PASS	3142	0.096754	0	"2836,0,304,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18684G>T	p.Leu6228Leu	18684/21291	18684/21291	6228/7096	6228	7096		",T"	L6228L	G18948T	L6228L	ORF1AB:L6228L	1827	ORF1b	L1827L	ORF1B:L1827L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	18984	.	G	T	10411	PASS	3230	0.163467	0	"2699,0,528,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18720G>T	p.Met6240Ile	18720/21291	18720/21291	6240/7096	6240	7096		",T"	M6240I	G18984T	M6240I	ORF1AB:M6240I	1839	ORF1b	M1839I	ORF1B:M1839I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	19269	.	C	T	2515	PASS	2374	0.07203	0	"2199,0,171,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19005C>T	p.Asn6335Asn	19005/21291	19005/21291	6335/7096	6335	7096		",T"	N6335N	C19269T	N6335N	ORF1AB:N6335N	1934	ORF1b	N1934N	ORF1B:N1934N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	19291	.	A	T	2383	PASS	2470	0.068826	0	"2300,0,170,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19027A>T	p.Ser6343Cys	19027/21291	19027/21291	6343/7096	6343	7096		",T"	S6343C	A19291T	S6343C	ORF1AB:S6343C	1942	ORF1b	S1942C	ORF1B:S1942C	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	19368	.	A	AT	889	PASS	2030	0.021182	0	"2013,0,43,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19109dupT	p.Tyr6371fs	19110/21291	19110/21291	6370/7096	6370	7096		"INFO_REALIGN_3_PRIME,AT"	del6371	A19368AT	del6371	ORF1AB:DEL6371	1970	ORF1b	del1970	ORF1B:DEL1970	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	19524	.	C	T	1236	PASS	1131	0.074271	0	"1042,0,84,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19260C>T	p.Leu6420Leu	19260/21291	19260/21291	6420/7096	6420	7096		",T"	L6420L	C19524T	L6420L	ORF1AB:L6420L	2019	ORF1b	L2019L	ORF1B:L2019L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	20451	.	C	T	1421	PASS	1135	0.0837	0	"1037,0,95,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20187C>T	p.Asn6729Asn	20187/21291	20187/21291	6729/7096	6729	7096		",T"	N6729N	C20451T	N6729N	ORF1AB:N6729N	2328	ORF1b	N2328N	ORF1B:N2328N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	20574	.	CA	C	2455	PASS	1765	0.055524	0	"1667,0,98,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20313delA	p.Val6772fs	20313/21291	20313/21291	6771/7096	6771	7096		"INFO_REALIGN_3_PRIME,C"	del6772	CA20574C	del6772	ORF1AB:DEL6772	2371	ORF1b	del2371	ORF1B:DEL2371	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	20580	.	G	T	1721	PASS	1749	0.070326	0	"1625,0,123,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20316G>T	p.Val6772Val	20316/21291	20316/21291	6772/7096	6772	7096		",T"	V6772V	G20580T	V6772V	ORF1AB:V6772V	2371	ORF1b	V2371V	ORF1B:V2371V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	20762	.	C	T	3832	PASS	2316	0.098877	0	"2078,0,229,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20498C>T	p.Thr6833Ile	20498/21291	20498/21291	6833/7096	6833	7096		",T"	T6833I	C20762T	T6833I	ORF1AB:T6833I	2432	ORF1b	T2432I	ORF1B:T2432I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	20823	.	C	T	3217	PASS	2057	0.096743	0	"1851,0,199,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20559C>T	p.Asn6853Asn	20559/21291	20559/21291	6853/7096	6853	7096		",T"	N6853N	C20823T	N6853N	ORF1AB:N6853N	2452	ORF1b	N2452N	ORF1B:N2452N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21222	.	A	T	3765	PASS	1335	0.149813	0	"1134,0,200,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21255	.	G	C	12110	PASS	1603	0.30942	0	"1100,0,496,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21501	.	A	G	4117	PASS	1383	0.155459	0	"1165,0,215,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21237A>G	p.Ile7079Met	21237/21291	21237/21291	7079/7096	7079	7096		",G"	I7079M	A21501G	I7079M	ORF1AB:I7079M	2678	ORF1b	I2678M	ORF1B:I2678M	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21575	.	C	T	298	PASS	1291	0.026336	0	"1251,0,34,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21638	.	C	T	425	PASS	1113	0.044025	0	"1053,0,49,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.76C>T	p.Pro26Ser	76/3822	76/3822	26/1273	26	1273		",T"	P26S	C21638T	P26S	S:P26S	26	S	P26S	S:P26S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21764	.	ATACATG	A	1468	PASS	573	0.095986	0	"521,0,55,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21802	.	T	C	1831	PASS	643	0.147745	0	"545,0,95,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.240T>C	p.Asp80Asp	240/3822	240/3822	80/1273	80	1273		",C"	D80D	T21802C	D80D	S:D80D	80	S	D80D	S:D80D	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21855	.	C	T	9345	PASS	749	0.451268	0	"409,0,338,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	21984	.	T	TG	1481	PASS	634	0.086751	0	"580,0,55,0"	TRUE	TG	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.425dupG	p.Val143fs	426/3822	426/3822	142/1273	142	1273		"INFO_REALIGN_3_PRIME,TG"	del143	T21984TG	del143	S:DEL143	143	S	del143	S:DEL143	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	22006	.	C	T	956	PASS	619	0.113086	0	"547,0,70,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.444C>T	p.Asn148Asn	444/3822	444/3822	148/1273	148	1273		",T"	N148N	C22006T	N148N	S:N148N	148	S	N148N	S:N148N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	22105	.	A	G	1471	PASS	512	0.152344	0	"434,0,78,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.543A>G	p.Gly181Gly	543/3822	543/3822	181/1273	181	1273		",G"	G181G	A22105G	G181G	S:G181G	181	S	G181G	S:G181G	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	22992	.	G	A	7798	PASS	555	0.515315	0	"267,0,286,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	23218	.	T	C	464	PASS	555	0.059459	0	"521,0,33,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1656T>C	p.Leu552Leu	1656/3822	1656/3822	552/1273	552	1273		",C"	L552L	T23218C	L552L	S:L552L	552	S	L552L	S:L552L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	23403	.	A	G	15210	PASS	456	0.997807	2147483647	"0,0,455,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	23903	.	G	GT	525	PASS	609	0.037767	0	"593,0,23,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2346dupT	p.Ala783fs	2347/3822	2347/3822	783/1273	783	1273		"INFO_REALIGN_3_PRIME,GT"	del783	G23903GT	del783	S:DEL783	783	S	del783	S:DEL783	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	23924	.	AT	A	595	PASS	504	0.045635	0	"483,0,23,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2365delT	p.Tyr789fs	2365/3822	2365/3822	789/1273	789	1273		"INFO_REALIGN_3_PRIME,A"	del789	AT23924A	del789	S:DEL789	789	S	del789	S:DEL789	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	23948	.	G	T	291	PASS	447	0.055928	0	"422,0,25,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2386G>T	p.Asp796Tyr	2386/3822	2386/3822	796/1273	796	1273		",T"	D796Y	G23948T	D796Y	S:D796Y	796	S	D796Y	S:D796Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	23998	.	A	G	445	PASS	356	0.087079	0	"325,0,31,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2436A>G	p.Pro812Pro	2436/3822	2436/3822	812/1273	812	1273		",G"	P812P	A23998G	P812P	S:P812P	812	S	P812P	S:P812P	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	24442	.	C	T	295	PASS	920	0.031522	0	"890,0,29,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2880C>T	p.Asn960Asn	2880/3822	2880/3822	960/1273	960	1273		",T"	N960N	C24442T	N960N	S:N960N	960	S	N960N	S:N960N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	24917	.	A	G	108	PASS	988	0.018219	0	"968,0,18,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3355A>G	p.Asn1119Asp	3355/3822	3355/3822	1119/1273	1119	1273		",G"	N1119D	A24917G	N1119D	S:N1119D	1119	S	N1119D	S:N1119D	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25024	.	A	G	691	PASS	1503	0.042582	0	"1433,0,64,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3462A>G	p.Lys1154Lys	3462/3822	3462/3822	1154/1273	1154	1273		",G"	K1154K	A25024G	K1154K	S:K1154K	1154	S	K1154K	S:K1154K	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25225	.	A	C	104	PASS	1490	0.020805	0	"1452,0,31,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25277	.	A	T	160	PASS	1631	0.032495	0	"1565,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25286	.	A	T	79	PASS	1715	0.025656	0	"1650,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25296	.	A	C	210	PASS	1694	0.040732	0	"1591,0,69,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25301	.	T	G	79	PASS	1682	0.02497	0	"1637,0,42,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25312	.	T	G	82	PASS	1713	0.023935	0	"1666,0,41,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25314	.	G	T	107	PASS	1720	0.02907	0	"1658,0,50,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25324	.	C	A	602	PASS	1730	0.06474	0	"1618,0,112,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25327	.	A	T	116	PASS	1701	0.027043	0	"1655,0,46,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25331	.	G	T	82	PASS	1684	0.030285	0	"1620,0,51,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25336	.	A	C	222	PASS	1671	0.047277	0	"1577,0,79,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25505	.	A	G	7317	PASS	1379	0.245105	0	"1037,0,338,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25563	.	G	T	15428	PASS	1252	0.447284	0	"692,0,560,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25593	.	G	T	247	PASS	1334	0.025487	0	"1299,0,34,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25710	.	C	T	12918	PASS	746	0.577748	0	"312,0,431,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25844	.	C	T	84	PASS	254	0.031496	0	"246,0,8,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.452C>T	p.Thr151Ile	452/828	452/828	151/275	151	275		",T"	T151I	C25844T	T151I	ORF3A:T151I	151	ORF3a	T151I	ORF3A:T151I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25906	.	G	C	451	PASS	286	0.101399	0	"256,0,29,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	25996	.	G	T	551	PASS	336	0.110119	0	"298,0,37,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	26062	.	G	T	644	PASS	271	0.140221	0	"233,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	26491	.	TAG	T	9552	PASS	3539	0.101724	0	"3250,0,360,0"	TRUE	T	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-31_-30delAG						NA	31	",T"	del	TAG26491T	del	M:DEL	NA	M	del	M:DEL	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	26537	.	C	T	13230	PASS	3251	0.188557	0	"2636,0,613,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.15C>T	p.Asn5Asn	15/669	15/669	5/222	5	222		",T"	N5N	C26537T	N5N	M:N5N	5	M	N5N	M:N5N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	26654	.	G	GT	74	PASS	2734	0.002195	0	"2741,0,6,0"	TRUE	GT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.137dupT	p.Leu46fs	138/669	138/669	46/222	46	222		"INFO_REALIGN_3_PRIME,GT"	del46	G26654GT	del46	M:DEL46	46	M	del46	M:DEL46	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	26735	.	C	T	36314	PASS	2343	0.536065	0	"1082,0,1256,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	26801	.	C	G	16365	PASS	1967	0.321301	0	"1332,0,632,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	26876	.	T	C	13936	PASS	964	0.514523	0	"464,0,496,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	26907	.	C	T	1063	PASS	482	0.114108	0	"426,0,55,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.385C>T	p.Leu129Leu	385/669	385/669	129/222	129	222		",T"	L129L	C26907T	L129L	M:L129L	129	M	L129L	M:L129L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	27342	.	T	C	1592	PASS	1835	0.06485	0	"1709,0,119,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.141T>C	p.Asn47Asn	141/186	141/186	47/61	47	61		",C"	N47N	T27342C	N47N	ORF6:N47N	47	ORF6	N47N	ORF6:N47N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	27707	.	C	T	7734	PASS	2351	0.17014	0	"1945,0,400,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	27800	.	C	A	2772	PASS	1800	0.098889	0	"1620,0,178,0"	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	27938	.	A	AT	778	PASS	1844	0.01898	0	"1813,0,35,0"	TRUE	AT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.48dupT	p.His17fs	49/366	49/366	17/121	17	121		"INFO_REALIGN_3_PRIME,AT"	del17	A27938AT	del17	ORF8:DEL17	17	ORF8	del17	ORF8:DEL17	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	27944	.	C	T	9644	PASS	1830	0.230055	0	"1407,0,421,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	27970	.	C	A	2125	PASS	1530	0.083007	0	"1402,0,127,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.77C>A	p.Thr26Asn	77/366	77/366	26/121	26	121		",A"	T26N	C27970A	T26N	ORF8:T26N	26	ORF8	T26N	ORF8:T26N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28133	.	A	T	2457	PASS	957	0.132706	0	"826,0,127,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28165	.	A	G	101	PASS	892	0.017937	0	"874,0,16,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.272A>G	p.Gln91Arg	272/366	272/366	91/121	91	121		",G"	Q91R	A28165G	Q91R	ORF8:Q91R	91	ORF8	Q91R	ORF8:Q91R	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28214	.	C	CT	1257	PASS	951	0.053628	0	"900,0,51,0"	TRUE	CT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.326dupT	p.Leu109fs	327/366	327/366	109/121	109	121		"INFO_REALIGN_3_PRIME,CT"	del109	C28214CT	del109	ORF8:DEL109	109	ORF8	del109	ORF8:DEL109	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28292	.	C	CA	1723	PASS	1259	0.0556	0	"1189,0,70,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.23dupA	p.Asn8fs	24/1260	24/1260	8/419	8	419		"INFO_REALIGN_3_PRIME,CA"	del8	C28292CA	del8	N:DEL8	8	N	del8	N:DEL8	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28384	.	A	T	4990	PASS	1395	0.180645	0	"1142,0,252,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.111A>T	p.Ser37Ser	111/1260	111/1260	37/419	37	419		",T"	S37S	A28384T	S37S	N:S37S	37	N	S37S	N:S37S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28651	.	C	T	15139	PASS	2353	0.274968	0	"1701,0,647,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28798	.	G	A	5389	PASS	3609	0.098642	0	"3245,0,356,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28855	.	A	C	4114	PASS	3426	0.08202	0	"3139,0,281,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28869	.	C	T	18428	PASS	3400	0.242941	0	"2565,0,826,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28887	.	C	T	4510	PASS	3241	0.09133	0	"2940,0,296,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28932	.	C	T	10828	PASS	3299	0.170355	0	"2725,0,562,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28975	.	G	C	35287	PASS	3134	0.41672	0	"1824,0,1306,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH38-1	NC_045512.2	28987	.	CCAA	C	139	PASS	2887	0.003117	0	"2883,0,9,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH38-1	SCHIFFLANGE	2020-12-13T00:00:00Z	32.10475	34.66	x	1022021	2020-12-13
SCH46-1	NC_045512.2	210	.	G	T	3576	PASS	518	0.283784	7	"295,76,109,38"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-56G>T						NA	56	",T"		G210T		NA	NA	NA		NA	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	241	.	C	T	22107	PASS	630	0.998413	0	"0,0,434,195"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	478	.	C	CA	5655	PASS	669	0.2571	2	"244,259,79,93"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.216dupA	p.Arg73fs	217/21291	217/21291	73/7096	73	7096		"INFO_REALIGN_3_PRIME,CA"	del73	C478CA	del73	ORF1AB:DEL73	73	ORF1a	del73	ORF1A:DEL73	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	913	.	C	T	2123	PASS	139	0.510791	1	"43,25,42,29"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	1260	.	AG	A	3063	PASS	661	0.161876	19	"460,95,99,8"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.996delG	p.Thr333fs	996/21291	996/21291	332/7096	332	7096		",A"	del333	AG1260A	del333	ORF1AB:DEL333	333	ORF1a	del333	ORF1A:DEL333	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	1813	.	TA	T	970	PASS	774	0.063307	1	"236,489,17,32"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1554delA	p.Gly519fs	1554/21291	1554/21291	518/7096	518	7096		"INFO_REALIGN_3_PRIME,T"	del519	TA1813T	del519	ORF1AB:DEL519	519	ORF1a	del519	ORF1A:DEL519	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	2453	.	C	T	782	PASS	201	0.174129	0	"140,25,30,5"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2188C>T	p.Leu730Phe	2188/21291	2188/21291	730/7096	730	7096		",T"	L730F	C2453T	L730F	ORF1AB:L730F	730	ORF1a	L730F	ORF1A:L730F	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	2583	.	CTG	C	1113	PASS	249	0.148594	4	"123,89,25,12"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2320_2321delGT	p.Val774fs	2320/21291	2320/21291	774/7096	774	7096		"INFO_REALIGN_3_PRIME,C"	del774	CTG2583C	del774	ORF1AB:DEL774	774	ORF1a	del774	ORF1A:DEL774	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	3037	.	C	T	7971	PASS	217	1	0	"0,0,81,136"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	3229	.	TG	T	267	PASS	66	0.136364	4	"9,48,0,9"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2966delG	p.Gly989fs	2966/21291	2966/21291	989/7096	989	7096		"INFO_REALIGN_3_PRIME,T"	del989	TG3229T	del989	ORF1AB:DEL989	989	ORF1a	del989	ORF1A:DEL989	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	3267	.	C	T	119	PASS	13	0.384615	2	"5,3,2,3"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3002C>T	p.Thr1001Ile	3002/21291	3002/21291	1001/7096	1001	7096		",T"	T1001I	C3267T	T1001I	ORF1AB:T1001I	1001	ORF1a	T1001I	ORF1A:T1001I	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	4820	.	C	A	481	PASS	66	0.272727	0	"38,10,14,4"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4555C>A	p.Gln1519Lys	4555/21291	4555/21291	1519/7096	1519	7096		",A"	Q1519K	C4820A	Q1519K	ORF1AB:Q1519K	1519	ORF1a	Q1519K	ORF1A:Q1519K	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	4967	.	A	G	1019	PASS	78	0.448718	0	"25,18,20,15"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4702A>G	p.Ile1568Val	4702/21291	4702/21291	1568/7096	1568	7096		",G"	I1568V	A4967G	I1568V	ORF1AB:I1568V	1568	ORF1a	I1568V	ORF1A:I1568V	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	5388	.	C	A	2203	PASS	63	1	0	"0,0,22,41"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	5986	.	C	T	8672	PASS	237	1	0	"0,0,212,25"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5721C>T	p.Phe1907Phe	5721/21291	5721/21291	1907/7096	1907	7096		",T"	F1907F	C5986T	F1907F	ORF1AB:F1907F	1907	ORF1a	F1907F	ORF1A:F1907F	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	6338	.	T	C	2698	PASS	324	0.320988	0	"123,97,58,46"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6073T>C	p.Phe2025Leu	6073/21291	6073/21291	2025/7096	2025	7096		",C"	F2025L	T6338C	F2025L	ORF1AB:F2025L	2025	ORF1a	F2025L	ORF1A:F2025L	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	6941	.	C	T	425	PASS	23	0.608696	9	"0,9,5,9"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	6954	.	T	C	254	PASS	21	0.380952	8	"4,9,0,8"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	7594	.	C	CT	250	PASS	104	0.086538	3	"69,28,8,1"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7333dupT	p.Cys2445fs	7334/21291	7334/21291	2445/7096	2445	7096		"INFO_REALIGN_3_PRIME,CT"	del2445	C7594CT	del2445	ORF1AB:DEL2445	2445	ORF1a	del2445	ORF1A:DEL2445	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	8206	.	A	G	1519	PASS	69	0.695652	4	"8,13,12,36"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7941A>G	p.Glu2647Glu	7941/21291	7941/21291	2647/7096	2647	7096		",G"	E2647E	A8206G	E2647E	ORF1AB:E2647E	2647	ORF1a	E2647E	ORF1A:E2647E	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	8376	.	CA	C	193	PASS	28	0.214286	2	"4,18,0,6"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	10056	.	G	A	3470	PASS	99	0.989899	0	"0,0,51,47"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9791G>A	p.Ser3264Asn	9791/21291	9791/21291	3264/7096	3264	7096		",A"	S3264N	G10056A	S3264N	ORF1AB:S3264N	3264	ORF1a	S3264N	ORF1A:S3264N	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	10323	.	A	G	3464	PASS	97	1	0	"0,0,40,57"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10058A>G	p.Lys3353Arg	10058/21291	10058/21291	3353/7096	3353	7096		",G"	K3353R	A10323G	K3353R	ORF1AB:K3353R	3353	ORF1a	K3353R	ORF1A:K3353R	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	11287	.	GTCTGGTTTT	G	379	PASS	13	0.923077	0	"1,0,7,5"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	12190	.	T	C	1813	PASS	238	0.298319	5	"146,21,66,5"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11925T>C	p.Val3975Val	11925/21291	11925/21291	3975/7096	3975	7096		",C"	V3975V	T12190C	V3975V	ORF1AB:V3975V	3975	ORF1a	V3975V	ORF1A:V3975V	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	13432	.	C	T	1741	PASS	522	0.151341	30	"218,225,55,24"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13167C>T	p.Pro4389Pro	13167/21291	13167/21291	4389/7096	4389	7096		",T"	P4389P	C13432T	P4389P	ORF1AB:P4389P	4389	ORF1a	P4389P	ORF1A:P4389P	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	13936	.	G	T	3487	PASS	454	0.295154	1	"139,180,56,78"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13672G>T	p.Val4558Leu	13672/21291	13672/21291	4558/7096	4558	7096		",T"	V4558L	G13936T	V4558L	ORF1AB:V4558L	157	ORF1b	V157L	ORF1B:V157L	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	14102	.	A	T	2578	PASS	366	0.278689	1	"27,237,12,90"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13838A>T	p.Asp4613Val	13838/21291	13838/21291	4613/7096	4613	7096		",T"	D4613V	A14102T	D4613V	ORF1AB:D4613V	212	ORF1b	D212V	ORF1B:D212V	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	14110	.	C	CA	3137	PASS	351	0.279202	0	"24,234,10,88"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13849dupA	p.Thr4617fs	13850/21291	13850/21291	4617/7096	4617	7096		"INFO_REALIGN_3_PRIME,CA"	del4617	C14110CA	del4617	ORF1AB:DEL4617	216	ORF1b	del216	ORF1B:DEL216	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	14120	.	C	T	6065	PASS	330	0.615152	0	"10,115,15,188"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13856C>T	p.Pro4619Leu	13856/21291	13856/21291	4619/7096	4619	7096		",T"	P4619L	C14120T	P4619L	ORF1AB:P4619L	218	ORF1b	P218L	ORF1B:P218L	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	14493	.	AG	A	49	PASS	116	0.017241	7	"104,10,1,1"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14231delG	p.Gly4744fs	14231/21291	14231/21291	4744/7096	4744	7096		"INFO_REALIGN_3_PRIME,A"	del4744	AG14493A	del4744	ORF1AB:DEL4744	343	ORF1b	del343	ORF1B:DEL343	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	14676	.	C	T	14072	PASS	545	0.779817	0	"83,36,292,133"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	15279	.	C	T	7756	PASS	338	0.748521	3	"8,77,34,219"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	15324	.	C	T	1253	PASS	181	0.281768	13	"19,110,2,49"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	15824	.	C	T	566	PASS	19	0.842105	0	"0,3,0,16"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15560C>T	p.Ser5187Phe	15560/21291	15560/21291	5187/7096	5187	7096		",T"	S5187F	C15824T	S5187F	ORF1AB:S5187F	786	ORF1b	S786F	ORF1B:S786F	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	18318	.	GT	G	41	PASS	98	0.020408	0	"57,40,1,1"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18055delT	p.Cys6019fs	18055/21291	18055/21291	6019/7096	6019	7096		",G"	del6019	GT18318G	del6019	ORF1AB:DEL6019	1618	ORF1b	del1618	ORF1B:DEL1618	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	18791	.	G	C	546	PASS	70	0.314286	0	"5,43,2,20"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18527G>C	p.Gly6176Ala	18527/21291	18527/21291	6176/7096	6176	7096		",C"	G6176A	G18791C	G6176A	ORF1AB:G6176A	1775	ORF1b	G1775A	ORF1B:G1775A	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	19368	.	A	AT	613	PASS	61	0.311475	1	"22,20,9,10"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19109dupT	p.Tyr6371fs	19110/21291	19110/21291	6370/7096	6370	7096		"INFO_REALIGN_3_PRIME,AT"	del6371	A19368AT	del6371	ORF1AB:DEL6371	1970	ORF1b	del1970	ORF1B:DEL1970	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	21575	.	C	T	504	PASS	113	0.212389	3	"82,7,21,3"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	21736	.	CT	C	1782	PASS	171	0.327485	3	"56,59,31,25"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.178delT	p.Ser60fs	178/3822	178/3822	60/1273	60	1273		"INFO_REALIGN_3_PRIME,C"	del60	CT21736C	del60	S:DEL60	60	S	del60	S:DEL60	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	21764	.	ATACATG	A	5055	PASS	148	0.945946	1	"5,4,63,77"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	21950	.	G	C	119	PASS	208	0.043269	1	"109,89,6,3"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.388G>C	p.Val130Leu	388/3822	388/3822	130/1273	130	1273		",C"	V130L	G21950C	V130L	S:V130L	130	S	V130L	S:V130L	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	21964	.	A	AT	1639	PASS	196	0.260204	7	"77,68,21,30"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.406dupT	p.Cys136fs	407/3822	407/3822	136/1273	136	1273		"INFO_REALIGN_3_PRIME,AT"	del136	A21964AT	del136	S:DEL136	136	S	del136	S:DEL136	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	21990	.	TTTA	T	6869	PASS	179	0.977654	0	"3,2,90,85"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.432_434delTTA	p.Tyr145del	432/3822	432/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,T"	del145	TTTA21990T	del145	S:DEL145	145	S	del145	S:DEL145	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	22014	.	G	T	1384	PASS	185	0.286486	2	"56,76,19,34"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.452G>T	p.Ser151Ile	452/3822	452/3822	151/1273	151	1273		",T"	S151I	G22014T	S151I	S:S151I	151	S	S151I	S:S151I	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	22140	.	TG	T	424	PASS	155	0.096774	0	"36,105,4,11"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.579delG	p.Phe194fs	579/3822	579/3822	193/1273	193	1273		",T"	del194	TG22140T	del194	S:DEL194	194	S	del194	S:DEL194	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	23063	.	A	T	641	PASS	18	1	0	"0,0,8,10"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	23271	.	C	A	687	PASS	19	1	0	"0,0,6,13"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>A	p.Ala570Asp	1709/3822	1709/3822	570/1273	570	1273		",A"	A570D	C23271A	A570D	S:A570D	570	S	A570D	S:A570D	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	23403	.	A	G	423	PASS	11	1	0	"0,0,1,10"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	24062	.	A	G	2162	PASS	103	0.650485	2	"10,25,15,52"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2500A>G	p.Ile834Val	2500/3822	2500/3822	834/1273	834	1273		",G"	I834V	A24062G	I834V	S:I834V	834	S	I834V	S:I834V	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	24506	.	T	G	9833	PASS	274	1	0	"0,0,154,120"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	24914	.	G	C	8241	PASS	272	0.930147	42	"17,2,106,147"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	25100	.	CA	C	6142	PASS	262	0.679389	107	"53,31,36,142"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3543delA	p.Glu1182fs	3543/3822	3543/3822	1181/1273	1181	1273		"INFO_REALIGN_3_PRIME,C"	del1182	CA25100C	del1182	S:DEL1182	1182	S	del1182	S:DEL1182	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	26388	.	C	T	17181	PASS	796	0.687186	5	"170,78,354,193"	FALSE	T	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.144C>T	p.Asn48Asn	144/228	144/228	48/75	48	75		",T"	N48N	C26388T	N48N	E:N48N	48	E	N48N	E:N48N	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	26784	.	GTAGGCTTGATGTGGCTCAGCTACTTCATTGCTTCTT	G	358	PASS	640	0.023438	42	"114,519,10,5"	TRUE	G	disruptive_inframe_deletion	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.264_299delAGGCTTGATGTGGCTCAGCTACTTCATTGCTTCTTT	p.Gly89_Phe100del	264/669	264/669	88/222	88	222		"INFO_REALIGN_3_PRIME,G"	del89/100	GTAGGCTTGATGTGGCTCAGCTACTTCATTGCTTCTT26784G	del89/100	M:DEL89/100	89/100	M	del89/100	M:DEL89/100	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	27972	.	C	T	4977	PASS	196	0.790816	0	"4,36,18,137"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28048	.	G	T	1565	PASS	59	0.779661	0	"1,12,5,41"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28270	.	TA	T	904	PASS	41	0.97561	0	"1,0,35,5"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28280	.	G	C	899	PASS	40	1	0	"0,0,35,5"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28281	.	A	T	898	PASS	40	1	0	"0,0,35,5"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28282	.	T	A	897	PASS	40	1	0	"0,0,35,5"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28881	.	G	A	42225	PASS	1145	0.999127	3	"0,1,581,563"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28882	.	G	A	40742	PASS	1143	0.993876	15	"0,5,579,557"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28883	.	G	C	42323	PASS	1153	1	0	"0,0,580,573"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	28977	.	C	T	41284	PASS	1138	1	0	"0,0,326,812"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH46-1	NC_045512.2	29051	.	C	CA	4687	PASS	1007	0.158888	5	"240,610,52,108"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	SCH46-1	SCHIFFLANGE	2021-02-08T00:00:00Z	32.91	35.47333333	To be done	NA	2021-02-08
SCH47-2	NC_045512.2	61	.	G	A	838	PASS	223	0.179372	0	"165,18,36,4"	FALSE	A	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-205G>A						NA	205	",A"		G61A		NA	NA	NA		NA	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	139	.	A	G	1221	PASS	507	0.114398	1	"390,59,52,6"	FALSE	G	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-127A>G						NA	127	",G"		A139G		NA	NA	NA		NA	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	210	.	G	T	3783	PASS	544	0.270221	0	"311,86,117,30"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-56G>T						NA	56	",T"		G210T		NA	NA	NA		NA	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	241	.	C	T	23545	PASS	653	1	0	"0,0,446,207"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	680	.	G	A	128	PASS	720	0.018056	20	"335,372,11,2"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.415G>A	p.Asp139Asn	415/21291	415/21291	139/7096	139	7096		",A"	D139N	G680A	D139N	ORF1AB:D139N	139	ORF1a	D139N	ORF1A:D139N	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	685	.	AAAGTCATTT	A	760	PASS	707	0.043847	2	"335,366,13,18"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.421_429delAAGTCATTT	p.Lys141_Phe143del	421/21291	421/21291	141/7096	141	7096		",A"	del141/143	AAAGTCATTT685A	del141/143	ORF1AB:DEL141/143	141/143	ORF1a	del141/143	ORF1A:DEL141/143	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	847	.	T	C	472	PASS	599	0.050083	17	"151,418,2,28"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>C	p.Asp194Asp	582/21291	582/21291	194/7096	194	7096		",C"	D194D	T847C	D194D	ORF1AB:D194D	194	ORF1a	D194D	ORF1A:D194D	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	913	.	C	T	7164	PASS	283	0.759717	0	"40,28,124,91"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	1059	.	C	T	1875	PASS	323	0.235294	5	"147,100,40,36"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.794C>T	p.Thr265Ile	794/21291	794/21291	265/7096	265	7096		",T"	T265I	C1059T	T265I	ORF1AB:T265I	265	ORF1a	T265I	ORF1A:T265I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	1104	.	TA	T	41	PASS	284	0.007042	0	"101,181,1,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.841delA	p.Ile281fs	841/21291	841/21291	281/7096	281	7096		"INFO_REALIGN_3_PRIME,T"	del281	TA1104T	del281	ORF1AB:DEL281	281	ORF1a	del281	ORF1A:DEL281	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	1274	.	G	A	4465	PASS	796	0.21608	0	"442,182,121,51"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1009G>A	p.Val337Ile	1009/21291	1009/21291	337/7096	337	7096		",A"	V337I	G1274A	V337I	ORF1AB:V337I	337	ORF1a	V337I	ORF1A:V337I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	1499	.	T	C	2046	PASS	834	0.119904	9	"374,359,60,40"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1234T>C	p.Ser412Pro	1234/21291	1234/21291	412/7096	412	7096		",C"	S412P	T1499C	S412P	ORF1AB:S412P	412	ORF1a	S412P	ORF1A:S412P	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	1627	.	C	T	2922	PASS	938	0.143923	4	"552,251,87,48"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1362C>T	p.Leu454Leu	1362/21291	1362/21291	454/7096	454	7096		",T"	L454L	C1627T	L454L	ORF1AB:L454L	454	ORF1a	L454L	ORF1A:L454L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	1963	.	T	C	2274	PASS	820	0.12439	1	"118,600,18,84"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1698T>C	p.Ala566Ala	1698/21291	1698/21291	566/7096	566	7096		",C"	A566A	T1963C	A566A	ORF1AB:A566A	566	ORF1a	A566A	ORF1A:A566A	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	2453	.	C	T	1613	PASS	170	0.335294	11	"93,20,53,4"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2188C>T	p.Leu730Phe	2188/21291	2188/21291	730/7096	730	7096		",T"	L730F	C2453T	L730F	ORF1AB:L730F	730	ORF1a	L730F	ORF1A:L730F	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	2525	.	G	A	758	PASS	217	0.142857	3	"134,52,20,11"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2260G>A	p.Glu754Lys	2260/21291	2260/21291	754/7096	754	7096		",A"	E754K	G2525A	E754K	ORF1AB:E754K	754	ORF1a	E754K	ORF1A:E754K	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	3037	.	C	T	5854	PASS	160	1	0	"0,0,47,113"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	3041	.	C	A	808	PASS	161	0.21118	1	"39,88,9,25"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2776C>A	p.Pro926Thr	2776/21291	2776/21291	926/7096	926	7096		",A"	P926T	C3041A	P926T	ORF1AB:P926T	926	ORF1a	P926T	ORF1A:P926T	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	3134	.	G	A	492	PASS	138	0.152174	2	"21,96,2,19"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2869G>A	p.Gly957Ser	2869/21291	2869/21291	957/7096	957	7096		",A"	G957S	G3134A	G957S	ORF1AB:G957S	957	ORF1a	G957S	ORF1A:G957S	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	3177	.	C	T	104	PASS	104	0.057692	2	"14,82,0,6"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2912C>T	p.Pro971Leu	2912/21291	2912/21291	971/7096	971	7096		",T"	P971L	C3177T	P971L	ORF1AB:P971L	971	ORF1a	P971L	ORF1A:P971L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	4893	.	C	T	381	PASS	23	0.521739	3	"5,6,3,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4628C>T	p.Thr1543Ile	4628/21291	4628/21291	1543/7096	1543	7096		",T"	T1543I	C4893T	T1543I	ORF1AB:T1543I	1543	ORF1a	T1543I	ORF1A:T1543I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	5388	.	C	A	603	PASS	23	0.73913	0	"2,4,5,12"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	6954	.	T	C	1701	PASS	46	1	0	"0,0,12,34"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6689T>C	p.Ile2230Thr	6689/21291	6689/21291	2230/7096	2230	7096		",C"	I2230T	T6954C	I2230T	ORF1AB:I2230T	2230	ORF1a	I2230T	ORF1A:I2230T	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	8140	.	CT	C	45	PASS	138	0.014493	0	"52,87,1,1"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7877delT	p.Leu2626fs	7877/21291	7877/21291	2626/7096	2626	7096		"INFO_REALIGN_3_PRIME,C"	del2626	CT8140C	del2626	ORF1AB:DEL2626	2626	ORF1a	del2626	ORF1A:DEL2626	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	8157	.	C	T	215	PASS	126	0.095238	4	"42,72,6,6"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7892C>T	p.Ser2631Phe	7892/21291	7892/21291	2631/7096	2631	7096		",T"	S2631F	C8157T	S2631F	ORF1AB:S2631F	2631	ORF1a	S2631F	ORF1A:S2631F	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	9219	.	G	T	222	PASS	55	0.181818	1	"22,23,4,6"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8954G>T	p.Arg2985Met	8954/21291	8954/21291	2985/7096	2985	7096		",T"	R2985M	G9219T	R2985M	ORF1AB:R2985M	2985	ORF1a	R2985M	ORF1A:R2985M	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	9314	.	G	GT	55	PASS	46	0.043478	0	"19,25,1,1"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9053dupT	p.Cys3019fs	9054/21291	9054/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,GT"	del3019	G9314GT	del3019	ORF1AB:DEL3019	3019	ORF1a	del3019	ORF1A:DEL3019	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	9344	.	C	T	177	PASS	44	0.159091	6	"21,16,2,5"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9079C>T	p.Leu3027Phe	9079/21291	9079/21291	3027/7096	3027	7096		",T"	L3027F	C9344T	L3027F	ORF1AB:L3027F	3027	ORF1a	L3027F	ORF1A:L3027F	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	9454	.	T	C	221	PASS	48	0.166667	1	"12,28,3,5"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9189T>C	p.Tyr3063Tyr	9189/21291	9189/21291	3063/7096	3063	7096		",C"	Y3063Y	T9454C	Y3063Y	ORF1AB:Y3063Y	3063	ORF1a	Y3063Y	ORF1A:Y3063Y	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	10191	.	C	T	1536	PASS	591	0.121827	0	"284,235,39,33"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9926C>T	p.Ser3309Phe	9926/21291	9926/21291	3309/7096	3309	7096		",T"	S3309F	C10191T	S3309F	ORF1AB:S3309F	3309	ORF1a	S3309F	ORF1A:S3309F	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	10416	.	C	T	1494	PASS	557	0.131059	5	"193,291,24,49"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10151C>T	p.Ser3384Leu	10151/21291	10151/21291	3384/7096	3384	7096		",T"	S3384L	C10416T	S3384L	ORF1AB:S3384L	3384	ORF1a	S3384L	ORF1A:S3384L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	11074	.	C	CT	46	PASS	192	0.020833	2	"131,61,2,2"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817dupT	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,CT"	del3606	C11074CT	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	11074	.	CTT	C	244	PASS	192	0.078125	1	"122,59,11,4"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10816_10817delTT	p.Leu3606fs	10816/21291	10816/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CTT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	11123	.	G	T	329	PASS	227	0.092511	19	"93,113,16,5"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10858G>T	p.Ala3620Ser	10858/21291	10858/21291	3620/7096	3620	7096		",T"	A3620S	G11123T	A3620S	ORF1AB:A3620S	3620	ORF1a	A3620S	ORF1A:A3620S	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	11287	.	GTCTGGTTTT	G	2828	PASS	88	0.988636	18	"5,0,35,52"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	11608	.	A	G	255	PASS	80	0.1375	1	"25,44,3,8"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11343A>G	p.Leu3781Leu	11343/21291	11343/21291	3781/7096	3781	7096		",G"	L3781L	A11608G	L3781L	ORF1AB:L3781L	3781	ORF1a	L3781L	ORF1A:L3781L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	14676	.	C	T	6282	PASS	657	0.348554	0	"295,133,159,70"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	15168	.	G	A	65	PASS	577	0.02253	26	"220,344,0,13"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	15173	.	C	A	77	PASS	584	0.025685	27	"215,354,0,15"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14909C>A	p.Ser4970*	14909/21291	14909/21291	4970/7096	4970	7096		",A"	S4970*	C15173A	S4970*	ORF1AB:S4970*	569	ORF1b	S569*	ORF1B:S569*	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	15279	.	C	T	5184	PASS	407	0.454545	21	"20,202,34,151"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	16889	.	A	G	4504	PASS	632	0.257911	2	"177,291,57,106"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	17004	.	C	CA	3596	PASS	471	0.235669	9	"88,273,19,92"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16742dupA	p.Asn5581fs	16743/21291	16743/21291	5581/7096	5581	7096		"INFO_REALIGN_3_PRIME,CA"	del5581	C17004CA	del5581	ORF1AB:DEL5581	1180	ORF1b	del1180	ORF1B:DEL1180	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	17019	.	G	T	2240	PASS	418	0.215311	1	"71,257,17,73"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	17451	.	A	G	92	PASS	239	0.033473	2	"206,21,7,1"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17187A>G	p.Leu5729Leu	17187/21291	17187/21291	5729/7096	5729	7096		",G"	L5729L	A17451G	L5729L	ORF1AB:L5729L	1328	ORF1b	L1328L	ORF1B:L1328L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	18234	.	A	G	225	PASS	277	0.050542	32	"83,179,11,3"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17970A>G	p.Gln5990Gln	17970/21291	17970/21291	5990/7096	5990	7096		",G"	Q5990Q	A18234G	Q5990Q	ORF1AB:Q5990Q	1589	ORF1b	Q1589Q	ORF1B:Q1589Q	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	18877	.	C	T	130	PASS	40	0.15	7	"12,22,4,2"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	19572	.	C	T	501	PASS	134	0.149254	0	"74,40,12,8"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19308C>T	p.Tyr6436Tyr	19308/21291	19308/21291	6436/7096	6436	7096		",T"	Y6436Y	C19572T	Y6436Y	ORF1AB:Y6436Y	2035	ORF1b	Y2035Y	ORF1B:Y2035Y	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	19718	.	C	T	472	PASS	101	0.19802	3	"27,54,9,11"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19454C>T	p.Thr6485Ile	19454/21291	19454/21291	6485/7096	6485	7096		",T"	T6485I	C19718T	T6485I	ORF1AB:T6485I	2084	ORF1b	T2084I	ORF1B:T2084I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	19842	.	T	C	319	PASS	100	0.14	8	"14,72,5,9"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19578T>C	p.Asn6526Asn	19578/21291	19578/21291	6526/7096	6526	7096		",C"	N6526N	T19842C	N6526N	ORF1AB:N6526N	2125	ORF1b	N2125N	ORF1B:N2125N	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	19894	.	G	A	321	PASS	75	0.186667	0	"8,53,2,12"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19630G>A	p.Ala6544Thr	19630/21291	19630/21291	6544/7096	6544	7096		",A"	A6544T	G19894A	A6544T	ORF1AB:A6544T	2143	ORF1b	A2143T	ORF1B:A2143T	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	20398	.	G	A	5749	PASS	534	0.389513	2	"291,34,190,18"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20134G>A	p.Glu6712Lys	20134/21291	20134/21291	6712/7096	6712	7096		",A"	E6712K	G20398A	E6712K	ORF1AB:E6712K	2311	ORF1b	E2311K	ORF1B:E2311K	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	20578	.	G	T	9995	PASS	971	0.3862	0	3.72224E+11	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20314G>T	p.Val6772Leu	20314/21291	20314/21291	6772/7096	6772	7096		",T"	V6772L	G20578T	V6772L	ORF1AB:V6772L	2371	ORF1b	V2371L	ORF1B:V2371L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	20955	.	T	C	1934	PASS	844	0.114929	0	"321,424,43,54"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20691T>C	p.Asp6897Asp	20691/21291	20691/21291	6897/7096	6897	7096		",C"	D6897D	T20955C	D6897D	ORF1AB:D6897D	2496	ORF1b	D2496D	ORF1B:D2496D	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	21077	.	CA	C	2562	PASS	683	0.127379	2	"117,482,14,73"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20817delA	p.Glu6940fs	20817/21291	20817/21291	6939/7096	6939	7096		"INFO_REALIGN_3_PRIME,C"	del6940	CA21077C	del6940	ORF1AB:DEL6940	2539	ORF1b	del2539	ORF1B:DEL2539	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	21764	.	ATACATG	A	608	PASS	38	0.473684	2	"6,14,8,10"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	21990	.	TTTA	T	833	PASS	22	0.954545	3	"1,0,9,12"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.432_434delTTA	p.Tyr145del	432/3822	432/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,T"	del145	TTTA21990T	del145	S:DEL145	145	S	del145	S:DEL145	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	22992	.	G	A	177	PASS	31	0.225806	3	"9,15,4,3"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	23063	.	A	T	704	PASS	32	0.71875	1	"7,2,15,8"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	23271	.	C	A	914	PASS	42	0.666667	1	"3,11,8,20"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>A	p.Ala570Asp	1709/3822	1709/3822	570/1273	570	1273		",A"	A570D	C23271A	A570D	S:A570D	570	S	A570D	S:A570D	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	23403	.	A	G	1193	PASS	32	1	0	"0,0,4,28"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	23709	.	C	T	363	PASS	12	0.833333	0	"0,2,2,8"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2147C>T	p.Thr716Ile	2147/3822	2147/3822	716/1273	716	1273		",T"	T716I	C23709T	T716I	S:T716I	716	S	T716I	S:T716I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	23972	.	CA	C	74	PASS	141	0.021277	6	"70,69,0,3"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2413delA	p.Ile805fs	2413/3822	2413/3822	805/1273	805	1273		"INFO_REALIGN_3_PRIME,C"	del805	CA23972C	del805	S:DEL805	805	S	del805	S:DEL805	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	24062	.	A	G	512	PASS	135	0.155556	14	"38,76,2,19"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2500A>G	p.Ile834Val	2500/3822	2500/3822	834/1273	834	1273		",G"	I834V	A24062G	I834V	S:I834V	834	S	I834V	S:I834V	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	24399	.	GA	G	235	PASS	322	0.031056	24	"236,76,3,7"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2841delA	p.Lys947fs	2841/3822	2841/3822	947/1273	947	1273		"INFO_REALIGN_3_PRIME,G"	del947	GA24399G	del947	S:DEL947	947	S	del947	S:DEL947	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	24506	.	T	G	12553	PASS	507	0.755424	0	"82,42,248,135"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	24512	.	C	T	2406	PASS	490	0.208163	17	"252,136,79,23"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2950C>T	p.Leu984Phe	2950/3822	2950/3822	984/1273	984	1273		",T"	L984F	C24512T	L984F	S:L984F	984	S	L984F	S:L984F	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	24794	.	G	C	3938	PASS	555	0.277477	4	"217,184,90,64"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3232G>C	p.Ala1078Pro	3232/3822	3232/3822	1078/1273	1078	1273		",C"	A1078P	G24794C	A1078P	S:A1078P	1078	S	A1078P	S:A1078P	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	24914	.	G	C	12205	PASS	614	0.651466	33	"120,94,165,235"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25091	.	G	T	251	PASS	684	0.033626	12	"267,393,14,9"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3529G>T	p.Val1177Leu	3529/3822	3529/3822	1177/1273	1177	1273		",T"	V1177L	G25091T	V1177L	S:V1177L	1177	S	V1177L	S:V1177L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25092	.	T	A	244	PASS	676	0.038462	3	"266,384,13,13"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3530T>A	p.Val1177Glu	3530/3822	3530/3822	1177/1273	1177	1273		",A"	V1177E	T25092A	V1177E	S:V1177E	1177	S	V1177E	S:V1177E	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25191	.	TA	T	504	PASS	508	0.043307	11	"191,302,13,9"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3633delA	p.Lys1211fs	3633/3822	3633/3822	1211/1273	1211	1273		"INFO_REALIGN_3_PRIME,T"	del1211	TA25191T	del1211	S:DEL1211	1211	S	del1211	S:DEL1211	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25265	.	TG	T	687	PASS	407	0.063882	0	"192,190,13,13"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3704delG	p.Cys1235fs	3704/3822	3704/3822	1235/1273	1235	1273		",T"	del1235	TG25265T	del1235	S:DEL1235	1235	S	del1235	S:DEL1235	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25471	.	G	T	837	PASS	349	0.126074	1	"136,168,18,26"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.79G>T	p.Asp27Tyr	79/828	79/828	27/275	27	275		",T"	D27Y	G25471T	D27Y	ORF3A:D27Y	27	ORF3a	D27Y	ORF3A:D27Y	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25522	.	G	A	124	PASS	347	0.025937	14	"132,206,7,2"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.130G>A	p.Gly44Arg	130/828	130/828	44/275	44	275		",A"	G44R	G25522A	G44R	ORF3A:G44R	44	ORF3a	G44R	ORF3A:G44R	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25563	.	G	T	4413	PASS	338	0.449704	2	"81,105,71,81"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25644	.	G	T	825	PASS	370	0.105405	0	"111,220,14,25"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.252G>T	p.Leu84Leu	252/828	252/828	84/275	84	275		",T"	L84L	G25644T	L84L	ORF3A:L84L	84	ORF3a	L84L	ORF3A:L84L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25660	.	G	GT	139	PASS	316	0.018987	0	"94,223,2,4"	TRUE	GT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.271dupT	p.Tyr91fs	272/828	272/828	91/275	91	275		"INFO_REALIGN_3_PRIME,GT"	del91	G25660GT	del91	ORF3A:DEL91	91	ORF3a	del91	ORF3A:DEL91	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25669	.	C	T	1329	PASS	300	0.19	9	"78,165,12,45"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.277C>T	p.His93Tyr	277/828	277/828	93/275	93	275		",T"	H93Y	C25669T	H93Y	ORF3A:H93Y	93	ORF3a	H93Y	ORF3A:H93Y	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25710	.	C	T	2150	PASS	259	0.328185	4	"51,123,20,65"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25785	.	G	T	227	PASS	105	0.114286	9	"44,49,9,3"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.393G>T	p.Trp131Cys	393/828	393/828	131/275	131	275		",T"	W131C	G25785T	W131C	ORF3A:W131C	131	ORF3a	W131C	ORF3A:W131C	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25906	.	G	T	223	PASS	106	0.103774	2	"53,42,5,6"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>T	p.Gly172Cys	514/828	514/828	172/275	172	275		",T"	G172C	G25906T	G172C	ORF3A:G172C	172	ORF3a	G172C	ORF3A:G172C	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25907	.	G	T	180	PASS	109	0.082569	3	"52,48,6,3"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.515G>T	p.Gly172Val	515/828	515/828	172/275	172	275		",T"	G172V	G25907T	G172V	ORF3A:G172V	172	ORF3a	G172V	ORF3A:G172V	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	25983	.	A	G	463	PASS	115	0.165217	3	"50,46,8,11"	FALSE	G	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.591A>G	p.Val197Val	591/828	591/828	197/275	197	275		",G"	V197V	A25983G	V197V	ORF3A:V197V	197	ORF3a	V197V	ORF3A:V197V	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	26062	.	G	T	416	PASS	253	0.090909	1	"188,42,18,5"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	26388	.	C	T	4200	PASS	1106	0.165461	15	"638,285,111,72"	FALSE	T	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.144C>T	p.Asn48Asn	144/228	144/228	48/75	48	75		",T"	N48N	C26388T	N48N	E:N48N	48	E	N48N	E:N48N	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	26456	.	C	T	1731	PASS	1197	0.081036	6	"581,516,45,52"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.212C>T	p.Pro71Leu	212/228	212/228	71/75	71	75		",T"	P71L	C26456T	P71L	E:P71L	71	E	P71L	E:P71L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	26645	.	C	T	1162	PASS	953	0.068206	21	"417,470,19,46"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.123C>T	p.Asn41Asn	123/669	123/669	41/222	41	222		",T"	N41N	C26645T	N41N	M:N41N	41	M	N41N	M:N41N	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	26735	.	C	T	2249	PASS	1007	0.108242	0	"325,573,41,68"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	26743	.	A	G	1335	PASS	1010	0.070297	17	"331,607,15,56"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.221A>G	p.Asn74Ser	221/669	221/669	74/222	74	222		",G"	N74S	A26743G	N74S	M:N74S	74	M	N74S	M:N74S	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	26876	.	T	C	1071	PASS	633	0.093207	10	"109,463,17,42"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	27000	.	G	T	874	PASS	253	0.150198	0	"135,80,24,14"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.478G>T	p.Asp160Tyr	478/669	478/669	160/222	160	222		",T"	D160Y	G27000T	D160Y	M:D160Y	160	M	D160Y	M:D160Y	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	27281	.	G	T	502	PASS	438	0.061644	29	"309,101,12,15"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.80G>T	p.Trp27Leu	80/186	80/186	27/61	27	61		",T"	W27L	G27281T	W27L	ORF6:W27L	27	ORF6	W27L	ORF6:W27L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	27384	.	T	C	686	PASS	543	0.066298	21	"197,307,6,30"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.183T>C	p.Asp61Asp	183/186	183/186	61/61	61	61		",C"	D61D	T27384C	D61D	ORF6:D61D	61	ORF6	D61D	ORF6:D61D	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	27434	.	C	T	1957	PASS	584	0.152397	3	"205,289,33,56"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.41C>T	p.Thr14Ile	41/366	41/366	14/121	14	121		",T"	T14I	C27434T	T14I	ORF7A:T14I	14	ORF7a	T14I	ORF7A:T14I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	27575	.	C	T	2107	PASS	510	0.176471	3	"255,165,59,31"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.182C>T	p.Thr61Ile	182/366	182/366	61/121	61	121		",T"	T61I	C27575T	T61I	ORF7A:T61I	61	ORF7a	T61I	ORF7A:T61I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	27641	.	C	T	693	PASS	500	0.082	8	"273,186,19,22"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.248C>T	p.Ser83Leu	248/366	248/366	83/121	83	121		",T"	S83L	C27641T	S83L	ORF7A:S83L	83	ORF7a	S83L	ORF7A:S83L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	27964	.	C	T	2338	PASS	759	0.140975	24	"249,402,25,82"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.71C>T	p.Ser24Leu	71/366	71/366	24/121	24	121		",T"	S24L	C27964T	S24L	ORF8:S24L	24	ORF8	S24L	ORF8:S24L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	27972	.	C	T	16320	PASS	750	0.672	6	1.11135E+11	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28004	.	T	C	507	PASS	667	0.050975	9	"298,335,21,13"	FALSE	C	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.111T>C	p.Cys37Cys	111/366	111/366	37/121	37	121		",C"	C37C	T28004C	C37C	ORF8:C37C	37	ORF8	C37C	ORF8:C37C	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28048	.	G	T	13037	PASS	593	0.662732	0	"113,87,222,171"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28073	.	GT	G	94	PASS	550	0.009091	1	"325,230,2,3"	TRUE	G	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.181delT	p.Cys61fs	181/366	181/366	61/121	61	121		",G"	del61	GT28073G	del61	ORF8:DEL61	61	ORF8	del61	ORF8:DEL61	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28095	.	A	T	821	PASS	530	0.075472	20	"325,165,18,22"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.202A>T	p.Lys68*	202/366	202/366	68/121	68	121		",T"	K68*	A28095T	K68*	ORF8:K68*	68	ORF8	K68*	ORF8:K68*	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28111	.	A	G	10955	PASS	522	0.678161	5	"119,49,233,121"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28270	.	TA	T	6450	PASS	517	0.578337	89	69150175124	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28280	.	G	C	6045	PASS	510	0.584314	3	"82,68,174,124"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28280	.	G	T	49314	PASS	510	0.121569	2	"82,68,31,31"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>T	p.Asp3Tyr	7/1260	7/1260	3/419	3	419		",T"	D3Y	G28280T	D3Y	N:D3Y	3	N	D3Y	N:D3Y	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28281	.	A	T	6106	PASS	510	0.584314	5	"113,99,174,124"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28282	.	T	A	6285	PASS	519	0.589595	5	1.12101E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28311	.	C	T	814	PASS	744	0.073925	8	"432,257,29,26"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.38C>T	p.Pro13Leu	38/1260	38/1260	13/419	13	419		",T"	P13L	C28311T	P13L	N:P13L	13	N	P13L	N:P13L	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28396	.	G	T	601	PASS	954	0.051363	11	"564,340,24,25"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.123G>T	p.Arg41Arg	123/1260	123/1260	41/419	41	419		",T"	R41R	G28396T	R41R	N:R41R	41	N	R41R	N:R41R	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28412	.	A	G	671	PASS	1122	0.037433	23	"723,357,19,23"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.139A>G	p.Asn47Asp	139/1260	139/1260	47/419	47	419		",G"	N47D	A28412G	N47D	N:N47D	47	N	N47D	N:N47D	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28651	.	C	T	103	PASS	1066	0.010319	18	"488,567,1,10"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28776	.	CA	C	46	PASS	980	0.003061	2	"507,470,1,2"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28806	.	GC	G	4736	PASS	980	0.173469	11	"429,408,100,70"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.534delC	p.Gly179fs	534/1260	534/1260	178/419	178	419		",G"	del179	GC28806G	del179	N:DEL179	179	N	del179	N:DEL179	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28881	.	G	A	18817	PASS	880	0.661364	34	1.12186E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28882	.	G	A	18533	PASS	877	0.663626	33	1.11184E+11	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28883	.	G	C	18632	PASS	882	0.6678	28	1.1118E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28887	.	C	T	1278	PASS	959	0.081335	1	"443,438,41,37"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28975	.	G	C	2494	PASS	882	0.153061	21	"230,515,58,77"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28977	.	C	T	21580	PASS	870	0.756322	34	91121194464	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28986	.	G	T	2684	PASS	819	0.172161	0	"225,451,47,94"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.713G>T	p.Gly238Val	713/1260	713/1260	238/419	238	419		",T"	G238V	G28986T	G238V	N:G238V	238	N	G238V	N:G238V	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	28987	.	CCAA	C	52	PASS	796	0.003769	6	"254,544,2,1"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH47-2	NC_045512.2	29051	.	C	CA	1119	PASS	716	0.061453	1	"188,486,11,33"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	SCH47-2	SCHIFFLANGE	2021-02-17T00:00:00Z	31.429	34.70333333	To be done	NA	2021-02-17
SCH48-1	NC_045512.2	241	.	C	T	11463	PASS	321	1	0	"0,0,209,112"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	913	.	C	T	1863	PASS	186	0.354839	6	"76,44,35,31"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	1059	.	C	T	2302	PASS	194	0.412371	6	"66,48,39,41"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.794C>T	p.Thr265Ile	794/21291	794/21291	265/7096	265	7096		",T"	T265I	C1059T	T265I	ORF1AB:T265I	265	ORF1a	T265I	ORF1A:T265I	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	1274	.	G	A	1419	PASS	407	0.152334	68	"247,98,22,40"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1009G>A	p.Val337Ile	1009/21291	1009/21291	337/7096	337	7096		",A"	V337I	G1274A	V337I	ORF1AB:V337I	337	ORF1a	V337I	ORF1A:V337I	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	1349	.	C	A	1499	PASS	469	0.142857	68	"234,168,16,51"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1084C>A	p.Gln362Lys	1084/21291	1084/21291	362/7096	362	7096		",A"	Q362K	C1349A	Q362K	ORF1AB:Q362K	362	ORF1a	Q362K	ORF1A:Q362K	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	3037	.	C	T	5104	PASS	138	1	0	"0,0,60,78"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	3177	.	C	T	674	PASS	85	0.282353	9	"4,57,5,19"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2912C>T	p.Pro971Leu	2912/21291	2912/21291	971/7096	971	7096		",T"	P971L	C3177T	P971L	ORF1AB:P971L	971	ORF1a	P971L	ORF1A:P971L	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	3229	.	TG	T	278	PASS	49	0.183673	0	"3,37,0,9"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2966delG	p.Gly989fs	2966/21291	2966/21291	989/7096	989	7096		"INFO_REALIGN_3_PRIME,T"	del989	TG3229T	del989	ORF1AB:DEL989	989	ORF1a	del989	ORF1A:DEL989	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	5230	.	G	T	389	PASS	61	0.245902	8	"26,20,5,10"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4965G>T	p.Lys1655Asn	4965/21291	4965/21291	1655/7096	1655	7096		",T"	K1655N	G5230T	K1655N	ORF1AB:K1655N	1655	ORF1a	K1655N	ORF1A:K1655N	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	5353	.	A	G	134	PASS	45	0.133333	1	"14,25,3,3"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5088A>G	p.Gln1696Gln	5088/21291	5088/21291	1696/7096	1696	7096		",G"	Q1696Q	A5353G	Q1696Q	ORF1AB:Q1696Q	1696	ORF1a	Q1696Q	ORF1A:Q1696Q	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	5388	.	C	A	951	PASS	38	0.710526	1	"5,6,9,18"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	5548	.	C	T	151	PASS	32	0.1875	0	"4,22,1,5"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5283C>T	p.Thr1761Thr	5283/21291	5283/21291	1761/7096	1761	7096		",T"	T1761T	C5548T	T1761T	ORF1AB:T1761T	1761	ORF1a	T1761T	ORF1A:T1761T	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	5986	.	C	T	4778	PASS	213	0.676056	1	"56,13,120,24"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5721C>T	p.Phe1907Phe	5721/21291	5721/21291	1907/7096	1907	7096		",T"	F1907F	C5986T	F1907F	ORF1AB:F1907F	1907	ORF1a	F1907F	ORF1A:F1907F	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	6087	.	TA	T	44	PASS	202	0.009901	0	"99,101,1,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5825delA	p.Asn1942fs	5825/21291	5825/21291	1942/7096	1942	7096		"INFO_REALIGN_3_PRIME,T"	del1942	TA6087T	del1942	ORF1AB:DEL1942	1942	ORF1a	del1942	ORF1A:DEL1942	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	6457	.	TA	T	42	PASS	266	0.007519	0	"120,150,1,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6194delA	p.Asn2065fs	6194/21291	6194/21291	2065/7096	2065	7096		"INFO_REALIGN_3_PRIME,T"	del2065	TA6457T	del2065	ORF1AB:DEL2065	2065	ORF1a	del2065	ORF1A:DEL2065	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	10517	.	G	T	1607	PASS	637	0.120879	105	"348,212,17,60"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10252G>T	p.Asp3418Tyr	10252/21291	10252/21291	3418/7096	3418	7096		",T"	D3418Y	G10517T	D3418Y	ORF1AB:D3418Y	3418	ORF1a	D3418Y	ORF1A:D3418Y	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	10667	.	T	G	1656	PASS	491	0.14664	32	"147,270,41,31"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10402T>G	p.Leu3468Val	10402/21291	10402/21291	3468/7096	3468	7096		",G"	L3468V	T10667G	L3468V	ORF1AB:L3468V	3468	ORF1a	L3468V	ORF1A:L3468V	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	11082	.	TG	T	59	PASS	379	0.007916	2	"170,207,2,1"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	11083	.	G	T	1128	PASS	379	0.16095	3	"145,170,25,36"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	11095	.	CT	C	1009	PASS	374	0.09893	66	"124,213,30,7"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835delT	p.Leu3612fs	10835/21291	10835/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,C"	del3612	CT11095C	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	11287	.	GTCTGGTTTT	G	1048	PASS	32	1	0	"1,3,13,19"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	13350	.	G	GT	297	PASS	563	0.023091	42	"258,295,13,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13089dupT	p.Thr4364fs	13090/21291	13090/21291	4364/7096	4364	7096		"INFO_REALIGN_3_PRIME,GT"	del4364	G13350GT	del4364	ORF1AB:DEL4364	4364	ORF1a	del4364	ORF1A:DEL4364	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	13614	.	A	G	2431	PASS	586	0.165529	0	"332,157,67,30"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13350A>G	p.Glu4450Glu	13350/21291	13350/21291	4450/7096	4450	7096		",G"	E4450E	A13614G	E4450E	ORF1AB:E4450E	49	ORF1b	E49E	ORF1B:E49E	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	14153	.	A	AT	1351	PASS	248	0.173387	5	"29,180,3,40"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13891dupT	p.Ser4631fs	13892/21291	13892/21291	4631/7096	4631	7096		"INFO_REALIGN_3_PRIME,AT"	del4631	A14153AT	del4631	ORF1AB:DEL4631	230	ORF1b	del230	ORF1B:DEL230	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	14652	.	TG	T	1508	PASS	807	0.070632	1	"557,194,41,16"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14389delG	p.Val4797fs	14389/21291	14389/21291	4797/7096	4797	7096		",T"	del4797	TG14652T	del4797	ORF1AB:DEL4797	396	ORF1b	del396	ORF1B:DEL396	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	14676	.	C	T	16078	PASS	830	0.612048	8	"229,92,337,171"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	14925	.	C	T	3347	PASS	905	0.166851	6	"388,365,69,82"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14661C>T	p.Val4887Val	14661/21291	14661/21291	4887/7096	4887	7096		",T"	V4887V	C14925T	V4887V	ORF1AB:V4887V	486	ORF1b	V486V	ORF1B:V486V	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	15168	.	G	A	78	PASS	818	0.020782	37	"341,460,0,17"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	15279	.	C	T	14376	PASS	649	0.697997	10	"26,169,86,367"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	15324	.	C	T	2750	PASS	410	0.268293	19	"66,234,12,98"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	16376	.	CG	C	2905	PASS	633	0.159558	0	"400,142,74,27"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16113delG	p.Tyr5372fs	16113/21291	16113/21291	5371/7096	5371	7096		",C"	del5372	CG16376C	del5372	ORF1AB:DEL5372	971	ORF1b	del971	ORF1B:DEL971	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	16723	.	T	C	4286	PASS	836	0.208134	3	"349,313,97,77"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16459T>C	p.Leu5487Leu	16459/21291	16459/21291	5487/7096	5487	7096		",C"	L5487L	T16723C	L5487L	ORF1AB:L5487L	1086	ORF1b	L1086L	ORF1B:L1086L	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	17615	.	A	G	4278	PASS	520	0.309615	0	"209,150,93,68"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17351A>G	p.Lys5784Arg	17351/21291	17351/21291	5784/7096	5784	7096		",G"	K5784R	A17615G	K5784R	ORF1AB:K5784R	1383	ORF1b	K1383R	ORF1B:K1383R	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	17795	.	C	T	5654	PASS	604	0.342715	3	"177,220,99,108"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17531C>T	p.Ala5844Val	17531/21291	17531/21291	5844/7096	5844	7096		",T"	A5844V	C17795T	A5844V	ORF1AB:A5844V	1443	ORF1b	A1443V	ORF1B:A1443V	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	18368	.	G	GT	1282	PASS	207	0.202899	14	"60,105,23,19"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18109dupT	p.Ser6037fs	18110/21291	18110/21291	6037/7096	6037	7096		"INFO_REALIGN_3_PRIME,GT"	del6037	G18368GT	del6037	ORF1AB:DEL6037	1636	ORF1b	del1636	ORF1B:DEL1636	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	18434	.	A	AT	988	PASS	221	0.153846	2	"87,101,18,16"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18175dupT	p.Ser6059fs	18176/21291	18176/21291	6059/7096	6059	7096		"INFO_REALIGN_3_PRIME,AT"	del6059	A18434AT	del6059	ORF1AB:DEL6059	1658	ORF1b	del1658	ORF1B:DEL1658	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	19336	.	A	AT	360	PASS	186	0.075269	12	"87,86,3,11"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19072_19073insT	p.Lys6358fs	19073/21291	19073/21291	6358/7096	6358	7096		",AT"	del6358	A19336AT	del6358	ORF1AB:DEL6358	1957	ORF1b	del1957	ORF1B:DEL1957	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	19605	.	T	C	702	PASS	190	0.157895	0	"98,62,18,12"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19341T>C	p.Thr6447Thr	19341/21291	19341/21291	6447/7096	6447	7096		",C"	T6447T	T19605C	T6447T	ORF1AB:T6447T	2046	ORF1b	T2046T	ORF1B:T2046T	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	20389	.	C	T	1891	PASS	706	0.126062	6	"536,81,73,16"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20125C>T	p.Arg6709Cys	20125/21291	20125/21291	6709/7096	6709	7096		",T"	R6709C	C20389T	R6709C	ORF1AB:R6709C	2308	ORF1b	R2308C	ORF1B:R2308C	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	20398	.	G	A	3454	PASS	735	0.206803	3	"500,81,135,17"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20134G>A	p.Glu6712Lys	20134/21291	20134/21291	6712/7096	6712	7096		",A"	E6712K	G20398A	E6712K	ORF1AB:E6712K	2311	ORF1b	E2311K	ORF1B:E2311K	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	20578	.	G	T	2640	PASS	1279	0.107897	20	"681,460,98,40"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20314G>T	p.Val6772Leu	20314/21291	20314/21291	6772/7096	6772	7096		",T"	V6772L	G20578T	V6772L	ORF1AB:V6772L	2371	ORF1b	V2371L	ORF1B:V2371L	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	20599	.	A	AT	1712	PASS	1120	0.057143	7	"622,441,32,32"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20338dupT	p.Ser6780fs	20339/21291	20339/21291	6780/7096	6780	7096		"INFO_REALIGN_3_PRIME,AT"	del6780	A20599AT	del6780	ORF1AB:DEL6780	2379	ORF1b	del2379	ORF1B:DEL2379	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	20839	.	G	A	2926	PASS	1437	0.101601	7	"571,719,73,73"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20575G>A	p.Val6859Ile	20575/21291	20575/21291	6859/7096	6859	7096		",A"	V6859I	G20839A	V6859I	ORF1AB:V6859I	2458	ORF1b	V2458I	ORF1B:V2458I	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	20949	.	T	C	3129	PASS	1333	0.112528	3	"589,593,70,80"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20685T>C	p.Asp6895Asp	20685/21291	20685/21291	6895/7096	6895	7096		",C"	D6895D	T20949C	D6895D	ORF1AB:D6895D	2494	ORF1b	D2494D	ORF1B:D2494D	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	21187	.	A	G	1044	PASS	513	0.101365	30	"101,360,2,50"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20923A>G	p.Asn6975Asp	20923/21291	20923/21291	6975/7096	6975	7096		",G"	N6975D	A21187G	N6975D	ORF1AB:N6975D	2574	ORF1b	N2574D	ORF1B:N2574D	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	21614	.	C	T	3695	PASS	133	0.796992	56	"21,6,28,78"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.52C>T	p.Leu18Phe	52/3822	52/3822	18/1273	18	1273		",T"	L18F	C21614T	L18F	S:L18F	18	S	L18F	S:L18F	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	21764	.	ATACATG	A	951	PASS	72	0.402778	27	"7,37,15,14"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	21801	.	A	C	137	PASS	37	0.162162	3	"14,17,4,2"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.239A>C	p.Asp80Ala	239/3822	239/3822	80/1273	80	1273		",C"	D80A	A21801C	D80A	S:D80A	80	S	D80A	S:D80A	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	21990	.	TTTA	T	960	PASS	30	0.833333	2	"3,2,10,15"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.432_434delTTA	p.Tyr145del	432/3822	432/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,T"	del145	TTTA21990T	del145	S:DEL145	145	S	del145	S:DEL145	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	22093	.	G	C	75	PASS	30	0.1	15	"7,20,3,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.531G>C	p.Met177Ile	531/3822	531/3822	177/1273	177	1273		",C"	M177I	G22093C	M177I	S:M177I	177	S	M177I	S:M177I	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	22206	.	A	G	128	PASS	27	0.185185	10	"4,18,3,2"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.644A>G	p.Asp215Gly	644/3822	644/3822	215/1273	215	1273		",G"	D215G	A22206G	D215G	S:D215G	215	S	D215G	S:D215G	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	22280	.	ACTTTACTTG	A	137	PASS	18	0.222222	19	"3,11,4,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.725_733delTTGCTTTAC	p.Leu242_Leu244del	725/3822	725/3822	242/1273	242	1273		"INFO_REALIGN_3_PRIME,A"	del242/244	ACTTTACTTG22280A	del242/244	S:DEL242/244	242/244	S	del242/244	S:DEL242/244	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	22813	.	G	T	303	PASS	39	0.282051	0	"16,12,6,5"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1251G>T	p.Lys417Asn	1251/3822	1251/3822	417/1273	417	1273		",T"	K417N	G22813T	K417N	S:K417N	417	S	K417N	S:K417N	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	22856	.	T	G	66	PASS	40	0.125	4	"17,18,1,4"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1294T>G	p.Cys432Gly	1294/3822	1294/3822	432/1273	432	1273		",G"	C432G	T22856G	C432G	S:C432G	432	S	C432G	S:C432G	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	23012	.	G	A	101	PASS	24	0.166667	2	"9,11,3,1"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1450G>A	p.Glu484Lys	1450/3822	1450/3822	484/1273	484	1273		",A"	E484K	G23012A	E484K	S:E484K	484	S	E484K	S:E484K	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	23063	.	A	T	1069	PASS	32	1	0	"0,0,18,14"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	23271	.	C	A	721	PASS	30	0.733333	2	"2,6,3,19"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>A	p.Ala570Asp	1709/3822	1709/3822	570/1273	570	1273		",A"	A570D	C23271A	A570D	S:A570D	570	S	A570D	S:A570D	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	23403	.	A	G	475	PASS	13	1	0	"0,0,5,8"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	24062	.	A	G	463	PASS	104	0.173077	0	"27,59,5,13"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2500A>G	p.Ile834Val	2500/3822	2500/3822	834/1273	834	1273		",G"	I834V	A24062G	I834V	S:I834V	834	S	I834V	S:I834V	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	24373	.	A	G	751	PASS	276	0.137681	16	"178,58,35,3"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2811A>G	p.Ser937Ser	2811/3822	2811/3822	937/1273	937	1273		",G"	S937S	A24373G	S937S	S:S937S	937	S	S937S	S:S937S	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	24506	.	T	G	14205	PASS	541	0.778189	40	"99,21,270,151"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	24914	.	G	C	13451	PASS	636	0.688679	35	"104,94,162,276"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	25100	.	C	CA	2586	PASS	619	0.14378	52	"184,347,54,35"	TRUE	CA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3543dupA	p.Glu1182fs	3544/3822	3544/3822	1182/1273	1182	1273		"INFO_REALIGN_3_PRIME,CA"	del1182	C25100CA	del1182	S:DEL1182	1182	S	del1182	S:DEL1182	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	25290	.	GTC	G	39	PASS	345	0.005797	0	"174,175,1,1"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3731_3732delTC	p.Leu1244fs	3731/3822	3731/3822	1244/1273	1244	1273		"INFO_REALIGN_3_PRIME,G"	del1244	GTC25290G	del1244	S:DEL1244	1244	S	del1244	S:DEL1244	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	25437	.	G	T	148	PASS	361	0.030471	1	"166,184,6,5"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.45G>T	p.Leu15Phe	45/828	45/828	15/275	15	275		",T"	L15F	G25437T	L15F	ORF3A:L15F	15	ORF3a	L15F	ORF3A:L15F	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	25455	.	G	T	2545	PASS	339	0.283186	0	"112,131,45,51"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.63G>T	p.Lys21Asn	63/828	63/828	21/275	21	275		",T"	K21N	G25455T	K21N	ORF3A:K21N	21	ORF3a	K21N	ORF3A:K21N	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	25505	.	A	G	1997	PASS	321	0.246106	4	"88,153,24,55"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	25563	.	G	T	6003	PASS	308	0.623377	20	"58,58,66,126"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	25703	.	C	CT	168	PASS	252	0.027778	22	"76,169,6,1"	TRUE	CT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.315dupT	p.Leu106fs	316/828	316/828	106/275	106	275		"INFO_REALIGN_3_PRIME,CT"	del106	C25703CT	del106	ORF3A:DEL106	106	ORF3a	del106	ORF3A:DEL106	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	25904	.	C	T	575	PASS	86	0.267442	2	"29,34,9,14"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.512C>T	p.Ser171Leu	512/828	512/828	171/275	171	275		",T"	S171L	C25904T	S171L	ORF3A:S171L	171	ORF3a	S171L	ORF3A:S171L	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	26069	.	A	G	294	PASS	277	0.072202	23	"223,34,12,8"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.677A>G	p.Glu226Gly	677/828	677/828	226/275	226	275		",G"	E226G	A26069G	E226G	ORF3A:E226G	226	ORF3a	E226G	ORF3A:E226G	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	26388	.	C	T	1674	PASS	881	0.094211	3	"505,293,49,34"	FALSE	T	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.144C>T	p.Asn48Asn	144/228	144/228	48/75	48	75		",T"	N48N	C26388T	N48N	E:N48N	48	E	N48N	E:N48N	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	26456	.	C	T	3716	PASS	1002	0.166667	12	"431,403,73,94"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.212C>T	p.Pro71Leu	212/228	212/228	71/75	71	75		",T"	P71L	C26456T	P71L	E:P71L	71	E	P71L	E:P71L	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	26645	.	C	T	3089	PASS	848	0.15684	2	"357,358,62,71"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.123C>T	p.Asn41Asn	123/669	123/669	41/222	41	222		",T"	N41N	C26645T	N41N	M:N41N	41	M	N41N	M:N41N	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	27955	.	G	GT	933	PASS	409	0.080685	9	"168,210,20,13"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.65dupT	p.Leu22fs	66/366	66/366	22/121	22	121		"INFO_REALIGN_3_PRIME,GT"	del22	G27955GT	del22	ORF8:DEL22	22	ORF8	del22	ORF8:DEL22	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	27972	.	C	T	9234	PASS	456	0.625	51	67104174111	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28048	.	G	T	10876	PASS	436	0.731651	14	"65,52,214,105"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28111	.	A	G	10320	PASS	414	0.780193	0	"59,32,208,115"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28270	.	TA	T	6567	PASS	429	0.692308	71	"37,95,167,130"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28280	.	G	C	6086	PASS	381	0.76378	10	"40,48,163,128"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28281	.	A	T	6196	PASS	382	0.76178	8	"42,48,163,128"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28282	.	T	A	6262	PASS	392	0.762755	8	"43,50,165,134"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28310	.	C	T	1508	PASS	541	0.134935	2	"262,203,44,29"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.37C>T	p.Pro13Ser	37/1260	37/1260	13/419	13	419		",T"	P13S	C28310T	P13S	N:P13S	13	N	P13S	N:P13S	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28651	.	C	T	3642	PASS	1391	0.121495	11	"530,690,86,83"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28869	.	C	T	4745	PASS	1257	0.164678	10	"470,580,79,128"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28881	.	G	A	10124	PASS	1178	0.316638	6	3.59446E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28882	.	G	A	9697	PASS	1182	0.314721	6	3.63445E+11	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28883	.	G	C	9643	PASS	1183	0.316145	5	3.64444E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28887	.	C	T	14828	PASS	1278	0.435837	12	3.80341E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.614C>T	p.Thr205Ile	614/1260	614/1260	205/419	205	419		",T"	T205I	C28887T	T205I	N:T205I	205	N	T205I	N:T205I	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28951	.	A	G	891	PASS	1115	0.073543	14	"442,591,25,57"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.678A>G	p.Arg226Arg	678/1260	678/1260	226/419	226	419		",G"	R226R	A28951G	R226R	N:R226R	226	N	R226R	N:R226R	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28969	.	CA	C	4739	PASS	1165	0.143348	10	"380,622,75,92"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.700delA	p.Met234fs	700/1260	700/1260	234/419	234	419		"INFO_REALIGN_3_PRIME,C"	del234	CA28969C	del234	N:DEL234	234	N	del234	N:DEL234	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
SCH48-1	NC_045512.2	28977	.	C	T	12988	PASS	1180	0.405932	5	2.90408E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	SCH48-1	SCHIFFLANGE	2021-02-21T00:00:00Z	31.64775	34.37333333	To be done	NA	2021-02-21
UEB37-1	NC_045512.2	204	.	G	T	8534	PASS	1460	0.255479	0	"1086,0,373,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	241	.	C	T	49314	PASS	1683	0.998217	0	"1,0,1680,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	335	.	C	T	10590	PASS	1679	0.268017	0	"1224,0,450,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	445	.	T	C	7353	PASS	1969	0.227019	0	"1512,0,447,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	448	.	G	T	10138	PASS	2029	0.227698	0	"1563,0,462,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.183G>T	p.Leu61Phe	183/21291	183/21291	61/7096	61	7096		",T"	L61F	G448T	L61F	ORF1AB:L61F	61	ORF1a	L61F	ORF1A:L61F	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	802	.	A	C	111	PASS	1897	0.012652	0	"1868,0,24,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	847	.	T	G	2196	PASS	1889	0.092112	0	"1713,0,174,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>G	p.Asp194Glu	582/21291	582/21291	194/7096	194	7096		",G"	D194E	T847G	D194E	ORF1AB:D194E	194	ORF1a	D194E	ORF1A:D194E	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	873	.	A	C	83	PASS	1728	0.020833	0	"1690,0,36,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.608A>C	p.Asp203Ala	608/21291	608/21291	203/7096	203	7096		",C"	D203A	A873C	D203A	ORF1AB:D203A	203	ORF1a	D203A	ORF1A:D203A	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	875	.	C	A	629	PASS	1701	0.042916	0	"1625,0,73,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	1080	.	A	T	6683	PASS	2141	0.164876	0	"1784,0,353,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.815A>T	p.Asn272Ile	815/21291	815/21291	272/7096	272	7096		",T"	N272I	A1080T	N272I	ORF1AB:N272I	272	ORF1a	N272I	ORF1A:N272I	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	1302	.	C	T	4037	PASS	1755	0.135043	0	"1517,0,237,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1037C>T	p.Thr346Ile	1037/21291	1037/21291	346/7096	346	7096		",T"	T346I	C1302T	T346I	ORF1AB:T346I	346	ORF1a	T346I	ORF1A:T346I	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	1730	.	G	GA	66	PASS	1029	0.003887	0	"1045,0,4,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1468dupA	p.Thr490fs	1469/21291	1469/21291	490/7096	490	7096		"INFO_REALIGN_3_PRIME,GA"	del490	G1730GA	del490	ORF1AB:DEL490	490	ORF1a	del490	ORF1A:DEL490	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	3037	.	C	T	20043	PASS	596	0.998322	2147483647	"0,0,595,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	3470	.	G	T	184	PASS	28	0.285714	0	"20,0,8,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3205G>T	p.Gly1069*	3205/21291	3205/21291	1069/7096	1069	7096		",T"	G1069*	G3470T	G1069*	ORF1AB:G1069*	1069	ORF1a	G1069*	ORF1A:G1069*	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	3512	.	A	G	174	PASS	18	0.388889	0	"11,0,7,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3247A>G	p.Met1083Val	3247/21291	3247/21291	1083/7096	1083	7096		",G"	M1083V	A3512G	M1083V	ORF1AB:M1083V	1083	ORF1a	M1083V	ORF1A:M1083V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	3592	.	T	C	152	PASS	20	0.3	0	"14,0,6,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	5071	.	T	C	3437	PASS	285	0.466667	0	"152,0,133,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4806T>C	p.Ala1602Ala	4806/21291	4806/21291	1602/7096	1602	7096		",C"	A1602A	T5071C	A1602A	ORF1AB:A1602A	1602	ORF1a	A1602A	ORF1A:A1602A	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	5629	.	G	T	1751	PASS	248	0.278226	0	"179,0,69,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	6026	.	C	T	843	PASS	202	0.20297	0	"161,0,41,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5761C>T	p.Pro1921Ser	5761/21291	5761/21291	1921/7096	1921	7096		",T"	P1921S	C6026T	P1921S	ORF1AB:P1921S	1921	ORF1a	P1921S	ORF1A:P1921S	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	6286	.	C	T	267	PASS	124	0.137097	0	"106,0,17,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	6696	.	C	CT	1262	PASS	173	0.231214	0	"133,0,40,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	6808	.	T	C	1646	PASS	273	0.249084	0	"205,0,68,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6543T>C	p.Thr2181Thr	6543/21291	6543/21291	2181/7096	2181	7096		",C"	T2181T	T6808C	T2181T	ORF1AB:T2181T	2181	ORF1a	T2181T	ORF1A:T2181T	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	6861	.	CA	C	2032	PASS	284	0.239437	0	"216,0,68,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6599delA	p.Lys2200fs	6599/21291	6599/21291	2200/7096	2200	7096		"INFO_REALIGN_3_PRIME,C"	del2200	CA6861C	del2200	ORF1AB:DEL2200	2200	ORF1a	del2200	ORF1A:DEL2200	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	6941	.	C	T	4379	PASS	314	0.5	0	"157,0,157,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	7444	.	A	T	510	PASS	30	0.566667	0	"13,0,17,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7179A>T	p.Val2393Val	7179/21291	7179/21291	2393/7096	2393	7096		",T"	V2393V	A7444T	V2393V	ORF1AB:V2393V	2393	ORF1a	V2393V	ORF1A:V2393V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	7926	.	CA	C	3009	PASS	461	0.214751	0	"362,0,99,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7665delA	p.Lys2555fs	7665/21291	7665/21291	2555/7096	2555	7096		"INFO_REALIGN_3_PRIME,C"	del2555	CA7926C	del2555	ORF1AB:DEL2555	2555	ORF1a	del2555	ORF1A:DEL2555	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	8098	.	A	T	2835	PASS	461	0.277657	0	"332,0,128,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7833A>T	p.Thr2611Thr	7833/21291	7833/21291	2611/7096	2611	7096		",T"	T2611T	A8098T	T2611T	ORF1AB:T2611T	2611	ORF1a	T2611T	ORF1A:T2611T	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	8363	.	A	G	1090	PASS	230	0.213043	0	"181,0,49,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8098A>G	p.Asn2700Asp	8098/21291	8098/21291	2700/7096	2700	7096		",G"	N2700D	A8363G	N2700D	ORF1AB:N2700D	2700	ORF1a	N2700D	ORF1A:N2700D	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	8395	.	T	C	643	PASS	165	0.218182	0	"129,0,36,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8130T>C	p.Ala2710Ala	8130/21291	8130/21291	2710/7096	2710	7096		",C"	A2710A	T8395C	A2710A	ORF1AB:A2710A	2710	ORF1a	A2710A	ORF1A:A2710A	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	8752	.	CA	C	727	PASS	138	0.181159	0	"113,0,25,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8490delA	p.Lys2830fs	8490/21291	8490/21291	2830/7096	2830	7096		"INFO_REALIGN_3_PRIME,C"	del2830	CA8752C	del2830	ORF1AB:DEL2830	2830	ORF1a	del2830	ORF1A:DEL2830	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	8902	.	T	C	828	PASS	250	0.196	0	"197,0,49,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8637T>C	p.Gly2879Gly	8637/21291	8637/21291	2879/7096	2879	7096		",C"	G2879G	T8902C	G2879G	ORF1AB:G2879G	2879	ORF1a	G2879G	ORF1A:G2879G	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	8983	.	T	G	1912	PASS	284	0.292254	0	"201,0,83,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	9526	.	G	T	13594	PASS	624	0.722756	0	"172,0,451,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	10212	.	A	G	8549	PASS	1897	0.213495	0	"1487,0,405,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9947A>G	p.Asn3316Ser	9947/21291	9947/21291	3316/7096	3316	7096		",G"	N3316S	A10212G	N3316S	ORF1AB:N3316S	3316	ORF1a	N3316S	ORF1A:N3316S	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	10619	.	C	CA	886	PASS	852	0.04108	0	"817,0,35,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10357dupA	p.Thr3453fs	10358/21291	10358/21291	3453/7096	3453	7096		"INFO_REALIGN_3_PRIME,CA"	del3453	C10619CA	del3453	ORF1AB:DEL3453	3453	ORF1a	del3453	ORF1A:DEL3453	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	10645	.	C	T	1612	PASS	668	0.133234	0	"579,0,89,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10380C>T	p.Asp3460Asp	10380/21291	10380/21291	3460/7096	3460	7096		",T"	D3460D	C10645T	D3460D	ORF1AB:D3460D	3460	ORF1a	D3460D	ORF1A:D3460D	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	10833	.	C	T	2996	PASS	239	0.493724	0	"120,0,118,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10568C>T	p.Ala3523Val	10568/21291	10568/21291	3523/7096	3523	7096		",T"	A3523V	C10833T	A3523V	ORF1AB:A3523V	3523	ORF1a	A3523V	ORF1A:A3523V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	10858	.	A	T	1183	PASS	249	0.232932	0	"191,0,58,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10593A>T	p.Leu3531Phe	10593/21291	10593/21291	3531/7096	3531	7096		",T"	L3531F	A10858T	L3531F	ORF1AB:L3531F	3531	ORF1a	L3531F	ORF1A:L3531F	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	11095	.	C	CT	3908	PASS	1016	0.137795	0	"875,0,140,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835dupT	p.Leu3612fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,CT"	del3612	C11095CT	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	11108	.	G	T	376	PASS	1033	0.041626	0	"990,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10843G>T	p.Ala3615Ser	10843/21291	10843/21291	3615/7096	3615	7096		",T"	A3615S	G11108T	A3615S	ORF1AB:A3615S	3615	ORF1a	A3615S	ORF1A:A3615S	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	11497	.	C	T	9532	PASS	993	0.384693	0	"607,0,382,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	12436	.	T	C	4163	PASS	756	0.259259	0	"558,0,196,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	12476	.	A	G	4908	PASS	869	0.256617	0	"645,0,223,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12211A>G	p.Met4071Val	12211/21291	12211/21291	4071/7096	4071	7096		",G"	M4071V	A12476G	M4071V	ORF1AB:M4071V	4071	ORF1a	M4071V	ORF1A:M4071V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	12505	.	TA	T	4248	PASS	884	0.170814	0	"736,0,151,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12245delA	p.Asn4082fs	12245/21291	12245/21291	4082/7096	4082	7096		"INFO_REALIGN_3_PRIME,T"	del4082	TA12505T	del4082	ORF1AB:DEL4082	4082	ORF1a	del4082	ORF1A:DEL4082	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	13413	.	G	T	1411	PASS	1724	0.064385	0	"1609,0,111,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13148G>T	p.Cys4383Phe	13148/21291	13148/21291	4383/7096	4383	7096		",T"	C4383F	G13413T	C4383F	ORF1AB:C4383F	4383	ORF1a	C4383F	ORF1A:C4383F	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	13933	.	T	C	14141	PASS	1032	0.482558	0	"532,0,498,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13669T>C	p.Phe4557Leu	13669/21291	13669/21291	4557/7096	4557	7096		",C"	F4557L	T13933C	F4557L	ORF1AB:F4557L	156	ORF1b	F156L	ORF1B:F156L	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	13945	.	C	T	5236	PASS	1001	0.246753	0	"749,0,247,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13681C>T	p.Pro4561Ser	13681/21291	13681/21291	4561/7096	4561	7096		",T"	P4561S	C13945T	P4561S	ORF1AB:P4561S	160	ORF1b	P160S	ORF1B:P160S	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	13993	.	G	T	4792	PASS	840	0.247619	0	"632,0,208,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	15324	.	C	T	1666	PASS	288	0.263889	0	"211,0,76,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	15766	.	G	T	2363	PASS	96	0.791667	0	"20,0,76,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	16343	.	C	T	5328	PASS	1156	0.214533	0	"906,0,248,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16079C>T	p.Ser5360Leu	16079/21291	16079/21291	5360/7096	5360	7096		",T"	S5360L	C16343T	S5360L	ORF1AB:S5360L	959	ORF1b	S959L	ORF1B:S959L	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	16887	.	C	T	25232	PASS	1548	0.559432	0	"680,0,866,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16623C>T	p.Tyr5541Tyr	16623/21291	16623/21291	5541/7096	5541	7096		",T"	Y5541Y	C16887T	Y5541Y	ORF1AB:Y5541Y	1140	ORF1b	Y1140Y	ORF1B:Y1140Y	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	16889	.	A	G	49314	PASS	1553	0.945911	0	"82,0,1469,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	16904	.	AT	A	44	PASS	1406	0.002134	0	"1424,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16642delT	p.Tyr5548fs	16642/21291	16642/21291	5548/7096	5548	7096		"INFO_REALIGN_3_PRIME,A"	del5548	AT16904A	del5548	ORF1AB:DEL5548	1147	ORF1b	del1147	ORF1B:DEL1147	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	17019	.	G	T	22881	PASS	719	0.947149	0	"36,0,681,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	17059	.	C	CA	142	PASS	569	0.012302	0	"562,0,7,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799dupA	p.Tyr5601fs	16800/21291	16800/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,CA"	del5601	C17059CA	del5601	ORF1AB:DEL5601	1200	ORF1b	del1200	ORF1B:DEL1200	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	17178	.	T	G	288	PASS	22	0.454545	0	"12,0,10,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16914T>G	p.Val5638Val	16914/21291	16914/21291	5638/7096	5638	7096		",G"	V5638V	T17178G	V5638V	ORF1AB:V5638V	1237	ORF1b	V1237V	ORF1B:V1237V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	17939	.	CAA	C	11199	PASS	334	0.91018	0	"30,0,304,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17678_17679delAA	p.Lys5893fs	17678/21291	17678/21291	5893/7096	5893	7096		"INFO_REALIGN_3_PRIME,C"	del5893	CAA17939C	del5893	ORF1AB:DEL5893	1492	ORF1b	del1492	ORF1B:DEL1492	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	18877	.	C	T	10159	PASS	1318	0.319423	0	"894,0,421,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	19336	.	A	T	1256	PASS	1522	0.070959	0	"1410,0,108,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19072A>T	p.Lys6358*	19072/21291	19072/21291	6358/7096	6358	7096		",T"	K6358*	A19336T	K6358*	ORF1AB:K6358*	1957	ORF1b	K1957*	ORF1B:K1957*	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	19638	.	T	C	4860	PASS	920	0.265217	0	"674,0,244,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19374T>C	p.Ala6458Ala	19374/21291	19374/21291	6458/7096	6458	7096		",C"	A6458A	T19638C	A6458A	ORF1AB:A6458A	2057	ORF1b	A2057A	ORF1B:A2057A	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	19723	.	G	T	4222	PASS	833	0.232893	0	"638,0,194,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19459G>T	p.Val6487Phe	19459/21291	19459/21291	6487/7096	6487	7096		",T"	V6487F	G19723T	V6487F	ORF1AB:V6487F	2086	ORF1b	V2086F	ORF1B:V2086F	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	19885	.	A	C	2671	PASS	531	0.231638	0	"407,0,123,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19621A>C	p.Lys6541Gln	19621/21291	19621/21291	6541/7096	6541	7096		",C"	K6541Q	A19885C	K6541Q	ORF1AB:K6541Q	2140	ORF1b	K2140Q	ORF1B:K2140Q	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	20620	.	A	T	3089	PASS	934	0.179872	0	"766,0,168,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20356A>T	p.Lys6786*	20356/21291	20356/21291	6786/7096	6786	7096		",T"	K6786*	A20620T	K6786*	ORF1AB:K6786*	2385	ORF1b	K2385*	ORF1B:K2385*	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	20726	.	A	G	5561	PASS	1133	0.218888	0	"883,0,248,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20462A>G	p.Glu6821Gly	20462/21291	20462/21291	6821/7096	6821	7096		",G"	E6821G	A20726G	E6821G	ORF1AB:E6821G	2420	ORF1b	E2420G	ORF1B:E2420G	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	20856	.	A	G	3066	PASS	946	0.167019	0	"785,0,158,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20592A>G	p.Arg6864Arg	20592/21291	20592/21291	6864/7096	6864	7096		",G"	R6864R	A20856G	R6864R	ORF1AB:R6864R	2463	ORF1b	R2463R	ORF1B:R2463R	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	21060	.	TA	T	68	PASS	1085	0.003687	0	"1081,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20798delA	p.Lys6933fs	20798/21291	20798/21291	6933/7096	6933	7096		"INFO_REALIGN_3_PRIME,T"	del6933	TA21060T	del6933	ORF1AB:DEL6933	2532	ORF1b	del2532	ORF1B:DEL2532	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	21077	.	CA	C	2452	PASS	981	0.090724	0	"892,0,89,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20817delA	p.Glu6940fs	20817/21291	20817/21291	6939/7096	6939	7096		"INFO_REALIGN_3_PRIME,C"	del6940	CA21077C	del6940	ORF1AB:DEL6940	2539	ORF1b	del2539	ORF1B:DEL2539	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	21255	.	G	C	7960	PASS	895	0.365363	0	"565,0,327,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	21289	.	T	C	164	PASS	1030	0.02233	0	"1006,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21025T>C	p.Tyr7009His	21025/21291	21025/21291	7009/7096	7009	7096		",C"	Y7009H	T21289C	Y7009H	ORF1AB:Y7009H	2608	ORF1b	Y2608H	ORF1B:Y2608H	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	21355	.	A	G	68	PASS	1017	0.012783	0	"1003,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21091A>G	p.Asn7031Asp	21091/21291	21091/21291	7031/7096	7031	7096		",G"	N7031D	A21355G	N7031D	ORF1AB:N7031D	2630	ORF1b	N2630D	ORF1B:N2630D	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	21569	.	GT	G	6479	PASS	737	0.282225	0	"530,0,208,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.12delT	p.Val6fs	12/3822	12/3822	4/1273	4	1273		"INFO_REALIGN_3_PRIME,G"	del6	GT21569G	del6	S:DEL6	6	S	del6	S:DEL6	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	21855	.	C	T	3357	PASS	99	1	2147483647	"0,0,99,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	23403	.	A	G	2365	PASS	72	0.986111	2147483647	"0,0,71,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	23583	.	A	G	1392	PASS	97	0.525773	0	"45,0,51,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2021A>G	p.Tyr674Cys	2021/3822	2021/3822	674/1273	674	1273		",G"	Y674C	A23583G	Y674C	S:Y674C	674	S	Y674C	S:Y674C	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	23667	.	A	G	1302	PASS	90	0.533333	0	"42,0,48,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2105A>G	p.Glu702Gly	2105/3822	2105/3822	702/1273	702	1273		",G"	E702G	A23667G	E702G	S:E702G	702	S	E702G	S:E702G	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	23770	.	A	G	771	PASS	94	0.340426	0	"61,0,32,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2208A>G	p.Val736Val	2208/3822	2208/3822	736/1273	736	1273		",G"	V736V	A23770G	V736V	S:V736V	736	S	V736V	S:V736V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	24442	.	C	T	1026	PASS	227	0.211454	0	"177,0,48,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2880C>T	p.Asn960Asn	2880/3822	2880/3822	960/1273	960	1273		",T"	N960N	C24442T	N960N	S:N960N	960	S	N960N	S:N960N	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	24517	.	CA	C	141	PASS	263	0.022814	0	"257,0,6,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2958delA	p.Val987fs	2958/3822	2958/3822	986/1273	986	1273		"INFO_REALIGN_3_PRIME,C"	del987	CA24517C	del987	S:DEL987	987	S	del987	S:DEL987	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	24672	.	CA	C	142	PASS	400	0.0175	0	"393,0,7,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3115delA	p.Arg1039fs	3115/3822	3115/3822	1039/1273	1039	1273		"INFO_REALIGN_3_PRIME,C"	del1039	CA24672C	del1039	S:DEL1039	1039	S	del1039	S:DEL1039	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	24684	.	A	AT	2517	PASS	409	0.207824	0	"325,0,85,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3127dupT	p.Cys1043fs	3128/3822	3128/3822	1043/1273	1043	1273		"INFO_REALIGN_3_PRIME,AT"	del1043	A24684AT	del1043	S:DEL1043	1043	S	del1043	S:DEL1043	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	25324	.	C	A	115	PASS	315	0.063492	0	"295,0,20,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	25336	.	A	C	74	PASS	297	0.057239	0	"278,0,17,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	25505	.	A	G	9897	PASS	285	0.985965	0	"3,0,281,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	25563	.	G	T	1037	PASS	296	0.172297	0	"245,0,51,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	25710	.	C	T	2294	PASS	262	0.347328	0	"171,0,91,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	26735	.	C	T	16469	PASS	1448	0.426105	0	"826,0,617,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	26876	.	T	C	6241	PASS	634	0.38959	0	"387,0,247,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	26895	.	C	T	77	PASS	380	0.023684	0	"371,0,9,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.373C>T	p.His125Tyr	373/669	373/669	125/222	125	222		",T"	H125Y	C26895T	H125Y	M:H125Y	125	M	H125Y	M:H125Y	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	27252	.	T	TA	114	PASS	306	0.01634	0	"301,0,5,0"	TRUE	TA	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.52dupA	p.Ile18fs	53/186	53/186	18/61	18	61		"INFO_REALIGN_3_PRIME,TA"	del18	T27252TA	del18	ORF6:DEL18	18	ORF6	del18	ORF6:DEL18	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	27681	.	TTACTCTCCAATTTTTCTTA	T	7821	PASS	831	0.271961	0	"606,0,226,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.290_308delACTCTCCAATTTTTCTTAT	p.Tyr97fs	290/366	290/366	97/121	97	121		"INFO_REALIGN_3_PRIME,T"	del97	TTACTCTCCAATTTTTCTTA27681T	del97	ORF7A:DEL97	97	ORF7a	del97	ORF7A:DEL97	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	27699	.	TA	T	225	PASS	800	0.01625	0	"787,0,13,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.307delA	p.Ile103fs	307/366	307/366	103/121	103	121		",T"	del103	TA27699T	del103	ORF7A:DEL103	103	ORF7a	del103	ORF7A:DEL103	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	27784	.	ATTTGTGCT	A	4521	PASS	762	0.21916	0	"596,0,167,0"	TRUE	A	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.33_40delGTGCTTTT	p.Leu11fs	33/132	33/132	11/43	11	43		"INFO_REALIGN_3_PRIME,A"	del11	ATTTGTGCT27784A	del11	ORF7B:DEL11	11	ORF7b	del11	ORF7B:DEL11	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	27944	.	C	T	5520	PASS	643	0.345257	0	"419,0,222,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28045	.	C	T	844	PASS	218	0.206422	0	"172,0,45,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28198	.	G	T	1300	PASS	224	0.263393	0	"162,0,59,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.305G>T	p.Cys102Phe	305/366	305/366	102/121	102	121		",T"	C102F	G28198T	C102F	ORF8:C102F	102	ORF8	C102F	ORF8:C102F	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28254	.	A	C	187	PASS	213	0.093897	0	"192,0,20,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28378	.	G	T	11660	PASS	1018	0.44499	0	"565,0,453,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28472	.	C	T	2009	PASS	1679	0.088148	0	"1525,0,148,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.199C>T	p.Pro67Ser	199/1260	199/1260	67/419	67	419		",T"	P67S	C28472T	P67S	N:P67S	67	N	P67S	N:P67S	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28651	.	CA	C	9151	PASS	2002	0.158841	0	"1685,0,318,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.381delA	p.Asp128fs	381/1260	381/1260	127/419	127	419		"INFO_REALIGN_3_PRIME,C"	del128	CA28651C	del128	N:DEL128	128	N	del128	N:DEL128	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28651	.	C	T	26473	PASS	2003	0.490764	0	"1013,0,983,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28869	.	C	T	49314	PASS	2849	0.689365	0	"881,0,1964,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28903	.	G	T	10254	PASS	2791	0.186671	0	"2269,0,521,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.630G>T	p.Met210Ile	630/1260	630/1260	210/419	210	419		",T"	M210I	G28903T	M210I	N:M210I	210	N	M210I	N:M210I	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28932	.	C	T	20987	PASS	2800	0.326071	0	"1878,0,913,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB37-1	NC_045512.2	28969	.	CA	C	11610	PASS	2653	0.15115	0	"2252,0,401,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.700delA	p.Met234fs	700/1260	700/1260	234/419	234	419		"INFO_REALIGN_3_PRIME,C"	del234	CA28969C	del234	N:DEL234	234	N	del234	N:DEL234	UEB37-1	UEBERSYREN	2020-12-06T00:00:00Z	32.103	33.01333333	x	1022021	2020-12-06
UEB38-3	NC_045512.2	241	.	C	T	14363	PASS	400	0.9975	0	"1,0,292,107"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	445	.	T	C	7068	PASS	476	0.497899	0	"96,143,96,141"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	3037	.	C	T	1651	PASS	47	1	0	"0,0,22,25"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	3349	.	T	G	184	PASS	16	0.375	2	"6,4,5,1"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3084T>G	p.Phe1028Leu	3084/21291	3084/21291	1028/7096	1028	7096		",G"	F1028L	T3349G	F1028L	ORF1AB:F1028L	1028	ORF1a	F1028L	ORF1A:F1028L	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	3508	.	T	C	181	PASS	19	0.315789	0	"4,9,1,5"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3243T>C	p.Asn1081Asn	3243/21291	3243/21291	1081/7096	1081	7096		",C"	N1081N	T3508C	N1081N	ORF1AB:N1081N	1081	ORF1a	N1081N	ORF1A:N1081N	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	6696	.	C	CT	182	PASS	10	0.5	0	"4,1,5,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	6941	.	C	T	270	PASS	12	0.666667	0	"1,3,3,5"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	7390	.	C	T	762	PASS	21	1	0	"0,0,10,11"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7125C>T	p.Ala2375Ala	7125/21291	7125/21291	2375/7096	2375	7096		",T"	A2375A	C7390T	A2375A	ORF1AB:A2375A	2375	ORF1a	A2375A	ORF1A:A2375A	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	9199	.	T	C	104	PASS	14	0.285714	2	"5,5,1,3"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8934T>C	p.Thr2978Thr	8934/21291	8934/21291	2978/7096	2978	7096		",C"	T2978T	T9199C	T2978T	ORF1AB:T2978T	2978	ORF1a	T2978T	ORF1A:T2978T	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	9321	.	G	T	108	PASS	12	0.416667	2	"5,2,2,3"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9056G>T	p.Cys3019Phe	9056/21291	9056/21291	3019/7096	3019	7096		",T"	C3019F	G9321T	C3019F	ORF1AB:C3019F	3019	ORF1a	C3019F	ORF1A:C3019F	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	9526	.	G	T	241	PASS	10	0.7	0	"0,3,1,6"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	11287	.	GTCTGGTTTT	G	2166	PASS	88	0.784091	0	"9,12,26,43"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	12347	.	G	T	2285	PASS	191	0.418848	1	"77,34,58,22"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12082G>T	p.Ala4028Ser	12082/21291	12082/21291	4028/7096	4028	7096		",T"	A4028S	G12347T	A4028S	ORF1AB:A4028S	4028	ORF1a	A4028S	ORF1A:A4028S	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	12567	.	T	C	3205	PASS	270	0.425926	4	"85,70,70,45"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12302T>C	p.Val4101Ala	12302/21291	12302/21291	4101/7096	4101	7096		",C"	V4101A	T12567C	V4101A	ORF1AB:V4101A	4101	ORF1a	V4101A	ORF1A:V4101A	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	13993	.	G	T	5526	PASS	282	0.62766	0	"25,79,45,132"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	14653	.	G	A	3845	PASS	609	0.247947	0	"378,80,126,25"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14389G>A	p.Val4797Ile	14389/21291	14389/21291	4797/7096	4797	7096		",A"	V4797I	G14653A	V4797I	ORF1AB:V4797I	396	ORF1b	V396I	ORF1B:V396I	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	15089	.	C	A	70	PASS	602	0.018272	20	"221,370,0,11"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14825C>A	p.Ala4942Glu	14825/21291	14825/21291	4942/7096	4942	7096		",A"	A4942E	C15089A	A4942E	ORF1AB:A4942E	541	ORF1b	A541E	ORF1B:A541E	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	15165	.	AT	A	1287	PASS	552	0.088768	3	"156,347,12,37"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14903delT	p.Leu4968fs	14903/21291	14903/21291	4968/7096	4968	7096		"INFO_REALIGN_3_PRIME,A"	del4968	AT15165A	del4968	ORF1AB:DEL4968	567	ORF1b	del567	ORF1B:DEL567	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	15324	.	C	T	2463	PASS	288	0.333333	4	"27,165,9,87"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	15766	.	G	T	358	PASS	10	1	0	"0,0,1,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	16889	.	A	G	9159	PASS	244	1	0	"0,0,84,160"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	17019	.	G	T	5947	PASS	164	0.987805	0	"0,0,17,145"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	18215	.	G	GT	1188	PASS	50	0.7	0	"12,3,29,6"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17955dupT	p.Lys5986fs	17956/21291	17956/21291	5986/7096	5986	7096		"INFO_REALIGN_3_PRIME,GT"	del5986	G18215GT	del5986	ORF1AB:DEL5986	1585	ORF1b	del1585	ORF1B:DEL1585	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	20549	.	AT	A	76	PASS	587	0.006814	2	"373,210,2,2"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20288delT	p.Leu6763fs	20288/21291	20288/21291	6763/7096	6763	7096		"INFO_REALIGN_3_PRIME,A"	del6763	AT20549A	del6763	ORF1AB:DEL6763	2362	ORF1b	del2362	ORF1B:DEL2362	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	20740	.	C	CA	8906	PASS	702	0.376068	0	1.99239E+11	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20480dupA	p.Asn6827fs	20481/21291	20481/21291	6827/7096	6827	7096		"INFO_REALIGN_3_PRIME,CA"	del6827	C20740CA	del6827	ORF1AB:DEL6827	2426	ORF1b	del2426	ORF1B:DEL2426	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	21981	.	TTTTGGGTG	T	1178	PASS	69	0.492754	0	"15,20,16,18"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.423_430delGGGTGTTT	p.Gly142fs	423/3822	423/3822	141/1273	141	1273		"INFO_REALIGN_3_PRIME,T"	del142	TTTTGGGTG21981T	del142	S:DEL142	142	S	del142	S:DEL142	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	22227	.	C	T	1013	PASS	29	0.965517	0	"0,1,2,26"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	22287	.	T	C	312	PASS	19	0.526316	6	"0,9,3,7"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.725T>C	p.Leu242Pro	725/3822	725/3822	242/1273	242	1273		",C"	L242P	T22287C	L242P	S:L242P	242	S	L242P	S:L242P	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	22289	.	G	A	316	PASS	19	0.526316	6	"0,9,3,7"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.727G>A	p.Ala243Thr	727/3822	727/3822	243/1273	243	1273		",A"	A243T	G22289A	A243T	S:A243T	243	S	A243T	S:A243T	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	24691	.	TG	T	6040	PASS	434	0.430876	9	"114,134,100,87"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3131delG	p.Gly1044fs	3131/3822	3131/3822	1044/1273	1044	1273		"INFO_REALIGN_3_PRIME,T"	del1044	TG24691T	del1044	S:DEL1044	1044	S	del1044	S:DEL1044	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	24781	.	G	T	6532	PASS	463	0.468682	1	"141,105,129,88"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3219G>T	p.Lys1073Asn	3219/3822	3219/3822	1073/1273	1073	1273		",T"	K1073N	G24781T	K1073N	S:K1073N	1073	S	K1073N	S:K1073N	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	25563	.	G	T	2447	PASS	178	0.47191	9	"34,60,20,64"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	25710	.	C	T	1348	PASS	119	0.411765	4	"9,61,3,46"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	26801	.	C	G	3717	PASS	139	0.81295	0	"0,0,8,105"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	26801	.	C	T	531	PASS	139	0.18705	0	"0,0,24,2"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>T	p.Leu93Leu	279/669	279/669	93/222	93	222		",T"	L93L	C26801T	L93L	M:L93L	93	M	L93L	M:L93L	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	27906	.	G	GT	916	PASS	205	0.15122	3	"113,61,23,8"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.17dupT	p.Gly8fs	18/366	18/366	6/121	6	121		"INFO_REALIGN_3_PRIME,GT"	del8	G27906GT	del8	ORF8:DEL8	8	ORF8	del8	ORF8:DEL8	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	27944	.	C	T	5296	PASS	255	0.635294	78	"39,54,126,36"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28253	.	C	T	1002	PASS	212	0.193396	3	"94,77,20,21"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.360C>T	p.Phe120Phe	360/366	360/366	120/121	120	121		",T"	F120F	C28253T	F120F	ORF8:F120F	120	ORF8	F120F	ORF8:F120F	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28657	.	C	T	20668	PASS	902	0.708426	44	1.1215E+11	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28862	.	T	A	27662	PASS	1016	0.802165	41	71129418397	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.589T>A	p.Ser197Thr	589/1260	589/1260	197/419	197	419		",A"	S197T	T28862A	S197T	N:S197T	197	N	S197T	N:S197T	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28881	.	G	A	23106	PASS	888	0.766892	40	73134346335	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28882	.	G	A	22573	PASS	886	0.767494	39	72132345335	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28883	.	G	C	22882	PASS	889	0.769404	36	73131345339	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28913	.	G	T	26740	PASS	948	0.838608	6	"66,87,385,410"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.640G>T	p.Gly214Cys	640/1260	640/1260	214/419	214	419		",T"	G214C	G28913T	G214C	N:G214C	214	N	G214C	N:G214C	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28975	.	G	C	2958	PASS	921	0.155266	7	"265,512,40,103"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB38-3	NC_045512.2	28987	.	CCAA	C	51	PASS	868	0.003456	5	"288,594,2,1"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	UEB38-3	UEBERSYREN	2020-12-17T00:00:00Z	33.61	34.81	To be done	NA	2020-12-17
UEB49-1	NC_045512.2	5388	.	C	A	487	PASS	13	1	0	"0,0,2,11"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5123C>A	p.Ala1708Asp	5123/21291	5123/21291	1708/7096	1708	7096		",A"	A1708D	C5388A	A1708D	ORF1AB:A1708D	1708	ORF1a	A1708D	ORF1A:A1708D	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	5986	.	C	T	4601	PASS	123	1	2147483647	"0,0,123,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5721C>T	p.Phe1907Phe	5721/21291	5721/21291	1907/7096	1907	7096		",T"	F1907F	C5986T	F1907F	ORF1AB:F1907F	1907	ORF1a	F1907F	ORF1A:F1907F	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	6079	.	T	A	1529	PASS	109	0.486239	3	"41,15,34,19"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5814T>A	p.Ala1938Ala	5814/21291	5814/21291	1938/7096	1938	7096		",A"	A1938A	T6079A	A1938A	ORF1AB:A1938A	1938	ORF1a	A1938A	ORF1A:A1938A	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	6160	.	TG	T	3060	PASS	200	0.5	4	"50,50,58,42"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5896delG	p.Asp1966fs	5896/21291	5896/21291	1966/7096	1966	7096		",T"	del1966	TG6160T	del1966	ORF1AB:DEL1966	1966	ORF1a	del1966	ORF1A:DEL1966	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	7431	.	C	T	535	PASS	14	1	0	"0,0,7,7"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7166C>T	p.Ser2389Leu	7166/21291	7166/21291	2389/7096	2389	7096		",T"	S2389L	C7431T	S2389L	ORF1AB:S2389L	2389	ORF1a	S2389L	ORF1A:S2389L	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	14408	.	C	T	354	PASS	10	1	0	"0,0,2,8"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	14676	.	C	T	7011	PASS	196	0.994898	0	"0,0,160,35"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	15096	.	T	C	8217	PASS	247	0.935223	24	"14,2,116,115"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14832T>C	p.Asn4944Asn	14832/21291	14832/21291	4944/7096	4944	7096		",C"	N4944N	T15096C	N4944N	ORF1AB:N4944N	543	ORF1b	N543N	ORF1B:N543N	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	15168	.	G	A	81	PASS	264	0.041667	28	"118,135,0,11"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14904G>A	p.Leu4968Leu	14904/21291	14904/21291	4968/7096	4968	7096		",A"	L4968L	G15168A	L4968L	ORF1AB:L4968L	567	ORF1b	L567L	ORF1B:L567L	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	15279	.	C	T	7567	PASS	214	0.995327	0	"0,1,56,157"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	15486	.	A	T	942	PASS	108	0.37037	6	"35,32,16,24"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15222A>T	p.Ser5074Ser	15222/21291	15222/21291	5074/7096	5074	7096		",T"	S5074S	A15486T	S5074S	ORF1AB:S5074S	673	ORF1b	S673S	ORF1B:S673S	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	15543	.	G	T	966	PASS	90	0.377778	2	"31,25,22,12"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15279G>T	p.Thr5093Thr	15279/21291	15279/21291	5093/7096	5093	7096		",T"	T5093T	G15543T	T5093T	ORF1AB:T5093T	692	ORF1b	T692T	ORF1B:T692T	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	17259	.	G	T	405	PASS	26	0.538462	6	"4,8,9,5"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16995G>T	p.Glu5665Asp	16995/21291	16995/21291	5665/7096	5665	7096		",T"	E5665D	G17259T	E5665D	ORF1AB:E5665D	1264	ORF1b	E1264D	ORF1B:E1264D	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	17337	.	A	G	343	PASS	21	0.52381	1	"3,7,2,9"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17073A>G	p.Thr5691Thr	17073/21291	17073/21291	5691/7096	5691	7096		",G"	T5691T	A17337G	T5691T	ORF1AB:T5691T	1290	ORF1b	T1290T	ORF1B:T1290T	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	18132	.	T	C	3060	PASS	203	0.512315	11	"1,98,7,97"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17868T>C	p.Thr5956Thr	17868/21291	17868/21291	5956/7096	5956	7096		",C"	T5956T	T18132C	T5956T	ORF1AB:T5956T	1555	ORF1b	T1555T	ORF1B:T1555T	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	18985	.	G	T	1107	PASS	29	1	0	"0,0,13,16"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18721G>T	p.Val6241Phe	18721/21291	18721/21291	6241/7096	6241	7096		",T"	V6241F	G18985T	V6241F	ORF1AB:V6241F	1840	ORF1b	V1840F	ORF1B:V1840F	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	21990	.	TTTA	T	406	PASS	10	1	0	"0,0,5,5"	TRUE	T	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.432_434delTTA	p.Tyr145del	432/3822	432/3822	144/1273	144	1273		"INFO_REALIGN_3_PRIME,T"	del145	TTTA21990T	del145	S:DEL145	145	S	del145	S:DEL145	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	23063	.	A	T	421	PASS	12	1	0	"0,0,5,7"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1501A>T	p.Asn501Tyr	1501/3822	1501/3822	501/1273	501	1273		",T"	N501Y	A23063T	N501Y	S:N501Y	501	S	N501Y	S:N501Y	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	23271	.	C	A	477	PASS	13	1	0	"0,0,5,8"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1709C>A	p.Ala570Asp	1709/3822	1709/3822	570/1273	570	1273		",A"	A570D	C23271A	A570D	S:A570D	570	S	A570D	S:A570D	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	23403	.	A	G	384	PASS	11	1	0	"0,0,2,9"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	24506	.	T	G	7974	PASS	220	1	0	"0,0,149,71"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	24914	.	G	C	7853	PASS	256	0.929688	84	"18,0,75,163"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	25185	.	AG	A	286	PASS	126	0.087302	0	"17,102,1,10"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3624delG	p.Gln1208fs	3624/3822	3624/3822	1208/1273	1208	1273		",A"	del1208	AG25185A	del1208	S:DEL1208	1208	S	del1208	S:DEL1208	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	26158	.	G	T	710	PASS	519	0.077071	30	"430,49,28,12"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.766G>T	p.Val256Phe	766/828	766/828	256/275	256	275		",T"	V256F	G26158T	V256F	ORF3A:V256F	256	ORF3a	V256F	ORF3A:V256F	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	26801	.	C	G	4146	PASS	548	0.290146	37	"57,332,6,153"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	27972	.	C	T	11758	PASS	317	1	0	"0,0,142,175"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28030	.	A	T	1591	PASS	313	0.233227	18	"134,104,53,20"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.137A>T	p.Tyr46Phe	137/366	137/366	46/121	46	121		",T"	Y46F	A28030T	Y46F	ORF8:Y46F	46	ORF8	Y46F	ORF8:Y46F	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28048	.	G	T	11634	PASS	314	0.996815	0	"1,0,196,117"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28111	.	A	G	10657	PASS	304	0.996711	0	"0,0,212,91"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.218A>G	p.Tyr73Cys	218/366	218/366	73/121	73	121		",G"	Y73C	A28111G	Y73C	ORF8:Y73C	73	ORF8	Y73C	ORF8:Y73C	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28253	.	CA	C	8897	PASS	249	0.987952	1	"1,3,101,145"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361delA	p.Ile121fs	361/366	361/366	121/121	121	121		",C"	del121	CA28253C	del121	ORF8:DEL121	121	ORF8	del121	ORF8:DEL121	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28270	.	TA	T	6078	PASS	298	0.909396	31	"5,24,134,137"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28280	.	G	C	5916	PASS	264	1	0	"0,0,126,138"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28281	.	A	T	5864	PASS	264	0.996212	0	"0,0,125,138"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28282	.	T	A	6022	PASS	276	0.996377	3	"1,0,130,145"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28411	.	C	A	2258	PASS	909	0.121012	126	"586,213,41,69"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.138C>A	p.Pro46Pro	138/1260	138/1260	46/419	46	419		",A"	P46P	C28411A	P46P	N:P46P	46	N	P46P	N:P46P	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28881	.	G	A	33961	PASS	911	0.998902	0	"0,0,469,441"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28882	.	G	A	33222	PASS	909	0.9967	6	"0,2,467,439"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28883	.	G	C	33703	PASS	913	0.997809	0	"0,0,466,445"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28907	.	G	A	246	PASS	1044	0.021073	5	"497,525,8,14"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.634G>A	p.Gly212Ser	634/1260	634/1260	212/419	212	419		",A"	G212S	G28907A	G212S	N:G212S	212	N	G212S	N:G212S	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28977	.	C	T	36947	PASS	1018	0.998035	0	"0,1,322,694"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	28987	.	CCAA	C	49	PASS	964	0.003112	0	"273,701,1,2"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	29051	.	C	CA	3766	PASS	885	0.149153	4	"150,607,31,101"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
UEB49-1	NC_045512.2	29127	.	A	AT	3335	PASS	604	0.188742	3	"12,479,1,113"	TRUE	AT	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.858dupT	p.Gly287fs	859/1260	859/1260	287/419	287	419		"INFO_REALIGN_3_PRIME,AT"	del287	A29127AT	del287	N:DEL287	287	N	del287	N:DEL287	UEB49-1	UEBERSYREN	2021-03-01T00:00:00Z	32.1105	35.43333333	To be done	NA	2021-03-01
VIE32-2	NC_045512.2	241	.	C	T	31290	PASS	894	0.997763	2147483647	"0,0,892,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	335	.	C	T	31428	PASS	866	1	2147483647	"0,0,866,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	603	.	A	G	430	PASS	853	0.033998	0	"824,0,29,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.338A>G	p.Glu113Gly	338/21291	338/21291	113/7096	113	7096		",G"	E113G	A603G	E113G	ORF1AB:E113G	113	ORF1a	E113G	ORF1A:E113G	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	1011	.	ATG	A	16084	PASS	1012	0.503953	0	"534,0,510,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.747_748delTG	p.Tyr249fs	747/21291	747/21291	249/7096	249	7096		",A"	del249	ATG1011A	del249	ORF1AB:DEL249	249	ORF1a	del249	ORF1A:DEL249	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	1582	.	TG	T	45	PASS	184	0.01087	0	"185,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1319delG	p.Gly440fs	1319/21291	1319/21291	440/7096	440	7096		"INFO_REALIGN_3_PRIME,T"	del440	TG1582T	del440	ORF1AB:DEL440	440	ORF1a	del440	ORF1A:DEL440	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	1760	.	T	C	3800	PASS	147	0.993197	0	"1,0,146,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1495T>C	p.Phe499Leu	1495/21291	1495/21291	499/7096	499	7096		",C"	F499L	T1760C	F499L	ORF1AB:F499L	499	ORF1a	F499L	ORF1A:F499L	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	1761	.	TCAAA	T	4507	PASS	147	0.911565	0	"13,0,134,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1501_1504delCAAA	p.Gln501fs	1501/21291	1501/21291	501/7096	501	7096		"INFO_REALIGN_3_PRIME,T"	del501	TCAAA1761T	del501	ORF1AB:DEL501	501	ORF1a	del501	ORF1A:DEL501	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	3037	.	C	T	1230	PASS	34	1	2147483647	"0,0,34,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	3602	.	C	T	2045	PASS	57	1	2147483647	"0,0,57,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	6717	.	GT	G	46	PASS	160	0.0125	0	"159,0,2,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6453delT	p.Ser2151fs	6453/21291	6453/21291	2151/7096	2151	7096		",G"	del2151	GT6717G	del2151	ORF1AB:DEL2151	2151	ORF1a	del2151	ORF1A:DEL2151	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	6931	.	T	C	1532	PASS	178	0.320225	0	"121,0,57,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6666T>C	p.Asn2222Asn	6666/21291	6666/21291	2222/7096	2222	7096		",C"	N2222N	T6931C	N2222N	ORF1AB:N2222N	2222	ORF1a	N2222N	ORF1A:N2222N	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	6941	.	C	T	6246	PASS	177	1	2147483647	"0,0,177,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	8317	.	AC	A	38	PASS	303	0.006601	0	"312,0,2,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8056delC	p.Arg2686fs	8056/21291	8056/21291	2686/7096	2686	7096		"INFO_REALIGN_3_PRIME,A"	del2686	AC8317A	del2686	ORF1AB:DEL2686	2686	ORF1a	del2686	ORF1A:DEL2686	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	9314	.	G	GT	1407	PASS	199	0.221106	0	"154,0,44,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9053dupT	p.Cys3019fs	9054/21291	9054/21291	3018/7096	3018	7096		"INFO_REALIGN_3_PRIME,GT"	del3019	G9314GT	del3019	ORF1AB:DEL3019	3019	ORF1a	del3019	ORF1A:DEL3019	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	11088	.	A	G	157	PASS	98	0.081633	0	"90,0,8,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10823A>G	p.Glu3608Gly	10823/21291	10823/21291	3608/7096	3608	7096		",G"	E3608G	A11088G	E3608G	ORF1AB:E3608G	3608	ORF1a	E3608G	ORF1A:E3608G	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	15324	.	C	T	341	PASS	10	1	2147483647	"0,0,10,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	17005	.	A	G	66	PASS	149	0.026846	0	"145,0,4,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16741A>G	p.Asn5581Asp	16741/21291	16741/21291	5581/7096	5581	7096		",G"	N5581D	A17005G	N5581D	ORF1AB:N5581D	1180	ORF1b	N1180D	ORF1B:N1180D	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	17067	.	T	C	71	PASS	89	0.044944	0	"85,0,4,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16803T>C	p.Tyr5601Tyr	16803/21291	16803/21291	5601/7096	5601	7096		",C"	Y5601Y	T17067C	Y5601Y	ORF1AB:Y5601Y	1200	ORF1b	Y1200Y	ORF1B:Y1200Y	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	21156	.	C	T	1958	PASS	126	0.515873	0	"61,0,65,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20892C>T	p.Ser6964Ser	20892/21291	20892/21291	6964/7096	6964	7096		",T"	S6964S	C21156T	S6964S	ORF1AB:S6964S	2563	ORF1b	S2563S	ORF1B:S2563S	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	21795	.	G	T	1430	PASS	79	0.594937	0	"32,0,47,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.233G>T	p.Arg78Met	233/3822	233/3822	78/1273	78	1273		",T"	R78M	G21795T	R78M	S:R78M	78	S	R78M	S:R78M	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	21855	.	C	T	1078	PASS	84	0.428571	0	"48,0,36,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	21928	.	C	T	1175	PASS	62	0.596774	0	"25,0,37,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.366C>T	p.Asn122Asn	366/3822	366/3822	122/1273	122	1273		",T"	N122N	C21928T	N122N	S:N122N	122	S	N122N	S:N122N	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	21970	.	TA	T	54	PASS	65	0.030769	0	"63,0,2,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.410delA	p.Asn137fs	410/3822	410/3822	137/1273	137	1273		"INFO_REALIGN_3_PRIME,T"	del137	TA21970T	del137	S:DEL137	137	S	del137	S:DEL137	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	22224	.	C	T	1040	PASS	53	0.622642	0	"20,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.662C>T	p.Ser221Leu	662/3822	662/3822	221/1273	221	1273		",T"	S221L	C22224T	S221L	S:S221L	221	S	S221L	S:S221L	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	22891	.	TA	T	40	PASS	75	0.026667	0	"73,0,2,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1331delA	p.Lys444fs	1331/3822	1331/3822	444/1273	444	1273		"INFO_REALIGN_3_PRIME,T"	del444	TA22891T	del444	S:DEL444	444	S	del444	S:DEL444	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	23403	.	A	G	1614	PASS	45	1	2147483647	"0,0,45,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	24885	.	A	AT	1225	PASS	35	0.914286	0	"3,0,32,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3328dupT	p.Tyr1110fs	3329/3822	3329/3822	1110/1273	1110	1273		"INFO_REALIGN_3_PRIME,AT"	del1110	A24885AT	del1110	S:DEL1110	1110	S	del1110	S:DEL1110	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25244	.	G	T	62	PASS	444	0.029279	0	"431,0,13,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25247	.	A	T	88	PASS	449	0.037862	0	"432,0,17,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25254	.	C	A	110	PASS	481	0.039501	0	"462,0,19,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25259	.	A	T	65	PASS	492	0.03252	0	"475,0,16,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25269	.	G	T	61	PASS	458	0.030568	0	"444,0,14,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3707G>T	p.Cys1236Phe	3707/3822	3707/3822	1236/1273	1236	1273		",T"	C1236F	G25269T	C1236F	S:C1236F	1236	S	C1236F	S:C1236F	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25273	.	G	C	88	PASS	456	0.041667	0	"436,0,19,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25277	.	A	T	81	PASS	444	0.042793	0	"421,0,19,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25286	.	A	T	131	PASS	460	0.058696	0	"426,0,27,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25296	.	A	C	345	PASS	464	0.103448	0	"396,0,48,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25296	.	A	T	72	PASS	464	0.043103	0	"396,0,20,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25312	.	T	G	69	PASS	478	0.043933	0	"454,0,21,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25323	.	G	C	239	PASS	468	0.094017	0	"419,0,44,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25324	.	C	A	1190	PASS	471	0.229299	0	"362,0,108,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25327	.	A	T	84	PASS	471	0.053079	0	"446,0,25,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25331	.	G	T	122	PASS	469	0.066098	0	"433,0,31,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25334	.	G	C	216	PASS	466	0.094421	0	"415,0,44,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25336	.	A	C	614	PASS	476	0.165966	0	"397,0,79,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25337	.	G	C	327	PASS	448	0.122768	0	"393,0,55,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	25505	.	A	G	15322	PASS	423	1	2147483647	"0,0,423,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	26408	.	CT	C	80	PASS	1031	0.00485	0	"1026,0,5,0"	TRUE	C	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.169delT	p.Tyr57fs	169/228	169/228	57/75	57	75		"INFO_REALIGN_3_PRIME,C"	del57	CT26408C	del57	E:DEL57	57	E	del57	E:DEL57	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	27288	.	TG	T	3717	PASS	497	0.253521	0	"371,0,126,0"	TRUE	T	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.88delG	p.Asp30fs	88/186	88/186	30/61	30	61		",T"	del30	TG27288T	del30	ORF6:DEL30	30	ORF6	del30	ORF6:DEL30	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	27289	.	G	T	118	PASS	505	0.021782	0	"368,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.88G>T	p.Asp30Tyr	88/186	88/186	30/61	30	61		",T"	D30Y	G27289T	D30Y	ORF6:D30Y	30	ORF6	D30Y	ORF6:D30Y	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	27881	.	C	T	2531	PASS	1048	0.118321	0	"922,0,124,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	28651	.	C	T	39853	PASS	1127	0.999113	2147483647	"0,0,1126,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	28869	.	C	T	49314	PASS	1699	0.998823	2147483647	"0,0,1697,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE32-2	NC_045512.2	28987	.	CCAA	C	45	PASS	1343	0.002234	0	"1344,0,3,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	VIE32-2	TROISVIERGES	2020-11-05T00:00:00Z	32.5935	35.02333333	x	14122020	2020-11-05
VIE35-1	NC_045512.2	241	.	C	T	49314	PASS	2300	0.998696	0	"1,0,2297,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	313	.	C	T	16326	PASS	2303	0.28832	0	"1633,0,664,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.48C>T	p.Leu16Leu	48/21291	48/21291	16/7096	16	7096		",T"	L16L	C313T	L16L	ORF1AB:L16L	16	ORF1a	L16L	ORF1A:L16L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	335	.	C	T	10759	PASS	2416	0.199089	0	"1933,0,481,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	344	.	C	A	10973	PASS	2405	0.205405	0	"1910,0,494,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.79C>A	p.Leu27Ile	79/21291	79/21291	27/7096	27	7096		",A"	L27I	C344A	L27I	ORF1AB:L27I	27	ORF1a	L27I	ORF1A:L27I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	371	.	G	T	15987	PASS	2644	0.26059	0	"1951,0,689,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.106G>T	p.Glu36*	106/21291	106/21291	36/7096	36	7096		",T"	E36*	G371T	E36*	ORF1AB:E36*	36	ORF1a	E36*	ORF1A:E36*	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	645	.	G	T	3430	PASS	2817	0.079872	0	"2587,0,225,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.380G>T	p.Gly127Val	380/21291	380/21291	127/7096	127	7096		",T"	G127V	G645T	G127V	ORF1AB:G127V	127	ORF1a	G127V	ORF1A:G127V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	802	.	A	C	141	PASS	2219	0.012618	0	"2185,0,28,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	1059	.	C	T	31801	PASS	2274	0.496482	0	"1143,0,1129,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.794C>T	p.Thr265Ile	794/21291	794/21291	265/7096	265	7096		",T"	T265I	C1059T	T265I	ORF1AB:T265I	265	ORF1a	T265I	ORF1A:T265I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	1792	.	TA	T	16169	PASS	1666	0.320528	0	"1132,0,534,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1530delA	p.Val511fs	1530/21291	1530/21291	510/7096	510	7096		"INFO_REALIGN_3_PRIME,T"	del511	TA1792T	del511	ORF1AB:DEL511	511	ORF1a	del511	ORF1A:DEL511	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	2518	.	G	T	8245	PASS	688	0.457849	0	"372,0,315,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2253G>T	p.Val751Val	2253/21291	2253/21291	751/7096	751	7096		",T"	V751V	G2518T	V751V	ORF1AB:V751V	751	ORF1a	V751V	ORF1A:V751V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	2560	.	A	T	5411	PASS	710	0.301408	0	"495,0,214,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2295A>T	p.Pro765Pro	2295/21291	2295/21291	765/7096	765	7096		",T"	P765P	A2560T	P765P	ORF1AB:P765P	765	ORF1a	P765P	ORF1A:P765P	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	2713	.	A	C	125	PASS	1182	0.021151	0	"1155,0,25,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2448A>C	p.Lys816Asn	2448/21291	2448/21291	816/7096	816	7096		",C"	K816N	A2713C	K816N	ORF1AB:K816N	816	ORF1a	K816N	ORF1A:K816N	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	3037	.	C	T	32598	PASS	958	0.996868	2147483647	"0,0,955,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	3345	.	GT	G	49	PASS	95	0.021053	0	"93,0,2,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3084delT	p.Phe1028fs	3084/21291	3084/21291	1028/7096	1028	7096		"INFO_REALIGN_3_PRIME,G"	del1028	GT3345G	del1028	ORF1AB:DEL1028	1028	ORF1a	del1028	ORF1A:DEL1028	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	3634	.	CA	C	50	PASS	101	0.019802	0	"99,0,2,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3372delA	p.Gly1125fs	3372/21291	3372/21291	1124/7096	1124	7096		"INFO_REALIGN_3_PRIME,C"	del1125	CA3634C	del1125	ORF1AB:DEL1125	1125	ORF1a	del1125	ORF1A:DEL1125	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	3802	.	TA	T	465	PASS	47	0.319149	0	"34,0,15,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3542delA	p.Asn1181fs	3542/21291	3542/21291	1181/7096	1181	7096		"INFO_REALIGN_3_PRIME,T"	del1181	TA3802T	del1181	ORF1AB:DEL1181	1181	ORF1a	del1181	ORF1A:DEL1181	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	4141	.	A	G	177	PASS	109	0.110092	0	"97,0,12,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3876A>G	p.Gln1292Gln	3876/21291	3876/21291	1292/7096	1292	7096		",G"	Q1292Q	A4141G	Q1292Q	ORF1AB:Q1292Q	1292	ORF1a	Q1292Q	ORF1A:Q1292Q	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	4886	.	C	T	5168	PASS	448	0.430804	0	"253,0,193,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4621C>T	p.Pro1541Ser	4621/21291	4621/21291	1541/7096	1541	7096		",T"	P1541S	C4886T	P1541S	ORF1AB:P1541S	1541	ORF1a	P1541S	ORF1A:P1541S	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	5051	.	C	T	4084	PASS	494	0.346154	0	"323,0,171,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4786C>T	p.Pro1596Ser	4786/21291	4786/21291	1596/7096	1596	7096		",T"	P1596S	C5051T	P1596S	ORF1AB:P1596S	1596	ORF1a	P1596S	ORF1A:P1596S	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	5613	.	T	C	621	PASS	333	0.15015	0	"281,0,50,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5348T>C	p.Val1783Ala	5348/21291	5348/21291	1783/7096	1783	7096		",C"	V1783A	T5613C	V1783A	ORF1AB:V1783A	1783	ORF1a	V1783A	ORF1A:V1783A	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	5797	.	T	C	73	PASS	313	0.028754	0	"302,0,9,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5532T>C	p.Thr1844Thr	5532/21291	5532/21291	1844/7096	1844	7096		",C"	T1844T	T5797C	T1844T	ORF1AB:T1844T	1844	ORF1a	T1844T	ORF1A:T1844T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	5826	.	CA	C	3236	PASS	303	0.326733	0	"204,0,99,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5564delA	p.Lys1855fs	5564/21291	5564/21291	1855/7096	1855	7096		"INFO_REALIGN_3_PRIME,C"	del1855	CA5826C	del1855	ORF1AB:DEL1855	1855	ORF1a	del1855	ORF1A:DEL1855	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	6040	.	C	A	1089	PASS	272	0.191176	0	"220,0,52,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5775C>A	p.Phe1925Leu	5775/21291	5775/21291	1925/7096	1925	7096		",A"	F1925L	C6040A	F1925L	ORF1AB:F1925L	1925	ORF1a	F1925L	ORF1A:F1925L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	6275	.	A	G	1524	PASS	227	0.286344	0	"162,0,65,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6010A>G	p.Lys2004Glu	6010/21291	6010/21291	2004/7096	2004	7096		",G"	K2004E	A6275G	K2004E	ORF1AB:K2004E	2004	ORF1a	K2004E	ORF1A:K2004E	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	6286	.	C	T	1822	PASS	230	0.317391	0	"154,0,73,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	6544	.	A	G	508	PASS	297	0.097643	0	"264,0,29,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6279A>G	p.Thr2093Thr	6279/21291	6279/21291	2093/7096	2093	7096		",G"	T2093T	A6544G	T2093T	ORF1AB:T2093T	2093	ORF1a	T2093T	ORF1A:T2093T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	6730	.	C	T	1775	PASS	314	0.245223	0	"236,0,77,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6465C>T	p.Asn2155Asn	6465/21291	6465/21291	2155/7096	2155	7096		",T"	N2155N	C6730T	N2155N	ORF1AB:N2155N	2155	ORF1a	N2155N	ORF1A:N2155N	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	7767	.	T	C	7338	PASS	526	0.486692	0	"270,0,256,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7502T>C	p.Ile2501Thr	7502/21291	7502/21291	2501/7096	2501	7096		",C"	I2501T	T7767C	I2501T	ORF1AB:I2501T	2501	ORF1a	I2501T	ORF1A:I2501T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	8047	.	C	T	6075	PASS	609	0.374384	0	"381,0,228,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7782C>T	p.Tyr2594Tyr	7782/21291	7782/21291	2594/7096	2594	7096		",T"	Y2594Y	C8047T	Y2594Y	ORF1AB:Y2594Y	2594	ORF1a	Y2594Y	ORF1A:Y2594Y	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	8097	.	C	T	89	PASS	552	0.023551	0	"538,0,13,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7832C>T	p.Thr2611Ile	7832/21291	7832/21291	2611/7096	2611	7096		",T"	T2611I	C8097T	T2611I	ORF1AB:T2611I	2611	ORF1a	T2611I	ORF1A:T2611I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	8506	.	TAG	T	2277	PASS	430	0.186047	0	"351,0,80,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8243_8244delGA	p.Arg2748fs	8243/21291	8243/21291	2748/7096	2748	7096		"INFO_REALIGN_3_PRIME,T"	del2748	TAG8506T	del2748	ORF1AB:DEL2748	2748	ORF1a	del2748	ORF1A:DEL2748	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	8964	.	C	T	2813	PASS	550	0.223636	0	"426,0,123,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8699C>T	p.Ser2900Leu	8699/21291	8699/21291	2900/7096	2900	7096		",T"	S2900L	C8964T	S2900L	ORF1AB:S2900L	2900	ORF1a	S2900L	ORF1A:S2900L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	8983	.	T	G	82	PASS	538	0.022305	0	"525,0,12,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	9131	.	C	A	2515	PASS	548	0.228102	0	"422,0,125,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8866C>A	p.Leu2956Ile	8866/21291	8866/21291	2956/7096	2956	7096		",A"	L2956I	C9131A	L2956I	ORF1AB:L2956I	2956	ORF1a	L2956I	ORF1A:L2956I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	9526	.	G	T	400	PASS	1430	0.031469	0	"1383,0,45,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	10165	.	C	T	17103	PASS	1231	0.489846	0	"621,0,603,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9900C>T	p.Tyr3300Tyr	9900/21291	9900/21291	3300/7096	3300	7096		",T"	Y3300Y	C10165T	Y3300Y	ORF1AB:Y3300Y	3300	ORF1a	Y3300Y	ORF1A:Y3300Y	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	10261	.	G	A	20725	PASS	1546	0.495472	0	"774,0,766,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9996G>A	p.Gln3332Gln	9996/21291	9996/21291	3332/7096	3332	7096		",A"	Q3332Q	G10261A	Q3332Q	ORF1AB:Q3332Q	3332	ORF1a	Q3332Q	ORF1A:Q3332Q	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	10438	.	T	C	5686	PASS	1176	0.231293	0	"901,0,272,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10173T>C	p.Cys3391Cys	10173/21291	10173/21291	3391/7096	3391	7096		",C"	C3391C	T10438C	C3391C	ORF1AB:C3391C	3391	ORF1a	C3391C	ORF1A:C3391C	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	10515	.	A	AT	145	PASS	1073	0.025163	0	"1047,0,27,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10251dupT	p.Asp3418fs	10252/21291	10252/21291	3418/7096	3418	7096		"INFO_REALIGN_3_PRIME,AT"	del3418	A10515AT	del3418	ORF1AB:DEL3418	3418	ORF1a	del3418	ORF1A:DEL3418	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	10517	.	G	T	91	PASS	1073	0.031687	0	"1038,0,34,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10252G>T	p.Asp3418Tyr	10252/21291	10252/21291	3418/7096	3418	7096		",T"	D3418Y	G10517T	D3418Y	ORF1AB:D3418Y	3418	ORF1a	D3418Y	ORF1A:D3418Y	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	11095	.	C	CT	7666	PASS	696	0.350575	0	"449,0,244,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835dupT	p.Leu3612fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,CT"	del3612	C11095CT	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	11126	.	A	G	7850	PASS	765	0.405229	0	"452,0,310,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10861A>G	p.Met3621Val	10861/21291	10861/21291	3621/7096	3621	7096		",G"	M3621V	A11126G	M3621V	ORF1AB:M3621V	3621	ORF1a	M3621V	ORF1A:M3621V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	11279	.	A	G	1710	PASS	652	0.134969	0	"564,0,88,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11014A>G	p.Thr3672Ala	11014/21291	11014/21291	3672/7096	3672	7096		",G"	T3672A	A11279G	T3672A	ORF1AB:T3672A	3672	ORF1a	T3672A	ORF1A:T3672A	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	11292	.	G	GT	10137	PASS	691	0.460203	0	"374,0,318,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11031dupT	p.Lys3678fs	11032/21291	11032/21291	3678/7096	3678	7096		"INFO_REALIGN_3_PRIME,GT"	del3678	G11292GT	del3678	ORF1AB:DEL3678	3678	ORF1a	del3678	ORF1A:DEL3678	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	11370	.	A	T	10984	PASS	808	0.506188	0	"399,0,409,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11105A>T	p.Asp3702Val	11105/21291	11105/21291	3702/7096	3702	7096		",T"	D3702V	A11370T	D3702V	ORF1AB:D3702V	3702	ORF1a	D3702V	ORF1A:D3702V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	11567	.	A	T	7206	PASS	534	0.481273	0	"275,0,257,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11302A>T	p.Ile3768Phe	11302/21291	11302/21291	3768/7096	3768	7096		",T"	I3768F	A11567T	I3768F	ORF1AB:I3768F	3768	ORF1a	I3768F	ORF1A:I3768F	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	12988	.	G	T	33517	PASS	3604	0.361543	0	"2295,0,1303,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12723G>T	p.Met4241Ile	12723/21291	12723/21291	4241/7096	4241	7096		",T"	M4241I	G12988T	M4241I	ORF1AB:M4241I	4241	ORF1a	M4241I	ORF1A:M4241I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	13061	.	G	T	1396	PASS	4579	0.035597	0	"4412,0,163,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12796G>T	p.Val4266Leu	12796/21291	12796/21291	4266/7096	4266	7096		",T"	V4266L	G13061T	V4266L	ORF1AB:V4266L	4266	ORF1a	V4266L	ORF1A:V4266L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	13123	.	TG	T	87	PASS	4844	0.001652	0	"4898,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	13225	.	C	T	1509	PASS	4358	0.03855	0	"4186,0,168,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12960C>T	p.Ser4320Ser	12960/21291	12960/21291	4320/7096	4320	7096		",T"	S4320S	C13225T	S4320S	ORF1AB:S4320S	4320	ORF1a	S4320S	ORF1A:S4320S	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	13292	.	T	C	10642	PASS	4453	0.138558	0	"3829,0,617,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13027T>C	p.Cys4343Arg	13027/21291	13027/21291	4343/7096	4343	7096		",C"	C4343R	T13292C	C4343R	ORF1AB:C4343R	4343	ORF1a	C4343R	ORF1A:C4343R	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	13517	.	C	T	5793	PASS	2276	0.13181	0	"1971,0,300,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	13599	.	T	C	549	PASS	1165	0.046352	0	"1108,0,54,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13335T>C	p.Cys4445Cys	13335/21291	13335/21291	4445/7096	4445	7096		",C"	C4445C	T13599C	C4445C	ORF1AB:C4445C	44	ORF1b	C44C	ORF1B:C44C	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	13719	.	T	C	10051	PASS	1238	0.338449	0	"818,0,419,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13455T>C	p.Cys4485Cys	13455/21291	13455/21291	4485/7096	4485	7096		",C"	C4485C	T13719C	C4485C	ORF1AB:C4485C	84	ORF1b	C84C	ORF1B:C84C	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	13906	.	T	G	12091	PASS	1323	0.367347	0	"834,0,486,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13642T>G	p.Tyr4548Asp	13642/21291	13642/21291	4548/7096	4548	7096		",G"	Y4548D	T13906G	Y4548D	ORF1AB:Y4548D	147	ORF1b	Y147D	ORF1B:Y147D	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	14681	.	A	AT	8767	PASS	1160	0.246552	0	"891,0,286,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14421dupT	p.Asn4808fs	14422/21291	14422/21291	4808/7096	4808	7096		"INFO_REALIGN_3_PRIME,AT"	del4808	A14681AT	del4808	ORF1AB:DEL4808	407	ORF1b	del407	ORF1B:DEL407	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	14689	.	A	G	213	PASS	1250	0.0216	0	"1221,0,27,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14425A>G	p.Lys4809Glu	14425/21291	14425/21291	4809/7096	4809	7096		",G"	K4809E	A14689G	K4809E	ORF1AB:K4809E	408	ORF1b	K408E	ORF1B:K408E	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	15157	.	CA	C	449	PASS	1530	0.015033	0	"1507,0,23,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14898delA	p.Lys4966fs	14898/21291	14898/21291	4966/7096	4966	7096		"INFO_REALIGN_3_PRIME,C"	del4966	CA15157C	del4966	ORF1AB:DEL4966	565	ORF1b	del565	ORF1B:DEL565	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	15324	.	C	T	462	PASS	475	0.071579	0	"441,0,34,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	15598	.	G	A	7385	PASS	314	0.780255	0	"68,0,245,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15334G>A	p.Val5112Ile	15334/21291	15334/21291	5112/7096	5112	7096		",A"	V5112I	G15598A	V5112I	ORF1AB:V5112I	711	ORF1b	V711I	ORF1B:V711I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	15849	.	TG	T	726	PASS	184	0.13587	0	"160,0,25,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15586delG	p.Asp5196fs	15586/21291	15586/21291	5196/7096	5196	7096		",T"	del5196	TG15849T	del5196	ORF1AB:DEL5196	795	ORF1b	del795	ORF1B:DEL795	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	16826	.	AG	A	15131	PASS	3328	0.161959	0	"2806,0,539,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16563delG	p.Glu5521fs	16563/21291	16563/21291	5521/7096	5521	7096		",A"	del5521	AG16826A	del5521	ORF1AB:DEL5521	1120	ORF1b	del1120	ORF1B:DEL1120	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	16827	.	G	T	94	PASS	3337	0.009889	0	"2756,0,33,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16563G>T	p.Glu5521Asp	16563/21291	16563/21291	5521/7096	5521	7096		",T"	E5521D	G16827T	E5521D	ORF1AB:E5521D	1120	ORF1b	E1120D	ORF1B:E1120D	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	16837	.	G	A	7154	PASS	2994	0.132933	0	"2591,0,398,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16573G>A	p.Glu5525Lys	16573/21291	16573/21291	5525/7096	5525	7096		",A"	E5525K	G16837A	E5525K	ORF1AB:E5525K	1124	ORF1b	E1124K	ORF1B:E1124K	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	17014	.	G	T	3861	PASS	1395	0.139068	0	"1201,0,194,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16750G>T	p.Asp5584Tyr	16750/21291	16750/21291	5584/7096	5584	7096		",T"	D5584Y	G17014T	D5584Y	ORF1AB:D5584Y	1183	ORF1b	D1183Y	ORF1B:D1183Y	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	17026	.	A	G	3799	PASS	1227	0.145884	0	"1047,0,179,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16762A>G	p.Ser5588Gly	16762/21291	16762/21291	5588/7096	5588	7096		",G"	S5588G	A17026G	S5588G	ORF1AB:S5588G	1187	ORF1b	S1187G	ORF1B:S1187G	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	17029	.	A	G	3821	PASS	1203	0.151288	0	"1019,0,182,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16765A>G	p.Asn5589Asp	16765/21291	16765/21291	5589/7096	5589	7096		",G"	N5589D	A17029G	N5589D	ORF1AB:N5589D	1188	ORF1b	N1188D	ORF1B:N1188D	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	17104	.	C	T	3938	PASS	170	0.735294	0	"45,0,125,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16840C>T	p.His5614Tyr	16840/21291	16840/21291	5614/7096	5614	7096		",T"	H5614Y	C17104T	H5614Y	ORF1AB:H5614Y	1213	ORF1b	H1213Y	ORF1B:H1213Y	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	17259	.	G	T	374	PASS	55	0.272727	0	"40,0,15,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16995G>T	p.Glu5665Asp	16995/21291	16995/21291	5665/7096	5665	7096		",T"	E5665D	G17259T	E5665D	ORF1AB:E5665D	1264	ORF1b	E1264D	ORF1B:E1264D	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	17492	.	CAG	C	3839	PASS	1058	0.125709	0	"925,0,133,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17230_17231delGA	p.Glu5744fs	17230/21291	17230/21291	5744/7096	5744	7096		"INFO_REALIGN_3_PRIME,C"	del5744	CAG17492C	del5744	ORF1AB:DEL5744	1343	ORF1b	del1343	ORF1B:DEL1343	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	17891	.	CAG	C	10954	PASS	2754	0.147785	0	"2377,0,407,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17628_17629delAG	p.Ala5877fs	17628/21291	17628/21291	5876/7096	5876	7096		",C"	del5877	CAG17891C	del5877	ORF1AB:DEL5877	1476	ORF1b	del1476	ORF1B:DEL1476	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	17952	.	A	T	7955	PASS	2919	0.142172	0	"2502,0,415,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17688A>T	p.Ile5896Ile	17688/21291	17688/21291	5896/7096	5896	7096		",T"	I5896I	A17952T	I5896I	ORF1AB:I5896I	1495	ORF1b	I1495I	ORF1B:I1495I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	18028	.	G	T	31026	PASS	2665	0.445403	0	"1478,0,1187,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17764G>T	p.Ala5922Ser	17764/21291	17764/21291	5922/7096	5922	7096		",T"	A5922S	G18028T	A5922S	ORF1AB:A5922S	1521	ORF1b	A1521S	ORF1B:A1521S	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	18086	.	C	T	5796	PASS	2318	0.133305	0	"2005,0,309,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17822C>T	p.Thr5941Ile	17822/21291	17822/21291	5941/7096	5941	7096		",T"	T5941I	C18086T	T5941I	ORF1AB:T5941I	1540	ORF1b	T1540I	ORF1B:T1540I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	18123	.	TG	T	6771	PASS	1738	0.151899	0	"1479,0,264,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17860delG	p.Val5954fs	17860/21291	17860/21291	5954/7096	5954	7096		",T"	del5954	TG18123T	del5954	ORF1AB:DEL5954	1553	ORF1b	del1553	ORF1B:DEL1553	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	18132	.	T	C	125	PASS	1611	0.01676	0	"1581,0,27,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17868T>C	p.Thr5956Thr	17868/21291	17868/21291	5956/7096	5956	7096		",C"	T5956T	T18132C	T5956T	ORF1AB:T5956T	1555	ORF1b	T1555T	ORF1B:T1555T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	18877	.	C	G	5065	PASS	2834	0.130558	0	"2450,0,370,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>G	p.Leu6205Val	18613/21291	18613/21291	6205/7096	6205	7096		",G"	L6205V	C18877G	L6205V	ORF1AB:L6205V	1804	ORF1b	L1804V	ORF1B:L1804V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	18878	.	TAG	T	5509	PASS	2797	0.118699	0	"2501,0,332,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18615_18616delAG	p.Ala6206fs	18615/21291	18615/21291	6205/7096	6205	7096		",T"	del6206	TAG18878T	del6206	ORF1AB:DEL6206	1805	ORF1b	del1805	ORF1B:DEL1805	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	19006	.	G	T	14661	PASS	3904	0.179559	0	"3200,0,701,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18742G>T	p.Ala6248Ser	18742/21291	18742/21291	6248/7096	6248	7096		",T"	A6248S	G19006T	A6248S	ORF1AB:A6248S	1847	ORF1b	A1847S	ORF1B:A1847S	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	19236	.	TA	T	10542	PASS	2932	0.147681	0	"2587,0,433,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18973delA	p.Arg6325fs	18973/21291	18973/21291	6325/7096	6325	7096		",T"	del6325	TA19236T	del6325	ORF1AB:DEL6325	1924	ORF1b	del1924	ORF1B:DEL1924	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	19239	.	A	T	7635	PASS	2987	0.148979	0	"2538,0,445,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18975A>T	p.Arg6325Ser	18975/21291	18975/21291	6325/7096	6325	7096		",T"	R6325S	A19239T	R6325S	ORF1AB:R6325S	1924	ORF1b	R1924S	ORF1B:R1924S	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	20451	.	C	T	12802	PASS	1455	0.332646	0	"967,0,484,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20187C>T	p.Asn6729Asn	20187/21291	20187/21291	6729/7096	6729	7096		",T"	N6729N	C20451T	N6729N	ORF1AB:N6729N	2328	ORF1b	N2328N	ORF1B:N2328N	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	20762	.	C	T	30584	PASS	3290	0.355623	0	"2106,0,1170,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20498C>T	p.Thr6833Ile	20498/21291	20498/21291	6833/7096	6833	7096		",T"	T6833I	C20762T	T6833I	ORF1AB:T6833I	2432	ORF1b	T2432I	ORF1B:T2432I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	20864	.	A	T	4842	PASS	2592	0.103781	0	"2322,0,269,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20600A>T	p.His6867Leu	20600/21291	20600/21291	6867/7096	6867	7096		",T"	H6867L	A20864T	H6867L	ORF1AB:H6867L	2466	ORF1b	H2466L	ORF1B:H2466L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	21123	.	GT	G	47	PASS	1131	0.002653	0	"1157,0,3,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20862delT	p.Phe6954fs	20862/21291	20862/21291	6954/7096	6954	7096		"INFO_REALIGN_3_PRIME,G"	del6954	GT21123G	del6954	ORF1AB:DEL6954	2553	ORF1b	del2553	ORF1B:DEL2553	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	21124	.	T	C	632	PASS	1132	0.079505	0	"1030,0,90,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20860T>C	p.Phe6954Leu	20860/21291	20860/21291	6954/7096	6954	7096		",C"	F6954L	T21124C	F6954L	ORF1AB:F6954L	2553	ORF1b	F2553L	ORF1B:F2553L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	21145	.	CT	C	3127	PASS	951	0.118822	0	"839,0,113,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20883delT	p.Gly6962fs	20883/21291	20883/21291	6961/7096	6961	7096		"INFO_REALIGN_3_PRIME,C"	del6962	CT21145C	del6962	ORF1AB:DEL6962	2561	ORF1b	del2561	ORF1B:DEL2561	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	21764	.	ATACATG	A	4211	PASS	444	0.313063	0	"306,0,139,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	21770	.	G	A	94	PASS	421	0.028504	0	"269,0,12,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.208G>A	p.Val70Ile	208/3822	208/3822	70/1273	70	1273		",A"	V70I	G21770A	V70I	S:V70I	70	S	V70I	S:V70I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	22120	.	CA	C	3098	PASS	499	0.206413	0	"396,0,103,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.563delA	p.Asn188fs	563/3822	563/3822	188/1273	188	1273		"INFO_REALIGN_3_PRIME,C"	del188	CA22120C	del188	S:DEL188	188	S	del188	S:DEL188	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	22218	.	GT	G	58	PASS	278	0.010791	0	"286,0,3,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.661delT	p.Ser221fs	661/3822	661/3822	221/1273	221	1273		"INFO_REALIGN_3_PRIME,G"	del221	GT22218G	del221	S:DEL221	221	S	del221	S:DEL221	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	22218	.	G	T	1071	PASS	289	0.207612	0	"229,0,60,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.656G>T	p.Gly219Val	656/3822	656/3822	219/1273	219	1273		",T"	G219V	G22218T	G219V	S:G219V	219	S	G219V	S:G219V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	22789	.	A	G	165	PASS	119	0.084034	0	"109,0,10,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1227A>G	p.Gln409Gln	1227/3822	1227/3822	409/1273	409	1273		",G"	Q409Q	A22789G	Q409Q	S:Q409Q	409	S	Q409Q	S:Q409Q	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	22879	.	C	A	2132	PASS	147	0.510204	0	"72,0,75,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1317C>A	p.Asn439Lys	1317/3822	1317/3822	439/1273	439	1273		",A"	N439K	C22879A	N439K	S:N439K	439	S	N439K	S:N439K	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	23236	.	G	T	1257	PASS	187	0.315508	0	"127,0,59,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1674G>T	p.Lys558Asn	1674/3822	1674/3822	558/1273	558	1273		",T"	K558N	G23236T	K558N	S:K558N	558	S	K558N	S:K558N	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	23403	.	A	G	4146	PASS	124	0.991935	2147483647	"0,0,123,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	24669	.	A	G	103	PASS	309	0.029126	0	"299,0,9,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3107A>G	p.Gln1036Arg	3107/3822	3107/3822	1036/1273	1036	1273		",G"	Q1036R	A24669G	Q1036R	S:Q1036R	1036	S	Q1036R	S:Q1036R	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	24910	.	T	C	6083	PASS	340	0.611765	0	"131,0,208,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3348T>C	p.Thr1116Thr	3348/3822	3348/3822	1116/1273	1116	1273		",C"	T1116T	T24910C	T1116T	S:T1116T	1116	S	T1116T	S:T1116T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	24958	.	T	C	1571	PASS	712	0.116573	0	"627,0,83,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3396T>C	p.Ile1132Ile	3396/3822	3396/3822	1132/1273	1132	1273		",C"	I1132I	T24958C	I1132I	S:I1132I	1132	S	I1132I	S:I1132I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25100	.	CA	C	5546	PASS	1565	0.126518	0	"1367,0,198,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3543delA	p.Glu1182fs	3543/3822	3543/3822	1181/1273	1181	1273		"INFO_REALIGN_3_PRIME,C"	del1182	CA25100C	del1182	S:DEL1182	1182	S	del1182	S:DEL1182	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25225	.	A	C	141	PASS	1859	0.022055	0	"1809,0,41,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25240	.	C	A	92	PASS	1943	0.020072	0	"1901,0,39,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25247	.	A	T	77	PASS	2036	0.018664	0	"1990,0,38,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25254	.	C	A	103	PASS	2135	0.018267	0	"2089,0,39,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25256	.	A	T	67	PASS	2147	0.01537	0	"2113,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3694A>T	p.Ile1232Phe	3694/3822	3694/3822	1232/1273	1232	1273		",T"	I1232F	A25256T	I1232F	S:I1232F	1232	S	I1232F	S:I1232F	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25259	.	A	T	73	PASS	2149	0.015356	0	"2113,0,33,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>T	p.Met1233Leu	3697/3822	3697/3822	1233/1273	1233	1273		",T"	M1233L	A25259T	M1233L	S:M1233L	1233	S	M1233L	S:M1233L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25277	.	A	T	102	PASS	2010	0.023881	0	"1939,0,48,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25289	.	T	G	103	PASS	2105	0.024228	0	"2043,0,51,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25296	.	A	C	292	PASS	2134	0.044517	0	"1985,0,95,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25301	.	T	G	196	PASS	2103	0.036614	0	"2025,0,77,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25312	.	T	G	215	PASS	2161	0.036557	0	"2078,0,79,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25314	.	G	T	207	PASS	2185	0.03524	0	"2100,0,77,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25317	.	C	T	4095	PASS	2186	0.130375	0	"1891,0,285,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3755C>T	p.Ser1252Phe	3755/3822	3755/3822	1252/1273	1252	1273		",T"	S1252F	C25317T	S1252F	S:S1252F	1252	S	S1252F	S:S1252F	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25324	.	C	A	845	PASS	2174	0.068997	0	"2021,0,150,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25327	.	A	T	130	PASS	2139	0.027115	0	"2077,0,58,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25331	.	G	T	79	PASS	2126	0.027752	0	"2052,0,59,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25334	.	G	T	102	PASS	2103	0.033286	0	"1978,0,70,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25336	.	A	C	309	PASS	2113	0.051112	0	"1990,0,108,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25429	.	G	T	21729	PASS	2252	0.377886	0	"1398,0,851,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.37G>T	p.Val13Leu	37/828	37/828	13/275	13	275		",T"	V13L	G25429T	V13L	ORF3A:V13L	13	ORF3a	V13L	ORF3A:V13L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25505	.	A	G	3726	PASS	1764	0.122449	0	"1541,0,216,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25518	.	T	G	5357	PASS	1775	0.160563	0	"1488,0,285,0"	FALSE	G	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.126T>G	p.Pro42Pro	126/828	126/828	42/275	42	275		",G"	P42P	T25518G	P42P	ORF3A:P42P	42	ORF3a	P42P	ORF3A:P42P	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25593	.	G	T	6324	PASS	1627	0.185618	0	"1322,0,302,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25906	.	G	C	361	PASS	374	0.07754	0	"345,0,29,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25907	.	G	A	4843	PASS	381	0.493438	0	"191,0,188,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.515G>A	p.Gly172Asp	515/828	515/828	172/275	172	275		",A"	G172D	G25907A	G172D	ORF3A:G172D	172	ORF3a	G172D	ORF3A:G172D	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	25996	.	G	T	369	PASS	409	0.066015	0	"382,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	26801	.	C	G	16651	PASS	2104	0.308935	0	"1453,0,650,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	26951	.	G	T	1218	PASS	76	0.552632	0	"34,0,42,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.429G>T	p.Val143Val	429/669	429/669	143/222	143	222		",T"	V143V	G26951T	V143V	M:V143V	143	M	V143V	M:V143V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	26972	.	T	C	1499	PASS	85	0.588235	0	"34,0,50,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	27281	.	G	C	90	PASS	1387	0.012978	0	"1365,0,18,0"	FALSE	C	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.80G>C	p.Trp27Ser	80/186	80/186	27/61	27	61		",C"	W27S	G27281C	W27S	ORF6:W27S	27	ORF6	W27S	ORF6:W27S	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	27800	.	C	A	49314	PASS	3315	0.667873	0	"1096,0,2214,0"	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	27944	.	C	T	3453	PASS	2646	0.086546	0	"2407,0,229,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28045	.	C	T	1807	PASS	509	0.182711	0	"412,0,93,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28133	.	A	T	3128	PASS	297	0.383838	0	"183,0,114,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28164	.	C	T	3722	PASS	308	0.457792	0	"167,0,141,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.271C>T	p.Gln91*	271/366	271/366	91/121	91	121		",T"	Q91*	C28164T	Q91*	ORF8:Q91*	91	ORF8	Q91*	ORF8:Q91*	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28214	.	C	CT	1765	PASS	292	0.205479	0	"232,0,60,0"	TRUE	CT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.326dupT	p.Leu109fs	327/366	327/366	109/121	109	121		"INFO_REALIGN_3_PRIME,CT"	del109	C28214CT	del109	ORF8:DEL109	109	ORF8	del109	ORF8:DEL109	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28214	.	C	T	671	PASS	292	0.14726	0	"248,0,43,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.321C>T	p.Asp107Asp	321/366	321/366	107/121	107	121		",T"	D107D	C28214T	D107D	ORF8:D107D	107	ORF8	D107D	ORF8:D107D	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28254	.	A	C	240	PASS	301	0.07309	0	"278,0,22,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28270	.	TA	T	5014	PASS	658	0.288754	0	"468,0,190,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28280	.	G	C	2488	PASS	715	0.186014	0	"582,0,133,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28281	.	A	T	2585	PASS	724	0.183702	0	"591,0,133,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28282	.	T	A	2539	PASS	739	0.186739	0	"601,0,138,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28378	.	G	T	535	PASS	1555	0.038585	0	"1494,0,60,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28582	.	T	C	1576	PASS	3560	0.048034	0	"3378,0,171,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.309T>C	p.Asp103Asp	309/1260	309/1260	103/419	103	419		",C"	D103D	T28582C	D103D	N:D103D	103	N	D103D	N:D103D	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28651	.	C	T	149	PASS	4072	0.009823	0	"4020,0,40,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28776	.	CA	C	46	PASS	6212	0.000805	0	"6207,0,5,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507delA	p.Gly170fs	507/1260	507/1260	169/419	169	419		"INFO_REALIGN_3_PRIME,C"	del170	CA28776C	del170	N:DEL170	170	N	del170	N:DEL170	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28791	.	CAG	C	11308	PASS	6371	0.067807	0	"5940,0,432,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.520_521delGA	p.Glu174fs	520/1260	520/1260	174/419	174	419		"INFO_REALIGN_3_PRIME,C"	del174	CAG28791C	del174	N:DEL174	174	N	del174	N:DEL174	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28798	.	G	A	49314	PASS	6609	0.599334	0	"2632,0,3961,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28881	.	G	A	12960	PASS	5874	0.124106	0	"5130,0,729,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28882	.	G	A	11473	PASS	5888	0.122962	0	"5132,0,724,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28883	.	G	C	12539	PASS	5874	0.125128	0	"5119,0,735,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28932	.	C	CT	7629	PASS	5823	0.050661	0	"5533,0,295,0"	TRUE	CT	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.662dupT	p.Leu221fs	663/1260	663/1260	221/419	221	419		"INFO_REALIGN_3_PRIME,CT"	del221	C28932CT	del221	N:DEL221	221	N	del221	N:DEL221	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28932	.	C	T	33976	PASS	5828	0.259094	0	"4300,0,1510,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28977	.	C	T	2135	PASS	5230	0.038815	0	"5013,0,203,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28978	.	T	A	2093	PASS	5235	0.039924	0	"5019,0,209,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	28987	.	CCAA	C	487	PASS	4954	0.005652	0	"4955,0,28,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	29051	.	C	CA	17845	PASS	4434	0.143888	0	"3795,0,638,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	29127	.	AT	A	47	PASS	2691	0.001486	0	"2693,0,4,0"	TRUE	A	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.858delT	p.Phe286fs	858/1260	858/1260	286/419	286	419		"INFO_REALIGN_3_PRIME,A"	del286	AT29127A	del286	N:DEL286	286	N	del286	N:DEL286	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE35-1	NC_045512.2	29180	.	C	A	1430	PASS	1293	0.071926	0	"1200,0,93,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.907C>A	p.Gln303Lys	907/1260	907/1260	303/419	303	419		",A"	Q303K	C29180A	Q303K	N:Q303K	303	N	Q303K	N:Q303K	VIE35-1	TROISVIERGES	2020-11-22T00:00:00Z	31.113	35.05333333	x	1022021	2020-11-22
VIE37-1	NC_045512.2	241	.	C	T	8060	PASS	235	0.995745	2147483647	"0,0,234,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	661	.	T	C	18710	PASS	745	0.794631	0	"152,0,592,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.396T>C	p.Gly132Gly	396/21291	396/21291	132/7096	132	7096		",C"	G132G	T661C	G132G	ORF1AB:G132G	132	ORF1a	G132G	ORF1A:G132G	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	663	.	GC	G	1310	PASS	745	0.072483	0	"699,0,54,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.400delC	p.His134fs	400/21291	400/21291	134/7096	134	7096		"INFO_REALIGN_3_PRIME,G"	del134	GC663G	del134	ORF1AB:DEL134	134	ORF1a	del134	ORF1A:DEL134	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	802	.	A	C	87	PASS	915	0.017486	0	"889,0,16,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	1026	.	C	CT	3388	PASS	1448	0.087707	0	"1321,0,127,0"	TRUE	CT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.765dupT	p.Glu256fs	766/21291	766/21291	256/7096	256	7096		"INFO_REALIGN_3_PRIME,CT"	del256	C1026CT	del256	ORF1AB:DEL256	256	ORF1a	del256	ORF1A:DEL256	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	1412	.	A	G	346	PASS	622	0.040193	0	"597,0,25,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1147A>G	p.Ser383Gly	1147/21291	1147/21291	383/7096	383	7096		",G"	S383G	A1412G	S383G	ORF1AB:S383G	383	ORF1a	S383G	ORF1A:S383G	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	1494	.	T	C	599	PASS	250	0.156	0	"211,0,39,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1229T>C	p.Val410Ala	1229/21291	1229/21291	410/7096	410	7096		",C"	V410A	T1494C	V410A	ORF1AB:V410A	410	ORF1a	V410A	ORF1A:V410A	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	1723	.	T	C	895	PASS	330	0.145455	0	"282,0,48,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1458T>C	p.Ala486Ala	1458/21291	1458/21291	486/7096	486	7096		",C"	A486A	T1723C	A486A	ORF1AB:A486A	486	ORF1a	A486A	ORF1A:A486A	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	3037	.	C	T	6670	PASS	192	1	2147483647	"0,0,192,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	4218	.	GA	G	85	PASS	257	0.015564	0	"253,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3957delA	p.Val1320fs	3957/21291	3957/21291	1319/7096	1319	7096		"INFO_REALIGN_3_PRIME,G"	del1320	GA4218G	del1320	ORF1AB:DEL1320	1320	ORF1a	del1320	ORF1A:DEL1320	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	4276	.	C	T	10156	PASS	378	0.851852	0	"56,0,322,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4011C>T	p.Tyr1337Tyr	4011/21291	4011/21291	1337/7096	1337	7096		",T"	Y1337Y	C4276T	Y1337Y	ORF1AB:Y1337Y	1337	ORF1a	Y1337Y	ORF1A:Y1337Y	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	4300	.	G	T	11249	PASS	394	0.86802	0	"51,0,342,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4035G>T	p.Val1345Val	4035/21291	4035/21291	1345/7096	1345	7096		",T"	V1345V	G4300T	V1345V	ORF1AB:V1345V	1345	ORF1a	V1345V	ORF1A:V1345V	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	4904	.	GA	G	686	PASS	318	0.091195	0	"290,0,29,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4640delA	p.Asp1547fs	4640/21291	4640/21291	1547/7096	1547	7096		",G"	del1547	GA4904G	del1547	ORF1AB:DEL1547	1547	ORF1a	del1547	ORF1A:DEL1547	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	5497	.	CA	C	1340	PASS	175	0.24	0	"133,0,42,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5236delA	p.Arg1746fs	5236/21291	5236/21291	1746/7096	1746	7096		"INFO_REALIGN_3_PRIME,C"	del1746	CA5497C	del1746	ORF1AB:DEL1746	1746	ORF1a	del1746	ORF1A:DEL1746	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	6286	.	C	T	181	PASS	24	0.333333	0	"16,0,8,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	6529	.	A	G	166	PASS	125	0.088	0	"114,0,11,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6264A>G	p.Glu2088Glu	6264/21291	6264/21291	2088/7096	2088	7096		",G"	E2088E	A6529G	E2088E	ORF1AB:E2088E	2088	ORF1a	E2088E	ORF1A:E2088E	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	6941	.	C	T	1191	PASS	197	0.243655	0	"149,0,48,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	6990	.	C	T	1076	PASS	205	0.22439	0	"159,0,46,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6725C>T	p.Ser2242Phe	6725/21291	6725/21291	2242/7096	2242	7096		",T"	S2242F	C6990T	S2242F	ORF1AB:S2242F	2242	ORF1a	S2242F	ORF1A:S2242F	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	7866	.	G	T	1337	PASS	317	0.208202	0	"251,0,66,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7601G>T	p.Gly2534Val	7601/21291	7601/21291	2534/7096	2534	7096		",T"	G2534V	G7866T	G2534V	ORF1AB:G2534V	2534	ORF1a	G2534V	ORF1A:G2534V	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	8356	.	TC	T	687	PASS	317	0.082019	0	"297,0,26,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8092delC	p.His2698fs	8092/21291	8092/21291	2698/7096	2698	7096		",T"	del2698	TC8356T	del2698	ORF1AB:DEL2698	2698	ORF1a	del2698	ORF1A:DEL2698	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	8376	.	CA	C	722	PASS	300	0.09	0	"273,0,27,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	8496	.	G	T	763	PASS	277	0.151625	0	"234,0,42,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8231G>T	p.Cys2744Phe	8231/21291	8231/21291	2744/7096	2744	7096		",T"	C2744F	G8496T	C2744F	ORF1AB:C2744F	2744	ORF1a	C2744F	ORF1A:C2744F	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	8905	.	C	CT	574	PASS	288	0.076389	0	"266,0,22,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8645dupT	p.Leu2882fs	8646/21291	8646/21291	2882/7096	2882	7096		"INFO_REALIGN_3_PRIME,CT"	del2882	C8905CT	del2882	ORF1AB:DEL2882	2882	ORF1a	del2882	ORF1A:DEL2882	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	9054	.	T	C	531	PASS	214	0.135514	0	"184,0,29,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8789T>C	p.Val2930Ala	8789/21291	8789/21291	2930/7096	2930	7096		",C"	V2930A	T9054C	V2930A	ORF1AB:V2930A	2930	ORF1a	V2930A	ORF1A:V2930A	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	9130	.	G	T	5976	PASS	221	0.846154	0	"34,0,187,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8865G>T	p.Val2955Val	8865/21291	8865/21291	2955/7096	2955	7096		",T"	V2955V	G9130T	V2955V	ORF1AB:V2955V	2955	ORF1a	V2955V	ORF1A:V2955V	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	9502	.	C	T	323	PASS	174	0.114943	0	"154,0,20,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9237C>T	p.Ala3079Ala	9237/21291	9237/21291	3079/7096	3079	7096		",T"	A3079A	C9502T	A3079A	ORF1AB:A3079A	3079	ORF1a	A3079A	ORF1A:A3079A	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	10064	.	AG	A	2882	PASS	674	0.164688	0	"564,0,111,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9800delG	p.Arg3267fs	9800/21291	9800/21291	3267/7096	3267	7096		",A"	del3267	AG10064A	del3267	ORF1AB:DEL3267	3267	ORF1a	del3267	ORF1A:DEL3267	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	10815	.	C	T	412	PASS	15	0.866667	0	"2,0,13,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10550C>T	p.Ser3517Phe	10550/21291	10550/21291	3517/7096	3517	7096		",T"	S3517F	C10815T	S3517F	ORF1AB:S3517F	3517	ORF1a	S3517F	ORF1A:S3517F	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	10947	.	GA	G	160	PASS	17	0.352941	0	"11,0,6,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10683delA	p.Arg3561fs	10683/21291	10683/21291	3561/7096	3561	7096		",G"	del3561	GA10947G	del3561	ORF1AB:DEL3561	3561	ORF1a	del3561	ORF1A:DEL3561	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	12379	.	A	G	1157	PASS	154	0.318182	0	"105,0,49,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12114A>G	p.Arg4038Arg	12114/21291	12114/21291	4038/7096	4038	7096		",G"	R4038R	A12379G	R4038R	ORF1AB:R4038R	4038	ORF1a	R4038R	ORF1A:R4038R	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	12847	.	T	C	894	PASS	261	0.172414	0	"216,0,45,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12582T>C	p.Ala4194Ala	12582/21291	12582/21291	4194/7096	4194	7096		",C"	A4194A	T12847C	A4194A	ORF1AB:A4194A	4194	ORF1a	A4194A	ORF1A:A4194A	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	15324	.	C	T	1059	PASS	97	0.381443	0	"60,0,37,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	19718	.	CA	C	2546	PASS	69	0.971014	0	"2,0,67,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19458delA	p.Val6487fs	19458/21291	19458/21291	6486/7096	6486	7096		"INFO_REALIGN_3_PRIME,C"	del6487	CA19718C	del6487	ORF1AB:DEL6487	2086	ORF1b	del2086	ORF1B:DEL2086	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	21364	.	C	T	579	PASS	17	1	2147483647	"0,0,17,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21100C>T	p.Pro7034Ser	21100/21291	21100/21291	7034/7096	7034	7096		",T"	P7034S	C21364T	P7034S	ORF1AB:P7034S	2633	ORF1b	P2633S	ORF1B:P2633S	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	21575	.	C	T	468	PASS	63	0.285714	0	"45,0,18,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	21855	.	C	T	569	PASS	64	0.359375	0	"40,0,23,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	22227	.	C	T	336	PASS	26	0.461538	0	"14,0,12,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	22252	.	A	T	340	PASS	17	0.647059	0	"6,0,11,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.690A>T	p.Pro230Pro	690/3822	690/3822	230/1273	230	1273		",T"	P230P	A22252T	P230P	S:P230P	230	S	P230P	S:P230P	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	23039	.	C	A	104	PASS	22	0.227273	0	"17,0,5,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1477C>A	p.Gln493Lys	1477/3822	1477/3822	493/1273	493	1273		",A"	Q493K	C23039A	Q493K	S:Q493K	493	S	Q493K	S:Q493K	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	23046	.	A	G	77	PASS	23	0.173913	0	"19,0,4,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1484A>G	p.Tyr495Cys	1484/3822	1484/3822	495/1273	495	1273		",G"	Y495C	A23046G	Y495C	S:Y495C	495	S	Y495C	S:Y495C	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	23403	.	A	G	778	PASS	25	0.96	2147483647	"0,0,24,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	24273	.	A	G	282	PASS	17	0.529412	0	"8,0,9,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2711A>G	p.Tyr904Cys	2711/3822	2711/3822	904/1273	904	1273		",G"	Y904C	A24273G	Y904C	S:Y904C	904	S	Y904C	S:Y904C	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	24926	.	G	T	247	PASS	84	0.142857	0	"72,0,12,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3364G>T	p.Val1122Leu	3364/3822	3364/3822	1122/1273	1122	1273		",T"	V1122L	G24926T	V1122L	S:V1122L	1122	S	V1122L	S:V1122L	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	25324	.	C	A	105	PASS	256	0.066406	0	"239,0,17,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	25499	.	C	T	1042	PASS	264	0.17803	0	"217,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.107C>T	p.Pro36Leu	107/828	107/828	36/275	36	275		",T"	P36L	C25499T	P36L	ORF3A:P36L	36	ORF3a	P36L	ORF3A:P36L	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	25500	.	G	A	5945	PASS	263	0.711027	0	"76,0,187,0"	FALSE	A	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.108G>A	p.Pro36Pro	108/828	108/828	36/275	36	275		",A"	P36P	G25500A	P36P	ORF3A:P36P	36	ORF3a	P36P	ORF3A:P36P	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	25505	.	A	G	321	PASS	211	0.104265	0	"186,0,22,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	25523	.	G	T	5133	PASS	245	0.702041	0	"72,0,172,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.131G>T	p.Gly44Val	131/828	131/828	44/275	44	275		",T"	G44V	G25523T	G44V	ORF3A:G44V	44	ORF3a	G44V	ORF3A:G44V	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	25615	.	A	G	925	PASS	286	0.15035	0	"242,0,43,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.223A>G	p.Lys75Glu	223/828	223/828	75/275	75	275		",G"	K75E	A25615G	K75E	ORF3A:K75E	75	ORF3a	K75E	ORF3A:K75E	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	25654	.	G	T	4500	PASS	230	0.63913	0	"83,0,147,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.262G>T	p.Val88Leu	262/828	262/828	88/275	88	275		",T"	V88L	G25654T	V88L	ORF3A:V88L	88	ORF3a	V88L	ORF3A:V88L	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	26711	.	TTG	T	3126	PASS	864	0.138889	0	"744,0,120,0"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.191_192delGT	p.Cys64fs	191/669	191/669	64/222	64	222		"INFO_REALIGN_3_PRIME,T"	del64	TTG26711T	del64	M:DEL64	64	M	del64	M:DEL64	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	26772	.	A	C	9273	PASS	752	0.442819	0	"416,0,333,0"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.250A>C	p.Met84Leu	250/669	250/669	84/222	84	222		",C"	M84L	A26772C	M84L	M:M84L	84	M	M84L	M:M84L	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	26801	.	C	G	2049	PASS	581	0.16179	0	"486,0,94,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	26895	.	C	T	523	PASS	179	0.134078	0	"155,0,24,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.373C>T	p.His125Tyr	373/669	373/669	125/222	125	222		",T"	H125Y	C26895T	H125Y	M:H125Y	125	M	H125Y	M:H125Y	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	27146	.	A	T	96	PASS	18	0.222222	0	"14,0,4,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.624A>T	p.Thr208Thr	624/669	624/669	208/222	208	222		",T"	T208T	A27146T	T208T	M:T208T	208	M	T208T	M:T208T	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	27319	.	T	C	4549	PASS	313	0.511182	0	"153,0,160,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.118T>C	p.Leu40Leu	118/186	118/186	40/61	40	61		",C"	L40L	T27319C	L40L	ORF6:L40L	40	ORF6	L40L	ORF6:L40L	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	27375	.	G	T	5684	PASS	415	0.491566	0	"209,0,204,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.174G>T	p.Met58Ile	174/186	174/186	58/61	58	61		",T"	M58I	G27375T	M58I	ORF6:M58I	58	ORF6	M58I	ORF6:M58I	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	27791	.	CTTT	C	6203	PASS	502	0.384462	0	"309,0,193,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.39_41delTTT	p.Phe13del	39/132	39/132	13/43	13	43		"INFO_REALIGN_3_PRIME,C"	del13	CTTT27791C	del13	ORF7B:DEL13	13	ORF7b	del13	ORF7B:DEL13	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	27881	.	C	T	2904	PASS	428	0.287383	0	"304,0,123,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	27987	.	G	T	2458	PASS	214	0.411215	0	"126,0,88,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.94G>T	p.Val32Leu	94/366	94/366	32/121	32	121		",T"	V32L	G27987T	V32L	ORF8:V32L	32	ORF8	V32L	ORF8:V32L	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28300	.	G	T	1164	PASS	33	1	2147483647	"0,0,33,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28487	.	G	A	4991	PASS	622	0.33119	0	"415,0,206,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.214G>A	p.Val72Ile	214/1260	214/1260	72/419	72	419		",A"	V72I	G28487A	V72I	N:V72I	72	N	V72I	N:V72I	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28586	.	A	G	380	PASS	825	0.044848	0	"786,0,37,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.313A>G	p.Ser105Gly	313/1260	313/1260	105/419	105	419		",G"	S105G	A28586G	S105G	N:S105G	105	N	S105G	N:S105G	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28651	.	C	T	145	PASS	1014	0.018738	0	"995,0,19,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28868	.	C	T	5999	PASS	1324	0.212991	0	"1036,0,282,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.595C>T	p.Pro199Ser	595/1260	595/1260	199/419	199	419		",T"	P199S	C28868T	P199S	N:P199S	199	N	P199S	N:P199S	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28881	.	G	A	3065	PASS	1269	0.144208	0	"1081,0,183,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28882	.	G	A	2732	PASS	1279	0.141517	0	"1091,0,181,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28883	.	G	C	3175	PASS	1282	0.143526	0	"1094,0,184,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28932	.	C	T	18847	PASS	1318	0.526555	0	"616,0,694,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE37-1	NC_045512.2	28975	.	G	C	8341	PASS	1240	0.282258	0	"887,0,350,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	VIE37-1	TROISVIERGES	2020-12-06T00:00:00Z	31.61775	33.68333333	x	1022021	2020-12-06
VIE38-1	NC_045512.2	241	.	C	T	49314	PASS	2481	0.997582	2147483647	"0,0,2475,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	427	.	AGAAGTT	A	528	PASS	2753	0.015983	0	"2722,0,44,0"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.166_171delGTTGAA	p.Val56_Glu57del	166/21291	166/21291	56/7096	56	7096		"INFO_REALIGN_3_PRIME,A"	del56/57	AGAAGTT427A	del56/57	ORF1AB:DEL56/57	56/57	ORF1a	del56/57	ORF1A:DEL56/57	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	427	.	AGAAGTT	A	82	PASS	2703	0.008509	0	"2729,0,23,0"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.166_171delGTTGAA	p.Val56_Glu57del	166/21291	166/21291	56/7096	56	7096		"INFO_REALIGN_3_PRIME,A"	del56/57	AGAAGTT427A	del56/57	ORF1AB:DEL56/57	56/57	ORF1a	del56/57	ORF1A:DEL56/57	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	435	.	A	G	148	PASS	2809	0.028836	0	"2719,0,81,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.170A>G	p.Glu57Gly	170/21291	170/21291	57/7096	57	7096		",G"	E57G	A435G	E57G	ORF1AB:E57G	57	ORF1a	E57G	ORF1A:E57G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	528	.	TG	T	2927	PASS	2645	0.046881	0	"2521,0,124,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.265delG	p.Val89fs	265/21291	265/21291	89/7096	89	7096		"INFO_REALIGN_3_PRIME,T"	del89	TG528T	del89	ORF1AB:DEL89	89	ORF1a	del89	ORF1A:DEL89	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	638	.	AAG	A	588	PASS	2868	0.01046	0	"2841,0,30,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.375_376delGA	p.Asn126fs	375/21291	375/21291	125/7096	125	7096		"INFO_REALIGN_3_PRIME,A"	del126	AAG638A	del126	ORF1AB:DEL126	126	ORF1a	del126	ORF1A:DEL126	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	661	.	T	C	49314	PASS	3034	0.646341	0	"1057,0,1961,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.396T>C	p.Gly132Gly	396/21291	396/21291	132/7096	132	7096		",C"	G132G	T661C	G132G	ORF1AB:G132G	132	ORF1a	G132G	ORF1A:G132G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	684	.	TA	T	49	PASS	3196	0.001252	0	"3192,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.422delA	p.Lys141fs	422/21291	422/21291	141/7096	141	7096		"INFO_REALIGN_3_PRIME,T"	del141	TA684T	del141	ORF1AB:DEL141	141	ORF1a	del141	ORF1A:DEL141	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	802	.	A	C	141	PASS	2565	0.013255	0	"2521,0,34,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	823	.	C	T	1660	PASS	2511	0.052967	0	"2375,0,133,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.558C>T	p.Val186Val	558/21291	558/21291	186/7096	186	7096		",T"	V186V	C823T	V186V	ORF1AB:V186V	186	ORF1a	V186V	ORF1A:V186V	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	913	.	C	T	2002	PASS	2134	0.076851	0	"1959,0,164,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.648C>T	p.Ser216Ser	648/21291	648/21291	216/7096	216	7096		",T"	S216S	C913T	S216S	ORF1AB:S216S	216	ORF1a	S216S	ORF1A:S216S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	948	.	T	C	2182	PASS	2662	0.06837	0	"2472,0,182,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.683T>C	p.Val228Ala	683/21291	683/21291	228/7096	228	7096		",C"	V228A	T948C	V228A	ORF1AB:V228A	228	ORF1a	V228A	ORF1A:V228A	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	1205	.	C	T	116	PASS	2514	0.011933	0	"2474,0,30,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.940C>T	p.Gln314*	940/21291	940/21291	314/7096	314	7096		",T"	Q314*	C1205T	Q314*	ORF1AB:Q314*	314	ORF1a	Q314*	ORF1A:Q314*	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	1239	.	A	T	352	PASS	2532	0.021722	0	"2473,0,55,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.974A>T	p.His325Leu	974/21291	974/21291	325/7096	325	7096		",T"	H325L	A1239T	H325L	ORF1AB:H325L	325	ORF1a	H325L	ORF1A:H325L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	1373	.	T	C	270	PASS	2277	0.017567	0	"2231,0,40,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1108T>C	p.Cys370Arg	1108/21291	1108/21291	370/7096	370	7096		",C"	C370R	T1373C	C370R	ORF1AB:C370R	370	ORF1a	C370R	ORF1A:C370R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	1946	.	G	GT	3701	PASS	1583	0.087176	0	"1451,0,138,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1685dupT	p.Leu562fs	1686/21291	1686/21291	562/7096	562	7096		"INFO_REALIGN_3_PRIME,GT"	del562	G1946GT	del562	ORF1AB:DEL562	562	ORF1a	del562	ORF1A:DEL562	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	2498	.	G	GA	69	PASS	927	0.004315	0	"923,0,4,0"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2236dupA	p.Thr746fs	2237/21291	2237/21291	746/7096	746	7096		"INFO_REALIGN_3_PRIME,GA"	del746	G2498GA	del746	ORF1AB:DEL746	746	ORF1a	del746	ORF1A:DEL746	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	2698	.	T	C	1334	PASS	1766	0.067384	0	"1640,0,119,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2433T>C	p.Asn811Asn	2433/21291	2433/21291	811/7096	811	7096		",C"	N811N	T2698C	N811N	ORF1AB:N811N	811	ORF1a	N811N	ORF1A:N811N	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	2837	.	T	C	1063	PASS	1928	0.067427	0	"1787,0,130,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2572T>C	p.Ser858Pro	2572/21291	2572/21291	858/7096	858	7096		",C"	S858P	T2837C	S858P	ORF1AB:S858P	858	ORF1a	S858P	ORF1A:S858P	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	3037	.	C	T	49314	PASS	1460	0.99726	2147483647	"0,0,1456,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	3743	.	C	T	116	PASS	207	0.05314	0	"195,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3478C>T	p.His1160Tyr	3478/21291	3478/21291	1160/7096	1160	7096		",T"	H1160Y	C3743T	H1160Y	ORF1AB:H1160Y	1160	ORF1a	H1160Y	ORF1A:H1160Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	3802	.	TA	T	219	PASS	136	0.066176	0	"127,0,9,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3542delA	p.Asn1181fs	3542/21291	3542/21291	1181/7096	1181	7096		"INFO_REALIGN_3_PRIME,T"	del1181	TA3802T	del1181	ORF1AB:DEL1181	1181	ORF1a	del1181	ORF1A:DEL1181	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	3950	.	G	T	74	PASS	118	0.050847	0	"111,0,6,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3685G>T	p.Asp1229Tyr	3685/21291	3685/21291	1229/7096	1229	7096		",T"	D1229Y	G3950T	D1229Y	ORF1AB:D1229Y	1229	ORF1a	D1229Y	ORF1A:D1229Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	4276	.	C	T	3161	PASS	366	0.349727	0	"238,0,128,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4011C>T	p.Tyr1337Tyr	4011/21291	4011/21291	1337/7096	1337	7096		",T"	Y1337Y	C4276T	Y1337Y	ORF1AB:Y1337Y	1337	ORF1a	Y1337Y	ORF1A:Y1337Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	4300	.	G	T	3813	PASS	377	0.38992	0	"230,0,147,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4035G>T	p.Val1345Val	4035/21291	4035/21291	1345/7096	1345	7096		",T"	V1345V	G4300T	V1345V	ORF1AB:V1345V	1345	ORF1a	V1345V	ORF1A:V1345V	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	4312	.	TA	T	59	PASS	340	0.008824	0	"362,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4051delA	p.Ser1351fs	4051/21291	4051/21291	1351/7096	1351	7096		"INFO_REALIGN_3_PRIME,T"	del1351	TA4312T	del1351	ORF1AB:DEL1351	1351	ORF1a	del1351	ORF1A:DEL1351	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	4376	.	GT	G	884	PASS	481	0.066528	0	"449,0,32,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4114delT	p.Ser1372fs	4114/21291	4114/21291	1372/7096	1372	7096		"INFO_REALIGN_3_PRIME,G"	del1372	GT4376G	del1372	ORF1AB:DEL1372	1372	ORF1a	del1372	ORF1A:DEL1372	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	4543	.	C	T	6989	PASS	444	0.563063	0	"191,0,250,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	4759	.	A	G	543	PASS	842	0.054632	0	"793,0,46,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4494A>G	p.Glu1498Glu	4494/21291	4494/21291	1498/7096	1498	7096		",G"	E1498E	A4759G	E1498E	ORF1AB:E1498E	1498	ORF1a	E1498E	ORF1A:E1498E	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	4780	.	C	A	584	PASS	927	0.047465	0	"881,0,44,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4515C>A	p.Ile1505Ile	4515/21291	4515/21291	1505/7096	1505	7096		",A"	I1505I	C4780A	I1505I	ORF1AB:I1505I	1505	ORF1a	I1505I	ORF1A:I1505I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	5629	.	G	T	13678	PASS	860	0.547674	0	"388,0,471,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	5686	.	G	A	554	PASS	833	0.064826	0	"778,0,54,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5421G>A	p.Met1807Ile	5421/21291	5421/21291	1807/7096	1807	7096		",A"	M1807I	G5686A	M1807I	ORF1AB:M1807I	1807	ORF1a	M1807I	ORF1A:M1807I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	5884	.	C	T	2983	PASS	887	0.167982	0	"737,0,149,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	6060	.	G	T	266	PASS	991	0.035318	0	"956,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5795G>T	p.Cys1932Phe	5795/21291	5795/21291	1932/7096	1932	7096		",T"	C1932F	G6060T	C1932F	ORF1AB:C1932F	1932	ORF1a	C1932F	ORF1A:C1932F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	6199	.	T	TC	1188	PASS	1167	0.042845	0	"1117,0,50,0"	TRUE	TC	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5934_5935insC	p.Phe1979fs	5935/21291	5935/21291	1979/7096	1979	7096		",TC"	del1979	T6199TC	del1979	ORF1AB:DEL1979	1979	ORF1a	del1979	ORF1A:DEL1979	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	6312	.	CA	C	1574	PASS	1367	0.046818	0	"1303,0,64,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6051delA	p.Lys2017fs	6051/21291	6051/21291	2017/7096	2017	7096		"INFO_REALIGN_3_PRIME,C"	del2017	CA6312C	del2017	ORF1AB:DEL2017	2017	ORF1a	del2017	ORF1A:DEL2017	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	6374	.	G	T	799	PASS	1315	0.056274	0	"1240,0,74,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6109G>T	p.Asp2037Tyr	6109/21291	6109/21291	2037/7096	2037	7096		",T"	D2037Y	G6374T	D2037Y	ORF1AB:D2037Y	2037	ORF1a	D2037Y	ORF1A:D2037Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	6560	.	T	C	231	PASS	1643	0.021911	0	"1603,0,36,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6295T>C	p.Tyr2099His	6295/21291	6295/21291	2099/7096	2099	7096		",C"	Y2099H	T6560C	Y2099H	ORF1AB:Y2099H	2099	ORF1a	Y2099H	ORF1A:Y2099H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	6696	.	C	CT	1801	PASS	1030	0.067961	0	"960,0,70,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	6701	.	C	T	83	PASS	1042	0.020154	0	"1020,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	7157	.	T	C	377	PASS	824	0.043689	0	"787,0,36,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6892T>C	p.Leu2298Leu	6892/21291	6892/21291	2298/7096	2298	7096		",C"	L2298L	T7157C	L2298L	ORF1AB:L2298L	2298	ORF1a	L2298L	ORF1A:L2298L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	7246	.	G	GT	459	PASS	505	0.039604	0	"492,0,20,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6986dupT	p.Leu2329fs	6987/21291	6987/21291	2329/7096	2329	7096		"INFO_REALIGN_3_PRIME,GT"	del2329	G7246GT	del2329	ORF1AB:DEL2329	2329	ORF1a	del2329	ORF1A:DEL2329	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	7380	.	TAC	T	627	PASS	502	0.051793	0	"476,0,26,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7117_7118delCA	p.Gln2373fs	7117/21291	7117/21291	2373/7096	2373	7096		"INFO_REALIGN_3_PRIME,T"	del2373	TAC7380T	del2373	ORF1AB:DEL2373	2373	ORF1a	del2373	ORF1A:DEL2373	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	7390	.	C	T	276	PASS	466	0.070815	0	"425,0,33,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7125C>T	p.Ala2375Ala	7125/21291	7125/21291	2375/7096	2375	7096		",T"	A2375A	C7390T	A2375A	ORF1AB:A2375A	2375	ORF1a	A2375A	ORF1A:A2375A	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	7447	.	GAAA	G	61	PASS	480	0.033333	0	"467,0,16,0"	TRUE	G	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7184_7186delAAA	p.Lys2395del	7184/21291	7184/21291	2395/7096	2395	7096		"INFO_REALIGN_3_PRIME,G"	del2395	GAAA7447G	del2395	ORF1AB:DEL2395	2395	ORF1a	del2395	ORF1A:DEL2395	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	7565	.	T	C	175	PASS	570	0.035088	0	"549,0,20,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7300T>C	p.Phe2434Leu	7300/21291	7300/21291	2434/7096	2434	7096		",C"	F2434L	T7565C	F2434L	ORF1AB:F2434L	2434	ORF1a	F2434L	ORF1A:F2434L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	7622	.	GTTAA	G	528	PASS	740	0.02973	0	"720,0,22,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7360_7363delAATT	p.Asn2454fs	7360/21291	7360/21291	2454/7096	2454	7096		"INFO_REALIGN_3_PRIME,G"	del2454	GTTAA7622G	del2454	ORF1AB:DEL2454	2454	ORF1a	del2454	ORF1A:DEL2454	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	8085	.	A	G	1660	PASS	834	0.117506	0	"735,0,98,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7820A>G	p.Glu2607Gly	7820/21291	7820/21291	2607/7096	2607	7096		",G"	E2607G	A8085G	E2607G	ORF1AB:E2607G	2607	ORF1a	E2607G	ORF1A:E2607G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	8294	.	T	C	87	PASS	573	0.020942	0	"561,0,12,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8029T>C	p.Tyr2677His	8029/21291	8029/21291	2677/7096	2677	7096		",C"	Y2677H	T8294C	Y2677H	ORF1AB:Y2677H	2677	ORF1a	Y2677H	ORF1A:Y2677H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	8376	.	CA	C	156	PASS	305	0.022951	0	"298,0,7,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	8415	.	A	AT	525	PASS	222	0.085586	0	"208,0,19,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8153dupT	p.Met2719fs	8154/21291	8154/21291	2718/7096	2718	7096		"INFO_REALIGN_3_PRIME,AT"	del2719	A8415AT	del2719	ORF1AB:DEL2719	2719	ORF1a	del2719	ORF1A:DEL2719	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	8740	.	TTG	T	262	PASS	331	0.036254	0	"319,0,12,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8477_8478delGT	p.Cys2826fs	8477/21291	8477/21291	2826/7096	2826	7096		"INFO_REALIGN_3_PRIME,T"	del2826	TTG8740T	del2826	ORF1AB:DEL2826	2826	ORF1a	del2826	ORF1A:DEL2826	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	8765	.	TTTGACACATGGTTTA	T	227	PASS	361	0.027701	0	"354,0,10,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8501_8515delTTGACACATGGTTTA	p.Phe2834_Ser2839delinsCys	8501/21291	8501/21291	2834/7096	2834	7096		",T"	indel	TTTGACACATGGTTTA8765T	NA	NA	NA	ORF1a	NA	NA	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	9130	.	G	T	6774	PASS	764	0.353403	0	"493,0,270,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8865G>T	p.Val2955Val	8865/21291	8865/21291	2955/7096	2955	7096		",T"	V2955V	G9130T	V2955V	ORF1AB:V2955V	2955	ORF1a	V2955V	ORF1A:V2955V	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	9526	.	G	T	20732	PASS	1582	0.493047	0	"800,0,780,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	9811	.	CT	C	68	PASS	1593	0.003139	0	"1588,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9551delT	p.Leu3184fs	9551/21291	9551/21291	3184/7096	3184	7096		"INFO_REALIGN_3_PRIME,C"	del3184	CT9811C	del3184	ORF1AB:DEL3184	3184	ORF1a	del3184	ORF1A:DEL3184	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	9990	.	G	T	435	PASS	2206	0.026745	0	"2144,0,59,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9725G>T	p.Ser3242Ile	9725/21291	9725/21291	3242/7096	3242	7096		",T"	S3242I	G9990T	S3242I	ORF1AB:S3242I	3242	ORF1a	S3242I	ORF1A:S3242I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	10386	.	C	CT	5573	PASS	2045	0.1022	0	"1836,0,209,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10126dupT	p.Ser3376fs	10127/21291	10127/21291	3376/7096	3376	7096		"INFO_REALIGN_3_PRIME,CT"	del3376	C10386CT	del3376	ORF1AB:DEL3376	3376	ORF1a	del3376	ORF1A:DEL3376	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	10486	.	A	G	94	PASS	1845	0.011382	0	"1821,0,21,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10221A>G	p.Ser3407Ser	10221/21291	10221/21291	3407/7096	3407	7096		",G"	S3407S	A10486G	S3407S	ORF1AB:S3407S	3407	ORF1a	S3407S	ORF1A:S3407S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	10522	.	T	C	1030	PASS	1751	0.064535	0	"1633,0,113,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10257T>C	p.Cys3419Cys	10257/21291	10257/21291	3419/7096	3419	7096		",C"	C3419C	T10522C	C3419C	ORF1AB:C3419C	3419	ORF1a	C3419C	ORF1A:C3419C	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	10624	.	A	G	1191	PASS	1143	0.08049	0	"1049,0,92,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10359A>G	p.Thr3453Thr	10359/21291	10359/21291	3453/7096	3453	7096		",G"	T3453T	A10624G	T3453T	ORF1AB:T3453T	3453	ORF1a	T3453T	ORF1A:T3453T	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	10771	.	TG	T	2064	PASS	727	0.111417	0	"646,0,81,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10507delG	p.Glu3503fs	10507/21291	10507/21291	3503/7096	3503	7096		",T"	del3503	TG10771T	del3503	ORF1AB:DEL3503	3503	ORF1a	del3503	ORF1A:DEL3503	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	10815	.	C	T	4654	PASS	724	0.280387	0	"513,0,203,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10550C>T	p.Ser3517Phe	10550/21291	10550/21291	3517/7096	3517	7096		",T"	S3517F	C10815T	S3517F	ORF1AB:S3517F	3517	ORF1a	S3517F	ORF1A:S3517F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	11036	.	CT	C	921	PASS	1260	0.034127	0	"1217,0,43,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10775delT	p.Leu3592fs	10775/21291	10775/21291	3592/7096	3592	7096		"INFO_REALIGN_3_PRIME,C"	del3592	CT11036C	del3592	ORF1AB:DEL3592	3592	ORF1a	del3592	ORF1A:DEL3592	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	11287	.	GTCTGGTTTT	G	1850	PASS	1702	0.047004	0	"1628,0,80,0"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	11497	.	C	T	29340	PASS	1799	0.57254	0	"763,0,1030,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	11567	.	A	T	1687	PASS	1469	0.080327	0	"1350,0,118,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11302A>T	p.Ile3768Phe	11302/21291	11302/21291	3768/7096	3768	7096		",T"	I3768F	A11567T	I3768F	ORF1AB:I3768F	3768	ORF1a	I3768F	ORF1A:I3768F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	11584	.	TA	T	2070	PASS	1507	0.057067	0	"1445,0,86,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11321delA	p.Asn3774fs	11321/21291	11321/21291	3774/7096	3774	7096		"INFO_REALIGN_3_PRIME,T"	del3774	TA11584T	del3774	ORF1AB:DEL3774	3774	ORF1a	del3774	ORF1A:DEL3774	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	11722	.	G	GT	1384	PASS	830	0.063855	0	"792,0,53,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11460dupT	p.Arg3821fs	11461/21291	11461/21291	3821/7096	3821	7096		"INFO_REALIGN_3_PRIME,GT"	del3821	G11722GT	del3821	ORF1AB:DEL3821	3821	ORF1a	del3821	ORF1A:DEL3821	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	12192	.	T	C	890	PASS	587	0.093697	0	"530,0,55,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11927T>C	p.Val3976Ala	11927/21291	11927/21291	3976/7096	3976	7096		",C"	V3976A	T12192C	V3976A	ORF1AB:V3976A	3976	ORF1a	V3976A	ORF1A:V3976A	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	12436	.	T	C	3504	PASS	1559	0.136626	0	"1340,0,213,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13077	.	C	CT	6533	PASS	3014	0.080624	0	"2771,0,243,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12816dupT	p.Ala4273fs	12817/21291	12817/21291	4273/7096	4273	7096		"INFO_REALIGN_3_PRIME,CT"	del4273	C13077CT	del4273	ORF1AB:DEL4273	4273	ORF1a	del4273	ORF1A:DEL4273	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13218	.	A	G	382	PASS	2894	0.019696	0	"2832,0,57,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12953A>G	p.Gln4318Arg	12953/21291	12953/21291	4318/7096	4318	7096		",G"	Q4318R	A13218G	Q4318R	ORF1AB:Q4318R	4318	ORF1a	Q4318R	ORF1A:Q4318R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13350	.	GT	G	4451	PASS	2530	0.06917	0	"2397,0,175,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13089delT	p.Phe4363fs	13089/21291	13089/21291	4363/7096	4363	7096		"INFO_REALIGN_3_PRIME,G"	del4363	GT13350G	del4363	ORF1AB:DEL4363	4363	ORF1a	del4363	ORF1A:DEL4363	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13439	.	CA	C	326	PASS	2862	0.041929	0	"2778,0,120,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13175delA	p.Gln4392fs	13175/21291	13175/21291	4392/7096	4392	7096		",C"	del4392	CA13439C	del4392	ORF1AB:DEL4392	4392	ORF1a	del4392	ORF1A:DEL4392	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13441	.	G	T	158	PASS	2867	0.042902	0	"2731,0,123,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13176G>T	p.Gln4392His	13176/21291	13176/21291	4392/7096	4392	7096		",T"	Q4392H	G13441T	Q4392H	ORF1AB:Q4392H	4392	ORF1a	Q4392H	ORF1A:Q4392H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13517	.	C	T	2691	PASS	2487	0.080016	0	"2287,0,199,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13788	.	T	C	27593	PASS	2463	0.434836	0	"1382,0,1071,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13524T>C	p.Arg4508Arg	13524/21291	13524/21291	4508/7096	4508	7096		",C"	R4508R	T13788C	R4508R	ORF1AB:R4508R	107	ORF1b	R107R	ORF1B:R107R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13813	.	G	T	2262	PASS	2545	0.076621	0	"2344,0,195,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13549G>T	p.Ala4517Ser	13549/21291	13549/21291	4517/7096	4517	7096		",T"	A4517S	G13813T	A4517S	ORF1AB:A4517S	116	ORF1b	A116S	ORF1B:A116S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13934	.	T	C	1446	PASS	2331	0.053196	0	"2199,0,124,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13670T>C	p.Phe4557Ser	13670/21291	13670/21291	4557/7096	4557	7096		",C"	F4557S	T13934C	F4557S	ORF1AB:F4557S	156	ORF1b	F156S	ORF1B:F156S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	13993	.	G	T	27703	PASS	1886	0.526511	0	"891,0,993,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	14185	.	A	G	89	PASS	70	0.085714	0	"64,0,6,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13921A>G	p.Arg4641Gly	13921/21291	13921/21291	4641/7096	4641	7096		",G"	R4641G	A14185G	R4641G	ORF1AB:R4641G	240	ORF1b	R240G	ORF1B:R240G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	14408	.	C	T	2712	PASS	78	1	2147483647	"0,0,78,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	14668	.	G	A	1140	PASS	1485	0.066667	0	"1383,0,99,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14404G>A	p.Val4802Ile	14404/21291	14404/21291	4802/7096	4802	7096		",A"	V4802I	G14668A	V4802I	ORF1AB:V4802I	401	ORF1b	V401I	ORF1B:V401I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	14772	.	GGA	G	3007	PASS	2038	0.058391	0	"1934,0,119,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14509_14510delGA	p.Asp4837fs	14509/21291	14509/21291	4837/7096	4837	7096		",G"	del4837	GGA14772G	del4837	ORF1AB:DEL4837	436	ORF1b	del436	ORF1B:DEL436	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	14961	.	TA	T	5451	PASS	2495	0.083768	0	"2295,0,209,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14700delA	p.Lys4900fs	14700/21291	14700/21291	4900/7096	4900	7096		"INFO_REALIGN_3_PRIME,T"	del4900	TA14961T	del4900	ORF1AB:DEL4900	499	ORF1b	del499	ORF1B:DEL499	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	15149	.	A	G	197	PASS	2026	0.015301	0	"1988,0,31,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14885A>G	p.Gln4962Arg	14885/21291	14885/21291	4962/7096	4962	7096		",G"	Q4962R	A15149G	Q4962R	ORF1AB:Q4962R	561	ORF1b	Q561R	ORF1B:Q561R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	15199	.	GTA	G	3653	PASS	2182	0.067828	0	"2037,0,148,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14936_14937delTA	p.Val4979fs	14936/21291	14936/21291	4979/7096	4979	7096		",G"	del4979	GTA15199G	del4979	ORF1AB:DEL4979	578	ORF1b	del578	ORF1B:DEL578	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	15246	.	A	T	1406	PASS	1774	0.066516	0	"1654,0,118,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14982A>T	p.Leu4994Phe	14982/21291	14982/21291	4994/7096	4994	7096		",T"	L4994F	A15246T	L4994F	ORF1AB:L4994F	593	ORF1b	L593F	ORF1B:L593F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	15324	.	C	T	1452	PASS	1039	0.096246	0	"936,0,100,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	15327	.	G	T	288	PASS	971	0.031926	0	"937,0,31,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15063G>T	p.Met5021Ile	15063/21291	15063/21291	5021/7096	5021	7096		",T"	M5021I	G15327T	M5021I	ORF1AB:M5021I	620	ORF1b	M620I	ORF1B:M620I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	15372	.	G	T	307	PASS	811	0.041924	0	"777,0,34,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15108G>T	p.Thr5036Thr	15108/21291	15108/21291	5036/7096	5036	7096		",T"	T5036T	G15372T	T5036T	ORF1AB:T5036T	635	ORF1b	T635T	ORF1B:T635T	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	15766	.	G	T	8531	PASS	850	0.387059	0	"521,0,329,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	16246	.	G	C	407	PASS	550	0.06	0	"515,0,33,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15982G>C	p.Ala5328Pro	15982/21291	15982/21291	5328/7096	5328	7096		",C"	A5328P	G16246C	A5328P	ORF1AB:A5328P	927	ORF1b	A927P	ORF1B:A927P	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	16483	.	TTG	T	2026	PASS	2997	0.028695	0	"2940,0,86,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16224_16225delTG	p.Ala5409fs	16224/21291	16224/21291	5408/7096	5408	7096		"INFO_REALIGN_3_PRIME,T"	del5409	TTG16483T	del5409	ORF1AB:DEL5409	1008	ORF1b	del1008	ORF1B:DEL1008	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	16501	.	GT	G	2025	PASS	3031	0.031013	0	"2954,0,94,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16242delT	p.Phe5414fs	16242/21291	16242/21291	5414/7096	5414	7096		"INFO_REALIGN_3_PRIME,G"	del5414	GT16501G	del5414	ORF1AB:DEL5414	1013	ORF1b	del1013	ORF1B:DEL1013	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	16578	.	G	T	1499	PASS	4275	0.039298	0	"4104,0,168,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16314G>T	p.Trp5438Cys	16314/21291	16314/21291	5438/7096	5438	7096		",T"	W5438C	G16578T	W5438C	ORF1AB:W5438C	1037	ORF1b	W1037C	ORF1B:W1037C	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	16663	.	G	T	1319	PASS	4058	0.034993	0	"3913,0,142,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16399G>T	p.Glu5467*	16399/21291	16399/21291	5467/7096	5467	7096		",T"	E5467*	G16663T	E5467*	ORF1AB:E5467*	1066	ORF1b	E1066*	ORF1B:E1066*	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	16800	.	TAA	T	2139	PASS	3865	0.026391	0	"3759,0,102,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16540_16541delAA	p.Asn5514fs	16540/21291	16540/21291	5514/7096	5514	7096		"INFO_REALIGN_3_PRIME,T"	del5514	TAA16800T	del5514	ORF1AB:DEL5514	1113	ORF1b	del1113	ORF1B:DEL1113	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	16889	.	A	G	30999	PASS	3162	0.368121	0	"1987,0,1164,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	17013	.	A	T	423	PASS	1698	0.030624	0	"1643,0,52,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16749A>T	p.Ser5583Ser	16749/21291	16749/21291	5583/7096	5583	7096		",T"	S5583S	A17013T	S5583S	ORF1AB:S5583S	1182	ORF1b	S1182S	ORF1B:S1182S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	17019	.	G	T	13464	PASS	1635	0.334557	0	"1087,0,547,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	17261	.	G	T	125	PASS	224	0.044643	0	"214,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16997G>T	p.Cys5666Phe	16997/21291	16997/21291	5666/7096	5666	7096		",T"	C5666F	G17261T	C5666F	ORF1AB:C5666F	1265	ORF1b	C1265F	ORF1B:C1265F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	17497	.	TA	T	218	PASS	1160	0.009483	0	"1150,0,11,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17234delA	p.Tyr5745fs	17234/21291	17234/21291	5745/7096	5745	7096		",T"	del5745	TA17497T	del5745	ORF1AB:DEL5745	1344	ORF1b	del1344	ORF1B:DEL1344	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	18105	.	G	T	1642	PASS	1899	0.07267	0	"1758,0,138,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17841G>T	p.Gln5947His	17841/21291	17841/21291	5947/7096	5947	7096		",T"	Q5947H	G18105T	Q5947H	ORF1AB:Q5947H	1546	ORF1b	Q1546H	ORF1B:Q1546H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	18106	.	GC	G	166	PASS	1900	0.005263	0	"1937,0,10,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17843delC	p.Ala5948fs	17843/21291	17843/21291	5948/7096	5948	7096		",G"	del5948	GC18106G	del5948	ORF1AB:DEL5948	1547	ORF1b	del1547	ORF1B:DEL1547	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	18644	.	G	T	979	PASS	794	0.083123	0	"728,0,66,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18380G>T	p.Gly6127Val	18380/21291	18380/21291	6127/7096	6127	7096		",T"	G6127V	G18644T	G6127V	ORF1AB:G6127V	1726	ORF1b	G1726V	ORF1B:G1726V	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	18744	.	C	T	9052	PASS	1948	0.210986	0	"1531,0,411,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18480C>T	p.Tyr6160Tyr	18480/21291	18480/21291	6160/7096	6160	7096		",T"	Y6160Y	C18744T	Y6160Y	ORF1AB:Y6160Y	1759	ORF1b	Y1759Y	ORF1B:Y1759Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	18877	.	C	T	9648	PASS	1939	0.222795	0	"1502,0,432,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	19386	.	C	T	845	PASS	2268	0.037478	0	"2178,0,85,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19122C>T	p.Asp6374Asp	19122/21291	19122/21291	6374/7096	6374	7096		",T"	D6374D	C19386T	D6374D	ORF1AB:D6374D	1973	ORF1b	D1973D	ORF1B:D1973D	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	19398	.	G	T	319	PASS	2110	0.020379	0	"2067,0,43,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19134G>T	p.Glu6378Asp	19134/21291	19134/21291	6378/7096	6378	7096		",T"	E6378D	G19398T	E6378D	ORF1AB:E6378D	1977	ORF1b	E1977D	ORF1B:E1977D	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	21077	.	CA	C	2713	PASS	2305	0.047722	0	"2195,0,110,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20817delA	p.Glu6940fs	20817/21291	20817/21291	6939/7096	6939	7096		"INFO_REALIGN_3_PRIME,C"	del6940	CA21077C	del6940	ORF1AB:DEL6940	2539	ORF1b	del2539	ORF1B:DEL2539	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	21364	.	C	T	47806	PASS	2532	0.635071	0	"913,0,1608,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21100C>T	p.Pro7034Ser	21100/21291	21100/21291	7034/7096	7034	7096		",T"	P7034S	C21364T	P7034S	ORF1AB:P7034S	2633	ORF1b	P2633S	ORF1B:P2633S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	21569	.	G	GT	3070	PASS	2006	0.061815	0	"1893,0,124,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.12dupT	p.Leu5fs	13/3822	13/3822	5/1273	5	1273		"INFO_REALIGN_3_PRIME,GT"	del5	G21569GT	del5	S:DEL5	5	S	del5	S:DEL5	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	21946	.	TAA	T	102	PASS	1075	0.025116	0	"1050,0,27,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.386_387delAA	p.Lys129fs	386/3822	386/3822	129/1273	129	1273		"INFO_REALIGN_3_PRIME,T"	del129	TAA21946T	del129	S:DEL129	129	S	del129	S:DEL129	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	21950	.	G	T	75	PASS	1049	0.027645	0	"1007,0,29,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.388G>T	p.Val130Phe	388/3822	388/3822	130/1273	130	1273		",T"	V130F	G21950T	V130F	S:V130F	130	S	V130F	S:V130F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	21954	.	G	C	1188	PASS	1013	0.085884	0	"923,0,87,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.392G>C	p.Cys131Ser	392/3822	392/3822	131/1273	131	1273		",C"	C131S	G21954C	C131S	S:C131S	131	S	C131S	S:C131S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	22441	.	T	A	940	PASS	62	0.548387	0	"27,0,34,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.879T>A	p.Leu293Leu	879/3822	879/3822	293/1273	293	1273		",A"	L293L	T22441A	L293L	S:L293L	293	S	L293L	S:L293L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	22992	.	G	A	10534	PASS	745	0.520805	0	"357,0,388,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23052	.	TC	T	1015	PASS	654	0.062691	0	"618,0,41,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1492delC	p.Gln498fs	1492/3822	1492/3822	498/1273	498	1273		"INFO_REALIGN_3_PRIME,T"	del498	TC23052T	del498	S:DEL498	498	S	del498	S:DEL498	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23173	.	A	AG	841	PASS	682	0.048387	0	"649,0,33,0"	TRUE	AG	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1611_1612insG	p.Cys538fs	1612/3822	1612/3822	538/1273	538	1273		",AG"	del538	A23173AG	del538	S:DEL538	538	S	del538	S:DEL538	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23350	.	T	C	211	PASS	802	0.032419	0	"774,0,26,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1788T>C	p.Ser596Ser	1788/3822	1788/3822	596/1273	596	1273		",C"	S596S	T23350C	S596S	S:S596S	596	S	S596S	S:S596S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23403	.	A	G	25331	PASS	764	0.992147	0	"1,0,758,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23486	.	G	GT	671	PASS	661	0.04236	0	"632,0,28,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1929dupT	p.Gln644fs	1930/3822	1930/3822	644/1273	644	1273		"INFO_REALIGN_3_PRIME,GT"	del644	G23486GT	del644	S:DEL644	644	S	del644	S:DEL644	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23507	.	TG	T	710	PASS	681	0.045521	0	"650,0,31,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1946delG	p.Cys649fs	1946/3822	1946/3822	649/1273	649	1273		",T"	del649	TG23507T	del649	S:DEL649	649	S	del649	S:DEL649	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23539	.	A	T	342	PASS	704	0.048295	0	"670,0,34,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1977A>T	p.Ser659Ser	1977/3822	1977/3822	659/1273	659	1273		",T"	S659S	A23539T	S659S	S:S659S	659	S	S659S	S:S659S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23540	.	T	C	316	PASS	704	0.046875	0	"671,0,33,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1978T>C	p.Tyr660His	1978/3822	1978/3822	660/1273	660	1273		",C"	Y660H	T23540C	Y660H	S:Y660H	660	S	Y660H	S:Y660H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	23903	.	G	GT	532	PASS	731	0.032832	0	"729,0,24,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2346dupT	p.Ala783fs	2347/3822	2347/3822	783/1273	783	1273		"INFO_REALIGN_3_PRIME,GT"	del783	G23903GT	del783	S:DEL783	783	S	del783	S:DEL783	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	24000	.	G	T	868	PASS	395	0.139241	0	"340,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2438G>T	p.Ser813Ile	2438/3822	2438/3822	813/1273	813	1273		",T"	S813I	G24000T	S813I	S:S813I	813	S	S813I	S:S813I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	24010	.	A	AT	270	PASS	366	0.030055	0	"355,0,11,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2451dupT	p.Ile818fs	2452/3822	2452/3822	818/1273	818	1273		"INFO_REALIGN_3_PRIME,AT"	del818	A24010AT	del818	S:DEL818	818	S	del818	S:DEL818	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	24014	.	ATTGAAGATCTACTT	A	189	PASS	343	0.023324	0	"344,0,8,0"	TRUE	A	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2455_2468delGAAGATCTACTTTT	p.Glu819fs	2455/3822	2455/3822	819/1273	819	1273		"INFO_REALIGN_3_PRIME,A"	del819	ATTGAAGATCTACTT24014A	del819	S:DEL819	819	S	del819	S:DEL819	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	24192	.	TG	T	712	PASS	355	0.08169	0	"327,0,29,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2631delG	p.Leu878fs	2631/3822	2631/3822	877/1273	877	1273		",T"	del878	TG24192T	del878	S:DEL878	878	S	del878	S:DEL878	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	24375	.	T	C	192	PASS	621	0.035427	0	"596,0,22,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2813T>C	p.Leu938Pro	2813/3822	2813/3822	938/1273	938	1273		",C"	L938P	T24375C	L938P	S:L938P	938	S	L938P	S:L938P	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	24643	.	TA	T	57	PASS	1506	0.002656	0	"1502,0,4,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3085delA	p.Met1029fs	3085/3822	3085/3822	1029/1273	1029	1273		"INFO_REALIGN_3_PRIME,T"	del1029	TA24643T	del1029	S:DEL1029	1029	S	del1029	S:DEL1029	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25201	.	A	G	562	PASS	1536	0.044271	0	"1456,0,68,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3639A>G	p.Pro1213Pro	3639/3822	3639/3822	1213/1273	1213	1273		",G"	P1213P	A25201G	P1213P	S:P1213P	1213	S	P1213P	S:P1213P	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25225	.	A	C	135	PASS	1732	0.02194	0	"1683,0,38,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25228	.	T	G	81	PASS	1729	0.019665	0	"1693,0,34,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25247	.	A	T	75	PASS	1877	0.01918	0	"1836,0,36,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25254	.	C	A	138	PASS	2014	0.02284	0	"1965,0,46,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25274	.	A	C	73	PASS	1938	0.022188	0	"1893,0,43,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3712A>C	p.Thr1238Pro	3712/3822	3712/3822	1238/1273	1238	1273		",C"	T1238P	A25274C	T1238P	S:T1238P	1238	S	T1238P	S:T1238P	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25277	.	A	T	126	PASS	1923	0.027561	0	"1842,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25280	.	T	G	86	PASS	1974	0.02229	0	"1922,0,44,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25286	.	A	T	96	PASS	2029	0.026614	0	"1937,0,54,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25289	.	T	G	79	PASS	1999	0.022511	0	"1949,0,45,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25296	.	A	C	315	PASS	2021	0.048491	0	"1873,0,98,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25301	.	T	G	190	PASS	2004	0.035429	0	"1930,0,71,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25312	.	T	G	118	PASS	2043	0.028879	0	"1980,0,59,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25314	.	G	T	173	PASS	2038	0.034347	0	"1954,0,70,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25323	.	G	C	84	PASS	2041	0.025478	0	"1970,0,52,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25324	.	C	A	1217	PASS	2054	0.088121	0	"1871,0,181,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25327	.	A	T	162	PASS	2027	0.03108	0	"1963,0,63,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25331	.	G	T	487	PASS	2018	0.062934	0	"1876,0,127,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25334	.	G	T	96	PASS	2001	0.032984	0	"1898,0,66,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25336	.	A	C	317	PASS	1996	0.053607	0	"1871,0,107,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25362	.	GA	G	2906	PASS	2107	0.059326	0	"2054,0,125,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3801delA	p.Val1268fs	3801/3822	3801/3822	1267/1273	1267	1273		",G"	del1268	GA25362G	del1268	S:DEL1268	1268	S	del1268	S:DEL1268	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25500	.	G	A	19219	PASS	1689	0.419775	0	"977,0,709,0"	FALSE	A	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.108G>A	p.Pro36Pro	108/828	108/828	36/275	36	275		",A"	P36P	G25500A	P36P	ORF3A:P36P	36	ORF3a	P36P	ORF3A:P36P	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25505	.	A	G	964	PASS	1499	0.064043	0	"1397,0,96,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25523	.	G	T	18211	PASS	1610	0.431056	0	"912,0,694,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.131G>T	p.Gly44Val	131/828	131/828	44/275	44	275		",T"	G44V	G25523T	G44V	ORF3A:G44V	44	ORF3a	G44V	ORF3A:G44V	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25563	.	G	T	19580	PASS	1544	0.457254	0	"837,0,706,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25654	.	G	T	19288	PASS	1474	0.464722	0	"788,0,685,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.262G>T	p.Val88Leu	262/828	262/828	88/275	88	275		",T"	V88L	G25654T	V88L	ORF3A:V88L	88	ORF3a	V88L	ORF3A:V88L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25660	.	G	GT	2351	PASS	1362	0.063877	0	"1284,0,87,0"	TRUE	GT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.271dupT	p.Tyr91fs	272/828	272/828	91/275	91	275		"INFO_REALIGN_3_PRIME,GT"	del91	G25660GT	del91	ORF3A:DEL91	91	ORF3a	del91	ORF3A:DEL91	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25710	.	C	T	11837	PASS	918	0.46732	0	"488,0,429,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25844	.	C	T	421	PASS	413	0.070218	0	"384,0,29,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.452C>T	p.Thr151Ile	452/828	452/828	151/275	151	275		",T"	T151I	C25844T	T151I	ORF3A:T151I	151	ORF3a	T151I	ORF3A:T151I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25906	.	G	C	216	PASS	457	0.041575	0	"436,0,19,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	25996	.	G	T	264	PASS	550	0.047273	0	"524,0,26,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26062	.	G	T	4479	PASS	462	0.385281	0	"283,0,178,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26155	.	G	GT	97	PASS	1300	0.004615	0	"1298,0,6,0"	TRUE	GT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.765dupT	p.Val256fs	766/828	766/828	256/275	256	275		"INFO_REALIGN_3_PRIME,GT"	del256	G26155GT	del256	ORF3A:DEL256	256	ORF3a	del256	ORF3A:DEL256	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26299	.	C	CTT	49	PASS	1978	0.002022	0	"1974,0,4,0"	TRUE	CTT	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.59_60dupTT	p.Leu21fs	61/228	61/228	21/75	21	75		"INFO_REALIGN_3_PRIME,CTT"	del21	C26299CTT	del21	E:DEL21	21	E	del21	E:DEL21	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26355	.	T	C	87	PASS	2396	0.012521	0	"2355,0,30,0"	FALSE	C	synonymous_variant	LOW	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.111T>C	p.Leu37Leu	111/228	111/228	37/75	37	75		",C"	L37L	T26355C	L37L	E:L37L	37	E	L37L	E:L37L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26603	.	A	AT	5672	PASS	2949	0.072567	0	"2767,0,214,0"	TRUE	AT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.83dupT	p.Leu29fs	84/669	84/669	28/222	28	222		"INFO_REALIGN_3_PRIME,AT"	del29	A26603AT	del29	M:DEL29	29	M	del29	M:DEL29	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26606	.	C	T	72	PASS	2893	0.011061	0	"2853,0,32,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.84C>T	p.Phe28Phe	84/669	84/669	28/222	28	222		",T"	F28F	C26606T	F28F	M:F28F	28	M	F28F	M:F28F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26654	.	G	GT	5341	PASS	2751	0.077063	0	"2560,0,212,0"	TRUE	GT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.137dupT	p.Leu46fs	138/669	138/669	46/222	46	222		"INFO_REALIGN_3_PRIME,GT"	del46	G26654GT	del46	M:DEL46	46	M	del46	M:DEL46	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26735	.	C	T	9883	PASS	2345	0.200426	0	"1871,0,470,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26772	.	A	C	49003	PASS	2391	0.664157	0	"801,0,1588,0"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.250A>C	p.Met84Leu	250/669	250/669	84/222	84	222		",C"	M84L	A26772C	M84L	M:M84L	84	M	M84L	M:M84L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26801	.	C	G	4897	PASS	2043	0.125795	0	"1773,0,257,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	26876	.	T	C	8172	PASS	1231	0.282697	0	"880,0,348,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27112	.	G	T	798	PASS	746	0.081769	0	"682,0,61,0"	FALSE	T	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.590G>T	p.Ser197Ile	590/669	590/669	197/222	197	222		",T"	S197I	G27112T	S197I	M:S197I	197	M	S197I	M:S197I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27176	.	T	C	186	PASS	783	0.034483	0	"755,0,27,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.654T>C	p.Ala218Ala	654/669	654/669	218/222	218	222		",C"	A218A	T27176C	A218A	M:A218A	218	M	A218A	M:A218A	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27260	.	G	T	312	PASS	1483	0.030344	0	"1435,0,45,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.59G>T	p.Arg20Met	59/186	59/186	20/61	20	61		",T"	R20M	G27260T	R20M	ORF6:R20M	20	ORF6	R20M	ORF6:R20M	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27319	.	T	C	26317	PASS	2198	0.441765	0	"1221,0,971,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.118T>C	p.Leu40Leu	118/186	118/186	40/61	40	61		",C"	L40L	T27319C	L40L	ORF6:L40L	40	ORF6	L40L	ORF6:L40L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27375	.	G	T	32439	PASS	2741	0.448012	0	"1504,0,1228,0"	FALSE	T	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.174G>T	p.Met58Ile	174/186	174/186	58/61	58	61		",T"	M58I	G27375T	M58I	ORF6:M58I	58	ORF6	M58I	ORF6:M58I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27459	.	G	T	1751	PASS	2501	0.057577	0	"2354,0,144,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.66G>T	p.Glu22Asp	66/366	66/366	22/121	22	121		",T"	E22D	G27459T	E22D	ORF7A:E22D	22	ORF7a	E22D	ORF7A:E22D	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27691	.	A	AT	4112	PASS	3264	0.052083	0	"3100,0,170,0"	TRUE	AT	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.303dupT	p.Leu102fs	304/366	304/366	102/121	102	121		"INFO_REALIGN_3_PRIME,AT"	del102	A27691AT	del102	ORF7A:DEL102	102	ORF7a	del102	ORF7A:DEL102	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27791	.	CTTT	C	35729	PASS	2855	0.393695	0	"1730,0,1124,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.39_41delTTT	p.Phe13del	39/132	39/132	13/43	13	43		"INFO_REALIGN_3_PRIME,C"	del13	CTTT27791C	del13	ORF7B:DEL13	13	ORF7b	del13	ORF7B:DEL13	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27881	.	C	T	1796	PASS	2542	0.061762	0	"2377,0,157,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27906	.	G	GT	3266	PASS	2535	0.051282	0	"2414,0,130,0"	TRUE	GT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.17dupT	p.Gly8fs	18/366	18/366	6/121	6	121		"INFO_REALIGN_3_PRIME,GT"	del8	G27906GT	del8	ORF8:DEL8	8	ORF8	del8	ORF8:DEL8	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	27944	.	C	T	288	PASS	2145	0.024242	0	"2086,0,52,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28300	.	G	T	1142	PASS	1171	0.076857	0	"1077,0,90,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28361	.	G	T	1299	PASS	1577	0.071021	0	"1463,0,112,0"	FALSE	T	stop_gained	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.88G>T	p.Gly30*	88/1260	88/1260	30/419	30	419		",T"	G30*	G28361T	G30*	N:G30*	30	N	G30*	N:G30*	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28456	.	G	C	151	PASS	2322	0.014212	0	"2280,0,33,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.183G>C	p.Lys61Asn	183/1260	183/1260	61/419	61	419		",C"	K61N	G28456C	K61N	N:K61N	61	N	K61N	N:K61N	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28487	.	G	A	18005	PASS	2709	0.280177	0	"1941,0,759,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.214G>A	p.Val72Ile	214/1260	214/1260	72/419	72	419		",A"	V72I	G28487A	V72I	N:V72I	72	N	V72I	N:V72I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28544	.	A	C	252	PASS	3262	0.02054	0	"3185,0,67,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.271A>C	p.Thr91Pro	271/1260	271/1260	91/419	91	419		",C"	T91P	A28544C	T91P	N:T91P	91	N	T91P	N:T91P	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28555	.	TC	T	116	PASS	3074	0.019844	0	"3087,0,61,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.283delC	p.Arg95fs	283/1260	283/1260	95/419	95	419		",T"	del95	TC28555T	del95	N:DEL95	95	N	del95	N:DEL95	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28557	.	G	T	74	PASS	3083	0.022705	0	"3001,0,70,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.284G>T	p.Arg95Leu	284/1260	284/1260	95/419	95	419		",T"	R95L	G28557T	R95L	N:R95L	95	N	R95L	N:R95L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28651	.	C	T	1504	PASS	3031	0.046189	0	"2877,0,140,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28698	.	CA	C	1817	PASS	3764	0.022582	0	"3679,0,85,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.429delA	p.Asp144fs	429/1260	429/1260	143/419	143	419		"INFO_REALIGN_3_PRIME,C"	del144	CA28698C	del144	N:DEL144	144	N	del144	N:DEL144	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28814	.	CAAG	C	2653	PASS	4293	0.02772	0	"4181,0,119,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.542_544delAAG	p.Gln181_Ala182delinsPro	542/1260	542/1260	181/419	181	419		",C"	indel	CAAG28814C	NA	NA	NA	N	NA	NA	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28851	.	G	T	1436	PASS	4181	0.039943	0	"4006,0,167,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.578G>T	p.Ser193Ile	578/1260	578/1260	193/419	193	419		",T"	S193I	G28851T	S193I	N:S193I	193	N	S193I	N:S193I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28868	.	C	T	36820	PASS	4157	0.350734	0	"2694,0,1458,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.595C>T	p.Pro199Ser	595/1260	595/1260	199/419	199	419		",T"	P199S	C28868T	P199S	N:P199S	199	N	P199S	N:P199S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28869	.	C	T	2206	PASS	4148	0.052314	0	"3924,0,217,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28881	.	G	A	28280	PASS	3847	0.31843	0	"2607,0,1225,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28882	.	G	A	26874	PASS	3850	0.315584	0	"2618,0,1215,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28883	.	G	C	29470	PASS	3839	0.320135	0	"2596,0,1229,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28932	.	C	T	196	PASS	3867	0.012671	0	"3809,0,49,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28955	.	A	G	340	PASS	3761	0.023132	0	"3657,0,87,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.682A>G	p.Asn228Asp	682/1260	682/1260	228/419	228	419		",G"	N228D	A28955G	N228D	N:N228D	228	N	N228D	N:N228D	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28975	.	G	C	49314	PASS	3720	0.560484	0	"1628,0,2085,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28977	.	C	T	349	PASS	3648	0.016721	0	"3574,0,61,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28978	.	T	A	382	PASS	3655	0.018057	0	"3580,0,66,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	28987	.	CCAA	C	111	PASS	3437	0.002328	0	"3446,0,8,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE38-1	NC_045512.2	29399	.	G	A	251	PASS	16	0.625	0	"6,0,10,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.1126G>A	p.Ala376Thr	1126/1260	1126/1260	376/419	376	419		",A"	A376T	G29399A	A376T	N:A376T	376	N	A376T	N:A376T	VIE38-1	TROISVIERGES	2020-12-13T00:00:00Z	29.74225	33.09	x	1022021	2020-12-13
VIE41-2	NC_045512.2	241	.	C	T	28939	PASS	808	0.998762	0	"1,0,555,252"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	295	.	G	GA	1459	PASS	719	0.075104	1	"401,266,31,23"	TRUE	GA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.34dupA	p.Thr12fs	35/21291	35/21291	12/7096	12	7096		"INFO_REALIGN_3_PRIME,GA"	del12	G295GA	del12	ORF1AB:DEL12	12	ORF1a	del12	ORF1A:DEL12	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	335	.	C	T	1595	PASS	790	0.1	9	"337,374,30,49"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	445	.	T	C	899	PASS	845	0.071006	1	"337,447,24,36"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	509	.	GGTCATGTTA	G	1426	PASS	840	0.066667	1	"361,433,27,29"	TRUE	G	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.245_253delGTCATGTTA	p.Gly82_Met85delinsVal	245/21291	245/21291	82/7096	82	7096		",G"	indel	GGTCATGTTA509G	NA	NA	NA	ORF1a	NA	NA	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	593	.	C	T	1475	PASS	872	0.083716	25	"463,335,29,44"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	685	.	AAAGTCATTT	A	683	PASS	909	0.031903	0	"402,503,13,16"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.421_429delAAGTCATTT	p.Lys141_Phe143del	421/21291	421/21291	141/7096	141	7096		",A"	del141/143	AAAGTCATTT685A	del141/143	ORF1AB:DEL141/143	141/143	ORF1a	del141/143	ORF1A:DEL141/143	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	1575	.	G	A	145	PASS	864	0.017361	1	"513,335,10,5"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1310G>A	p.Gly437Asp	1310/21291	1310/21291	437/7096	437	7096		",A"	G437D	G1575A	G437D	ORF1AB:G437D	437	ORF1a	G437D	ORF1A:G437D	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	1606	.	T	G	2399	PASS	937	0.117396	2	"522,305,66,44"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1341T>G	p.Asn447Lys	1341/21291	1341/21291	447/7096	447	7096		",G"	N447K	T1606G	N447K	ORF1AB:N447K	447	ORF1a	N447K	ORF1A:N447K	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	2809	.	G	C	817	PASS	265	0.132075	3	"116,114,20,15"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2544G>C	p.Arg848Ser	2544/21291	2544/21291	848/7096	848	7096		",C"	R848S	G2809C	R848S	ORF1AB:R848S	848	ORF1a	R848S	ORF1A:R848S	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	3037	.	C	T	6819	PASS	189	0.989418	0	"0,0,55,132"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	4927	.	C	T	317	PASS	112	0.133929	0	"52,45,8,7"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4662C>T	p.Asp1554Asp	4662/21291	4662/21291	1554/7096	1554	7096		",T"	D1554D	C4927T	D1554D	ORF1AB:D1554D	1554	ORF1a	D1554D	ORF1A:D1554D	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	4963	.	G	T	266	PASS	106	0.132075	4	"48,44,5,9"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4698G>T	p.Arg1566Ser	4698/21291	4698/21291	1566/7096	1566	7096		",T"	R1566S	G4963T	R1566S	ORF1AB:R1566S	1566	ORF1a	R1566S	ORF1A:R1566S	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	5884	.	C	T	857	PASS	112	0.303571	6	"77,1,32,2"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5619C>T	p.Tyr1873Tyr	5619/21291	5619/21291	1873/7096	1873	7096		",T"	Y1873Y	C5884T	Y1873Y	ORF1AB:Y1873Y	1873	ORF1a	Y1873Y	ORF1A:Y1873Y	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	6696	.	C	CT	368	PASS	121	0.107438	0	"16,96,2,11"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	7600	.	C	T	164	PASS	104	0.076923	0	"50,46,4,4"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7335C>T	p.Cys2445Cys	7335/21291	7335/21291	2445/7096	2445	7096		",T"	C2445C	C7600T	C2445C	ORF1AB:C2445C	2445	ORF1a	C2445C	ORF1A:C2445C	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	7604	.	C	T	263	PASS	111	0.117117	6	"47,51,9,4"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7339C>T	p.Leu2447Leu	7339/21291	7339/21291	2447/7096	2447	7096		",T"	L2447L	C7604T	L2447L	ORF1AB:L2447L	2447	ORF1a	L2447L	ORF1A:L2447L	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	7823	.	C	T	108	PASS	51	0.117647	0	"19,26,2,4"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7558C>T	p.His2520Tyr	7558/21291	7558/21291	2520/7096	2520	7096		",T"	H2520Y	C7823T	H2520Y	ORF1AB:H2520Y	2520	ORF1a	H2520Y	ORF1A:H2520Y	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	8042	.	G	A	429	PASS	21	0.619048	0	"5,3,7,6"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7777G>A	p.Ala2593Thr	7777/21291	7777/21291	2593/7096	2593	7096		",A"	A2593T	G8042A	A2593T	ORF1AB:A2593T	2593	ORF1a	A2593T	ORF1A:A2593T	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	11076	.	T	C	1008	PASS	187	0.208556	4	"75,73,16,23"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10811T>C	p.Phe3604Ser	10811/21291	10811/21291	3604/7096	3604	7096		",C"	F3604S	T11076C	F3604S	ORF1AB:F3604S	3604	ORF1a	F3604S	ORF1A:F3604S	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	11095	.	CT	C	40	PASS	213	0.00939	2	"69,143,1,1"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835delT	p.Leu3612fs	10835/21291	10835/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,C"	del3612	CT11095C	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	12436	.	T	C	2524	PASS	68	1	0	"0,0,39,29"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12171T>C	p.Val4057Val	12171/21291	12171/21291	4057/7096	4057	7096		",C"	V4057V	T12436C	V4057V	ORF1AB:V4057V	4057	ORF1a	V4057V	ORF1A:V4057V	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	13907	.	A	AT	45	PASS	183	0.010929	0	"100,81,1,1"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13646dupT	p.Asn4550fs	13647/21291	13647/21291	4549/7096	4549	7096		"INFO_REALIGN_3_PRIME,AT"	del4550	A13907AT	del4550	ORF1AB:DEL4550	149	ORF1b	del149	ORF1B:DEL149	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	13993	.	G	T	5060	PASS	140	1	0	"0,0,43,97"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	13994	.	CT	C	58	PASS	139	0.021583	6	"41,96,2,1"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13733delT	p.Leu4578fs	13733/21291	13733/21291	4578/7096	4578	7096		"INFO_REALIGN_3_PRIME,C"	del4578	CT13994C	del4578	ORF1AB:DEL4578	177	ORF1b	del177	ORF1B:DEL177	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	15179	.	C	T	5576	PASS	533	0.373358	9	"120,213,58,141"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14915C>T	p.Ala4972Val	14915/21291	14915/21291	4972/7096	4972	7096		",T"	A4972V	C15179T	A4972V	ORF1AB:A4972V	571	ORF1b	A571V	ORF1B:A571V	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	15766	.	G	T	2122	PASS	59	1	0	"0,0,22,37"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	16574	.	A	G	9352	PASS	788	0.412437	0	2.09254E+11	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16310A>G	p.Asp5437Gly	16310/21291	16310/21291	5437/7096	5437	7096		",G"	D5437G	A16574G	D5437G	ORF1AB:D5437G	1036	ORF1b	D1036G	ORF1B:D1036G	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	16889	.	A	G	24606	PASS	652	1	0	"0,0,249,403"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	17019	.	G	C	49314	PASS	464	0.398707	0	"0,0,31,154"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>C	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",C"	E5585D	G17019C	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	17019	.	G	T	8868	PASS	464	0.599138	0	"0,0,55,223"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	17748	.	TG	T	3607	PASS	421	0.28266	0	"160,144,64,55"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17485delG	p.Ala5829fs	17485/21291	17485/21291	5829/7096	5829	7096		",T"	del5829	TG17748T	del5829	ORF1AB:DEL5829	1428	ORF1b	del1428	ORF1B:DEL1428	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	18877	.	C	T	654	PASS	18	1	0	"0,0,2,16"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	19613	.	G	A	926	PASS	78	0.410256	0	"26,20,19,13"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19349G>A	p.Arg6450Lys	19349/21291	19349/21291	6450/7096	6450	7096		",A"	R6450K	G19613A	R6450K	ORF1AB:R6450K	2049	ORF1b	R2049K	ORF1B:R2049K	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	21255	.	G	C	1654	PASS	252	0.277778	3	"112,69,47,23"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	21467	.	T	C	1125	PASS	315	0.149206	0	"140,127,24,23"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21203T>C	p.Met7068Thr	21203/21291	21203/21291	7068/7096	7068	7096		",C"	M7068T	T21467C	M7068T	ORF1AB:M7068T	2667	ORF1b	M2667T	ORF1B:M2667T	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	22227	.	C	T	164	PASS	28	0.214286	24	"1,21,4,2"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	25563	.	G	T	5351	PASS	148	1	0	"0,0,57,91"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	25710	.	C	T	3981	PASS	107	1	0	"0,0,26,81"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	26493	.	G	GT	3791	PASS	515	0.236893	3	"174,229,48,74"	TRUE	GT	upstream_gene_variant	MODIFIER	M	GU280_gp05	transcript	GU280_gp05	protein_coding		c.-30_-29insT						NA	29	",GT"	del	G26493GT	del	M:DEL	NA	M	del	M:DEL	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	26561	.	TA	T	3812	PASS	506	0.245059	4	"178,205,64,60"	TRUE	T	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.44delA	p.Lys15fs	44/669	44/669	15/222	15	222		"INFO_REALIGN_3_PRIME,T"	del15	TA26561T	del15	M:DEL15	15	M	del15	M:DEL15	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	26735	.	C	T	18864	PASS	525	0.977143	17	"8,3,176,337"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	26801	.	C	T	3706	PASS	534	0.265918	0	"72,319,24,118"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>T	p.Leu93Leu	279/669	279/669	93/222	93	222		",T"	L93L	C26801T	L93L	M:L93L	93	M	L93L	M:L93L	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	26876	.	T	C	10216	PASS	304	0.953947	49	"10,4,45,245"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	27877	.	G	T	1929	PASS	131	0.480916	7	"24,44,30,33"	FALSE	T	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.122G>T	p.Cys41Phe	122/132	122/132	41/43	41	43		",T"	C41F	G27877T	C41F	ORF7B:C41F	41	ORF7b	C41F	ORF7B:C41F	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28588	.	T	C	674	PASS	1114	0.045781	89	"619,439,8,43"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.315T>C	p.Ser105Ser	315/1260	315/1260	105/419	105	419		",C"	S105S	T28588C	S105S	N:S105S	105	N	S105S	N:S105S	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28657	.	C	T	6771	PASS	1089	0.251607	0	4.10404E+11	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.384C>T	p.Asp128Asp	384/1260	384/1260	128/419	128	419		",T"	D128D	C28657T	D128D	N:D128D	128	N	D128D	N:D128D	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28776	.	C	CA	4201	PASS	1313	0.112719	4	"581,584,68,80"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.507dupA	p.Gly170fs	508/1260	508/1260	170/419	170	419		"INFO_REALIGN_3_PRIME,CA"	del170	C28776CA	del170	N:DEL170	170	N	del170	N:DEL170	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28862	.	T	A	7506	PASS	1248	0.234776	0	4.05547E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.589T>A	p.Ser197Thr	589/1260	589/1260	197/419	197	419		",A"	S197T	T28862A	S197T	N:S197T	197	N	S197T	N:S197T	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28880	.	A	G	516	PASS	1228	0.05456	5	"497,663,24,43"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.607A>G	p.Arg203Gly	607/1260	607/1260	203/419	203	419		",G"	R203G	A28880G	R203G	N:R203G	203	N	R203G	N:R203G	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28881	.	G	A	12725	PASS	1166	0.38422	15	2.89429E+11	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28882	.	G	A	12469	PASS	1167	0.384747	16	2.87431E+11	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28883	.	G	C	12282	PASS	1167	0.386461	16	2.8543E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28913	.	G	T	6967	PASS	1104	0.249094	31	3.85444E+11	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.640G>T	p.Gly214Cys	640/1260	640/1260	214/419	214	419		",T"	G214C	G28913T	G214C	N:G214C	214	N	G214C	N:G214C	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28932	.	C	T	2053	PASS	1035	0.120773	6	"411,497,49,76"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28975	.	G	C	9349	PASS	1076	0.337361	12	2.54458E+11	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28977	.	C	T	7498	PASS	1069	0.275023	48	"322,453,80,214"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	28987	.	CCAA	C	68	PASS	965	0.004145	1	"390,593,2,2"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
VIE41-2	NC_045512.2	29051	.	C	CA	2689	PASS	860	0.112791	7	"225,539,35,62"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	VIE41-2	TROISVIERGES	2021-01-07T00:00:00Z	32.28	34.69	To be done	NA	2021-01-07
WIL33	NC_045512.2	222	.	C	T	881	PASS	2038	0.034838	0	"1962,0,71,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-44C>T						NA	44	",T"		C222T		NA	NA	NA		NA	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	241	.	C	T	49314	PASS	2191	0.999087	0	"1,0,2189,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	335	.	C	T	1044	PASS	2241	0.036145	0	"2160,0,81,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.70C>T	p.Arg24Cys	70/21291	70/21291	24/7096	24	7096		",T"	R24C	C335T	R24C	ORF1AB:R24C	24	ORF1a	R24C	ORF1A:R24C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	369	.	TG	T	53	PASS	2309	0.001732	0	"2316,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.106delG	p.Glu36fs	106/21291	106/21291	36/7096	36	7096		"INFO_REALIGN_3_PRIME,T"	del36	TG369T	del36	ORF1AB:DEL36	36	ORF1a	del36	ORF1A:DEL36	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	434	.	GA	G	46	PASS	2496	0.001603	0	"2498,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.174delA	p.Gly59fs	174/21291	174/21291	58/7096	58	7096		"INFO_REALIGN_3_PRIME,G"	del59	GA434G	del59	ORF1AB:DEL59	59	ORF1a	del59	ORF1A:DEL59	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	439	.	A	AG	2302	PASS	2521	0.037287	0	"2433,0,94,0"	TRUE	AG	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.176dupG	p.Val60fs	177/21291	177/21291	59/7096	59	7096		"INFO_REALIGN_3_PRIME,AG"	del60	A439AG	del60	ORF1AB:DEL60	60	ORF1a	del60	ORF1A:DEL60	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	445	.	T	C	1084	PASS	2587	0.044453	0	"2469,0,115,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	509	.	GGTCATGTTATGGTT	G	3442	PASS	2680	0.050746	0	"2550,0,136,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.246_259delTCATGTTATGGTTG	p.His83fs	246/21291	246/21291	82/7096	82	7096		"INFO_REALIGN_3_PRIME,G"	del83	GGTCATGTTATGGTT509G	del83	ORF1AB:DEL83	83	ORF1a	del83	ORF1A:DEL83	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	614	.	G	T	748	PASS	2303	0.030829	0	"2232,0,71,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.349G>T	p.Ala117Ser	349/21291	349/21291	117/7096	117	7096		",T"	A117S	G614T	A117S	ORF1AB:A117S	117	ORF1a	A117S	ORF1A:A117S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	685	.	AAAGTCATTT	A	287	PASS	2520	0.006349	0	"2505,0,16,0"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.421_429delAAGTCATTT	p.Lys141_Phe143del	421/21291	421/21291	141/7096	141	7096		",A"	del141/143	AAAGTCATTT685A	del141/143	ORF1AB:DEL141/143	141/143	ORF1a	del141/143	ORF1A:DEL141/143	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1066	.	TG	T	1548	PASS	1768	0.036765	0	"1709,0,65,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.805delG	p.Glu269fs	805/21291	805/21291	269/7096	269	7096		"INFO_REALIGN_3_PRIME,T"	del269	TG1066T	del269	ORF1AB:DEL269	269	ORF1a	del269	ORF1A:DEL269	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1070	.	G	A	259	PASS	1664	0.038462	0	"1595,0,64,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.805G>A	p.Glu269Lys	805/21291	805/21291	269/7096	269	7096		",A"	E269K	G1070A	E269K	ORF1AB:E269K	269	ORF1a	E269K	ORF1A:E269K	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1235	.	G	T	876	PASS	1685	0.036202	0	"1624,0,61,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.970G>T	p.Asp324Tyr	970/21291	970/21291	324/7096	324	7096		",T"	D324Y	G1235T	D324Y	ORF1AB:D324Y	324	ORF1a	D324Y	ORF1A:D324Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1349	.	C	CA	1183	PASS	1945	0.026735	0	"1893,0,52,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1088dupA	p.Asn363fs	1089/21291	1089/21291	363/7096	363	7096		"INFO_REALIGN_3_PRIME,CA"	del363	C1349CA	del363	ORF1AB:DEL363	363	ORF1a	del363	ORF1A:DEL363	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1437	.	C	T	194	PASS	1546	0.012937	0	"1525,0,20,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1172C>T	p.Ser391Phe	1172/21291	1172/21291	391/7096	391	7096		",T"	S391F	C1437T	S391F	ORF1AB:S391F	391	ORF1a	S391F	ORF1A:S391F	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1440	.	GC	G	369	PASS	1533	0.013046	0	"1547,0,20,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1176delC	p.Leu393fs	1176/21291	1176/21291	392/7096	392	7096		",G"	del393	GC1440G	del393	ORF1AB:DEL393	393	ORF1a	del393	ORF1A:DEL393	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1753	.	TA	T	1841	PASS	1752	0.041096	0	"1684,0,72,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1491delA	p.Ala498fs	1491/21291	1491/21291	497/7096	497	7096		"INFO_REALIGN_3_PRIME,T"	del498	TA1753T	del498	ORF1AB:DEL498	498	ORF1a	del498	ORF1A:DEL498	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1776	.	A	G	1261	PASS	1655	0.051964	0	"1566,0,86,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1511A>G	p.Glu504Gly	1511/21291	1511/21291	504/7096	504	7096		",G"	E504G	A1776G	E504G	ORF1AB:E504G	504	ORF1a	E504G	ORF1A:E504G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	1985	.	T	C	125	PASS	901	0.014428	0	"888,0,13,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1720T>C	p.Ser574Pro	1720/21291	1720/21291	574/7096	574	7096		",C"	S574P	T1985C	S574P	ORF1AB:S574P	574	ORF1a	S574P	ORF1A:S574P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	2037	.	C	T	210	PASS	371	0.037736	0	"357,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1772C>T	p.Ala591Val	1772/21291	1772/21291	591/7096	591	7096		",T"	A591V	C2037T	A591V	ORF1AB:A591V	591	ORF1a	A591V	ORF1A:A591V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	2384	.	G	A	276	PASS	139	0.100719	0	"125,0,14,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2119G>A	p.Glu707Lys	2119/21291	2119/21291	707/7096	707	7096		",A"	E707K	G2384A	E707K	ORF1AB:E707K	707	ORF1a	E707K	ORF1A:E707K	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	2522	.	A	G	370	PASS	847	0.046045	0	"808,0,39,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2257A>G	p.Thr753Ala	2257/21291	2257/21291	753/7096	753	7096		",G"	T753A	A2522G	T753A	ORF1AB:T753A	753	ORF1a	T753A	ORF1A:T753A	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3037	.	C	T	42208	PASS	1195	0.999163	2147483647	"0,0,1194,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3094	.	A	G	543	PASS	1310	0.035878	0	"1262,0,47,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2829A>G	p.Pro943Pro	2829/21291	2829/21291	943/7096	943	7096		",G"	P943P	A3094G	P943P	ORF1AB:P943P	943	ORF1a	P943P	ORF1A:P943P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3178	.	T	A	237	PASS	606	0.031353	0	"587,0,19,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2913T>A	p.Pro971Pro	2913/21291	2913/21291	971/7096	971	7096		",A"	P971P	T3178A	P971P	ORF1AB:P971P	971	ORF1a	P971P	ORF1A:P971P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3395	.	G	T	161	PASS	193	0.046632	0	"184,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3130G>T	p.Asp1044Tyr	3130/21291	3130/21291	1044/7096	1044	7096		",T"	D1044Y	G3395T	D1044Y	ORF1AB:D1044Y	1044	ORF1a	D1044Y	ORF1A:D1044Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3602	.	C	T	1577	PASS	224	0.28125	0	"161,0,63,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3603	.	A	G	79	PASS	225	0.035556	0	"217,0,8,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3338A>G	p.His1113Arg	3338/21291	3338/21291	1113/7096	1113	7096		",G"	H1113R	A3603G	H1113R	ORF1AB:H1113R	1113	ORF1a	H1113R	ORF1A:H1113R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3624	.	CA	C	118	PASS	240	0.020833	0	"235,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3362delA	p.Asn1121fs	3362/21291	3362/21291	1121/7096	1121	7096		"INFO_REALIGN_3_PRIME,C"	del1121	CA3624C	del1121	ORF1AB:DEL1121	1121	ORF1a	del1121	ORF1A:DEL1121	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3634	.	CA	C	136	PASS	248	0.024194	0	"242,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3372delA	p.Gly1125fs	3372/21291	3372/21291	1124/7096	1124	7096		"INFO_REALIGN_3_PRIME,C"	del1125	CA3634C	del1125	ORF1AB:DEL1125	1125	ORF1a	del1125	ORF1A:DEL1125	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3743	.	C	T	2343	PASS	334	0.278443	0	"241,0,93,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3478C>T	p.His1160Tyr	3478/21291	3478/21291	1160/7096	1160	7096		",T"	H1160Y	C3743T	H1160Y	ORF1AB:H1160Y	1160	ORF1a	H1160Y	ORF1A:H1160Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3832	.	CT	C	256	PASS	342	0.032164	0	"331,0,11,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3572delT	p.Leu1191fs	3572/21291	3572/21291	1191/7096	1191	7096		"INFO_REALIGN_3_PRIME,C"	del1191	CT3832C	del1191	ORF1AB:DEL1191	1191	ORF1a	del1191	ORF1A:DEL1191	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	3848	.	A	G	171	PASS	366	0.038251	0	"352,0,14,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3583A>G	p.Ser1195Gly	3583/21291	3583/21291	1195/7096	1195	7096		",G"	S1195G	A3848G	S1195G	ORF1AB:S1195G	1195	ORF1a	S1195G	ORF1A:S1195G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	4543	.	C	T	3140	PASS	208	0.495192	0	"105,0,103,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	4683	.	C	T	151	PASS	191	0.04712	0	"182,0,9,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4418C>T	p.Ala1473Val	4418/21291	4418/21291	1473/7096	1473	7096		",T"	A1473V	C4683T	A1473V	ORF1AB:A1473V	1473	ORF1a	A1473V	ORF1A:A1473V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	4764	.	A	T	182	PASS	505	0.027723	0	"491,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4499A>T	p.His1500Leu	4499/21291	4499/21291	1500/7096	1500	7096		",T"	H1500L	A4764T	H1500L	ORF1AB:H1500L	1500	ORF1a	H1500L	ORF1A:H1500L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	5123	.	G	GT	1413	PASS	1050	0.052381	0	"1022,0,55,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4862dupT	p.Leu1621fs	4863/21291	4863/21291	1621/7096	1621	7096		"INFO_REALIGN_3_PRIME,GT"	del1621	G5123GT	del1621	ORF1AB:DEL1621	1621	ORF1a	del1621	ORF1A:DEL1621	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	5512	.	C	T	747	PASS	548	0.083942	0	"500,0,46,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5247C>T	p.Asn1749Asn	5247/21291	5247/21291	1749/7096	1749	7096		",T"	N1749N	C5512T	N1749N	ORF1AB:N1749N	1749	ORF1a	N1749N	ORF1A:N1749N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	5629	.	G	T	4930	PASS	433	0.404157	0	"258,0,175,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	5826	.	CA	C	489	PASS	341	0.052786	0	"323,0,18,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5564delA	p.Lys1855fs	5564/21291	5564/21291	1855/7096	1855	7096		"INFO_REALIGN_3_PRIME,C"	del1855	CA5826C	del1855	ORF1AB:DEL1855	1855	ORF1a	del1855	ORF1A:DEL1855	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	5950	.	G	A	66	PASS	718	0.011142	0	"697,0,8,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5685G>A	p.Lys1895Lys	5685/21291	5685/21291	1895/7096	1895	7096		",A"	K1895K	G5950A	K1895K	ORF1AB:K1895K	1895	ORF1a	K1895K	ORF1A:K1895K	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	5950	.	G	T	135	PASS	718	0.018106	0	"697,0,13,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5685G>T	p.Lys1895Asn	5685/21291	5685/21291	1895/7096	1895	7096		",T"	K1895N	G5950T	K1895N	ORF1AB:K1895N	1895	ORF1a	K1895N	ORF1A:K1895N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	6463	.	GA	G	146	PASS	1045	0.007656	0	"1038,0,8,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6202delA	p.Thr2068fs	6202/21291	6202/21291	2068/7096	2068	7096		"INFO_REALIGN_3_PRIME,G"	del2068	GA6463G	del2068	ORF1AB:DEL2068	2068	ORF1a	del2068	ORF1A:DEL2068	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	6696	.	C	CT	594	PASS	412	0.055825	0	"389,0,23,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	6696	.	C	T	259	PASS	412	0.046117	0	"393,0,19,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	6701	.	C	T	140	PASS	398	0.055276	0	"376,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	6861	.	CA	C	901	PASS	542	0.062731	0	"508,0,34,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6599delA	p.Lys2200fs	6599/21291	6599/21291	2200/7096	2200	7096		"INFO_REALIGN_3_PRIME,C"	del2200	CA6861C	del2200	ORF1AB:DEL2200	2200	ORF1a	del2200	ORF1A:DEL2200	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	6941	.	C	T	3173	PASS	589	0.229202	0	"454,0,135,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6676C>T	p.Leu2226Leu	6676/21291	6676/21291	2226/7096	2226	7096		",T"	L2226L	C6941T	L2226L	ORF1AB:L2226L	2226	ORF1a	L2226L	ORF1A:L2226L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	7273	.	G	GT	295	PASS	318	0.040881	0	"318,0,13,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7013dupT	p.Tyr2339fs	7014/21291	7014/21291	2338/7096	2338	7096		"INFO_REALIGN_3_PRIME,GT"	del2339	G7273GT	del2339	ORF1AB:DEL2339	2339	ORF1a	del2339	ORF1A:DEL2339	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	7322	.	TA	T	257	PASS	385	0.028571	0	"374,0,11,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7058delA	p.Tyr2353fs	7058/21291	7058/21291	2353/7096	2353	7096		",T"	del2353	TA7322T	del2353	ORF1AB:DEL2353	2353	ORF1a	del2353	ORF1A:DEL2353	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	7390	.	C	T	3417	PASS	405	0.330864	0	"270,0,134,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7125C>T	p.Ala2375Ala	7125/21291	7125/21291	2375/7096	2375	7096		",T"	A2375A	C7390T	A2375A	ORF1AB:A2375A	2375	ORF1a	A2375A	ORF1A:A2375A	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	7594	.	C	T	141	PASS	585	0.022222	0	"571,0,13,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7329C>T	p.Gly2443Gly	7329/21291	7329/21291	2443/7096	2443	7096		",T"	G2443G	C7594T	G2443G	ORF1AB:G2443G	2443	ORF1a	G2443G	ORF1A:G2443G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	7700	.	A	T	298	PASS	805	0.028571	0	"782,0,23,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7435A>T	p.Arg2479*	7435/21291	7435/21291	2479/7096	2479	7096		",T"	R2479*	A7700T	R2479*	ORF1AB:R2479*	2479	ORF1a	R2479*	ORF1A:R2479*	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	8051	.	A	G	161	PASS	864	0.018519	0	"847,0,16,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7786A>G	p.Asn2596Asp	7786/21291	7786/21291	2596/7096	2596	7096		",G"	N2596D	A8051G	N2596D	ORF1AB:N2596D	2596	ORF1a	N2596D	ORF1A:N2596D	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	8218	.	TG	T	82	PASS	869	0.006904	0	"864,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7954delG	p.Val2652fs	7954/21291	7954/21291	2652/7096	2652	7096		",T"	del2652	TG8218T	del2652	ORF1AB:DEL2652	2652	ORF1a	del2652	ORF1A:DEL2652	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	8376	.	CA	C	77	PASS	396	0.010101	0	"392,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	8380	.	A	G	153	PASS	387	0.049096	0	"368,0,19,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8115A>G	p.Lys2705Lys	8115/21291	8115/21291	2705/7096	2705	7096		",G"	K2705K	A8380G	K2705K	ORF1AB:K2705K	2705	ORF1a	K2705K	ORF1A:K2705K	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	8621	.	A	AT	101	PASS	331	0.057402	0	"312,0,19,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8360dupT	p.Tyr2788fs	8361/21291	8361/21291	2787/7096	2787	7096		"INFO_REALIGN_3_PRIME,AT"	del2788	A8621AT	del2788	ORF1AB:DEL2788	2788	ORF1a	del2788	ORF1A:DEL2788	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	8626	.	C	T	3533	PASS	325	0.436923	0	"183,0,142,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8361C>T	p.Phe2787Phe	8361/21291	8361/21291	2787/7096	2787	7096		",T"	F2787F	C8626T	F2787F	ORF1AB:F2787F	2787	ORF1a	F2787F	ORF1A:F2787F	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	8983	.	T	G	779	PASS	444	0.087838	0	"405,0,39,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8718T>G	p.Thr2906Thr	8718/21291	8718/21291	2906/7096	2906	7096		",G"	T2906T	T8983G	T2906T	ORF1AB:T2906T	2906	ORF1a	T2906T	ORF1A:T2906T	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	9526	.	G	T	19958	PASS	1644	0.439173	0	"921,0,722,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	9684	.	TA	T	1989	PASS	1796	0.043987	0	"1753,0,79,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9421delA	p.Thr3141fs	9421/21291	9421/21291	3141/7096	3141	7096		"INFO_REALIGN_3_PRIME,T"	del3141	TA9684T	del3141	ORF1AB:DEL3141	3141	ORF1a	del3141	ORF1A:DEL3141	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	9894	.	T	C	1080	PASS	1654	0.042322	0	"1583,0,70,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9629T>C	p.Leu3210Pro	9629/21291	9629/21291	3210/7096	3210	7096		",C"	L3210P	T9894C	L3210P	ORF1AB:L3210P	3210	ORF1a	L3210P	ORF1A:L3210P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	10095	.	AG	A	48	PASS	1018	0.002947	0	"1016,0,3,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9833delG	p.Gly3278fs	9833/21291	9833/21291	3278/7096	3278	7096		"INFO_REALIGN_3_PRIME,A"	del3278	AG10095A	del3278	ORF1AB:DEL3278	3278	ORF1a	del3278	ORF1A:DEL3278	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	10097	.	G	A	444	PASS	1049	0.040991	0	"1004,0,43,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9832G>A	p.Gly3278Ser	9832/21291	9832/21291	3278/7096	3278	7096		",A"	G3278S	G10097A	G3278S	ORF1AB:G3278S	3278	ORF1a	G3278S	ORF1A:G3278S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	11074	.	CT	C	831	PASS	652	0.079755	0	"600,0,52,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10817delT	p.Leu3606fs	10817/21291	10817/21291	3606/7096	3606	7096		"INFO_REALIGN_3_PRIME,C"	del3606	CT11074C	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	11075	.	T	C	254	PASS	653	0.035222	0	"578,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10810T>C	p.Phe3604Leu	10810/21291	10810/21291	3604/7096	3604	7096		",C"	F3604L	T11075C	F3604L	ORF1AB:F3604L	3604	ORF1a	F3604L	ORF1A:F3604L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	11098	.	T	C	410	PASS	763	0.036697	0	"734,0,28,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10833T>C	p.Phe3611Phe	10833/21291	10833/21291	3611/7096	3611	7096		",C"	F3611F	T11098C	F3611F	ORF1AB:F3611F	3611	ORF1a	F3611F	ORF1A:F3611F	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	11471	.	C	T	189	PASS	427	0.030445	0	"414,0,13,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11206C>T	p.Leu3736Phe	11206/21291	11206/21291	3736/7096	3736	7096		",T"	L3736F	C11471T	L3736F	ORF1AB:L3736F	3736	ORF1a	L3736F	ORF1A:L3736F	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	11497	.	C	T	6864	PASS	418	0.543062	0	"191,0,227,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	11654	.	T	C	420	PASS	312	0.073718	0	"289,0,23,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11389T>C	p.Phe3797Leu	11389/21291	11389/21291	3797/7096	3797	7096		",C"	F3797L	T11654C	F3797L	ORF1AB:F3797L	3797	ORF1a	F3797L	ORF1A:F3797L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	12269	.	GA	G	821	PASS	453	0.068433	0	"424,0,31,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12008delA	p.Lys4003fs	12008/21291	12008/21291	4003/7096	4003	7096		"INFO_REALIGN_3_PRIME,G"	del4003	GA12269G	del4003	ORF1AB:DEL4003	4003	ORF1a	del4003	ORF1A:DEL4003	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	12333	.	CA	C	398	PASS	368	0.043478	0	"352,0,16,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12072delA	p.Val4025fs	12072/21291	12072/21291	4024/7096	4024	7096		"INFO_REALIGN_3_PRIME,C"	del4025	CA12333C	del4025	ORF1AB:DEL4025	4025	ORF1a	del4025	ORF1A:DEL4025	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	12525	.	C	T	825	PASS	757	0.062087	0	"710,0,47,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12260C>T	p.Thr4087Ile	12260/21291	12260/21291	4087/7096	4087	7096		",T"	T4087I	C12525T	T4087I	ORF1AB:T4087I	4087	ORF1a	T4087I	ORF1A:T4087I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	12654	.	C	T	830	PASS	714	0.070028	0	"662,0,50,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12389C>T	p.Ala4130Val	12389/21291	12389/21291	4130/7096	4130	7096		",T"	A4130V	C12654T	A4130V	ORF1AB:A4130V	4130	ORF1a	A4130V	ORF1A:A4130V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	12807	.	T	C	577	PASS	1207	0.034797	0	"1163,0,42,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12542T>C	p.Val4181Ala	12542/21291	12542/21291	4181/7096	4181	7096		",C"	V4181A	T12807C	V4181A	ORF1AB:V4181A	4181	ORF1a	V4181A	ORF1A:V4181A	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	12880	.	C	T	1416	PASS	1598	0.052566	0	"1514,0,84,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12615C>T	p.Ile4205Ile	12615/21291	12615/21291	4205/7096	4205	7096		",T"	I4205I	C12880T	I4205I	ORF1AB:I4205I	4205	ORF1a	I4205I	ORF1A:I4205I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	13258	.	T	C	1144	PASS	1944	0.054527	0	"1838,0,106,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12993T>C	p.Arg4331Arg	12993/21291	12993/21291	4331/7096	4331	7096		",C"	R4331R	T13258C	R4331R	ORF1AB:R4331R	4331	ORF1a	R4331R	ORF1A:R4331R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	13334	.	G	C	729	PASS	1485	0.037037	0	"1429,0,55,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13069G>C	p.Ala4357Pro	13069/21291	13069/21291	4357/7096	4357	7096		",C"	A4357P	G13334C	A4357P	ORF1AB:A4357P	4357	ORF1a	A4357P	ORF1A:A4357P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	13536	.	C	T	583	PASS	1359	0.031641	0	"1316,0,43,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13272C>T	p.Tyr4424Tyr	13272/21291	13272/21291	4424/7096	4424	7096		",T"	Y4424Y	C13536T	Y4424Y	ORF1AB:Y4424Y	23	ORF1b	Y23Y	ORF1B:Y23Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	13931	.	A	AT	974	PASS	1281	0.032006	0	"1250,0,41,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13671dupT	p.Val4558fs	13672/21291	13672/21291	4558/7096	4558	7096		"INFO_REALIGN_3_PRIME,AT"	del4558	A13931AT	del4558	ORF1AB:DEL4558	157	ORF1b	del157	ORF1B:DEL157	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	13993	.	G	T	15235	PASS	1076	0.489777	0	"549,0,527,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	14001	.	A	T	671	PASS	1023	0.048876	0	"971,0,50,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13737A>T	p.Leu4579Phe	13737/21291	13737/21291	4579/7096	4579	7096		",T"	L4579F	A14001T	L4579F	ORF1AB:L4579F	178	ORF1b	L178F	ORF1B:L178F	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	14408	.	C	T	3136	PASS	87	1	2147483647	"0,0,87,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	14429	.	T	G	91	PASS	92	0.065217	0	"86,0,6,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14165T>G	p.Val4722Gly	14165/21291	14165/21291	4722/7096	4722	7096		",G"	V4722G	T14429G	V4722G	ORF1AB:V4722G	321	ORF1b	V321G	ORF1B:V321G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	14625	.	C	CT	1089	PASS	762	0.055118	0	"720,0,42,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14365dupT	p.Ser4789fs	14366/21291	14366/21291	4789/7096	4789	7096		"INFO_REALIGN_3_PRIME,CT"	del4789	C14625CT	del4789	ORF1AB:DEL4789	388	ORF1b	del388	ORF1B:DEL388	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15089	.	CA	C	1620	PASS	986	0.061866	0	"925,0,61,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14828delA	p.Lys4943fs	14828/21291	14828/21291	4943/7096	4943	7096		"INFO_REALIGN_3_PRIME,C"	del4943	CA15089C	del4943	ORF1AB:DEL4943	542	ORF1b	del542	ORF1B:DEL542	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15137	.	TG	T	1565	PASS	1201	0.050791	0	"1143,0,61,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14874delG	p.Met4958fs	14874/21291	14874/21291	4958/7096	4958	7096		",T"	del4958	TG15137T	del4958	ORF1AB:DEL4958	557	ORF1b	del557	ORF1B:DEL557	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15138	.	G	A	66	PASS	1209	0.013234	0	"1129,0,16,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14874G>A	p.Met4958Ile	14874/21291	14874/21291	4958/7096	4958	7096		",A"	M4958I	G15138A	M4958I	ORF1AB:M4958I	557	ORF1b	M557I	ORF1B:M557I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15154	.	C	T	957	PASS	1154	0.053726	0	"1092,0,62,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14890C>T	p.His4964Tyr	14890/21291	14890/21291	4964/7096	4964	7096		",T"	H4964Y	C15154T	H4964Y	ORF1AB:H4964Y	563	ORF1b	H563Y	ORF1B:H563Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15300	.	TA	T	335	PASS	831	0.018051	0	"816,0,15,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15039delA	p.Lys5013fs	15039/21291	15039/21291	5013/7096	5013	7096		"INFO_REALIGN_3_PRIME,T"	del5013	TA15300T	del5013	ORF1AB:DEL5013	612	ORF1b	del612	ORF1B:DEL612	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15324	.	C	T	9301	PASS	873	0.388316	0	"533,0,339,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15428	.	T	G	493	PASS	918	0.042484	0	"877,0,39,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15164T>G	p.Leu5055Trp	15164/21291	15164/21291	5055/7096	5055	7096		",G"	L5055W	T15428G	L5055W	ORF1AB:L5055W	654	ORF1b	L654W	ORF1B:L654W	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15654	.	C	T	693	PASS	830	0.055422	0	"784,0,46,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15390C>T	p.Asp5130Asp	15390/21291	15390/21291	5130/7096	5130	7096		",T"	D5130D	C15654T	D5130D	ORF1AB:D5130D	729	ORF1b	D729D	ORF1B:D729D	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	15766	.	G	T	13282	PASS	721	0.599168	0	"289,0,432,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	16044	.	A	T	215	PASS	40	0.2	0	"32,0,8,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15780A>T	p.Pro5260Pro	15780/21291	15780/21291	5260/7096	5260	7096		",T"	P5260P	A16044T	P5260P	ORF1AB:P5260P	859	ORF1b	P859P	ORF1B:P859P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	16666	.	A	G	112	PASS	3235	0.008037	0	"3207,0,26,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16402A>G	p.Thr5468Ala	16402/21291	16402/21291	5468/7096	5468	7096		",G"	T5468A	A16666G	T5468A	ORF1AB:T5468A	1067	ORF1b	T1067A	ORF1B:T1067A	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	16733	.	CATG	C	2207	PASS	3219	0.029512	0	"3124,0,95,0"	TRUE	C	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16470_16472delATG	p.Trp5491del	16470/21291	16470/21291	5490/7096	5490	7096		",C"	del5491	CATG16733C	del5491	ORF1AB:DEL5491	1090	ORF1b	del1090	ORF1B:DEL1090	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	16736	.	G	T	1114	PASS	3217	0.031085	0	"3020,0,100,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16472G>T	p.Trp5491Leu	16472/21291	16472/21291	5491/7096	5491	7096		",T"	W5491L	G16736T	W5491L	ORF1AB:W5491L	1090	ORF1b	W1090L	ORF1B:W1090L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	16889	.	A	G	47776	PASS	2480	0.614516	0	"953,0,1524,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	16903	.	GATT	G	1722	PASS	2287	0.031045	0	"2225,0,71,0"	TRUE	G	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16643_16645delATT	p.Tyr5548del	16643/21291	16643/21291	5548/7096	5548	7096		"INFO_REALIGN_3_PRIME,G"	del5548	GATT16903G	del5548	ORF1AB:DEL5548	1147	ORF1b	del1147	ORF1B:DEL1147	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	17000	.	C	T	1890	PASS	1490	0.075168	0	"1376,0,112,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16736C>T	p.Thr5579Ile	16736/21291	16736/21291	5579/7096	5579	7096		",T"	T5579I	C17000T	T5579I	ORF1AB:T5579I	1178	ORF1b	T1178I	ORF1B:T1178I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	17019	.	G	T	20896	PASS	1195	0.578243	0	"504,0,691,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	17044	.	CA	C	83	PASS	978	0.005112	0	"973,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16784delA	p.Lys5595fs	16784/21291	16784/21291	5595/7096	5595	7096		"INFO_REALIGN_3_PRIME,C"	del5595	CA17044C	del5595	ORF1AB:DEL5595	1194	ORF1b	del1194	ORF1B:DEL1194	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	17059	.	CA	C	775	PASS	896	0.035714	0	"864,0,32,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799delA	p.Lys5600fs	16799/21291	16799/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,C"	del5600	CA17059C	del5600	ORF1AB:DEL5600	1199	ORF1b	del1199	ORF1B:DEL1199	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	17167	.	C	T	67	PASS	46	0.065217	0	"43,0,3,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16903C>T	p.His5635Tyr	16903/21291	16903/21291	5635/7096	5635	7096		",T"	H5635Y	C17167T	H5635Y	ORF1AB:H5635Y	1234	ORF1b	H1234Y	ORF1B:H1234Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	17896	.	C	T	1454	PASS	1795	0.050139	0	"1705,0,90,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17632C>T	p.His5878Tyr	17632/21291	17632/21291	5878/7096	5878	7096		",T"	H5878Y	C17896T	H5878Y	ORF1AB:H5878Y	1477	ORF1b	H1477Y	ORF1B:H1477Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	18401	.	CT	C	50	PASS	96	0.020833	0	"94,0,2,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18138delT	p.Thr6047fs	18138/21291	18138/21291	6046/7096	6046	7096		",C"	del6047	CT18401C	del6047	ORF1AB:DEL6047	1646	ORF1b	del1646	ORF1B:DEL1646	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	18733	.	G	T	215	PASS	1356	0.016962	0	"1333,0,23,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18469G>T	p.Gly6157*	18469/21291	18469/21291	6157/7096	6157	7096		",T"	G6157*	G18733T	G6157*	ORF1AB:G6157*	1756	ORF1b	G1756*	ORF1B:G1756*	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	18870	.	T	C	1301	PASS	1650	0.049091	0	"1569,0,81,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18606T>C	p.Thr6202Thr	18606/21291	18606/21291	6202/7096	6202	7096		",C"	T6202T	T18870C	T6202T	ORF1AB:T6202T	1801	ORF1b	T1801T	ORF1B:T1801T	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	18877	.	C	T	37075	PASS	1823	0.646188	0	"645,0,1178,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	19085	.	A	G	1690	PASS	2357	0.049215	0	"2240,0,116,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18821A>G	p.Lys6274Arg	18821/21291	18821/21291	6274/7096	6274	7096		",G"	K6274R	A19085G	K6274R	ORF1AB:K6274R	1873	ORF1b	K1873R	ORF1B:K1873R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	19087	.	T	C	1207	PASS	2388	0.048995	0	"2268,0,117,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18823T>C	p.Phe6275Leu	18823/21291	18823/21291	6275/7096	6275	7096		",C"	F6275L	T19087C	F6275L	ORF1AB:F6275L	1874	ORF1b	F1874L	ORF1B:F1874L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	19249	.	A	G	152	PASS	2098	0.009056	0	"2075,0,19,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18985A>G	p.Arg6329Gly	18985/21291	18985/21291	6329/7096	6329	7096		",G"	R6329G	A19249G	R6329G	ORF1AB:R6329G	1928	ORF1b	R1928G	ORF1B:R1928G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	19638	.	T	C	437	PASS	1167	0.031705	0	"1129,0,37,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19374T>C	p.Ala6458Ala	19374/21291	19374/21291	6458/7096	6458	7096		",C"	A6458A	T19638C	A6458A	ORF1AB:A6458A	2057	ORF1b	A2057A	ORF1B:A2057A	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	19780	.	G	T	739	PASS	1095	0.044749	0	"1046,0,49,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19516G>T	p.Ala6506Ser	19516/21291	19516/21291	6506/7096	6506	7096		",T"	A6506S	G19780T	A6506S	ORF1AB:A6506S	2105	ORF1b	A2105S	ORF1B:A2105S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	20178	.	C	T	110	PASS	271	0.03321	0	"261,0,9,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19914C>T	p.Val6638Val	19914/21291	19914/21291	6638/7096	6638	7096		",T"	V6638V	C20178T	V6638V	ORF1AB:V6638V	2237	ORF1b	V2237V	ORF1B:V2237V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	20268	.	A	G	224	PASS	222	0.058559	0	"209,0,13,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20004A>G	p.Leu6668Leu	20004/21291	20004/21291	6668/7096	6668	7096		",G"	L6668L	A20268G	L6668L	ORF1AB:L6668L	2267	ORF1b	L2267L	ORF1B:L2267L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	20451	.	C	T	1241	PASS	824	0.080097	0	"758,0,66,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20187C>T	p.Asn6729Asn	20187/21291	20187/21291	6729/7096	6729	7096		",T"	N6729N	C20451T	N6729N	ORF1AB:N6729N	2328	ORF1b	N2328N	ORF1B:N2328N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	20452	.	TA	T	93	PASS	824	0.006068	0	"819,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20189delA	p.Tyr6730fs	20189/21291	20189/21291	6730/7096	6730	7096		",T"	del6730	TA20452T	del6730	ORF1AB:DEL6730	2329	ORF1b	del2329	ORF1B:DEL2329	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	20648	.	C	CA	912	PASS	1054	0.036053	0	"1016,0,38,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20388dupA	p.Leu6797fs	20389/21291	20389/21291	6797/7096	6797	7096		"INFO_REALIGN_3_PRIME,CA"	del6797	C20648CA	del6797	ORF1AB:DEL6797	2396	ORF1b	del2396	ORF1B:DEL2396	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	20703	.	CA	C	757	PASS	1170	0.028205	0	"1137,0,33,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20443delA	p.Met6815fs	20443/21291	20443/21291	6815/7096	6815	7096		"INFO_REALIGN_3_PRIME,C"	del6815	CA20703C	del6815	ORF1AB:DEL6815	2414	ORF1b	del2414	ORF1B:DEL2414	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	20742	.	A	C	3624	PASS	1157	0.140017	0	"995,0,162,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20478A>C	p.Gln6826His	20478/21291	20478/21291	6826/7096	6826	7096		",C"	Q6826H	A20742C	Q6826H	ORF1AB:Q6826H	2425	ORF1b	Q2425H	ORF1B:Q2425H	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	20762	.	C	T	2502	PASS	1254	0.098086	0	"1129,0,123,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20498C>T	p.Thr6833Ile	20498/21291	20498/21291	6833/7096	6833	7096		",T"	T6833I	C20762T	T6833I	ORF1AB:T6833I	2432	ORF1b	T2432I	ORF1B:T2432I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21083	.	A	G	211	PASS	1276	0.018025	0	"1252,0,23,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20819A>G	p.Glu6940Gly	20819/21291	20819/21291	6940/7096	6940	7096		",G"	E6940G	A21083G	E6940G	ORF1AB:E6940G	2539	ORF1b	E2539G	ORF1B:E2539G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21295	.	G	T	7883	PASS	1492	0.225201	0	"1155,0,336,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21031G>T	p.Gly7011Cys	21031/21291	21031/21291	7011/7096	7011	7096		",T"	G7011C	G21295T	G7011C	ORF1AB:G7011C	2610	ORF1b	G2610C	ORF1B:G2610C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21468	.	G	T	77	PASS	1163	0.009458	0	"1152,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21204G>T	p.Met7068Ile	21204/21291	21204/21291	7068/7096	7068	7096		",T"	M7068I	G21468T	M7068I	ORF1AB:M7068I	2667	ORF1b	M2667I	ORF1B:M2667I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21481	.	CT	C	48	PASS	1048	0.002863	0	"1045,0,3,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.21219delT	p.Ser7074fs	21219/21291	21219/21291	7073/7096	7073	7096		"INFO_REALIGN_3_PRIME,C"	del7074	CT21481C	del7074	ORF1AB:DEL7074	2673	ORF1b	del2673	ORF1B:DEL2673	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21638	.	C	T	14039	PASS	896	0.52567	0	"425,0,471,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.76C>T	p.Pro26Ser	76/3822	76/3822	26/1273	26	1273		",T"	P26S	C21638T	P26S	S:P26S	26	S	P26S	S:P26S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21764	.	ATACATG	A	269	PASS	389	0.028278	0	"382,0,11,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.204_209delACATGT	p.His69_Val70del	204/3822	204/3822	68/1273	68	1273		"INFO_REALIGN_3_PRIME,A"	del69/70	ATACATG21764A	del69/70	S:DEL69/70	69/70	S	del69/70	S:DEL69/70	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21767	.	C	T	198	PASS	330	0.045455	0	"304,0,15,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.205C>T	p.His69Tyr	205/3822	205/3822	69/1273	69	1273		",T"	H69Y	C21767T	H69Y	S:H69Y	69	S	H69Y	S:H69Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21855	.	C	T	3949	PASS	403	0.35732	0	"259,0,144,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	21996	.	A	C	195	PASS	379	0.036939	0	"365,0,14,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.434A>C	p.Tyr145Ser	434/3822	434/3822	145/1273	145	1273		",C"	Y145S	A21996C	Y145S	S:Y145S	145	S	Y145S	S:Y145S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22030	.	GT	G	254	PASS	299	0.033445	0	"296,0,10,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.470delT	p.Phe157fs	470/3822	470/3822	157/1273	157	1273		"INFO_REALIGN_3_PRIME,G"	del157	GT22030G	del157	S:DEL157	157	S	del157	S:DEL157	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22105	.	A	G	131	PASS	311	0.03537	0	"300,0,11,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.543A>G	p.Gly181Gly	543/3822	543/3822	181/1273	181	1273		",G"	G181G	A22105G	G181G	S:G181G	181	S	G181G	S:G181G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22120	.	CA	C	284	PASS	342	0.035088	0	"330,0,12,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.563delA	p.Asn188fs	563/3822	563/3822	188/1273	188	1273		"INFO_REALIGN_3_PRIME,C"	del188	CA22120C	del188	S:DEL188	188	S	del188	S:DEL188	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22227	.	C	T	117	PASS	223	0.040359	0	"214,0,9,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22252	.	A	T	1738	PASS	183	0.344262	0	"120,0,63,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.690A>T	p.Pro230Pro	690/3822	690/3822	230/1273	230	1273		",T"	P230P	A22252T	P230P	S:P230P	230	S	P230P	S:P230P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22546	.	A	AT	108	PASS	99	0.040404	0	"95,0,4,0"	TRUE	AT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.987dupT	p.Pro330fs	988/3822	988/3822	330/1273	330	1273		"INFO_REALIGN_3_PRIME,AT"	del330	A22546AT	del330	S:DEL330	330	S	del330	S:DEL330	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22642	.	CTG	C	98	PASS	186	0.021505	0	"182,0,4,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1084_1085delGT	p.Val362fs	1084/3822	1084/3822	362/1273	362	1273		"INFO_REALIGN_3_PRIME,C"	del362	CTG22642C	del362	S:DEL362	362	S	del362	S:DEL362	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22735	.	C	T	223	PASS	357	0.053221	0	"338,0,19,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1173C>T	p.Cys391Cys	1173/3822	1173/3822	391/1273	391	1273		",T"	C391C	C22735T	C391C	S:C391C	391	S	C391C	S:C391C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22879	.	C	A	231	PASS	363	0.049587	0	"345,0,18,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1317C>A	p.Asn439Lys	1317/3822	1317/3822	439/1273	439	1273		",A"	N439K	C22879A	N439K	S:N439K	439	S	N439K	S:N439K	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	22992	.	G	A	4625	PASS	500	0.352	0	"322,0,176,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	23369	.	A	C	638	PASS	460	0.069565	0	"428,0,32,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1807A>C	p.Asn603His	1807/3822	1807/3822	603/1273	603	1273		",C"	N603H	A23369C	N603H	S:N603H	603	S	N603H	S:N603H	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	23403	.	A	G	16830	PASS	496	0.997984	2147483647	"0,0,495,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	23413	.	CA	C	206	PASS	477	0.018868	0	"468,0,9,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1852delA	p.Thr618fs	1852/3822	1852/3822	618/1273	618	1273		",C"	del618	CA23413C	del618	S:DEL618	618	S	del618	S:DEL618	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	23547	.	G	C	332	PASS	439	0.05467	0	"414,0,24,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1985G>C	p.Cys662Ser	1985/3822	1985/3822	662/1273	662	1273		",C"	C662S	G23547C	C662S	S:C662S	662	S	C662S	S:C662S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	23577	.	C	T	6658	PASS	412	0.570388	0	"175,0,235,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2015C>T	p.Ala672Val	2015/3822	2015/3822	672/1273	672	1273		",T"	A672V	C23577T	A672V	S:A672V	672	S	A672V	S:A672V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	23580	.	GT	G	631	PASS	410	0.058537	0	"391,0,24,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2020delT	p.Tyr674fs	2020/3822	2020/3822	674/1273	674	1273		"INFO_REALIGN_3_PRIME,G"	del674	GT23580G	del674	S:DEL674	674	S	del674	S:DEL674	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	23631	.	A	C	459	PASS	414	0.060386	0	"389,0,25,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2069A>C	p.Gln690Pro	2069/3822	2069/3822	690/1273	690	1273		",C"	Q690P	A23631C	Q690P	S:Q690P	690	S	Q690P	S:Q690P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	23812	.	C	T	223	PASS	378	0.042328	0	"362,0,16,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2250C>T	p.Ser750Ser	2250/3822	2250/3822	750/1273	750	1273		",T"	S750S	C23812T	S750S	S:S750S	750	S	S750S	S:S750S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	24320	.	CA	C	426	PASS	177	0.090395	0	"161,0,16,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2763delA	p.Lys921fs	2763/3822	2763/3822	921/1273	921	1273		"INFO_REALIGN_3_PRIME,C"	del921	CA24320C	del921	S:DEL921	921	S	del921	S:DEL921	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	24943	.	T	C	557	PASS	1339	0.03062	0	"1297,0,41,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3381T>C	p.Asp1127Asp	3381/3822	3381/3822	1127/1273	1127	1273		",C"	D1127D	T24943C	D1127D	S:D1127D	1127	S	D1127D	S:D1127D	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25101	.	A	G	539	PASS	1373	0.031318	0	"1330,0,43,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3539A>G	p.Gln1180Arg	3539/3822	3539/3822	1180/1273	1180	1273		",G"	Q1180R	A25101G	Q1180R	S:Q1180R	1180	S	Q1180R	S:Q1180R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25106	.	G	GA	854	PASS	1355	0.026568	0	"1330,0,36,0"	TRUE	GA	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3547dupA	p.Ile1183fs	3548/3822	3548/3822	1183/1273	1183	1273		"INFO_REALIGN_3_PRIME,GA"	del1183	G25106GA	del1183	S:DEL1183	1183	S	del1183	S:DEL1183	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25216	.	A	T	84	PASS	973	0.021583	0	"950,0,21,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3654A>T	p.Leu1218Leu	3654/3822	3654/3822	1218/1273	1218	1273		",T"	L1218L	A25216T	L1218L	S:L1218L	1218	S	L1218L	S:L1218L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25228	.	T	G	76	PASS	1013	0.019743	0	"992,0,20,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25240	.	C	A	133	PASS	1041	0.032661	0	"1006,0,34,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25244	.	G	T	102	PASS	1090	0.024771	0	"1063,0,27,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3682G>T	p.Val1228Leu	3682/3822	3682/3822	1228/1273	1228	1273		",T"	V1228L	G25244T	V1228L	S:V1228L	1228	S	V1228L	S:V1228L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25247	.	A	T	250	PASS	1095	0.043836	0	"1047,0,48,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25254	.	C	A	220	PASS	1175	0.039149	0	"1129,0,46,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25259	.	A	G	303	PASS	1192	0.044463	0	"1116,0,53,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3697A>G	p.Met1233Val	3697/3822	3697/3822	1233/1273	1233	1273		",G"	M1233V	A25259G	M1233V	S:M1233V	1233	S	M1233V	S:M1233V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25273	.	G	C	87	PASS	1126	0.027531	0	"1094,0,31,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3711G>C	p.Met1237Ile	3711/3822	3711/3822	1237/1273	1237	1273		",C"	M1237I	G25273C	M1237I	S:M1237I	1237	S	M1237I	S:M1237I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25277	.	A	T	288	PASS	1117	0.05282	0	"1045,0,59,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25286	.	A	T	268	PASS	1136	0.052817	0	"1064,0,60,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25296	.	A	C	698	PASS	1139	0.095698	0	"975,0,109,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25296	.	A	T	148	PASS	1139	0.042142	0	"975,0,48,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>T	p.Lys1245Met	3734/3822	3734/3822	1245/1273	1245	1273		",T"	K1245M	A25296T	K1245M	S:K1245M	1245	S	K1245M	S:K1245M	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25312	.	T	G	169	PASS	1141	0.042068	0	"1093,0,48,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25314	.	G	T	108	PASS	1144	0.038462	0	"1086,0,44,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25323	.	G	C	391	PASS	1139	0.076383	0	"1040,0,87,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3761G>C	p.Cys1254Ser	3761/3822	3761/3822	1254/1273	1254	1273		",C"	C1254S	G25323C	C1254S	S:C1254S	1254	S	C1254S	S:C1254S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25324	.	C	A	2759	PASS	1146	0.21466	0	"900,0,246,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25327	.	A	T	264	PASS	1144	0.062063	0	"1072,0,71,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25331	.	G	T	274	PASS	1129	0.065545	0	"1045,0,74,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25334	.	G	C	342	PASS	1122	0.075758	0	"999,0,85,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>C	p.Glu1258Gln	3772/3822	3772/3822	1258/1273	1258	1273		",C"	E1258Q	G25334C	E1258Q	S:E1258Q	1258	S	E1258Q	S:E1258Q	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25336	.	A	C	1024	PASS	1132	0.134276	0	"980,0,152,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25337	.	G	C	387	PASS	1091	0.082493	0	"1000,0,90,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25505	.	A	G	14381	PASS	1009	0.483647	0	"519,0,488,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25563	.	G	T	14065	PASS	997	0.482447	0	"516,0,481,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25593	.	G	T	158	PASS	1099	0.016379	0	"1079,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.201G>T	p.Lys67Asn	201/828	201/828	67/275	67	275		",T"	K67N	G25593T	K67N	ORF3A:K67N	67	ORF3a	K67N	ORF3A:K67N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25618	.	G	A	2860	PASS	1178	0.134126	0	"1016,0,158,0"	FALSE	A	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.226G>A	p.Gly76Ser	226/828	226/828	76/275	76	275		",A"	G76S	G25618A	G76S	ORF3A:G76S	76	ORF3a	G76S	ORF3A:G76S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25710	.	C	T	14812	PASS	811	0.600493	0	"323,0,487,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25730	.	A	G	316	PASS	768	0.032552	0	"741,0,25,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.338A>G	p.Tyr113Cys	338/828	338/828	113/275	113	275		",G"	Y113C	A25730G	Y113C	ORF3A:Y113C	113	ORF3a	Y113C	ORF3A:Y113C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25772	.	T	C	119	PASS	489	0.030675	0	"473,0,15,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.380T>C	p.Leu127Pro	380/828	380/828	127/275	127	275		",C"	L127P	T25772C	L127P	ORF3A:L127P	127	ORF3a	L127P	ORF3A:L127P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25774	.	T	C	67	PASS	491	0.016293	0	"481,0,8,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.382T>C	p.Trp128Arg	382/828	382/828	128/275	128	275		",C"	W128R	T25774C	W128R	ORF3A:W128R	128	ORF3a	W128R	ORF3A:W128R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25835	.	G	C	200	PASS	458	0.034934	0	"441,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.443G>C	p.Cys148Ser	443/828	443/828	148/275	148	275		",C"	C148S	G25835C	C148S	ORF3A:C148S	148	ORF3a	C148S	ORF3A:C148S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25906	.	G	C	2313	PASS	528	0.1875	0	"428,0,99,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.514G>C	p.Gly172Arg	514/828	514/828	172/275	172	275		",C"	G172R	G25906C	G172R	ORF3A:G172R	172	ORF3a	G172R	ORF3A:G172R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	25996	.	G	T	2330	PASS	594	0.173401	0	"491,0,103,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.604G>T	p.Val202Leu	604/828	604/828	202/275	202	275		",T"	V202L	G25996T	V202L	ORF3A:V202L	202	ORF3a	V202L	ORF3A:V202L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26038	.	T	C	166	PASS	510	0.02549	0	"497,0,13,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.646T>C	p.Ser216Pro	646/828	646/828	216/275	216	275		",C"	S216P	T26038C	S216P	ORF3A:S216P	216	ORF3a	S216P	ORF3A:S216P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26062	.	G	T	10167	PASS	499	0.651303	0	"174,0,325,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26185	.	G	C	132	PASS	782	0.02046	0	"763,0,16,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.793G>C	p.Asp265His	793/828	793/828	265/275	265	275		",C"	D265H	G26185C	D265H	ORF3A:D265H	265	ORF3a	D265H	ORF3A:D265H	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26216	.	T	C	760	PASS	891	0.051627	0	"843,0,46,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.824T>C	p.Leu275Ser	824/828	824/828	275/275	275	275		",C"	L275S	T26216C	L275S	ORF3A:L275S	275	ORF3a	L275S	ORF3A:L275S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26257	.	G	GT	93	PASS	849	0.005889	0	"856,0,5,0"	TRUE	GT	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.16dupT	p.Ser6fs	17/228	17/228	6/75	6	75		"INFO_REALIGN_3_PRIME,GT"	del6	G26257GT	del6	E:DEL6	6	E	del6	E:DEL6	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26596	.	GT	G	1881	PASS	958	0.073069	0	"921,0,70,0"	TRUE	G	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.77delT	p.Phe26fs	77/669	77/669	26/222	26	222		"INFO_REALIGN_3_PRIME,G"	del26	GT26596G	del26	M:DEL26	26	M	del26	M:DEL26	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26666	.	A	T	1161	PASS	1003	0.068794	0	"934,0,69,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.144A>T	p.Ile48Ile	144/669	144/669	48/222	48	222		",T"	I48I	A26666T	I48I	M:I48I	48	M	I48I	M:I48I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26735	.	C	T	8815	PASS	970	0.336082	0	"644,0,326,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26801	.	C	G	2131	PASS	977	0.105425	0	"874,0,103,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26876	.	T	C	7526	PASS	692	0.395954	0	"417,0,274,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	26972	.	T	C	242	PASS	484	0.035124	0	"466,0,17,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.450T>C	p.Arg150Arg	450/669	450/669	150/222	150	222		",C"	R150R	T26972C	R150R	M:R150R	150	M	R150R	M:R150R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27146	.	A	T	3274	PASS	613	0.223491	0	"475,0,137,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.624A>T	p.Thr208Thr	624/669	624/669	208/222	208	222		",T"	T208T	A27146T	T208T	M:T208T	208	M	T208T	M:T208T	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27228	.	T	C	225	PASS	833	0.02401	0	"813,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.27T>C	p.Val9Val	27/186	27/186	9/61	9	61		",C"	V9V	T27228C	V9V	ORF6:V9V	9	ORF6	V9V	ORF6:V9V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27331	.	C	T	775	PASS	1546	0.034929	0	"1488,0,54,0"	FALSE	T	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.130C>T	p.Leu44Leu	130/186	130/186	44/61	44	61		",T"	L44L	C27331T	L44L	ORF6:L44L	44	ORF6	L44L	ORF6:L44L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27422	.	TA	T	45	PASS	1371	0.002188	0	"1369,0,3,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.31delA	p.Thr11fs	31/366	31/366	11/121	11	121		"INFO_REALIGN_3_PRIME,T"	del11	TA27422T	del11	ORF7A:DEL11	11	ORF7a	del11	ORF7A:DEL11	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27443	.	T	G	87	PASS	1370	0.008029	0	"1358,0,11,0"	FALSE	G	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.50T>G	p.Leu17Arg	50/366	50/366	17/121	17	121		",G"	L17R	T27443G	L17R	ORF7A:L17R	17	ORF7a	L17R	ORF7A:L17R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27481	.	C	CT	178	PASS	1456	0.006868	0	"1447,0,10,0"	TRUE	CT	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.92dupT	p.Leu31fs	93/366	93/366	31/121	31	121		"INFO_REALIGN_3_PRIME,CT"	del31	C27481CT	del31	ORF7A:DEL31	31	ORF7a	del31	ORF7A:DEL31	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27680	.	T	C	1107	PASS	1757	0.041548	0	"1683,0,73,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.287T>C	p.Leu96Pro	287/366	287/366	96/121	96	121		",C"	L96P	T27680C	L96P	ORF7A:L96P	96	ORF7a	L96P	ORF7A:L96P	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27800	.	C	A	577	PASS	1454	0.035076	0	"1402,0,51,0"	FALSE	A	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>A	p.Ala15Ala	45/132	45/132	15/43	15	43		",A"	A15A	C27800A	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27869	.	T	C	102	PASS	1751	0.008567	0	"1735,0,15,0"	FALSE	C	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.114T>C	p.Asn38Asn	114/132	114/132	38/43	38	43		",C"	N38N	T27869C	N38N	ORF7B:N38N	38	ORF7b	N38N	ORF7B:N38N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27881	.	C	T	12431	PASS	1734	0.290081	0	"1230,0,503,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27922	.	T	C	1003	PASS	1820	0.034615	0	"1757,0,63,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	27944	.	C	T	1407	PASS	1645	0.056535	0	"1550,0,93,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28086	.	G	T	417	PASS	1226	0.030995	0	"1188,0,38,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.193G>T	p.Ala65Ser	193/366	193/366	65/121	65	121		",T"	A65S	G28086T	A65S	ORF8:A65S	65	ORF8	A65S	ORF8:A65S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28133	.	A	T	582	PASS	1327	0.030143	0	"1287,0,40,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.240A>T	p.Thr80Thr	240/366	240/366	80/121	80	121		",T"	T80T	A28133T	T80T	ORF8:T80T	80	ORF8	T80T	ORF8:T80T	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28300	.	G	T	9498	PASS	1496	0.25869	0	"1108,0,387,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28346	.	G	T	178	PASS	1465	0.017747	0	"1438,0,26,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.73G>T	p.Gly25Cys	73/1260	73/1260	25/419	25	419		",T"	G25C	G28346T	G25C	N:G25C	25	N	G25C	N:G25C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28409	.	C	T	543	PASS	1591	0.033312	0	"1534,0,53,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.136C>T	p.Pro46Ser	136/1260	136/1260	46/419	46	419		",T"	P46S	C28409T	P46S	N:P46S	46	N	P46S	N:P46S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28588	.	T	C	70	PASS	2095	0.009069	0	"2072,0,19,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.315T>C	p.Ser105Ser	315/1260	315/1260	105/419	105	419		",C"	S105S	T28588C	S105S	N:S105S	105	N	S105S	N:S105S	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28651	.	C	T	19915	PASS	1977	0.367729	0	"1247,0,727,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28747	.	G	T	2744	PASS	2825	0.060885	0	"2651,0,172,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.474G>T	p.Val158Val	474/1260	474/1260	158/419	158	419		",T"	V158V	G28747T	V158V	N:V158V	158	N	V158V	N:V158V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28798	.	G	A	691	PASS	2662	0.02592	0	"2592,0,69,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.525G>A	p.Gly175Gly	525/1260	525/1260	175/419	175	419		",A"	G175G	G28798A	G175G	N:G175G	175	N	G175G	N:G175G	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28800	.	G	T	728	PASS	2666	0.027007	0	"2592,0,72,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.527G>T	p.Ser176Ile	527/1260	527/1260	176/419	176	419		",T"	S176I	G28800T	S176I	N:S176I	176	N	S176I	N:S176I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28851	.	G	T	23759	PASS	2546	0.346819	0	"1661,0,883,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.578G>T	p.Ser193Ile	578/1260	578/1260	193/419	193	419		",T"	S193I	G28851T	S193I	N:S193I	193	N	S193I	N:S193I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28869	.	C	T	28210	PASS	2515	0.400795	0	"1503,0,1008,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28881	.	G	A	179	PASS	2425	0.012371	0	"2391,0,30,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28882	.	G	A	152	PASS	2449	0.01225	0	"2417,0,30,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28883	.	G	C	175	PASS	2439	0.01271	0	"2399,0,31,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28917	.	G	T	2491	PASS	2375	0.064421	0	"2221,0,153,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.644G>T	p.Gly215Val	644/1260	644/1260	215/419	215	419		",T"	G215V	G28917T	G215V	N:G215V	215	N	G215V	N:G215V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28932	.	C	T	5736	PASS	2394	0.120301	0	"2105,0,288,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28969	.	CA	C	2224	PASS	2306	0.039896	0	"2214,0,92,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.700delA	p.Met234fs	700/1260	700/1260	234/419	234	419		"INFO_REALIGN_3_PRIME,C"	del234	CA28969C	del234	N:DEL234	234	N	del234	N:DEL234	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28975	.	G	C	21324	PASS	2292	0.34555	0	"1499,0,792,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	28987	.	CCAA	C	214	PASS	2086	0.005753	0	"2079,0,12,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL33	NC_045512.2	29096	.	G	T	144	PASS	1494	0.014056	0	"1470,0,21,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.823G>T	p.Gly275Cys	823/1260	823/1260	275/419	275	419		",T"	G275C	G29096T	G275C	N:G275C	275	N	G275C	N:G275C	WIL33	WILTZ	2020-11-08T00:00:00Z	29.4425	32.89333333	x	14122020	2020-11-08
WIL36-1	NC_045512.2	204	.	G	T	49314	PASS	3306	0.57078	0	"1409,0,1887,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	241	.	C	T	49314	PASS	3726	0.997048	2147483647	"0,0,3715,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	445	.	T	C	49314	PASS	4375	0.965257	0	"138,0,4223,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	506	.	CATGGTCATGTT	C	7629	PASS	4331	0.066959	0	"4041,0,290,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.247_257delCATGTTATGGT	p.His83fs	247/21291	247/21291	83/7096	83	7096		"INFO_REALIGN_3_PRIME,C"	del83	CATGGTCATGTT506C	del83	ORF1AB:DEL83	83	ORF1a	del83	ORF1A:DEL83	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	583	.	C	T	21691	PASS	3842	0.244925	0	"2890,0,941,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.318C>T	p.Val106Val	318/21291	318/21291	106/7096	106	7096		",T"	V106V	C583T	V106V	ORF1AB:V106V	106	ORF1a	V106V	ORF1A:V106V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	593	.	C	T	12606	PASS	3575	0.168671	0	"2967,0,603,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	685	.	AAAGTCATTT	A	5023	PASS	4555	0.045664	0	"4356,0,208,0"	TRUE	A	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.421_429delAAGTCATTT	p.Lys141_Phe143del	421/21291	421/21291	141/7096	141	7096		",A"	del141/143	AAAGTCATTT685A	del141/143	ORF1AB:DEL141/143	141/143	ORF1a	del141/143	ORF1A:DEL141/143	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	686	.	A	G	108	PASS	4556	0.00878	0	"4301,0,40,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.421A>G	p.Lys141Glu	421/21291	421/21291	141/7096	141	7096		",G"	K141E	A686G	K141E	ORF1AB:K141E	141	ORF1a	K141E	ORF1A:K141E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	738	.	A	G	1332	PASS	5068	0.027032	0	"4919,0,137,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.473A>G	p.Gln158Arg	473/21291	473/21291	158/7096	158	7096		",G"	Q158R	A738G	Q158R	ORF1AB:Q158R	158	ORF1a	Q158R	ORF1A:Q158R	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	802	.	A	C	75	PASS	3858	0.00648	0	"3826,0,25,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	844	.	TG	T	7817	PASS	3640	0.084341	0	"3333,0,307,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.580delG	p.Asp194fs	580/21291	580/21291	194/7096	194	7096		",T"	del194	TG844T	del194	ORF1AB:DEL194	194	ORF1a	del194	ORF1A:DEL194	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	854	.	C	T	1743	PASS	3796	0.051897	0	"3582,0,197,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.589C>T	p.Pro197Ser	589/21291	589/21291	197/7096	197	7096		",T"	P197S	C854T	P197S	ORF1AB:P197S	197	ORF1a	P197S	ORF1A:P197S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	874	.	C	A	510	PASS	3464	0.022517	0	"3381,0,78,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.609C>A	p.Asp203Glu	609/21291	609/21291	203/7096	203	7096		",A"	D203E	C874A	D203E	ORF1AB:D203E	203	ORF1a	D203E	ORF1A:D203E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	1066	.	TG	T	252	PASS	4374	0.003887	0	"4381,0,17,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.805delG	p.Glu269fs	805/21291	805/21291	269/7096	269	7096		"INFO_REALIGN_3_PRIME,T"	del269	TG1066T	del269	ORF1AB:DEL269	269	ORF1a	del269	ORF1A:DEL269	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	1142	.	C	T	4158	PASS	3809	0.079286	0	"3492,0,302,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.877C>T	p.Leu293Phe	877/21291	877/21291	293/7096	293	7096		",T"	L293F	C1142T	L293F	ORF1AB:L293F	293	ORF1a	L293F	ORF1A:L293F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	1230	.	AGT	A	5407	PASS	3783	0.054983	0	"3595,0,208,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.969_970delTG	p.Cys323fs	969/21291	969/21291	323/7096	323	7096		"INFO_REALIGN_3_PRIME,A"	del323	AGT1230A	del323	ORF1AB:DEL323	323	ORF1a	del323	ORF1A:DEL323	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	1401	.	G	T	648	PASS	2846	0.027407	0	"2767,0,78,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1136G>T	p.Gly379Val	1136/21291	1136/21291	379/7096	379	7096		",T"	G379V	G1401T	G379V	ORF1AB:G379V	379	ORF1a	G379V	ORF1A:G379V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	1722	.	CT	C	12339	PASS	3224	0.135546	0	"2787,0,437,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1461delT	p.Phe487fs	1461/21291	1461/21291	487/7096	487	7096		"INFO_REALIGN_3_PRIME,C"	del487	CT1722C	del487	ORF1AB:DEL487	487	ORF1a	del487	ORF1A:DEL487	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	1813	.	TA	T	62	PASS	2661	0.003006	0	"2653,0,8,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1554delA	p.Gly519fs	1554/21291	1554/21291	518/7096	518	7096		"INFO_REALIGN_3_PRIME,T"	del519	TA1813T	del519	ORF1AB:DEL519	519	ORF1a	del519	ORF1A:DEL519	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	1853	.	C	T	233	PASS	2603	0.014599	0	"2562,0,38,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1588C>T	p.Leu530Leu	1588/21291	1588/21291	530/7096	530	7096		",T"	L530L	C1853T	L530L	ORF1AB:L530L	530	ORF1a	L530L	ORF1A:L530L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	1982	.	A	T	3935	PASS	1619	0.134651	0	"1401,0,218,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1717A>T	p.Ile573Phe	1717/21291	1717/21291	573/7096	573	7096		",T"	I573F	A1982T	I573F	ORF1AB:I573F	573	ORF1a	I573F	ORF1A:I573F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	2078	.	G	A	165	PASS	31	0.258065	0	"23,0,8,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1813G>A	p.Val605Ile	1813/21291	1813/21291	605/7096	605	7096		",A"	V605I	G2078A	V605I	ORF1AB:V605I	605	ORF1a	V605I	ORF1A:V605I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	2828	.	G	C	4013	PASS	3390	0.078171	0	"3115,0,265,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2563G>C	p.Glu855Gln	2563/21291	2563/21291	855/7096	855	7096		",C"	E855Q	G2828C	E855Q	ORF1AB:E855Q	855	ORF1a	E855Q	ORF1A:E855Q	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	2885	.	G	A	8269	PASS	3490	0.12894	0	"3035,0,450,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2620G>A	p.Val874Ile	2620/21291	2620/21291	874/7096	874	7096		",A"	V874I	G2885A	V874I	ORF1AB:V874I	874	ORF1a	V874I	ORF1A:V874I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3004	.	G	GT	6377	PASS	2924	0.082421	0	"2699,0,241,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2742dupT	p.Lys915fs	2743/21291	2743/21291	915/7096	915	7096		"INFO_REALIGN_3_PRIME,GT"	del915	G3004GT	del915	ORF1AB:DEL915	915	ORF1a	del915	ORF1A:DEL915	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3037	.	C	T	49314	PASS	2782	0.998562	0	"2,0,2778,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3105	.	A	T	2625	PASS	2773	0.073206	0	"2570,0,203,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2840A>T	p.Tyr947Phe	2840/21291	2840/21291	947/7096	947	7096		",T"	Y947F	A3105T	Y947F	ORF1AB:Y947F	947	ORF1a	Y947F	ORF1A:Y947F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3268	.	T	C	2045	PASS	618	0.168285	0	"514,0,104,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3003T>C	p.Thr1001Thr	3003/21291	3003/21291	1001/7096	1001	7096		",C"	T1001T	T3268C	T1001T	ORF1AB:T1001T	1001	ORF1a	T1001T	ORF1A:T1001T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3378	.	T	C	707	PASS	739	0.069012	0	"688,0,51,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3113T>C	p.Val1038Ala	3113/21291	3113/21291	1038/7096	1038	7096		",C"	V1038A	T3378C	V1038A	ORF1AB:V1038A	1038	ORF1a	V1038A	ORF1A:V1038A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3516	.	AAGTTG	A	1066	PASS	662	0.061934	0	"621,0,41,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3253_3257delGTTGA	p.Val1085fs	3253/21291	3253/21291	1085/7096	1085	7096		"INFO_REALIGN_3_PRIME,A"	del1085	AAGTTG3516A	del1085	ORF1AB:DEL1085	1085	ORF1a	del1085	ORF1A:DEL1085	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3520	.	TG	T	989	PASS	669	0.064275	0	"626,0,43,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3256delG	p.Glu1086fs	3256/21291	3256/21291	1086/7096	1086	7096		",T"	del1086	TG3520T	del1086	ORF1AB:DEL1086	1086	ORF1a	del1086	ORF1A:DEL1086	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3592	.	T	C	7127	PASS	628	0.441083	0	"350,0,277,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	3814	.	TG	T	375	PASS	185	0.081081	0	"171,0,15,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3550delG	p.Asp1184fs	3550/21291	3550/21291	1184/7096	1184	7096		",T"	del1184	TG3814T	del1184	ORF1AB:DEL1184	1184	ORF1a	del1184	ORF1A:DEL1184	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	4177	.	A	G	108	PASS	276	0.036232	0	"266,0,10,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3912A>G	p.Lys1304Lys	3912/21291	3912/21291	1304/7096	1304	7096		",G"	K1304K	A4177G	K1304K	ORF1AB:K1304K	1304	ORF1a	K1304K	ORF1A:K1304K	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	4543	.	C	T	1024	PASS	504	0.123016	0	"439,0,62,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	5221	.	C	T	5590	PASS	1564	0.174552	0	"1288,0,273,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4956C>T	p.His1652His	4956/21291	4956/21291	1652/7096	1652	7096		",T"	H1652H	C5221T	H1652H	ORF1AB:H1652H	1652	ORF1a	H1652H	ORF1A:H1652H	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	5387	.	G	T	3734	PASS	1602	0.129838	0	"1394,0,208,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5122G>T	p.Ala1708Ser	5122/21291	5122/21291	1708/7096	1708	7096		",T"	A1708S	G5387T	A1708S	ORF1AB:A1708S	1708	ORF1a	A1708S	ORF1A:A1708S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	5422	.	TA	T	133	PASS	1802	0.019978	0	"1769,0,36,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5159delA	p.Lys1720fs	5159/21291	5159/21291	1720/7096	1720	7096		"INFO_REALIGN_3_PRIME,T"	del1720	TA5422T	del1720	ORF1AB:DEL1720	1720	ORF1a	del1720	ORF1A:DEL1720	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	5425	.	G	T	116	PASS	1789	0.023477	0	"1744,0,42,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5160G>T	p.Lys1720Asn	5160/21291	5160/21291	1720/7096	1720	7096		",T"	K1720N	G5425T	K1720N	ORF1AB:K1720N	1720	ORF1a	K1720N	ORF1A:K1720N	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	5629	.	G	T	7739	PASS	1464	0.230874	0	"1126,0,338,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	5788	.	TA	T	2697	PASS	1195	0.083682	0	"1095,0,100,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5526delA	p.Glu1843fs	5526/21291	5526/21291	1842/7096	1842	7096		"INFO_REALIGN_3_PRIME,T"	del1843	TA5788T	del1843	ORF1AB:DEL1843	1843	ORF1a	del1843	ORF1A:DEL1843	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	5921	.	GGT	G	864	PASS	1210	0.029752	0	"1179,0,36,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5659_5660delGT	p.Val1887fs	5659/21291	5659/21291	1887/7096	1887	7096		"INFO_REALIGN_3_PRIME,G"	del1887	GGT5921G	del1887	ORF1AB:DEL1887	1887	ORF1a	del1887	ORF1A:DEL1887	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	5961	.	A	G	595	PASS	1307	0.051262	0	"1239,0,67,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5696A>G	p.Tyr1899Cys	5696/21291	5696/21291	1899/7096	1899	7096		",G"	Y1899C	A5961G	Y1899C	ORF1AB:Y1899C	1899	ORF1a	Y1899C	ORF1A:Y1899C	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6028	.	A	T	635	PASS	1208	0.044702	0	"1149,0,54,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5763A>T	p.Pro1921Pro	5763/21291	5763/21291	1921/7096	1921	7096		",T"	P1921P	A6028T	P1921P	ORF1AB:P1921P	1921	ORF1a	P1921P	ORF1A:P1921P	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6121	.	A	T	199	PASS	842	0.028504	0	"817,0,24,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5856A>T	p.Ser1952Ser	5856/21291	5856/21291	1952/7096	1952	7096		",T"	S1952S	A6121T	S1952S	ORF1AB:S1952S	1952	ORF1a	S1952S	ORF1A:S1952S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6122	.	A	T	174	PASS	833	0.026411	0	"811,0,22,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5857A>T	p.Arg1953*	5857/21291	5857/21291	1953/7096	1953	7096		",T"	R1953*	A6122T	R1953*	ORF1AB:R1953*	1953	ORF1a	R1953*	ORF1A:R1953*	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6123	.	G	C	241	PASS	830	0.028916	0	"803,0,24,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5858G>C	p.Arg1953Thr	5858/21291	5858/21291	1953/7096	1953	7096		",C"	R1953T	G6123C	R1953T	ORF1AB:R1953T	1953	ORF1a	R1953T	ORF1A:R1953T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6286	.	C	T	39217	PASS	1301	0.897771	0	"130,0,1168,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6369	.	G	A	2142	PASS	1231	0.105605	0	"1100,0,130,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6104G>A	p.Gly2035Glu	6104/21291	6104/21291	2035/7096	2035	7096		",A"	G2035E	G6369A	G2035E	ORF1AB:G2035E	2035	ORF1a	G2035E	ORF1A:G2035E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6374	.	G	T	4303	PASS	1261	0.168914	0	"1048,0,213,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6109G>T	p.Asp2037Tyr	6109/21291	6109/21291	2037/7096	2037	7096		",T"	D2037Y	G6374T	D2037Y	ORF1AB:D2037Y	2037	ORF1a	D2037Y	ORF1A:D2037Y	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6606	.	C	T	1880	PASS	1562	0.076825	0	"1439,0,120,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6341C>T	p.Ser2114Phe	6341/21291	6341/21291	2114/7096	2114	7096		",T"	S2114F	C6606T	S2114F	ORF1AB:S2114F	2114	ORF1a	S2114F	ORF1A:S2114F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6623	.	A	G	754	PASS	1462	0.048564	0	"1390,0,71,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6358A>G	p.Lys2120Glu	6358/21291	6358/21291	2120/7096	2120	7096		",G"	K2120E	A6623G	K2120E	ORF1AB:K2120E	2120	ORF1a	K2120E	ORF1A:K2120E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6696	.	C	CT	2030	PASS	1289	0.061288	0	"1210,0,79,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6696	.	C	T	98	PASS	1289	0.017843	0	"1259,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6701	.	C	T	128	PASS	1323	0.015873	0	"1301,0,21,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6436C>T	p.Leu2146Phe	6436/21291	6436/21291	2146/7096	2146	7096		",T"	L2146F	C6701T	L2146F	ORF1AB:L2146F	2146	ORF1a	L2146F	ORF1A:L2146F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6706	.	CA	C	2885	PASS	1327	0.080633	0	"1220,0,107,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6444delA	p.Val2149fs	6444/21291	6444/21291	2148/7096	2148	7096		"INFO_REALIGN_3_PRIME,C"	del2149	CA6706C	del2149	ORF1AB:DEL2149	2149	ORF1a	del2149	ORF1A:DEL2149	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	6872	.	G	T	1592	PASS	1903	0.06516	0	"1775,0,124,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6607G>T	p.Val2203Phe	6607/21291	6607/21291	2203/7096	2203	7096		",T"	V2203F	G6872T	V2203F	ORF1AB:V2203F	2203	ORF1a	V2203F	ORF1A:V2203F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	7074	.	A	T	164	PASS	1304	0.020706	0	"1277,0,27,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6809A>T	p.Tyr2270Phe	6809/21291	6809/21291	2270/7096	2270	7096		",T"	Y2270F	A7074T	Y2270F	ORF1AB:Y2270F	2270	ORF1a	Y2270F	ORF1A:Y2270F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	7588	.	TA	T	1051	PASS	1095	0.040183	0	"1051,0,44,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7326delA	p.Gly2443fs	7326/21291	7326/21291	2442/7096	2442	7096		"INFO_REALIGN_3_PRIME,T"	del2443	TA7588T	del2443	ORF1AB:DEL2443	2443	ORF1a	del2443	ORF1A:DEL2443	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	8087	.	A	T	3501	PASS	2265	0.100221	0	"2036,0,227,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7822A>T	p.Lys2608*	7822/21291	7822/21291	2608/7096	2608	7096		",T"	K2608*	A8087T	K2608*	ORF1AB:K2608*	2608	ORF1a	K2608*	ORF1A:K2608*	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	8230	.	T	TA	3638	PASS	1967	0.071683	0	"1827,0,141,0"	TRUE	TA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7968dupA	p.Leu2657fs	7969/21291	7969/21291	2657/7096	2657	7096		"INFO_REALIGN_3_PRIME,TA"	del2657	T8230TA	del2657	ORF1AB:DEL2657	2657	ORF1a	del2657	ORF1A:DEL2657	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	8234	.	T	A	100	PASS	1944	0.011831	0	"1919,0,23,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7969T>A	p.Leu2657Met	7969/21291	7969/21291	2657/7096	2657	7096		",A"	L2657M	T8234A	L2657M	ORF1AB:L2657M	2657	ORF1a	L2657M	ORF1A:L2657M	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	8376	.	CA	C	519	PASS	606	0.036304	0	"584,0,22,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	8955	.	A	G	449	PASS	1259	0.039714	0	"1208,0,50,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8690A>G	p.Tyr2897Cys	8690/21291	8690/21291	2897/7096	2897	7096		",G"	Y2897C	A8955G	Y2897C	ORF1AB:Y2897C	2897	ORF1a	Y2897C	ORF1A:Y2897C	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	8967	.	A	G	753	PASS	1205	0.063071	0	"1121,0,76,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8702A>G	p.Lys2901Arg	8702/21291	8702/21291	2901/7096	2901	7096		",G"	K2901R	A8967G	K2901R	ORF1AB:K2901R	2901	ORF1a	K2901R	ORF1A:K2901R	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	9026	.	A	T	1551	PASS	1424	0.086376	0	"1301,0,123,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8761A>T	p.Ile2921Phe	8761/21291	8761/21291	2921/7096	2921	7096		",T"	I2921F	A9026T	I2921F	ORF1AB:I2921F	2921	ORF1a	I2921F	ORF1A:I2921F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	9268	.	TGG	T	2493	PASS	1644	0.061436	0	"1551,0,101,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9004_9005delGG	p.Gly3002fs	9004/21291	9004/21291	3002/7096	3002	7096		",T"	del3002	TGG9268T	del3002	ORF1AB:DEL3002	3002	ORF1a	del3002	ORF1A:DEL3002	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	9526	.	G	T	228	PASS	2317	0.017264	0	"2274,0,40,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	9876	.	AT	A	7103	PASS	2319	0.120742	0	"2039,0,280,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9612delT	p.Tyr3204fs	9612/21291	9612/21291	3204/7096	3204	7096		",A"	del3204	AT9876A	del3204	ORF1AB:DEL3204	3204	ORF1a	del3204	ORF1A:DEL3204	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	9895	.	T	C	1182	PASS	2437	0.046779	0	"2313,0,114,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9630T>C	p.Leu3210Leu	9630/21291	9630/21291	3210/7096	3210	7096		",C"	L3210L	T9895C	L3210L	ORF1AB:L3210L	3210	ORF1a	L3210L	ORF1A:L3210L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	10456	.	C	T	3080	PASS	3576	0.064597	0	"3332,0,231,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10191C>T	p.Phe3397Phe	10191/21291	10191/21291	3397/7096	3397	7096		",T"	F3397F	C10456T	F3397F	ORF1AB:F3397F	3397	ORF1a	F3397F	ORF1A:F3397F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	10457	.	A	G	254	PASS	3576	0.015101	0	"3513,0,54,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10192A>G	p.Thr3398Ala	10192/21291	10192/21291	3398/7096	3398	7096		",G"	T3398A	A10457G	T3398A	ORF1AB:T3398A	3398	ORF1a	T3398A	ORF1A:T3398A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	10527	.	C	CT	2387	PASS	3646	0.029622	0	"3538,0,108,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10267dupT	p.Cys3423fs	10268/21291	10268/21291	3423/7096	3423	7096		"INFO_REALIGN_3_PRIME,CT"	del3423	C10527CT	del3423	ORF1AB:DEL3423	3423	ORF1a	del3423	ORF1A:DEL3423	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	10835	.	GT	G	53	PASS	1907	0.002098	0	"1930,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10574delT	p.Leu3525fs	10574/21291	10574/21291	3525/7096	3525	7096		"INFO_REALIGN_3_PRIME,G"	del3525	GT10835G	del3525	ORF1AB:DEL3525	3525	ORF1a	del3525	ORF1A:DEL3525	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	10869	.	TG	T	4841	PASS	2046	0.09042	0	"1866,0,185,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10605delG	p.Gln3536fs	10605/21291	10605/21291	3535/7096	3535	7096		",T"	del3536	TG10869T	del3536	ORF1AB:DEL3536	3536	ORF1a	del3536	ORF1A:DEL3536	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	10912	.	A	G	24374	PASS	1934	0.462771	0	"1037,0,895,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10647A>G	p.Leu3549Leu	10647/21291	10647/21291	3549/7096	3549	7096		",G"	L3549L	A10912G	L3549L	ORF1AB:L3549L	3549	ORF1a	L3549L	ORF1A:L3549L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	11095	.	CT	C	58	PASS	2791	0.001791	0	"2786,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835delT	p.Leu3612fs	10835/21291	10835/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,C"	del3612	CT11095C	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	11334	.	TG	T	5641	PASS	2320	0.098276	0	"2095,0,228,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11070delG	p.Leu3691fs	11070/21291	11070/21291	3690/7096	3690	7096		",T"	del3691	TG11334T	del3691	ORF1AB:DEL3691	3691	ORF1a	del3691	ORF1A:DEL3691	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	11363	.	GT	G	1886	PASS	2369	0.035036	0	"2286,0,83,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11099delT	p.Val3700fs	11099/21291	11099/21291	3700/7096	3700	7096		",G"	del3700	GT11363G	del3700	ORF1AB:DEL3700	3700	ORF1a	del3700	ORF1A:DEL3700	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	11409	.	TG	T	4380	PASS	2347	0.075842	0	"2171,0,178,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11145delG	p.Thr3716fs	11145/21291	11145/21291	3715/7096	3715	7096		",T"	del3716	TG11409T	del3716	ORF1AB:DEL3716	3716	ORF1a	del3716	ORF1A:DEL3716	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	11497	.	C	T	10933	PASS	2168	0.22417	0	"1681,0,486,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	11799	.	T	G	1605	PASS	223	0.313901	0	"153,0,70,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11534T>G	p.Leu3845Trp	11534/21291	11534/21291	3845/7096	3845	7096		",G"	L3845W	T11799G	L3845W	ORF1AB:L3845W	3845	ORF1a	L3845W	ORF1A:L3845W	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	12469	.	C	CA	9513	PASS	2922	0.113621	0	"2589,0,332,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12207dupA	p.Leu4070fs	12208/21291	12208/21291	4070/7096	4070	7096		"INFO_REALIGN_3_PRIME,CA"	del4070	C12469CA	del4070	ORF1AB:DEL4070	4070	ORF1a	del4070	ORF1A:DEL4070	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	12470	.	A	AT	49	PASS	2916	0.001715	0	"2934,0,5,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12205_12206insT	p.Lys4069fs	12206/21291	12206/21291	4069/7096	4069	7096		",AT"	del4069	A12470AT	del4069	ORF1AB:DEL4069	4069	ORF1a	del4069	ORF1A:DEL4069	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	12513	.	C	T	22888	PASS	3089	0.306572	0	"2132,0,947,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12248C>T	p.Thr4083Met	12248/21291	12248/21291	4083/7096	4083	7096		",T"	T4083M	C12513T	T4083M	ORF1AB:T4083M	4083	ORF1a	T4083M	ORF1A:T4083M	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	12789	.	CA	C	77	PASS	3403	0.001763	0	"3397,0,6,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12527delA	p.Lys4176fs	12527/21291	12527/21291	4176/7096	4176	7096		"INFO_REALIGN_3_PRIME,C"	del4176	CA12789C	del4176	ORF1AB:DEL4176	4176	ORF1a	del4176	ORF1A:DEL4176	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13078	.	T	C	5858	PASS	4947	0.086315	0	"4509,0,427,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12813T>C	p.Ala4271Ala	12813/21291	12813/21291	4271/7096	4271	7096		",C"	A4271A	T13078C	A4271A	ORF1AB:A4271A	4271	ORF1a	A4271A	ORF1A:A4271A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13123	.	TG	T	112	PASS	5308	0.001884	0	"5370,0,10,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12863delG	p.Gly4288fs	12863/21291	12863/21291	4288/7096	4288	7096		"INFO_REALIGN_3_PRIME,T"	del4288	TG13123T	del4288	ORF1AB:DEL4288	4288	ORF1a	del4288	ORF1A:DEL4288	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13394	.	A	G	7633	PASS	4665	0.094748	0	"4210,0,442,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13129A>G	p.Lys4377Glu	13129/21291	13129/21291	4377/7096	4377	7096		",G"	K4377E	A13394G	K4377E	ORF1AB:K4377E	4377	ORF1a	K4377E	ORF1A:K4377E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13459	.	G	GT	6180	PASS	3984	0.063504	0	"3784,0,253,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13199dupT	p.Leu4400fs	13200/21291	13200/21291	4400/7096	4400	7096		"INFO_REALIGN_3_PRIME,GT"	del4400	G13459GT	del4400	ORF1AB:DEL4400	4400	ORF1a	del4400	ORF1A:DEL4400	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13517	.	C	T	46124	PASS	3549	0.47929	0	"1838,0,1701,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13726	.	G	T	5275	PASS	3162	0.103416	0	"2831,0,327,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13462G>T	p.Val4488Phe	13462/21291	13462/21291	4488/7096	4488	7096		",T"	V4488F	G13726T	V4488F	ORF1AB:V4488F	87	ORF1b	V87F	ORF1B:V87F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13933	.	T	C	9947	PASS	3263	0.156911	0	"2739,0,512,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13669T>C	p.Phe4557Leu	13669/21291	13669/21291	4557/7096	4557	7096		",C"	F4557L	T13933C	F4557L	ORF1AB:F4557L	156	ORF1b	F156L	ORF1B:F156L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13992	.	A	G	2661	PASS	2727	0.072241	0	"2515,0,197,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13728A>G	p.Gln4576Gln	13728/21291	13728/21291	4576/7096	4576	7096		",G"	Q4576Q	A13992G	Q4576Q	ORF1AB:Q4576Q	175	ORF1b	Q175Q	ORF1B:Q175Q	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	13993	.	G	T	3293	PASS	2728	0.077346	0	"2516,0,211,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	14408	.	C	T	3061	PASS	85	1	2147483647	"0,0,85,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	14814	.	TA	T	63	PASS	3578	0.001397	0	"3579,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14552delA	p.Asn4851fs	14552/21291	14552/21291	4851/7096	4851	7096		"INFO_REALIGN_3_PRIME,T"	del4851	TA14814T	del4851	ORF1AB:DEL4851	450	ORF1b	del450	ORF1B:DEL450	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	14937	.	CA	C	9588	PASS	4057	0.086024	0	"3708,0,349,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14676delA	p.Lys4892fs	14676/21291	14676/21291	4892/7096	4892	7096		"INFO_REALIGN_3_PRIME,C"	del4892	CA14937C	del4892	ORF1AB:DEL4892	491	ORF1b	del491	ORF1B:DEL491	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	14980	.	CT	C	60	PASS	3846	0.0013	0	"3841,0,5,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14719delT	p.Tyr4907fs	14719/21291	14719/21291	4907/7096	4907	7096		"INFO_REALIGN_3_PRIME,C"	del4907	CT14980C	del4907	ORF1AB:DEL4907	506	ORF1b	del506	ORF1B:DEL506	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	15157	.	CA	C	16649	PASS	3252	0.178352	0	"2672,0,580,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14898delA	p.Lys4966fs	14898/21291	14898/21291	4966/7096	4966	7096		"INFO_REALIGN_3_PRIME,C"	del4966	CA15157C	del4966	ORF1AB:DEL4966	565	ORF1b	del565	ORF1B:DEL565	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	15202	.	G	T	73	PASS	3430	0.006997	0	"3403,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14938G>T	p.Val4980Leu	14938/21291	14938/21291	4980/7096	4980	7096		",T"	V4980L	G15202T	V4980L	ORF1AB:V4980L	579	ORF1b	V579L	ORF1B:V579L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	15245	.	TA	T	58	PASS	2742	0.001823	0	"2744,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14986delA	p.Thr4996fs	14986/21291	14986/21291	4996/7096	4996	7096		"INFO_REALIGN_3_PRIME,T"	del4996	TA15245T	del4996	ORF1AB:DEL4996	595	ORF1b	del595	ORF1B:DEL595	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	15324	.	C	T	602	PASS	1507	0.041141	0	"1443,0,62,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	15327	.	G	T	3645	PASS	1423	0.137737	0	"1227,0,196,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15063G>T	p.Met5021Ile	15063/21291	15063/21291	5021/7096	5021	7096		",T"	M5021I	G15327T	M5021I	ORF1AB:M5021I	620	ORF1b	M620I	ORF1B:M620I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	15594	.	G	T	1401	PASS	1131	0.082228	0	"1037,0,93,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15330G>T	p.Lys5110Asn	15330/21291	15330/21291	5110/7096	5110	7096		",T"	K5110N	G15594T	K5110N	ORF1AB:K5110N	709	ORF1b	K709N	ORF1B:K709N	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	15766	.	G	T	2226	PASS	1029	0.124393	0	"899,0,128,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	16044	.	A	T	82	PASS	116	0.060345	0	"109,0,7,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15780A>T	p.Pro5260Pro	15780/21291	15780/21291	5260/7096	5260	7096		",T"	P5260P	A16044T	P5260P	ORF1AB:P5260P	859	ORF1b	P859P	ORF1B:P859P	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	16516	.	A	G	3984	PASS	3803	0.082566	0	"3484,0,314,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16252A>G	p.Lys5418Glu	16252/21291	16252/21291	5418/7096	5418	7096		",G"	K5418E	A16516G	K5418E	ORF1AB:K5418E	1017	ORF1b	K1017E	ORF1B:K1017E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	16779	.	C	T	4447	PASS	4690	0.065672	0	"4375,0,308,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16515C>T	p.Val5505Val	16515/21291	16515/21291	5505/7096	5505	7096		",T"	V5505V	C16779T	V5505V	ORF1AB:V5505V	1104	ORF1b	V1104V	ORF1B:V1104V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	16889	.	A	G	4481	PASS	4149	0.070137	0	"3850,0,291,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	16906	.	TA	T	73	PASS	3881	0.001546	0	"3896,0,6,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16643delA	p.Tyr5548fs	16643/21291	16643/21291	5548/7096	5548	7096		",T"	del5548	TA16906T	del5548	ORF1AB:DEL5548	1147	ORF1b	del1147	ORF1B:DEL1147	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	16946	.	C	T	4221	PASS	3768	0.072452	0	"3491,0,273,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16682C>T	p.Ala5561Val	16682/21291	16682/21291	5561/7096	5561	7096		",T"	A5561V	C16946T	A5561V	ORF1AB:A5561V	1160	ORF1b	A1160V	ORF1B:A1160V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	17019	.	G	T	2306	PASS	2214	0.067299	0	"2064,0,149,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	17036	.	C	CA	5058	PASS	1934	0.092554	0	"1755,0,179,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16775dupA	p.Asn5592fs	16776/21291	16776/21291	5592/7096	5592	7096		"INFO_REALIGN_3_PRIME,CA"	del5592	C17036CA	del5592	ORF1AB:DEL5592	1191	ORF1b	del1191	ORF1B:DEL1191	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	17040	.	T	A	69	PASS	1863	0.009125	0	"1846,0,17,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16776T>A	p.Asn5592Lys	16776/21291	16776/21291	5592/7096	5592	7096		",A"	N5592K	T17040A	N5592K	ORF1AB:N5592K	1191	ORF1b	N1191K	ORF1B:N1191K	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	17335	.	ACAG	A	421	PASS	300	0.053333	0	"290,0,16,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17075_17077delCAG	p.Ala5692del	17075/21291	17075/21291	5692/7096	5692	7096		"INFO_REALIGN_3_PRIME,A"	del5692	ACAG17335A	del5692	ORF1AB:DEL5692	1291	ORF1b	del1291	ORF1B:DEL1291	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	18220	.	A	G	1251	PASS	1141	0.092901	0	"1032,0,106,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17956A>G	p.Lys5986Glu	17956/21291	17956/21291	5986/7096	5986	7096		",G"	K5986E	A18220G	K5986E	ORF1AB:K5986E	1585	ORF1b	K1585E	ORF1B:K1585E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	18537	.	TG	T	2336	PASS	603	0.14262	0	"522,0,86,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18274delG	p.Val6092fs	18274/21291	18274/21291	6092/7096	6092	7096		",T"	del6092	TG18537T	del6092	ORF1AB:DEL6092	1691	ORF1b	del1691	ORF1B:DEL1691	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	18671	.	A	T	1576	PASS	1732	0.064088	0	"1621,0,111,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18407A>T	p.Asp6136Val	18407/21291	18407/21291	6136/7096	6136	7096		",T"	D6136V	A18671T	D6136V	ORF1AB:D6136V	1735	ORF1b	D1735V	ORF1B:D1735V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	18690	.	T	C	2773	PASS	2138	0.083723	0	"1952,0,179,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18426T>C	p.Phe6142Phe	18426/21291	18426/21291	6142/7096	6142	7096		",C"	F6142F	T18690C	F6142F	ORF1AB:F6142F	1741	ORF1b	F1741F	ORF1B:F1741F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	18799	.	CA	C	49	PASS	3169	0.001262	0	"3165,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18538delA	p.Ser6180fs	18538/21291	18538/21291	6180/7096	6180	7096		"INFO_REALIGN_3_PRIME,C"	del6180	CA18799C	del6180	ORF1AB:DEL6180	1779	ORF1b	del1779	ORF1B:DEL1779	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	18997	.	G	A	4675	PASS	4556	0.071335	0	"4215,0,325,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18733G>A	p.Ala6245Thr	18733/21291	18733/21291	6245/7096	6245	7096		",A"	A6245T	G18997A	A6245T	ORF1AB:A6245T	1844	ORF1b	A1844T	ORF1B:A1844T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	19181	.	T	C	129	PASS	4441	0.009232	0	"4390,0,41,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18917T>C	p.Val6306Ala	18917/21291	18917/21291	6306/7096	6306	7096		",C"	V6306A	T19181C	V6306A	ORF1AB:V6306A	1905	ORF1b	V1905A	ORF1B:V1905A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	19386	.	C	T	12247	PASS	3434	0.170646	0	"2842,0,586,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19122C>T	p.Asp6374Asp	19122/21291	19122/21291	6374/7096	6374	7096		",T"	D6374D	C19386T	D6374D	ORF1AB:D6374D	1973	ORF1b	D1973D	ORF1B:D1973D	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	20549	.	A	AT	3041	PASS	2590	0.045946	0	"2476,0,119,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20288dupT	p.Leu6763fs	20289/21291	20289/21291	6763/7096	6763	7096		"INFO_REALIGN_3_PRIME,AT"	del6763	A20549AT	del6763	ORF1AB:DEL6763	2362	ORF1b	del2362	ORF1B:DEL2362	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	20792	.	CA	C	7734	PASS	4018	0.076157	0	"3712,0,306,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20532delA	p.Lys6844fs	20532/21291	20532/21291	6844/7096	6844	7096		"INFO_REALIGN_3_PRIME,C"	del6844	CA20792C	del6844	ORF1AB:DEL6844	2443	ORF1b	del2443	ORF1B:DEL2443	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	20935	.	AC	A	3513	PASS	3640	0.039835	0	"3505,0,145,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20672delC	p.Thr6891fs	20672/21291	20672/21291	6891/7096	6891	7096		",A"	del6891	AC20935A	del6891	ORF1AB:DEL6891	2490	ORF1b	del2490	ORF1B:DEL2490	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	20980	.	G	T	72	PASS	3631	0.006334	0	"3605,0,23,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20716G>T	p.Asp6906Tyr	20716/21291	20716/21291	6906/7096	6906	7096		",T"	D6906Y	G20980T	D6906Y	ORF1AB:D6906Y	2505	ORF1b	D2505Y	ORF1B:D2505Y	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	21255	.	G	C	49314	PASS	4620	0.920996	0	"351,0,4255,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	21638	.	C	T	4714	PASS	3167	0.097884	0	"2841,0,310,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.76C>T	p.Pro26Ser	76/3822	76/3822	26/1273	26	1273		",T"	P26S	C21638T	P26S	S:P26S	26	S	P26S	S:P26S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	21682	.	CA	C	4020	PASS	2244	0.066845	0	"2094,0,150,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.123delA	p.Val42fs	123/3822	123/3822	41/1273	41	1273		"INFO_REALIGN_3_PRIME,C"	del42	CA21682C	del42	S:DEL42	42	S	del42	S:DEL42	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	21691	.	C	T	31763	PASS	2201	0.49841	0	"1098,0,1097,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.129C>T	p.Phe43Phe	129/3822	129/3822	43/1273	43	1273		",T"	F43F	C21691T	F43F	S:F43F	43	S	F43F	S:F43F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	21737	.	T	G	1049	PASS	1663	0.051112	0	"1577,0,85,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.175T>G	p.Phe59Val	175/3822	175/3822	59/1273	59	1273		",G"	F59V	T21737G	F59V	S:F59V	59	S	F59V	S:F59V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	21826	.	T	C	136	PASS	1663	0.016236	0	"1633,0,27,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.264T>C	p.Asp88Asp	264/3822	264/3822	88/1273	88	1273		",C"	D88D	T21826C	D88D	S:D88D	88	S	D88D	S:D88D	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	21846	.	C	T	1825	PASS	1723	0.071967	0	"1597,0,124,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.284C>T	p.Thr95Ile	284/3822	284/3822	95/1273	95	1273		",T"	T95I	C21846T	T95I	S:T95I	95	S	T95I	S:T95I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	21855	.	C	T	2627	PASS	1778	0.091676	0	"1614,0,163,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	22120	.	CA	C	2452	PASS	1463	0.065619	0	"1365,0,96,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.563delA	p.Asn188fs	563/3822	563/3822	188/1273	188	1273		"INFO_REALIGN_3_PRIME,C"	del188	CA22120C	del188	S:DEL188	188	S	del188	S:DEL188	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	22141	.	GT	G	2400	PASS	1359	0.067697	0	"1288,0,92,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.582delT	p.Phe194fs	582/3822	582/3822	194/1273	194	1273		"INFO_REALIGN_3_PRIME,G"	del194	GT22141G	del194	S:DEL194	194	S	del194	S:DEL194	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	22218	.	GT	G	62	PASS	913	0.004381	0	"951,0,4,0"	TRUE	G	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.661delT	p.Ser221fs	661/3822	661/3822	221/1273	221	1273		"INFO_REALIGN_3_PRIME,G"	del221	GT22218G	del221	S:DEL221	221	S	del221	S:DEL221	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	22227	.	C	T	14231	PASS	845	0.628402	0	"310,0,531,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	22252	.	A	T	999	PASS	635	0.094488	0	"575,0,60,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.690A>T	p.Pro230Pro	690/3822	690/3822	230/1273	230	1273		",T"	P230P	A22252T	P230P	S:P230P	230	S	P230P	S:P230P	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	22992	.	G	A	825	PASS	809	0.07293	0	"749,0,59,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	23236	.	G	GT	776	PASS	1086	0.030387	0	"1063,0,33,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1677dupT	p.Leu560fs	1678/3822	1678/3822	560/1273	560	1273		"INFO_REALIGN_3_PRIME,GT"	del560	G23236GT	del560	S:DEL560	560	S	del560	S:DEL560	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	23334	.	CT	C	725	PASS	1289	0.026377	0	"1255,0,34,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1776delT	p.Phe592fs	1776/3822	1776/3822	592/1273	592	1273		"INFO_REALIGN_3_PRIME,C"	del592	CT23334C	del592	S:DEL592	592	S	del592	S:DEL592	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	23403	.	A	G	38862	PASS	1163	0.994841	2147483647	"0,0,1157,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	23500	.	TG	T	2419	PASS	1235	0.078543	0	"1147,0,97,0"	TRUE	T	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1939delG	p.Ala647fs	1939/3822	1939/3822	647/1273	647	1273		",T"	del647	TG23500T	del647	S:DEL647	647	S	del647	S:DEL647	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	23577	.	C	T	956	PASS	1194	0.063652	0	"1117,0,76,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2015C>T	p.Ala672Val	2015/3822	2015/3822	672/1273	672	1273		",T"	A672V	C23577T	A672V	S:A672V	672	S	A672V	S:A672V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	23709	.	C	T	4975	PASS	1211	0.194054	0	"970,0,235,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2147C>T	p.Thr716Ile	2147/3822	2147/3822	716/1273	716	1273		",T"	T716I	C23709T	T716I	S:T716I	716	S	T716I	S:T716I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	23887	.	CA	C	2723	PASS	1154	0.090121	0	"1050,0,104,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2330delA	p.Asn777fs	2330/3822	2330/3822	777/1273	777	1273		"INFO_REALIGN_3_PRIME,C"	del777	CA23887C	del777	S:DEL777	777	S	del777	S:DEL777	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	24506	.	T	G	1873	PASS	1852	0.070194	0	"1717,0,130,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	24914	.	G	C	2292	PASS	2472	0.071602	0	"2290,0,177,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25009	.	G	T	1124	PASS	2829	0.040297	0	"2713,0,114,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3447G>T	p.Lys1149Asn	3447/3822	3447/3822	1149/1273	1149	1273		",T"	K1149N	G25009T	K1149N	S:K1149N	1149	S	K1149N	S:K1149N	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25155	.	T	C	274	PASS	2644	0.015885	0	"2597,0,42,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3593T>C	p.Ile1198Thr	3593/3822	3593/3822	1198/1273	1198	1273		",C"	I1198T	T25155C	I1198T	S:I1198T	1198	S	I1198T	S:I1198T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25225	.	A	C	117	PASS	2563	0.016777	0	"2502,0,43,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25247	.	A	T	104	PASS	2768	0.019147	0	"2708,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25277	.	A	T	113	PASS	2805	0.02246	0	"2710,0,63,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25280	.	T	G	71	PASS	2860	0.017832	0	"2803,0,51,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25286	.	A	T	169	PASS	2932	0.028308	0	"2812,0,83,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25296	.	A	C	249	PASS	2937	0.035751	0	"2767,0,105,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25301	.	T	G	150	PASS	2879	0.026745	0	"2801,0,77,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25312	.	T	G	230	PASS	2976	0.030578	0	"2883,0,91,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25314	.	G	T	93	PASS	2969	0.023577	0	"2891,0,70,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25324	.	C	A	1114	PASS	2981	0.067092	0	"2779,0,200,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25327	.	A	T	205	PASS	2941	0.027542	0	"2857,0,81,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25331	.	G	T	78	PASS	2923	0.024974	0	"2827,0,73,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25336	.	A	C	376	PASS	2935	0.0477	0	"2759,0,140,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25563	.	G	T	12641	PASS	2308	0.231802	0	"1771,0,535,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25710	.	C	T	7158	PASS	1327	0.226827	0	"1024,0,301,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25726	.	G	C	555	PASS	1251	0.040767	0	"1198,0,51,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.334G>C	p.Val112Leu	334/828	334/828	112/275	112	275		",C"	V112L	G25726C	V112L	ORF3A:V112L	112	ORF3a	V112L	ORF3A:V112L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	25886	.	C	T	15318	PASS	639	0.752739	0	"156,0,481,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26062	.	G	T	512	PASS	683	0.060029	0	"642,0,41,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26067	.	TG	T	1159	PASS	661	0.071104	0	"615,0,47,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.676delG	p.Glu226fs	676/828	676/828	226/275	226	275		",T"	del226	TG26067T	del226	ORF3A:DEL226	226	ORF3a	del226	ORF3A:DEL226	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26213	.	C	T	1831	PASS	2889	0.055382	0	"2723,0,160,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.821C>T	p.Pro274Leu	821/828	821/828	274/275	274	275		",T"	P274L	C26213T	P274L	ORF3A:P274L	274	ORF3a	P274L	ORF3A:P274L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26255	.	T	C	110	PASS	3008	0.009641	0	"2976,0,29,0"	FALSE	C	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.11T>C	p.Phe4Ser	11/228	11/228	4/75	4	75		",C"	F4S	T26255C	F4S	E:F4S	4	E	F4S	E:F4S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26268	.	GAC	G	389	PASS	2857	0.00735	0	"2838,0,21,0"	TRUE	G	frameshift_variant	HIGH	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.26_27delCA	p.Thr9fs	26/228	26/228	9/75	9	75		"INFO_REALIGN_3_PRIME,G"	del9	GAC26268G	del9	E:DEL9	9	E	del9	E:DEL9	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26656	.	T	C	182	PASS	4213	0.011631	0	"4159,0,49,0"	FALSE	C	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.134T>C	p.Phe45Ser	134/669	134/669	45/222	45	222		",C"	F45S	T26656C	F45S	M:F45S	45	M	F45S	M:F45S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26713	.	G	GT	151	PASS	3991	0.002756	0	"3984,0,11,0"	TRUE	GT	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.195dupT	p.Val66fs	196/669	196/669	66/222	66	222		"INFO_REALIGN_3_PRIME,GT"	del66	G26713GT	del66	M:DEL66	66	M	del66	M:DEL66	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26781	.	CT	C	542	PASS	3749	0.007735	0	"3720,0,29,0"	TRUE	C	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.261delT	p.Val88fs	261/669	261/669	87/222	87	222		"INFO_REALIGN_3_PRIME,C"	del88	CT26781C	del88	M:DEL88	88	M	del88	M:DEL88	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26801	.	C	G	49314	PASS	3379	0.886061	0	"380,0,2994,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26864	.	AG	A	4612	PASS	2045	0.086553	0	"1871,0,177,0"	TRUE	A	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.343delG	p.Glu115fs	343/669	343/669	115/222	115	222		",A"	del115	AG26864A	del115	M:DEL115	115	M	del115	M:DEL115	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26876	.	T	C	182	PASS	1966	0.015768	0	"1931,0,31,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	26983	.	A	G	206	PASS	1067	0.032802	0	"1029,0,35,0"	FALSE	G	missense_variant	MODERATE	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.461A>G	p.His154Arg	461/669	461/669	154/222	154	222		",G"	H154R	A26983G	H154R	M:H154R	154	M	H154R	M:H154R	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27146	.	A	T	807	PASS	975	0.065641	0	"906,0,64,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.624A>T	p.Thr208Thr	624/669	624/669	208/222	208	222		",T"	T208T	A27146T	T208T	M:T208T	208	M	T208T	M:T208T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27314	.	A	G	294	PASS	2791	0.01684	0	"2741,0,47,0"	FALSE	G	missense_variant	MODERATE	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.113A>G	p.Lys38Arg	113/186	113/186	38/61	38	61		",G"	K38R	A27314G	K38R	ORF6:K38R	38	ORF6	K38R	ORF6:K38R	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27396	.	GA	G	844	PASS	2777	0.015124	0	"2755,0,42,0"	TRUE	G	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.7delA	p.Ile3fs	7/366	7/366	3/121	3	121		"INFO_REALIGN_3_PRIME,G"	del3	GA27396G	del3	ORF7A:DEL3	3	ORF7a	del3	ORF7A:DEL3	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27408	.	T	C	1429	PASS	2695	0.042672	0	"2573,0,115,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.15T>C	p.Leu5Leu	15/366	15/366	5/121	5	121		",C"	L5L	T27408C	L5L	ORF7A:L5L	5	ORF7a	L5L	ORF7A:L5L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27585	.	T	C	245	PASS	4173	0.013899	0	"4102,0,58,0"	FALSE	C	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.192T>C	p.Ala64Ala	192/366	192/366	64/121	64	121		",C"	A64A	T27585C	A64A	ORF7A:A64A	64	ORF7a	A64A	ORF7A:A64A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27640	.	T	C	232	PASS	4059	0.011826	0	"4004,0,48,0"	FALSE	C	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.247T>C	p.Ser83Pro	247/366	247/366	83/121	83	121		",C"	S83P	T27640C	S83P	ORF7A:S83P	83	ORF7a	S83P	ORF7A:S83P	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27684	.	C	T	2257	PASS	4000	0.049	0	"3792,0,196,0"	FALSE	T	synonymous_variant	LOW	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.291C>T	p.Tyr97Tyr	291/366	291/366	97/121	97	121		",T"	Y97Y	C27684T	Y97Y	ORF7A:Y97Y	97	ORF7a	Y97Y	ORF7A:Y97Y	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27707	.	C	T	2252	PASS	4234	0.049835	0	"4008,0,211,0"	FALSE	T	missense_variant	MODERATE	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.314C>T	p.Ala105Val	314/366	314/366	105/121	105	121		",T"	A105V	C27707T	A105V	ORF7A:A105V	105	ORF7a	A105V	ORF7A:A105V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27800	.	C	T	1931	PASS	3656	0.050875	0	"3455,0,186,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.45C>T	p.Ala15Ala	45/132	45/132	15/43	15	43		",T"	A15A	C27800T	A15A	ORF7B:A15A	15	ORF7b	A15A	ORF7B:A15A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27820	.	T	TA	4503	PASS	3789	0.047506	0	"3647,0,180,0"	TRUE	TA	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.67dupA	p.Ile23fs	68/132	68/132	23/43	23	43		"INFO_REALIGN_3_PRIME,TA"	del23	T27820TA	del23	ORF7B:DEL23	23	ORF7b	del23	ORF7B:DEL23	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27881	.	C	T	84	PASS	3838	0.007295	0	"3801,0,28,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27922	.	T	C	2139	PASS	3980	0.043216	0	"3803,0,172,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.29T>C	p.Ile10Thr	29/366	29/366	10/121	10	121		",C"	I10T	T27922C	I10T	ORF8:I10T	10	ORF8	I10T	ORF8:I10T	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	27944	.	C	T	49314	PASS	3473	0.779153	0	"762,0,2706,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28045	.	C	T	4819	PASS	1741	0.146468	0	"1481,0,255,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.152C>T	p.Ala51Val	152/366	152/366	51/121	51	121		",T"	A51V	C28045T	A51V	ORF8:A51V	51	ORF8	A51V	ORF8:A51V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28050	.	A	G	236	PASS	1706	0.01993	0	"1663,0,34,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.157A>G	p.Lys53Glu	157/366	157/366	53/121	53	121		",G"	K53E	A28050G	K53E	ORF8:K53E	53	ORF8	K53E	ORF8:K53E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28072	.	TG	T	1121	PASS	1583	0.031586	0	"1550,0,50,0"	TRUE	T	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.180delG	p.Leu60fs	180/366	180/366	60/121	60	121		",T"	del60	TG28072T	del60	ORF8:DEL60	60	ORF8	del60	ORF8:DEL60	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28179	.	G	T	4560	PASS	1925	0.148052	0	"1638,0,285,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.286G>T	p.Gly96Cys	286/366	286/366	96/121	96	121		",T"	G96C	G28179T	G96C	ORF8:G96C	96	ORF8	G96C	ORF8:G96C	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28230	.	G	T	1169	PASS	1991	0.050728	0	"1890,0,101,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.337G>T	p.Asp113Tyr	337/366	337/366	113/121	113	121		",T"	D113Y	G28230T	D113Y	ORF8:D113Y	113	ORF8	D113Y	ORF8:D113Y	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28254	.	A	C	222	PASS	1901	0.020516	0	"1858,0,39,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28270	.	TA	T	1797	PASS	2514	0.034208	0	"2428,0,86,0"	TRUE	T	upstream_gene_variant	MODIFIER	N	GU280_gp10	transcript	GU280_gp10	protein_coding		c.-3delA						NA	3	",T"	del	TA28270T	del	N:DEL	NA	N	del	N:DEL	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28280	.	G	C	994	PASS	2554	0.037588	0	"2454,0,96,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.7G>C	p.Asp3His	7/1260	7/1260	3/419	3	419		",C"	D3H	G28280C	D3H	N:D3H	3	N	D3H	N:D3H	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28281	.	A	T	1017	PASS	2598	0.036952	0	"2498,0,96,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.8A>T	p.Asp3Val	8/1260	8/1260	3/419	3	419		",T"	D3V	A28281T	D3V	N:D3V	3	N	D3V	N:D3V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28282	.	T	A	923	PASS	2639	0.038651	0	"2534,0,102,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.9T>A	p.Asp3Glu	9/1260	9/1260	3/419	3	419		",A"	D3E	T28282A	D3E	N:D3E	3	N	D3E	N:D3E	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28300	.	G	T	858	PASS	2840	0.034859	0	"2737,0,99,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28372	.	TG	T	88	PASS	3720	0.001882	0	"3718,0,7,0"	TRUE	T	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.103delG	p.Ala35fs	103/1260	103/1260	35/419	35	419		"INFO_REALIGN_3_PRIME,T"	del35	TG28372T	del35	N:DEL35	35	N	del35	N:DEL35	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28378	.	G	T	4162	PASS	3607	0.081785	0	"3310,0,295,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.105G>T	p.Ala35Ala	105/1260	105/1260	35/419	35	419		",T"	A35A	G28378T	A35A	N:A35A	35	N	A35A	N:A35A	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28457	.	GA	G	118	PASS	4166	0.008161	0	"4146,0,34,0"	TRUE	G	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.186delA	p.Asp63fs	186/1260	186/1260	62/419	62	419		"INFO_REALIGN_3_PRIME,G"	del63	GA28457G	del63	N:DEL63	63	N	del63	N:DEL63	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28460	.	G	T	100	PASS	4140	0.011353	0	"4083,0,47,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.187G>T	p.Asp63Tyr	187/1260	187/1260	63/419	63	419		",T"	D63Y	G28460T	D63Y	N:D63Y	63	N	D63Y	N:D63Y	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28475	.	CG	C	2106	PASS	4389	0.021645	0	"4294,0,95,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.203delG	p.Arg68fs	203/1260	203/1260	68/419	68	419		",C"	del68	CG28475C	del68	N:DEL68	68	N	del68	N:DEL68	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28569	.	G	A	749	PASS	4525	0.02453	0	"4397,0,111,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.296G>A	p.Gly99Asp	296/1260	296/1260	99/419	99	419		",A"	G99D	G28569A	G99D	N:G99D	99	N	G99D	N:G99D	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28651	.	C	T	2108	PASS	4351	0.042059	0	"4163,0,183,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28739	.	G	T	2341	PASS	6568	0.038063	0	"6304,0,250,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.466G>T	p.Ala156Ser	466/1260	466/1260	156/419	156	419		",T"	A156S	G28739T	A156S	N:A156S	156	N	A156S	N:A156S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28747	.	G	T	2091	PASS	6690	0.034679	0	"6450,0,232,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.474G>T	p.Val158Val	474/1260	474/1260	158/419	158	419		",T"	V158V	G28747T	V158V	N:V158V	158	N	V158V	N:V158V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28851	.	G	T	3214	PASS	6511	0.045922	0	"6203,0,299,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.578G>T	p.Ser193Ile	578/1260	578/1260	193/419	193	419		",T"	S193I	G28851T	S193I	N:S193I	193	N	S193I	N:S193I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28855	.	A	C	6072	PASS	6457	0.070002	0	"5987,0,452,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.582A>C	p.Ser194Ser	582/1260	582/1260	194/419	194	419		",C"	S194S	A28855C	S194S	N:S194S	194	N	S194S	N:S194S	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28869	.	C	T	2846	PASS	6356	0.045312	0	"6054,0,288,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28881	.	G	A	694	PASS	6266	0.01947	0	"6127,0,122,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28882	.	G	A	594	PASS	6288	0.01972	0	"6133,0,124,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28883	.	G	C	686	PASS	6256	0.02046	0	"6110,0,128,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28917	.	G	T	1960	PASS	6111	0.035346	0	"5887,0,216,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.644G>T	p.Gly215Val	644/1260	644/1260	215/419	215	419		",T"	G215V	G28917T	G215V	N:G215V	215	N	G215V	N:G215V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28932	.	C	T	49314	PASS	6221	0.816428	0	"1114,0,5079,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28969	.	CA	C	5487	PASS	5910	0.038748	0	"5682,0,229,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.700delA	p.Met234fs	700/1260	700/1260	234/419	234	419		"INFO_REALIGN_3_PRIME,C"	del234	CA28969C	del234	N:DEL234	234	N	del234	N:DEL234	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28975	.	G	C	6199	PASS	5887	0.07627	0	"5428,0,449,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	28987	.	CCAA	C	823	PASS	5441	0.008087	0	"5425,0,44,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	29051	.	C	CA	8017	PASS	4835	0.066391	0	"4514,0,321,0"	TRUE	CA	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.783dupA	p.Arg262fs	784/1260	784/1260	262/419	262	419		"INFO_REALIGN_3_PRIME,CA"	del262	C29051CA	del262	N:DEL262	262	N	del262	N:DEL262	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL36-1	NC_045512.2	29217	.	T	G	1017	PASS	506	0.110672	0	"450,0,56,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.944T>G	p.Phe315Cys	944/1260	944/1260	315/419	315	419		",G"	F315C	T29217G	F315C	N:F315C	315	N	F315C	N:F315C	WIL36-1	WILTZ	2020-11-09T00:00:00Z	30.33175	32.18333333	x	1022021	2020-11-09
WIL38-1	NC_045512.2	160	.	G	C	3713	PASS	1860	0.105914	0	"1663,0,197,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-106G>C						NA	106	",C"		G160C		NA	NA	NA		NA	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	204	.	G	T	23027	PASS	2511	0.353644	0	"1620,0,888,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	241	.	C	T	49314	PASS	2829	0.997172	2147483647	"0,0,2821,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	445	.	T	C	23812	PASS	3184	0.32946	0	"2123,0,1049,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	559	.	T	G	73	PASS	2856	0.016106	0	"2808,0,46,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.294T>G	p.Gly98Gly	294/21291	294/21291	98/7096	98	7096		",G"	G98G	T559G	G98G	ORF1AB:G98G	98	ORF1a	G98G	ORF1A:G98G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	571	.	G	A	10112	PASS	2881	0.166262	0	"2397,0,479,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.306G>A	p.Glu102Glu	306/21291	306/21291	102/7096	102	7096		",A"	E102E	G571A	E102E	ORF1AB:E102E	102	ORF1a	E102E	ORF1A:E102E	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	583	.	C	T	2878	PASS	2753	0.069379	0	"2558,0,191,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.318C>T	p.Val106Val	318/21291	318/21291	106/7096	106	7096		",T"	V106V	C583T	V106V	ORF1AB:V106V	106	ORF1a	V106V	ORF1A:V106V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	624	.	A	T	444	PASS	3079	0.019812	0	"3015,0,61,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.359A>T	p.Lys120Met	359/21291	359/21291	120/7096	120	7096		",T"	K120M	A624T	K120M	ORF1AB:K120M	120	ORF1a	K120M	ORF1A:K120M	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	802	.	A	C	146	PASS	3095	0.010662	0	"3044,0,33,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	847	.	T	G	2288	PASS	3087	0.065112	0	"2882,0,201,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.582T>G	p.Asp194Glu	582/21291	582/21291	194/7096	194	7096		",G"	D194E	T847G	D194E	ORF1AB:D194E	194	ORF1a	D194E	ORF1A:D194E	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	868	.	TA	T	50	PASS	2949	0.001356	0	"2948,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.606delA	p.Asp203fs	606/21291	606/21291	202/7096	202	7096		"INFO_REALIGN_3_PRIME,T"	del203	TA868T	del203	ORF1AB:DEL203	203	ORF1a	del203	ORF1A:DEL203	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	875	.	C	A	3086	PASS	2903	0.078884	0	"2670,0,229,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.610C>A	p.Leu204Ile	610/21291	610/21291	204/7096	204	7096		",A"	L204I	C875A	L204I	ORF1AB:L204I	204	ORF1a	L204I	ORF1A:L204I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	1142	.	C	T	7048	PASS	3193	0.130911	0	"2769,0,418,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.877C>T	p.Leu293Phe	877/21291	877/21291	293/7096	293	7096		",T"	L293F	C1142T	L293F	ORF1AB:L293F	293	ORF1a	L293F	ORF1A:L293F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	1547	.	A	G	16941	PASS	3152	0.234137	0	"2408,0,738,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1282A>G	p.Ser428Gly	1282/21291	1282/21291	428/7096	428	7096		",G"	S428G	A1547G	S428G	ORF1AB:S428G	428	ORF1a	S428G	ORF1A:S428G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	2388	.	C	T	259	PASS	256	0.070312	0	"237,0,18,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2123C>T	p.Thr708Ile	2123/21291	2123/21291	708/7096	708	7096		",T"	T708I	C2388T	T708I	ORF1AB:T708I	708	ORF1a	T708I	ORF1A:T708I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	2885	.	G	A	6789	PASS	2739	0.13253	0	"2372,0,363,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2620G>A	p.Val874Ile	2620/21291	2620/21291	874/7096	874	7096		",A"	V874I	G2885A	V874I	ORF1AB:V874I	874	ORF1a	V874I	ORF1A:V874I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	3037	.	C	T	49314	PASS	2130	0.996714	2147483647	"0,0,2123,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	3154	.	TG	T	2250	PASS	1350	0.071852	0	"1275,0,97,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2890delG	p.Ala964fs	2890/21291	2890/21291	964/7096	964	7096		",T"	del964	TG3154T	del964	ORF1AB:DEL964	964	ORF1a	del964	ORF1A:DEL964	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	3164	.	G	T	566	PASS	1318	0.037936	0	"1268,0,50,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2899G>T	p.Ala967Ser	2899/21291	2899/21291	967/7096	967	7096		",T"	A967S	G3164T	A967S	ORF1AB:A967S	967	ORF1a	A967S	ORF1A:A967S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	3592	.	T	C	3647	PASS	370	0.381081	0	"229,0,141,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	3602	.	C	T	91	PASS	368	0.027174	0	"357,0,10,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3337C>T	p.His1113Tyr	3337/21291	3337/21291	1113/7096	1113	7096		",T"	H1113Y	C3602T	H1113Y	ORF1AB:H1113Y	1113	ORF1a	H1113Y	ORF1A:H1113Y	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	3743	.	C	T	124	PASS	247	0.048583	0	"235,0,12,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3478C>T	p.His1160Tyr	3478/21291	3478/21291	1160/7096	1160	7096		",T"	H1160Y	C3743T	H1160Y	ORF1AB:H1160Y	1160	ORF1a	H1160Y	ORF1A:H1160Y	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	4111	.	T	C	549	PASS	98	0.244898	0	"74,0,24,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3846T>C	p.Asp1282Asp	3846/21291	3846/21291	1282/7096	1282	7096		",C"	D1282D	T4111C	D1282D	ORF1AB:D1282D	1282	ORF1a	D1282D	ORF1A:D1282D	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	4123	.	A	G	188	PASS	97	0.134021	0	"84,0,13,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3858A>G	p.Ile1286Met	3858/21291	3858/21291	1286/7096	1286	7096		",G"	I1286M	A4123G	I1286M	ORF1AB:I1286M	1286	ORF1a	I1286M	ORF1A:I1286M	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	4303	.	TA	T	76	PASS	432	0.009259	0	"428,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4043delA	p.Lys1348fs	4043/21291	4043/21291	1348/7096	1348	7096		"INFO_REALIGN_3_PRIME,T"	del1348	TA4303T	del1348	ORF1AB:DEL1348	1348	ORF1a	del1348	ORF1A:DEL1348	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	4543	.	C	T	8474	PASS	594	0.518519	0	"284,0,308,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	4579	.	TAACGATCTA	T	1106	PASS	671	0.067064	0	"627,0,45,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4317_4325delCGATCTAAA	p.Asp1440_Asn1442del	4317/21291	4317/21291	1439/7096	1439	7096		"INFO_REALIGN_3_PRIME,T"	del1440/1442	TAACGATCTA4579T	del1440/1442	ORF1AB:DEL1440/1442	1440/1442	ORF1a	del1440/1442	ORF1A:DEL1440/1442	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	4786	.	T	C	281	PASS	1320	0.025758	0	"1285,0,34,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4521T>C	p.Leu1507Leu	4521/21291	4521/21291	1507/7096	1507	7096		",C"	L1507L	T4786C	L1507L	ORF1AB:L1507L	1507	ORF1a	L1507L	ORF1A:L1507L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	5224	.	TAA	T	48	PASS	2225	0.001798	0	"2221,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4963_4964delAA	p.Lys1655fs	4963/21291	4963/21291	1655/7096	1655	7096		"INFO_REALIGN_3_PRIME,T"	del1655	TAA5224T	del1655	ORF1AB:DEL1655	1655	ORF1a	del1655	ORF1A:DEL1655	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	5629	.	G	T	12574	PASS	880	0.496591	0	"443,0,437,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6044	.	AATT	A	1614	PASS	998	0.06513	0	"934,0,65,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5780_5782delATT	p.Asn1927_Phe1928delinsIle	5780/21291	5780/21291	1927/7096	1927	7096		",A"	indel	AATT6044A	NA	NA	NA	ORF1a	NA	NA	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6047	.	T	A	103	PASS	1025	0.017561	0	"942,0,18,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5782T>A	p.Phe1928Ile	5782/21291	5782/21291	1928/7096	1928	7096		",A"	F1928I	T6047A	F1928I	ORF1AB:F1928I	1928	ORF1a	F1928I	ORF1A:F1928I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6087	.	T	A	486	PASS	967	0.066184	0	"903,0,64,0"	FALSE	A	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5822T>A	p.Leu1941*	5822/21291	5822/21291	1941/7096	1941	7096		",A"	L1941*	T6087A	L1941*	ORF1AB:L1941*	1941	ORF1a	L1941*	ORF1A:L1941*	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6155	.	A	G	748	PASS	1042	0.058541	0	"978,0,61,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5890A>G	p.Asn1964Asp	5890/21291	5890/21291	1964/7096	1964	7096		",G"	N1964D	A6155G	N1964D	ORF1AB:N1964D	1964	ORF1a	N1964D	ORF1A:N1964D	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6219	.	T	C	214	PASS	1313	0.022087	0	"1278,0,29,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5954T>C	p.Leu1985Ser	5954/21291	5954/21291	1985/7096	1985	7096		",C"	L1985S	T6219C	L1985S	ORF1AB:L1985S	1985	ORF1a	L1985S	ORF1A:L1985S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6286	.	C	T	14783	PASS	1466	0.378581	0	"907,0,555,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6421	.	G	A	1075	PASS	1292	0.074303	0	"1190,0,96,0"	FALSE	A	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6156G>A	p.Val2052Val	6156/21291	6156/21291	2052/7096	2052	7096		",A"	V2052V	G6421A	V2052V	ORF1AB:V2052V	2052	ORF1a	V2052V	ORF1A:V2052V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6422	.	G	A	1174	PASS	1274	0.073783	0	"1177,0,94,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6157G>A	p.Glu2053Lys	6157/21291	6157/21291	2053/7096	2053	7096		",A"	E2053K	G6422A	E2053K	ORF1AB:E2053K	2053	ORF1a	E2053K	ORF1A:E2053K	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6505	.	AAAT	A	544	PASS	1409	0.017743	0	"1384,0,25,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6245_6247delATA	p.Asn2082del	6245/21291	6245/21291	2082/7096	2082	7096		"INFO_REALIGN_3_PRIME,A"	del2082	AAAT6505A	del2082	ORF1AB:DEL2082	2082	ORF1a	del2082	ORF1A:DEL2082	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6606	.	C	T	431	PASS	1251	0.033573	0	"1209,0,42,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6341C>T	p.Ser2114Phe	6341/21291	6341/21291	2114/7096	2114	7096		",T"	S2114F	C6606T	S2114F	ORF1AB:S2114F	2114	ORF1a	S2114F	ORF1A:S2114F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6696	.	C	CT	143	PASS	842	0.009501	0	"834,0,8,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	6696	.	C	T	76	PASS	842	0.019002	0	"823,0,16,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6431C>T	p.Pro2144Leu	6431/21291	6431/21291	2144/7096	2144	7096		",T"	P2144L	C6696T	P2144L	ORF1AB:P2144L	2144	ORF1a	P2144L	ORF1A:P2144L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	7127	.	T	C	285	PASS	958	0.034447	0	"923,0,33,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6862T>C	p.Cys2288Arg	6862/21291	6862/21291	2288/7096	2288	7096		",C"	C2288R	T7127C	C2288R	ORF1AB:C2288R	2288	ORF1a	C2288R	ORF1A:C2288R	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	7204	.	T	C	140	PASS	698	0.028653	0	"675,0,20,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6939T>C	p.Ser2313Ser	6939/21291	6939/21291	2313/7096	2313	7096		",C"	S2313S	T7204C	S2313S	ORF1AB:S2313S	2313	ORF1a	S2313S	ORF1A:S2313S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	7207	.	TA	T	895	PASS	699	0.050072	0	"675,0,35,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6945delA	p.Lys2315fs	6945/21291	6945/21291	2315/7096	2315	7096		"INFO_REALIGN_3_PRIME,T"	del2315	TA7207T	del2315	ORF1AB:DEL2315	2315	ORF1a	del2315	ORF1A:DEL2315	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	7312	.	G	GT	1080	PASS	569	0.073814	0	"540,0,42,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7052dupT	p.Ser2352fs	7053/21291	7053/21291	2351/7096	2351	7096		"INFO_REALIGN_3_PRIME,GT"	del2352	G7312GT	del2352	ORF1AB:DEL2352	2352	ORF1a	del2352	ORF1A:DEL2352	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	7390	.	C	T	1682	PASS	578	0.16609	0	"479,0,96,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7125C>T	p.Ala2375Ala	7125/21291	7125/21291	2375/7096	2375	7096		",T"	A2375A	C7390T	A2375A	ORF1AB:A2375A	2375	ORF1a	A2375A	ORF1A:A2375A	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	8290	.	C	T	8024	PASS	1269	0.268716	0	"925,0,341,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8025C>T	p.Leu2675Leu	8025/21291	8025/21291	2675/7096	2675	7096		",T"	L2675L	C8290T	L2675L	ORF1AB:L2675L	2675	ORF1a	L2675L	ORF1A:L2675L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	8376	.	CA	C	306	PASS	515	0.027184	0	"501,0,14,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	8726	.	G	T	408	PASS	350	0.074286	0	"324,0,26,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8461G>T	p.Ala2821Ser	8461/21291	8461/21291	2821/7096	2821	7096		",T"	A2821S	G8726T	A2821S	ORF1AB:A2821S	2821	ORF1a	A2821S	ORF1A:A2821S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	8731	.	T	C	357	PASS	379	0.073879	0	"351,0,28,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8466T>C	p.Ser2822Ser	8466/21291	8466/21291	2822/7096	2822	7096		",C"	S2822S	T8731C	S2822S	ORF1AB:S2822S	2822	ORF1a	S2822S	ORF1A:S2822S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	9526	.	G	T	32203	PASS	2266	0.513239	0	"1101,0,1163,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	9857	.	C	T	3260	PASS	2029	0.102514	0	"1816,0,208,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9592C>T	p.Leu3198Leu	9592/21291	9592/21291	3198/7096	3198	7096		",T"	L3198L	C9857T	L3198L	ORF1AB:L3198L	3198	ORF1a	L3198L	ORF1A:L3198L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	10060	.	T	G	317	PASS	2227	0.028738	0	"2154,0,64,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9795T>G	p.Gly3265Gly	9795/21291	9795/21291	3265/7096	3265	7096		",G"	G3265G	T10060G	G3265G	ORF1AB:G3265G	3265	ORF1a	G3265G	ORF1A:G3265G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	10078	.	C	T	543	PASS	2090	0.031579	0	"2014,0,66,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9813C>T	p.Phe3271Phe	9813/21291	9813/21291	3271/7096	3271	7096		",T"	F3271F	C10078T	F3271F	ORF1AB:F3271F	3271	ORF1a	F3271F	ORF1A:F3271F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	10206	.	A	G	5059	PASS	2454	0.160962	0	"2047,0,395,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9941A>G	p.Asn3314Ser	9941/21291	9941/21291	3314/7096	3314	7096		",G"	N3314S	A10206G	N3314S	ORF1AB:N3314S	3314	ORF1a	N3314S	ORF1A:N3314S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	10386	.	C	CT	11582	PASS	2282	0.17397	0	"1885,0,397,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10126dupT	p.Ser3376fs	10127/21291	10127/21291	3376/7096	3376	7096		"INFO_REALIGN_3_PRIME,CT"	del3376	C10386CT	del3376	ORF1AB:DEL3376	3376	ORF1a	del3376	ORF1A:DEL3376	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	10763	.	TA	T	2714	PASS	1496	0.072861	0	"1391,0,109,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10499delA	p.Tyr3500fs	10499/21291	10499/21291	3500/7096	3500	7096		",T"	del3500	TA10763T	del3500	ORF1AB:DEL3500	3500	ORF1a	del3500	ORF1A:DEL3500	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	10835	.	G	GT	3373	PASS	1481	0.085753	0	"1375,0,127,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10574dupT	p.Leu3525fs	10575/21291	10575/21291	3525/7096	3525	7096		"INFO_REALIGN_3_PRIME,GT"	del3525	G10835GT	del3525	ORF1AB:DEL3525	3525	ORF1a	del3525	ORF1A:DEL3525	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	10912	.	A	G	1481	PASS	1502	0.076565	0	"1379,0,115,0"	FALSE	G	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10647A>G	p.Leu3549Leu	10647/21291	10647/21291	3549/7096	3549	7096		",G"	L3549L	A10912G	L3549L	ORF1AB:L3549L	3549	ORF1a	L3549L	ORF1A:L3549L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11082	.	TG	T	191	PASS	2904	0.004132	0	"2897,0,12,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818delG	p.Leu3606fs	10818/21291	10818/21291	3606/7096	3606	7096		",T"	del3606	TG11082T	del3606	ORF1AB:DEL3606	3606	ORF1a	del3606	ORF1A:DEL3606	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11083	.	G	T	1903	PASS	2913	0.058016	0	"2732,0,169,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10818G>T	p.Leu3606Phe	10818/21291	10818/21291	3606/7096	3606	7096		",T"	L3606F	G11083T	L3606F	ORF1AB:L3606F	3606	ORF1a	L3606F	ORF1A:L3606F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11095	.	C	CT	4912	PASS	3040	0.065132	0	"2841,0,198,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10835dupT	p.Leu3612fs	10836/21291	10836/21291	3612/7096	3612	7096		"INFO_REALIGN_3_PRIME,CT"	del3612	C11095CT	del3612	ORF1AB:DEL3612	3612	ORF1a	del3612	ORF1A:DEL3612	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11179	.	GT	G	5147	PASS	2460	0.082114	0	"2263,0,202,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.10919delT	p.Leu3640fs	10919/21291	10919/21291	3640/7096	3640	7096		"INFO_REALIGN_3_PRIME,G"	del3640	GT11179G	del3640	ORF1AB:DEL3640	3640	ORF1a	del3640	ORF1A:DEL3640	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11287	.	GTCTGGTTTT	G	12164	PASS	2590	0.176062	0	"2151,0,456,0"	TRUE	G	conservative_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	11023/21291	11023/21291	3675/7096	3675	7096		",G"	del3675/3677	GTCTGGTTTT11287G	del3675/3677	ORF1AB:DEL3675/3677	3675/3677	ORF1a	del3675/3677	ORF1A:DEL3675/3677	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11497	.	C	T	36477	PASS	2687	0.483439	0	"1386,0,1299,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11567	.	A	T	3132	PASS	2216	0.086191	0	"2023,0,191,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11302A>T	p.Ile3768Phe	11302/21291	11302/21291	3768/7096	3768	7096		",T"	I3768F	A11567T	I3768F	ORF1AB:I3768F	3768	ORF1a	I3768F	ORF1A:I3768F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11602	.	A	G	1839	PASS	2149	0.08376	0	"1965,0,180,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11337A>G	p.Ile3779Met	11337/21291	11337/21291	3779/7096	3779	7096		",G"	I3779M	A11602G	I3779M	ORF1AB:I3779M	3779	ORF1a	I3779M	ORF1A:I3779M	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11653	.	CT	C	5562	PASS	2017	0.100645	0	"1814,0,203,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11392delT	p.Cys3798fs	11392/21291	11392/21291	3798/7096	3798	7096		"INFO_REALIGN_3_PRIME,C"	del3798	CT11653C	del3798	ORF1AB:DEL3798	3798	ORF1a	del3798	ORF1A:DEL3798	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	11704	.	C	T	4573	PASS	1433	0.155618	0	"1207,0,223,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11439C>T	p.Tyr3813Tyr	11439/21291	11439/21291	3813/7096	3813	7096		",T"	Y3813Y	C11704T	Y3813Y	ORF1AB:Y3813Y	3813	ORF1a	Y3813Y	ORF1A:Y3813Y	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	12196	.	TA	T	4087	PASS	672	0.205357	0	"534,0,138,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11936delA	p.Lys3979fs	11936/21291	11936/21291	3979/7096	3979	7096		"INFO_REALIGN_3_PRIME,T"	del3979	TA12196T	del3979	ORF1AB:DEL3979	3979	ORF1a	del3979	ORF1A:DEL3979	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	12880	.	C	T	510	PASS	3515	0.017923	0	"3449,0,63,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12615C>T	p.Ile4205Ile	12615/21291	12615/21291	4205/7096	4205	7096		",T"	I4205I	C12880T	I4205I	ORF1AB:I4205I	4205	ORF1a	I4205I	ORF1A:I4205I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13296	.	A	G	88	PASS	4676	0.007057	0	"4633,0,33,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13031A>G	p.Asp4344Gly	13031/21291	13031/21291	4344/7096	4344	7096		",G"	D4344G	A13296G	D4344G	ORF1AB:D4344G	4344	ORF1a	D4344G	ORF1A:D4344G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13344	.	C	A	132	PASS	3787	0.008714	0	"3752,0,33,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13079C>A	p.Pro4360His	13079/21291	13079/21291	4360/7096	4360	7096		",A"	P4360H	C13344A	P4360H	ORF1AB:P4360H	4360	ORF1a	P4360H	ORF1A:P4360H	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13459	.	G	GT	6996	PASS	3570	0.077031	0	"3340,0,275,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13199dupT	p.Leu4400fs	13200/21291	13200/21291	4400/7096	4400	7096		"INFO_REALIGN_3_PRIME,GT"	del4400	G13459GT	del4400	ORF1AB:DEL4400	4400	ORF1a	del4400	ORF1A:DEL4400	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13485	.	TG	T	4338	PASS	3416	0.053279	0	"3256,0,182,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13222delG	p.Ala4408fs	13222/21291	13222/21291	4408/7096	4408	7096		",T"	del4408	TG13485T	del4408	ORF1AB:DEL4408	7	ORF1b	del7	ORF1B:DEL7	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13489	.	G	C	870	PASS	3281	0.028345	0	"3186,0,93,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13225G>C	p.Ala4409Pro	13225/21291	13225/21291	4409/7096	4409	7096		",C"	A4409P	G13489C	A4409P	ORF1AB:A4409P	8	ORF1b	A8P	ORF1B:A8P	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13506	.	C	T	72	PASS	2931	0.006482	0	"2904,0,19,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13242C>T	p.Cys4414Cys	13242/21291	13242/21291	4414/7096	4414	7096		",T"	C4414C	C13506T	C4414C	ORF1AB:C4414C	13	ORF1b	C13C	ORF1B:C13C	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13517	.	C	T	18804	PASS	2902	0.270158	0	"2114,0,784,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13571	.	GT	G	797	PASS	1936	0.019112	0	"1922,0,37,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13311delT	p.Phe4437fs	13311/21291	13311/21291	4437/7096	4437	7096		"INFO_REALIGN_3_PRIME,G"	del4437	GT13571G	del4437	ORF1AB:DEL4437	36	ORF1b	del36	ORF1B:DEL36	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	13993	.	G	T	35068	PASS	1888	0.629767	0	"697,0,1189,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	14024	.	CCATG	C	57	PASS	1640	0.002439	0	"1637,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13762_13765delATGC	p.Met4588fs	13762/21291	13762/21291	4588/7096	4588	7096		"INFO_REALIGN_3_PRIME,C"	del4588	CCATG14024C	del4588	ORF1AB:DEL4588	187	ORF1b	del187	ORF1B:DEL187	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	14408	.	C	T	3857	PASS	108	1	2147483647	"0,0,108,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	14676	.	C	T	7077	PASS	1575	0.213333	0	"1230,0,336,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14412C>T	p.Pro4804Pro	14412/21291	14412/21291	4804/7096	4804	7096		",T"	P4804P	C14676T	P4804P	ORF1AB:P4804P	403	ORF1b	P403P	ORF1B:P403P	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	14745	.	T	C	3492	PASS	1852	0.116631	0	"1629,0,216,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14481T>C	p.Val4827Val	14481/21291	14481/21291	4827/7096	4827	7096		",C"	V4827V	T14745C	V4827V	ORF1AB:V4827V	426	ORF1b	V426V	ORF1B:V426V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	15216	.	C	CA	1068	PASS	2357	0.020365	0	"2309,0,48,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14955dupA	p.Phe4986fs	14956/21291	14956/21291	4986/7096	4986	7096		"INFO_REALIGN_3_PRIME,CA"	del4986	C15216CA	del4986	ORF1AB:DEL4986	585	ORF1b	del585	ORF1B:DEL585	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	15279	.	C	T	3995	PASS	1683	0.139632	0	"1443,0,235,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15015C>T	p.His5005His	15015/21291	15015/21291	5005/7096	5005	7096		",T"	H5005H	C15279T	H5005H	ORF1AB:H5005H	604	ORF1b	H604H	ORF1B:H604H	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	15341	.	C	T	476	PASS	1080	0.049074	0	"1016,0,53,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15077C>T	p.Ala5026Val	15077/21291	15077/21291	5026/7096	5026	7096		",T"	A5026V	C15341T	A5026V	ORF1AB:A5026V	625	ORF1b	A625V	ORF1B:A625V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	15766	.	G	T	24843	PASS	1094	0.734918	0	"288,0,804,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	15830	.	CA	C	1192	PASS	825	0.05697	0	"778,0,47,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15570delA	p.Lys5190fs	15570/21291	15570/21291	5190/7096	5190	7096		"INFO_REALIGN_3_PRIME,C"	del5190	CA15830C	del5190	ORF1AB:DEL5190	789	ORF1b	del789	ORF1B:DEL789	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	16597	.	AT	A	68	PASS	4236	0.001416	0	"4234,0,6,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16337delT	p.Leu5446fs	16337/21291	16337/21291	5446/7096	5446	7096		"INFO_REALIGN_3_PRIME,A"	del5446	AT16597A	del5446	ORF1AB:DEL5446	1045	ORF1b	del1045	ORF1B:DEL1045	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	16829	.	A	T	2435	PASS	4015	0.049564	0	"3812,0,199,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16565A>T	p.Tyr5522Phe	16565/21291	16565/21291	5522/7096	5522	7096		",T"	Y5522F	A16829T	Y5522F	ORF1AB:Y5522F	1121	ORF1b	Y1121F	ORF1B:Y1121F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	16889	.	A	G	49314	PASS	3496	0.733696	0	"924,0,2565,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	16911	.	T	C	177	PASS	3175	0.010394	0	"3140,0,33,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16647T>C	p.Phe5549Phe	16647/21291	16647/21291	5549/7096	5549	7096		",C"	F5549F	T16911C	F5549F	ORF1AB:F5549F	1148	ORF1b	F1148F	ORF1B:F1148F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	16975	.	GT	G	51	PASS	2822	0.001417	0	"2855,0,4,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16713delT	p.Arg5572fs	16713/21291	16713/21291	5571/7096	5571	7096		"INFO_REALIGN_3_PRIME,G"	del5572	GT16975G	del5572	ORF1AB:DEL5572	1171	ORF1b	del1171	ORF1B:DEL1171	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	17019	.	G	T	37991	PASS	1861	0.675443	0	"601,0,1257,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	17649	.	C	T	1502	PASS	2606	0.049501	0	"2467,0,129,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17385C>T	p.Cys5795Cys	17385/21291	17385/21291	5795/7096	5795	7096		",T"	C5795C	C17649T	C5795C	ORF1AB:C5795C	1394	ORF1b	C1394C	ORF1B:C1394C	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	18184	.	A	T	1269	PASS	2247	0.047619	0	"2139,0,107,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17920A>T	p.Met5974Leu	17920/21291	17920/21291	5974/7096	5974	7096		",T"	M5974L	A18184T	M5974L	ORF1AB:M5974L	1573	ORF1b	M1573L	ORF1B:M1573L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	18232	.	C	G	780	PASS	1544	0.042746	0	"1477,0,66,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17968C>G	p.Gln5990Glu	17968/21291	17968/21291	5990/7096	5990	7096		",G"	Q5990E	C18232G	Q5990E	ORF1AB:Q5990E	1589	ORF1b	Q1589E	ORF1B:Q1589E	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	18502	.	AAAGGACTTCCTT	A	277	PASS	765	0.016993	0	"755,0,13,0"	TRUE	A	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18239_18250delAAGGACTTCCTT	p.Lys6080_Trp6084delinsArg	18239/21291	18239/21291	6080/7096	6080	7096		",A"	indel	AAAGGACTTCCTT18502A	NA	NA	NA	ORF1b	NA	NA	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	18877	.	C	T	49314	PASS	2707	0.828593	0	"457,0,2243,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	19354	.	TTA	T	1823	PASS	3007	0.027935	0	"2987,0,84,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19091_19092delTA	p.Leu6364fs	19091/21291	19091/21291	6364/7096	6364	7096		",T"	del6364	TTA19354T	del6364	ORF1AB:DEL6364	1963	ORF1b	del1963	ORF1B:DEL1963	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	19386	.	C	T	387	PASS	2743	0.019686	0	"2684,0,54,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19122C>T	p.Asp6374Asp	19122/21291	19122/21291	6374/7096	6374	7096		",T"	D6374D	C19386T	D6374D	ORF1AB:D6374D	1973	ORF1b	D1973D	ORF1B:D1973D	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	19645	.	G	T	6899	PASS	2293	0.150022	0	"1947,0,344,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.19381G>T	p.Val6461Phe	19381/21291	19381/21291	6461/7096	6461	7096		",T"	V6461F	G19645T	V6461F	ORF1AB:V6461F	2060	ORF1b	V2060F	ORF1B:V2060F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	20338	.	TTTA	T	667	PASS	219	0.114155	0	"194,0,25,0"	TRUE	T	disruptive_inframe_deletion	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20075_20077delTTA	p.Phe6692_Ser6693delinsCys	20075/21291	20075/21291	6692/7096	6692	7096		",T"	indel	TTTA20338T	NA	NA	NA	ORF1b	NA	NA	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	20620	.	A	G	135	PASS	2714	0.011791	0	"2677,0,32,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20356A>G	p.Lys6786Glu	20356/21291	20356/21291	6786/7096	6786	7096		",G"	K6786E	A20620G	K6786E	ORF1AB:K6786E	2385	ORF1b	K2385E	ORF1B:K2385E	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	20846	.	ATAATATGAGAGTT	A	2699	PASS	2819	0.041149	0	"2743,0,116,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20583_20595delTAATATGAGAGTT	p.Tyr6861fs	20583/21291	20583/21291	6861/7096	6861	7096		",A"	del6861	ATAATATGAGAGTT20846A	del6861	ORF1AB:DEL6861	2460	ORF1b	del2460	ORF1B:DEL2460	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	21024	.	TA	T	50	PASS	2751	0.001454	0	"2756,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20763delA	p.Lys6921fs	20763/21291	20763/21291	6921/7096	6921	7096		"INFO_REALIGN_3_PRIME,T"	del6921	TA21024T	del6921	ORF1AB:DEL6921	2520	ORF1b	del2520	ORF1B:DEL2520	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	21154	.	T	C	176	PASS	2023	0.016807	0	"1982,0,34,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20890T>C	p.Ser6964Pro	20890/21291	20890/21291	6964/7096	6964	7096		",C"	S6964P	T21154C	S6964P	ORF1AB:S6964P	2563	ORF1b	S2563P	ORF1B:S2563P	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	21575	.	C	T	4864	PASS	2151	0.121339	0	"1888,0,261,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.13C>T	p.Leu5Phe	13/3822	13/3822	5/1273	5	1273		",T"	L5F	C21575T	L5F	S:L5F	5	S	L5F	S:L5F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	21592	.	A	G	3874	PASS	2201	0.101318	0	"1976,0,223,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.30A>G	p.Leu10Leu	30/3822	30/3822	10/1273	10	1273		",G"	L10L	A21592G	L10L	S:L10L	10	S	L10L	S:L10L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	21638	.	C	T	2937	PASS	1814	0.105292	0	"1616,0,191,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.76C>T	p.Pro26Ser	76/3822	76/3822	26/1273	26	1273		",T"	P26S	C21638T	P26S	S:P26S	26	S	P26S	S:P26S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	21691	.	C	T	3491	PASS	1264	0.141614	0	"1082,0,179,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.129C>T	p.Phe43Phe	129/3822	129/3822	43/1273	43	1273		",T"	F43F	C21691T	F43F	S:F43F	43	S	F43F	S:F43F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	21855	.	C	T	2773	PASS	1223	0.118561	0	"1075,0,145,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.293C>T	p.Ser98Phe	293/3822	293/3822	98/1273	98	1273		",T"	S98F	C21855T	S98F	S:S98F	98	S	S98F	S:S98F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	21930	.	C	T	15001	PASS	1256	0.453822	0	"685,0,570,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.368C>T	p.Ala123Val	368/3822	368/3822	123/1273	123	1273		",T"	A123V	C21930T	A123V	S:A123V	123	S	A123V	S:A123V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	22227	.	C	T	814	PASS	531	0.099812	0	"478,0,53,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	22747	.	C	T	374	PASS	537	0.061453	0	"503,0,33,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1185C>T	p.Val395Val	1185/3822	1185/3822	395/1273	395	1273		",T"	V395V	C22747T	V395V	S:V395V	395	S	V395V	S:V395V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	22992	.	G	A	18791	PASS	860	0.719767	0	"240,0,619,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	23196	.	G	T	732	PASS	911	0.064764	0	"851,0,59,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1634G>T	p.Gly545Val	1634/3822	1634/3822	545/1273	545	1273		",T"	G545V	G23196T	G545V	S:G545V	545	S	G545V	S:G545V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	23230	.	CA	C	590	PASS	969	0.028896	0	"941,0,28,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1673delA	p.Lys558fs	1673/3822	1673/3822	558/1273	558	1273		"INFO_REALIGN_3_PRIME,C"	del558	CA23230C	del558	S:DEL558	558	S	del558	S:DEL558	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	23375	.	T	C	612	PASS	920	0.051087	0	"873,0,47,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1813T>C	p.Ser605Pro	1813/3822	1813/3822	605/1273	605	1273		",C"	S605P	T23375C	S605P	S:S605P	605	S	S605P	S:S605P	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	23403	.	A	G	32920	PASS	982	0.997963	2147483647	"0,0,980,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	23903	.	G	GT	893	PASS	944	0.041314	0	"923,0,39,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2346dupT	p.Ala783fs	2347/3822	2347/3822	783/1273	783	1273		"INFO_REALIGN_3_PRIME,GT"	del783	G23903GT	del783	S:DEL783	783	S	del783	S:DEL783	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	24393	.	CA	C	737	PASS	1232	0.025974	0	"1200,0,32,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2832delA	p.Gly946fs	2832/3822	2832/3822	944/1273	944	1273		",C"	del946	CA24393C	del946	S:DEL946	946	S	del946	S:DEL946	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	24506	.	T	G	2516	PASS	1919	0.079208	0	"1765,0,152,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	24594	.	A	G	1641	PASS	2165	0.059584	0	"2031,0,129,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3032A>G	p.Gln1011Arg	3032/3822	3032/3822	1011/1273	1011	1273		",G"	Q1011R	A24594G	Q1011R	S:Q1011R	1011	S	Q1011R	S:Q1011R	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	24914	.	G	C	3180	PASS	2488	0.084807	0	"2272,0,211,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25126	.	G	A	13250	PASS	2568	0.22352	0	"1988,0,574,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3564G>A	p.Glu1188Glu	3564/3822	3564/3822	1188/1273	1188	1273		",A"	E1188E	G25126A	E1188E	S:E1188E	1188	S	E1188E	S:E1188E	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25225	.	A	C	103	PASS	2357	0.016546	0	"2312,0,39,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3663A>C	p.Ile1221Ile	3663/3822	3663/3822	1221/1273	1221	1273		",C"	I1221I	A25225C	I1221I	S:I1221I	1221	S	I1221I	S:I1221I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25228	.	T	G	76	PASS	2359	0.016532	0	"2318,0,39,0"	FALSE	G	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3666T>G	p.Ala1222Ala	3666/3822	3666/3822	1222/1273	1222	1273		",G"	A1222A	T25228G	A1222A	S:A1222A	1222	S	A1222A	S:A1222A	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25240	.	C	A	73	PASS	2440	0.015574	0	"2399,0,38,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25247	.	A	T	118	PASS	2565	0.021442	0	"2503,0,55,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25254	.	C	A	159	PASS	2710	0.020295	0	"2653,0,55,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3692C>A	p.Thr1231Lys	3692/3822	3692/3822	1231/1273	1231	1273		",A"	T1231K	C25254A	T1231K	S:T1231K	1231	S	T1231K	S:T1231K	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25277	.	A	T	165	PASS	2549	0.027462	0	"2450,0,70,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25280	.	T	G	93	PASS	2616	0.019878	0	"2560,0,52,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25286	.	A	T	106	PASS	2708	0.024742	0	"2600,0,67,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3724A>T	p.Ser1242Cys	3724/3822	3724/3822	1242/1273	1242	1273		",T"	S1242C	A25286T	S1242C	S:S1242C	1242	S	S1242C	S:S1242C	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25296	.	A	C	248	PASS	2687	0.037961	0	"2530,0,102,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25301	.	T	G	240	PASS	2666	0.034509	0	"2574,0,92,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25312	.	T	G	112	PASS	2724	0.024596	0	"2652,0,67,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25314	.	G	T	95	PASS	2723	0.023871	0	"2644,0,65,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25324	.	C	A	1175	PASS	2740	0.071168	0	"2543,0,195,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25327	.	A	T	183	PASS	2701	0.027397	0	"2627,0,74,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25334	.	G	T	69	PASS	2658	0.026336	0	"2535,0,70,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25336	.	A	C	417	PASS	2677	0.051924	0	"2512,0,139,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25337	.	G	C	73	PASS	2570	0.024125	0	"2500,0,62,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3775G>C	p.Asp1259His	3775/3822	3775/3822	1259/1273	1259	1273		",C"	D1259H	G25337C	D1259H	S:D1259H	1259	S	D1259H	S:D1259H	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25505	.	A	G	3680	PASS	2195	0.110706	0	"1943,0,243,0"	FALSE	G	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.113A>G	p.Gln38Arg	113/828	113/828	38/275	38	275		",G"	Q38R	A25505G	Q38R	ORF3A:Q38R	38	ORF3a	Q38R	ORF3A:Q38R	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25563	.	G	T	37119	PASS	2133	0.586967	0	"879,0,1252,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25564	.	A	C	111	PASS	2126	0.014111	0	"2091,0,30,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.172A>C	p.Ser58Arg	172/828	172/828	58/275	58	275		",C"	S58R	A25564C	S58R	ORF3A:S58R	58	ORF3a	S58R	ORF3A:S58R	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25577	.	T	C	1961	PASS	2185	0.064073	0	"2041,0,140,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.185T>C	p.Ile62Thr	185/828	185/828	62/275	62	275		",C"	I62T	T25577C	I62T	ORF3A:I62T	62	ORF3a	I62T	ORF3A:I62T	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25587	.	CAA	C	237	PASS	2248	0.006673	0	"2233,0,15,0"	TRUE	C	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.199_200delAA	p.Lys67fs	199/828	199/828	67/275	67	275		"INFO_REALIGN_3_PRIME,C"	del67	CAA25587C	del67	ORF3A:DEL67	67	ORF3a	del67	ORF3A:DEL67	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25710	.	C	T	24638	PASS	1333	0.618905	0	"504,0,825,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25793	.	G	T	444	PASS	601	0.058236	0	"565,0,35,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.401G>T	p.Arg134Leu	401/828	401/828	134/275	134	275		",T"	R134L	G25793T	R134L	ORF3A:R134L	134	ORF3a	R134L	ORF3A:R134L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25808	.	T	C	271	PASS	649	0.043143	0	"621,0,28,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.416T>C	p.Leu139Ser	416/828	416/828	139/275	139	275		",C"	L139S	T25808C	L139S	ORF3A:L139S	139	ORF3a	L139S	ORF3A:L139S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25886	.	C	T	3601	PASS	658	0.232523	0	"505,0,153,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	25928	.	T	C	256	PASS	713	0.039271	0	"685,0,28,0"	FALSE	C	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.536T>C	p.Ile179Thr	536/828	536/828	179/275	179	275		",C"	I179T	T25928C	I179T	ORF3A:I179T	179	ORF3a	I179T	ORF3A:I179T	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	26007	.	T	C	353	PASS	751	0.04261	0	"716,0,32,0"	FALSE	C	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.615T>C	p.Ser205Ser	615/828	615/828	205/275	205	275		",C"	S205S	T26007C	S205S	ORF3A:S205S	205	ORF3a	S205S	ORF3A:S205S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	26062	.	G	T	188	PASS	674	0.032641	0	"652,0,22,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	26305	.	C	T	2710	PASS	2918	0.070254	0	"2708,0,205,0"	FALSE	T	missense_variant	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.61C>T	p.Leu21Phe	61/228	61/228	21/75	21	75		",T"	L21F	C26305T	L21F	E:L21F	21	E	L21F	E:L21F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	26537	.	C	T	2763	PASS	4238	0.051203	0	"4012,0,217,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.15C>T	p.Asn5Asn	15/669	15/669	5/222	5	222		",T"	N5N	C26537T	N5N	M:N5N	5	M	N5N	M:N5N	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	26735	.	C	T	49314	PASS	3438	0.644561	0	"1216,0,2216,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	26801	.	C	G	24218	PASS	2969	0.316605	0	"2027,0,940,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	26876	.	T	C	29678	PASS	1682	0.604637	0	"663,0,1017,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	26907	.	C	T	13555	PASS	1138	0.442004	0	"629,0,503,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.385C>T	p.Leu129Leu	385/669	385/669	129/222	129	222		",T"	L129L	C26907T	L129L	M:L129L	129	M	L129L	M:L129L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27342	.	T	C	15830	PASS	3108	0.223938	0	"2405,0,696,0"	FALSE	C	synonymous_variant	LOW	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.141T>C	p.Asn47Asn	141/186	141/186	47/61	47	61		",C"	N47N	T27342C	N47N	ORF6:N47N	47	ORF6	N47N	ORF6:N47N	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27352	.	C	CA	390	PASS	3110	0.007074	0	"3088,0,22,0"	TRUE	CA	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.153dupA	p.Leu52fs	154/186	154/186	52/61	52	61		"INFO_REALIGN_3_PRIME,CA"	del52	C27352CA	del52	ORF6:DEL52	52	ORF6	del52	ORF6:DEL52	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27364	.	GA	G	826	PASS	3258	0.012891	0	"3218,0,42,0"	TRUE	G	frameshift_variant	HIGH	ORF6	GU280_gp06	transcript	GU280_gp06	protein_coding	1/1	c.164delA	p.Glu55fs	164/186	164/186	55/61	55	61		",G"	del55	GA27364G	del55	ORF6:DEL55	55	ORF6	del55	ORF6:DEL55	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27584	.	C	CT	5549	PASS	3932	0.055443	0	"3715,0,218,0"	TRUE	CT	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.195dupT	p.Ala66fs	196/366	196/366	66/121	66	121		"INFO_REALIGN_3_PRIME,CT"	del66	C27584CT	del66	ORF7A:DEL66	66	ORF7a	del66	ORF7A:DEL66	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27836	.	CT	C	4985	PASS	3602	0.055525	0	"3403,0,200,0"	TRUE	C	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.85delT	p.Trp29fs	85/132	85/132	29/43	29	43		"INFO_REALIGN_3_PRIME,C"	del29	CT27836C	del29	ORF7B:DEL29	29	ORF7b	del29	ORF7B:DEL29	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27837	.	T	C	238	PASS	3614	0.013282	0	"3365,0,48,0"	FALSE	C	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.82T>C	p.Phe28Leu	82/132	82/132	28/43	28	43		",C"	F28L	T27837C	F28L	ORF7B:F28L	28	ORF7b	F28L	ORF7B:F28L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27881	.	C	T	1120	PASS	3651	0.031498	0	"3531,0,115,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27899	.	A	T	736	PASS	3778	0.025675	0	"3679,0,97,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.6A>T	p.Lys2Asn	6/366	6/366	2/121	2	121		",T"	K2N	A27899T	K2N	ORF8:K2N	2	ORF8	K2N	ORF8:K2N	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27944	.	C	T	32806	PASS	3409	0.36521	0	"2154,0,1245,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	27972	.	C	T	3949	PASS	2866	0.084089	0	"2623,0,241,0"	FALSE	T	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.79C>T	p.Gln27*	79/366	79/366	27/121	27	121		",T"	Q27*	C27972T	Q27*	ORF8:Q27*	27	ORF8	Q27*	ORF8:Q27*	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28026	.	T	A	151	PASS	2016	0.012897	0	"1989,0,26,0"	FALSE	A	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.133T>A	p.Trp45Arg	133/366	133/366	45/121	45	121		",A"	W45R	T28026A	W45R	ORF8:W45R	45	ORF8	W45R	ORF8:W45R	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28027	.	G	T	125	PASS	1947	0.014895	0	"1915,0,29,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.134G>T	p.Trp45Leu	134/366	134/366	45/121	45	121		",T"	W45L	G28027T	W45L	ORF8:W45L	45	ORF8	W45L	ORF8:W45L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28028	.	G	A	115	PASS	2001	0.012994	0	"1975,0,26,0"	FALSE	A	stop_gained	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.135G>A	p.Trp45*	135/366	135/366	45/121	45	121		",A"	W45*	G28028A	W45*	ORF8:W45*	45	ORF8	W45*	ORF8:W45*	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28048	.	G	T	162	PASS	1884	0.014862	0	"1855,0,28,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.155G>T	p.Arg52Ile	155/366	155/366	52/121	52	121		",T"	R52I	G28048T	R52I	ORF8:R52I	52	ORF8	R52I	ORF8:R52I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28069	.	A	G	210	PASS	1839	0.019032	0	"1803,0,35,0"	FALSE	G	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.176A>G	p.Glu59Gly	176/366	176/366	59/121	59	121		",G"	E59G	A28069G	E59G	ORF8:E59G	59	ORF8	E59G	ORF8:E59G	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28153	.	CAA	C	1663	PASS	2010	0.036318	0	"1938,0,73,0"	TRUE	C	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.261_262delAA	p.Ile88fs	261/366	261/366	87/121	87	121		",C"	del88	CAA28153C	del88	ORF8:DEL88	88	ORF8	del88	ORF8:DEL88	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28179	.	G	T	383	PASS	2052	0.029727	0	"1991,0,61,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.286G>T	p.Gly96Cys	286/366	286/366	96/121	96	121		",T"	G96C	G28179T	G96C	ORF8:G96C	96	ORF8	G96C	ORF8:G96C	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28214	.	C	CT	2627	PASS	1995	0.053634	0	"1888,0,107,0"	TRUE	CT	frameshift_variant	HIGH	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.326dupT	p.Leu109fs	327/366	327/366	109/121	109	121		"INFO_REALIGN_3_PRIME,CT"	del109	C28214CT	del109	ORF8:DEL109	109	ORF8	del109	ORF8:DEL109	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28300	.	G	T	4843	PASS	2299	0.123532	0	"2012,0,284,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.27G>T	p.Gln9His	27/1260	27/1260	9/419	9	419		",T"	Q9H	G28300T	Q9H	N:Q9H	9	N	Q9H	N:Q9H	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28567	.	C	T	874	PASS	3458	0.029497	0	"3350,0,102,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.294C>T	p.Asp98Asp	294/1260	294/1260	98/419	98	419		",T"	D98D	C28567T	D98D	N:D98D	98	N	D98D	N:D98D	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28651	.	C	T	431	PASS	3584	0.018136	0	"3511,0,65,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28754	.	CT	C	5880	PASS	5364	0.045488	0	"5120,0,244,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.483delT	p.Pro162fs	483/1260	483/1260	161/419	161	419		"INFO_REALIGN_3_PRIME,C"	del162	CT28754C	del162	N:DEL162	162	N	del162	N:DEL162	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28881	.	G	A	2410	PASS	5106	0.04622	0	"4855,0,236,0"	FALSE	A	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.608G>A	p.Arg203Lys	608/1260	608/1260	203/419	203	419		",A"	R203K	G28881A	R203K	N:R203K	203	N	R203K	N:R203K	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28882	.	G	A	2032	PASS	5133	0.045782	0	"4878,0,235,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.609G>A	p.Arg203Arg	609/1260	609/1260	203/419	203	419		",A"	R203R	G28882A	R203R	N:R203R	203	N	R203R	N:R203R	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28883	.	G	C	2538	PASS	5117	0.04827	0	"4856,0,247,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.610G>C	p.Gly204Arg	610/1260	610/1260	204/419	204	419		",C"	G204R	G28883C	G204R	N:G204R	204	N	G204R	N:G204R	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28932	.	C	T	49314	PASS	5014	0.419027	0	"2903,0,2101,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28969	.	CA	C	3867	PASS	4768	0.035025	0	"4601,0,167,0"	TRUE	C	frameshift_variant	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.700delA	p.Met234fs	700/1260	700/1260	234/419	234	419		"INFO_REALIGN_3_PRIME,C"	del234	CA28969C	del234	N:DEL234	234	N	del234	N:DEL234	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28975	.	G	C	49314	PASS	4765	0.512907	0	"2312,0,2444,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28977	.	C	T	2994	PASS	4596	0.050914	0	"4356,0,234,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.704C>T	p.Ser235Phe	704/1260	704/1260	235/419	235	419		",T"	S235F	C28977T	S235F	N:S235F	235	N	S235F	N:S235F	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28978	.	T	A	3135	PASS	4601	0.051076	0	"4361,0,235,0"	FALSE	A	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.705T>A	p.Ser235Ser	705/1260	705/1260	235/419	235	419		",A"	S235S	T28978A	S235S	N:S235S	235	N	S235S	N:S235S	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	28987	.	CCAA	C	195	PASS	4346	0.002991	0	"4354,0,13,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	29026	.	T	G	525	PASS	4278	0.022908	0	"4175,0,98,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.753T>G	p.Ala251Ala	753/1260	753/1260	251/419	251	419		",G"	A251A	T29026G	A251A	N:A251A	251	N	A251A	N:A251A	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-1	NC_045512.2	29081	.	G	C	898	PASS	3828	0.032654	0	"3700,0,125,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.808G>C	p.Val270Leu	808/1260	808/1260	270/419	270	419		",C"	V270L	G29081C	V270L	N:V270L	270	N	V270L	N:V270L	WIL38-1	WILTZ	2020-12-13T00:00:00Z	30.3655	33.72	x	1022021	2020-12-13
WIL38-2	NC_045512.2	59	.	CT	C	686	PASS	291	0.089347	0	"265,0,26,0"	TRUE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-206delT						NA	206	",C"	del	CT59C	del	ORF1AB:DEL	NA	NA	del	NA:DEL	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	91	.	G	C	2003	PASS	703	0.14936	0	"596,0,105,0"	FALSE	C	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-175G>C						NA	175	",C"		G91C		NA	NA	NA		NA	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	204	.	G	T	49314	PASS	2569	0.801868	0	"499,0,2060,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-62G>T						NA	62	",T"		G204T		NA	NA	NA		NA	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	241	.	C	T	49314	PASS	2882	0.997224	2147483647	"0,0,2874,0"	FALSE	T	upstream_gene_variant	MODIFIER	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding		c.-25C>T						NA	25	",T"		C241T		NA	NA	NA		NA	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	377	.	G	T	3989	PASS	3298	0.080958	0	"3026,0,267,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.112G>T	p.Val38Phe	112/21291	112/21291	38/7096	38	7096		",T"	V38F	G377T	V38F	ORF1AB:V38F	38	ORF1a	V38F	ORF1A:V38F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	445	.	T	C	49314	PASS	3441	0.892473	0	"365,0,3071,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.180T>C	p.Val60Val	180/21291	180/21291	60/7096	60	7096		",C"	V60V	T445C	V60V	ORF1AB:V60V	60	ORF1a	V60V	ORF1A:V60V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	502	.	A	C	3070	PASS	3536	0.088518	0	"3208,0,313,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.237A>C	p.Ala79Ala	237/21291	237/21291	79/7096	79	7096		",C"	A79A	A502C	A79A	ORF1AB:A79A	79	ORF1a	A79A	ORF1A:A79A	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	583	.	C	T	1319	PASS	2955	0.041286	0	"2825,0,122,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.318C>T	p.Val106Val	318/21291	318/21291	106/7096	106	7096		",T"	V106V	C583T	V106V	ORF1AB:V106V	106	ORF1a	V106V	ORF1A:V106V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	593	.	C	T	5261	PASS	2748	0.106987	0	"2447,0,294,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.328C>T	p.His110Tyr	328/21291	328/21291	110/7096	110	7096		",T"	H110Y	C593T	H110Y	ORF1AB:H110Y	110	ORF1a	H110Y	ORF1A:H110Y	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	802	.	A	C	111	PASS	2382	0.010915	0	"2338,0,26,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.537A>C	p.Gly179Gly	537/21291	537/21291	179/7096	179	7096		",C"	G179G	A802C	G179G	ORF1AB:G179G	179	ORF1a	G179G	ORF1A:G179G	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	1142	.	C	T	16646	PASS	1850	0.376216	0	"1147,0,696,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.877C>T	p.Leu293Phe	877/21291	877/21291	293/7096	293	7096		",T"	L293F	C1142T	L293F	ORF1AB:L293F	293	ORF1a	L293F	ORF1A:L293F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	1547	.	A	T	6176	PASS	2613	0.135859	0	"2253,0,355,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.1282A>T	p.Ser428Cys	1282/21291	1282/21291	428/7096	428	7096		",T"	S428C	A1547T	S428C	ORF1AB:S428C	428	ORF1a	S428C	ORF1A:S428C	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	2710	.	C	T	3453	PASS	1163	0.149613	0	"989,0,174,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2445C>T	p.Leu815Leu	2445/21291	2445/21291	815/7096	815	7096		",T"	L815L	C2710T	L815L	ORF1AB:L815L	815	ORF1a	L815L	ORF1A:L815L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	3037	.	C	T	28215	PASS	817	0.998776	2147483647	"0,0,816,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.2772C>T	p.Phe924Phe	2772/21291	2772/21291	924/7096	924	7096		",T"	F924F	C3037T	F924F	ORF1AB:F924F	924	ORF1a	F924F	ORF1A:F924F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	3592	.	T	C	1053	PASS	58	0.655172	0	"20,0,38,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3327T>C	p.Asn1109Asn	3327/21291	3327/21291	1109/7096	1109	7096		",C"	N1109N	T3592C	N1109N	ORF1AB:N1109N	1109	ORF1a	N1109N	ORF1A:N1109N	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	4161	.	TG	T	51	PASS	84	0.02381	0	"82,0,2,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3898delG	p.Val1300fs	3898/21291	3898/21291	1300/7096	1300	7096		"INFO_REALIGN_3_PRIME,T"	del1300	TG4161T	del1300	ORF1AB:DEL1300	1300	ORF1a	del1300	ORF1A:DEL1300	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	4212	.	CT	C	106	PASS	118	0.033898	0	"114,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.3950delT	p.Leu1317fs	3950/21291	3950/21291	1317/7096	1317	7096		"INFO_REALIGN_3_PRIME,C"	del1317	CT4212C	del1317	ORF1AB:DEL1317	1317	ORF1a	del1317	ORF1A:DEL1317	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	4543	.	C	T	2223	PASS	182	0.472527	0	"94,0,86,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4278C>T	p.Thr1426Thr	4278/21291	4278/21291	1426/7096	1426	7096		",T"	T1426T	C4543T	T1426T	ORF1AB:T1426T	1426	ORF1a	T1426T	ORF1A:T1426T	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	5044	.	G	GT	7951	PASS	1846	0.147887	0	"1592,0,273,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.4782dupT	p.Gly1595fs	4783/21291	4783/21291	1595/7096	1595	7096		"INFO_REALIGN_3_PRIME,GT"	del1595	G5044GT	del1595	ORF1AB:DEL1595	1595	ORF1a	del1595	ORF1A:DEL1595	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	5629	.	G	T	2917	PASS	666	0.198198	0	"531,0,132,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5364G>T	p.Thr1788Thr	5364/21291	5364/21291	1788/7096	1788	7096		",T"	T1788T	G5629T	T1788T	ORF1AB:T1788T	1788	ORF1a	T1788T	ORF1A:T1788T	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	5796	.	CT	C	2157	PASS	532	0.140977	0	"457,0,75,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5534delT	p.Leu1845fs	5534/21291	5534/21291	1845/7096	1845	7096		"INFO_REALIGN_3_PRIME,C"	del1845	CT5796C	del1845	ORF1AB:DEL1845	1845	ORF1a	del1845	ORF1A:DEL1845	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	5861	.	G	GT	1896	PASS	417	0.155875	0	"359,0,65,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5600dupT	p.Tyr1868fs	5601/21291	5601/21291	1867/7096	1867	7096		"INFO_REALIGN_3_PRIME,GT"	del1868	G5861GT	del1868	ORF1AB:DEL1868	1868	ORF1a	del1868	ORF1A:DEL1868	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	5873	.	GA	G	117	PASS	498	0.012048	0	"493,0,6,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5612delA	p.Asn1871fs	5612/21291	5612/21291	1871/7096	1871	7096		"INFO_REALIGN_3_PRIME,G"	del1871	GA5873G	del1871	ORF1AB:DEL1871	1871	ORF1a	del1871	ORF1A:DEL1871	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	6070	.	CA	C	1467	PASS	628	0.08758	0	"573,0,55,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.5808delA	p.Lys1936fs	5808/21291	5808/21291	1936/7096	1936	7096		"INFO_REALIGN_3_PRIME,C"	del1936	CA6070C	del1936	ORF1AB:DEL1936	1936	ORF1a	del1936	ORF1A:DEL1936	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	6286	.	C	T	12153	PASS	870	0.493103	0	"440,0,429,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6021C>T	p.Thr2007Thr	6021/21291	6021/21291	2007/7096	2007	7096		",T"	T2007T	C6286T	T2007T	ORF1AB:T2007T	2007	ORF1a	T2007T	ORF1A:T2007T	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	6483	.	G	T	1119	PASS	828	0.085749	0	"757,0,71,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6218G>T	p.Gly2073Val	6218/21291	6218/21291	2073/7096	2073	7096		",T"	G2073V	G6483T	G2073V	ORF1AB:G2073V	2073	ORF1a	G2073V	ORF1A:G2073V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	6504	.	C	T	462	PASS	853	0.046893	0	"813,0,40,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6239C>T	p.Ala2080Val	6239/21291	6239/21291	2080/7096	2080	7096		",T"	A2080V	C6504T	A2080V	ORF1AB:A2080V	2080	ORF1a	A2080V	ORF1A:A2080V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	6696	.	C	CT	2536	PASS	856	0.106308	0	"765,0,91,0"	TRUE	CT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6435dupT	p.Leu2146fs	6436/21291	6436/21291	2146/7096	2146	7096		"INFO_REALIGN_3_PRIME,CT"	del2146	C6696CT	del2146	ORF1AB:DEL2146	2146	ORF1a	del2146	ORF1A:DEL2146	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	6930	.	A	AT	3740	PASS	1227	0.111654	0	"1092,0,137,0"	TRUE	AT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6670dupT	p.Ser2224fs	6671/21291	6671/21291	2224/7096	2224	7096		"INFO_REALIGN_3_PRIME,AT"	del2224	A6930AT	del2224	ORF1AB:DEL2224	2224	ORF1a	del2224	ORF1A:DEL2224	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	6961	.	G	GT	2951	PASS	1243	0.094127	0	"1131,0,117,0"	TRUE	GT	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.6701dupT	p.Leu2234fs	6702/21291	6702/21291	2234/7096	2234	7096		"INFO_REALIGN_3_PRIME,GT"	del2234	G6961GT	del2234	ORF1AB:DEL2234	2234	ORF1a	del2234	ORF1A:DEL2234	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	7861	.	TA	T	59	PASS	1472	0.002717	0	"1468,0,4,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.7599delA	p.Gly2534fs	7599/21291	7599/21291	2533/7096	2533	7096		"INFO_REALIGN_3_PRIME,T"	del2534	TA7861T	del2534	ORF1AB:DEL2534	2534	ORF1a	del2534	ORF1A:DEL2534	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	8290	.	C	T	3208	PASS	987	0.172239	0	"813,0,170,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8025C>T	p.Leu2675Leu	8025/21291	8025/21291	2675/7096	2675	7096		",T"	L2675L	C8290T	L2675L	ORF1AB:L2675L	2675	ORF1a	L2675L	ORF1A:L2675L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	8376	.	CA	C	665	PASS	437	0.061785	0	"410,0,27,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8116delA	p.Ser2706fs	8116/21291	8116/21291	2706/7096	2706	7096		"INFO_REALIGN_3_PRIME,C"	del2706	CA8376C	del2706	ORF1AB:DEL2706	2706	ORF1a	del2706	ORF1A:DEL2706	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	8433	.	A	G	685	PASS	258	0.166667	0	"215,0,43,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8168A>G	p.Glu2723Gly	8168/21291	8168/21291	2723/7096	2723	7096		",G"	E2723G	A8433G	E2723G	ORF1AB:E2723G	2723	ORF1a	E2723G	ORF1A:E2723G	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	8464	.	TA	T	1312	PASS	277	0.162455	0	"232,0,45,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8204delA	p.Lys2735fs	8204/21291	8204/21291	2735/7096	2735	7096		"INFO_REALIGN_3_PRIME,T"	del2735	TA8464T	del2735	ORF1AB:DEL2735	2735	ORF1a	del2735	ORF1A:DEL2735	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	8626	.	C	T	734	PASS	305	0.131148	0	"264,0,40,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8361C>T	p.Phe2787Phe	8361/21291	8361/21291	2787/7096	2787	7096		",T"	F2787F	C8626T	F2787F	ORF1AB:F2787F	2787	ORF1a	F2787F	ORF1A:F2787F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	8752	.	CA	C	742	PASS	372	0.075269	0	"344,0,28,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8490delA	p.Lys2830fs	8490/21291	8490/21291	2830/7096	2830	7096		"INFO_REALIGN_3_PRIME,C"	del2830	CA8752C	del2830	ORF1AB:DEL2830	2830	ORF1a	del2830	ORF1A:DEL2830	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	8776	.	G	GT	508	PASS	446	0.044843	0	"428,0,20,0"	TRUE	GT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8514dupT	p.Ser2839fs	8515/21291	8515/21291	2839/7096	2839	7096		"INFO_REALIGN_3_PRIME,GT"	del2839	G8776GT	del2839	ORF1AB:DEL2839	2839	ORF1a	del2839	ORF1A:DEL2839	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	8776	.	G	T	88	PASS	448	0.03125	0	"433,0,14,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.8511G>T	p.Trp2837Cys	8511/21291	8511/21291	2837/7096	2837	7096		",T"	W2837C	G8776T	W2837C	ORF1AB:W2837C	2837	ORF1a	W2837C	ORF1A:W2837C	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	9266	.	AG	A	1499	PASS	1143	0.057743	0	"1092,0,66,0"	TRUE	A	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9002delG	p.Ser3001fs	9002/21291	9002/21291	3001/7096	3001	7096		",A"	del3001	AG9266A	del3001	ORF1AB:DEL3001	3001	ORF1a	del3001	ORF1A:DEL3001	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	9376	.	TA	T	999	PASS	1522	0.029566	0	"1477,0,45,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9112delA	p.Ile3038fs	9112/21291	9112/21291	3038/7096	3038	7096		",T"	del3038	TA9376T	del3038	ORF1AB:DEL3038	3038	ORF1a	del3038	ORF1A:DEL3038	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	9413	.	GGT	G	1917	PASS	1780	0.067416	0	"1672,0,120,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9150_9151delTG	p.Gly3051fs	9150/21291	9150/21291	3050/7096	3050	7096		"INFO_REALIGN_3_PRIME,G"	del3051	GGT9413G	del3051	ORF1AB:DEL3051	3051	ORF1a	del3051	ORF1A:DEL3051	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	9413	.	GGT	G	76	PASS	1760	0.022727	0	"1748,0,40,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9150_9151delTG	p.Gly3051fs	9150/21291	9150/21291	3050/7096	3050	7096		"INFO_REALIGN_3_PRIME,G"	del3051	GGT9413G	del3051	ORF1AB:DEL3051	3051	ORF1a	del3051	ORF1A:DEL3051	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	9437	.	A	G	476	PASS	1704	0.04284	0	"1621,0,73,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9172A>G	p.Thr3058Ala	9172/21291	9172/21291	3058/7096	3058	7096		",G"	T3058A	A9437G	T3058A	ORF1AB:T3058A	3058	ORF1a	T3058A	ORF1A:T3058A	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	9526	.	G	T	13618	PASS	1819	0.316658	0	"1240,0,576,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9261G>T	p.Met3087Ile	9261/21291	9261/21291	3087/7096	3087	7096		",T"	M3087I	G9526T	M3087I	ORF1AB:M3087I	3087	ORF1a	M3087I	ORF1A:M3087I	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	9890	.	G	A	2225	PASS	1490	0.097315	0	"1342,0,145,0"	FALSE	A	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9625G>A	p.Ala3209Thr	9625/21291	9625/21291	3209/7096	3209	7096		",A"	A3209T	G9890A	A3209T	ORF1AB:A3209T	3209	ORF1a	A3209T	ORF1A:A3209T	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	9908	.	A	G	85	PASS	1478	0.012855	0	"1456,0,19,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.9643A>G	p.Lys3215Glu	9643/21291	9643/21291	3215/7096	3215	7096		",G"	K3215E	A9908G	K3215E	ORF1AB:K3215E	3215	ORF1a	K3215E	ORF1A:K3215E	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	11497	.	C	T	28461	PASS	1795	0.555989	0	"791,0,998,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11232C>T	p.Tyr3744Tyr	11232/21291	11232/21291	3744/7096	3744	7096		",T"	Y3744Y	C11497T	Y3744Y	ORF1AB:Y3744Y	3744	ORF1a	Y3744Y	ORF1A:Y3744Y	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	11704	.	C	T	2313	PASS	894	0.13311	0	"774,0,119,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.11439C>T	p.Tyr3813Tyr	11439/21291	11439/21291	3813/7096	3813	7096		",T"	Y3813Y	C11704T	Y3813Y	ORF1AB:Y3813Y	3813	ORF1a	Y3813Y	ORF1A:Y3813Y	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	12513	.	C	T	30035	PASS	1998	0.534535	0	"920,0,1068,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12248C>T	p.Thr4083Met	12248/21291	12248/21291	4083/7096	4083	7096		",T"	T4083M	C12513T	T4083M	ORF1AB:T4083M	4083	ORF1a	T4083M	ORF1A:T4083M	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	12551	.	TG	T	6385	PASS	1997	0.11317	0	"1771,0,226,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12289delG	p.Glu4097fs	12289/21291	12289/21291	4097/7096	4097	7096		"INFO_REALIGN_3_PRIME,T"	del4097	TG12551T	del4097	ORF1AB:DEL4097	4097	ORF1a	del4097	ORF1A:DEL4097	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	12807	.	T	C	1204	PASS	2336	0.046233	0	"2224,0,108,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12542T>C	p.Val4181Ala	12542/21291	12542/21291	4181/7096	4181	7096		",C"	V4181A	T12807C	V4181A	ORF1AB:V4181A	4181	ORF1a	V4181A	ORF1A:V4181A	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	12940	.	G	T	1304	PASS	2452	0.050571	0	"2324,0,124,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12675G>T	p.Val4225Val	12675/21291	12675/21291	4225/7096	4225	7096		",T"	V4225V	G12940T	V4225V	ORF1AB:V4225V	4225	ORF1a	V4225V	ORF1A:V4225V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	13101	.	C	T	1759	PASS	3203	0.049641	0	"3034,0,159,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.12836C>T	p.Ala4279Val	12836/21291	12836/21291	4279/7096	4279	7096		",T"	A4279V	C13101T	A4279V	ORF1AB:A4279V	4279	ORF1a	A4279V	ORF1A:A4279V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	13397	.	G	C	988	PASS	2913	0.035359	0	"2807,0,103,0"	FALSE	C	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	1/2	c.13132G>C	p.Gly4378Arg	13132/21291	13132/21291	4378/7096	4378	7096		",C"	G4378R	G13397C	G4378R	ORF1AB:G4378R	4378	ORF1a	G4378R	ORF1A:G4378R	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	13517	.	C	T	47075	PASS	2637	0.623057	0	"981,0,1643,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13253C>T	p.Thr4418Ile	13253/21291	13253/21291	4418/7096	4418	7096		",T"	T4418I	C13517T	T4418I	ORF1AB:T4418I	17	ORF1b	T17I	ORF1B:T17I	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	13838	.	A	AT	7756	PASS	2444	0.11252	0	"2172,0,275,0"	TRUE	AT	frameshift_variant&stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13578dupT	p.Asp4527fs	13579/21291	13579/21291	4527/7096	4527	7096		"INFO_REALIGN_3_PRIME,AT"	del4527	A13838AT	del4527	ORF1AB:DEL4527	126	ORF1b	del126	ORF1B:DEL126	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	13993	.	G	T	16462	PASS	1795	0.362674	0	"1143,0,651,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.13729G>T	p.Ala4577Ser	13729/21291	13729/21291	4577/7096	4577	7096		",T"	A4577S	G13993T	A4577S	ORF1AB:A4577S	176	ORF1b	A176S	ORF1B:A176S	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	14408	.	C	T	879	PASS	25	1	2147483647	"0,0,25,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14144C>T	p.Pro4715Leu	14144/21291	14144/21291	4715/7096	4715	7096		",T"	P4715L	C14408T	P4715L	ORF1AB:P4715L	314	ORF1b	P314L	ORF1B:P314L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	14484	.	CAG	C	137	PASS	19	0.210526	0	"15,0,4,0"	TRUE	C	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14225_14226delAG	p.Glu4742fs	14225/21291	14225/21291	4742/7096	4742	7096		"INFO_REALIGN_3_PRIME,C"	del4742	CAG14484C	del4742	ORF1AB:DEL4742	341	ORF1b	del341	ORF1B:DEL341	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	15240	.	C	T	279	PASS	1866	0.024652	0	"1812,0,46,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.14976C>T	p.Asn4992Asn	14976/21291	14976/21291	4992/7096	4992	7096		",T"	N4992N	C15240T	N4992N	ORF1AB:N4992N	591	ORF1b	N591N	ORF1B:N591N	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	15324	.	C	T	1366	PASS	707	0.120226	0	"621,0,85,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15060C>T	p.Asn5020Asn	15060/21291	15060/21291	5020/7096	5020	7096		",T"	N5020N	C15324T	N5020N	ORF1AB:N5020N	619	ORF1b	N619N	ORF1B:N619N	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	15654	.	C	T	2723	PASS	354	0.336158	0	"234,0,119,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15390C>T	p.Asp5130Asp	15390/21291	15390/21291	5130/7096	5130	7096		",T"	D5130D	C15654T	D5130D	ORF1AB:D5130D	729	ORF1b	D729D	ORF1B:D729D	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	15766	.	G	T	6630	PASS	376	0.603723	0	"148,0,227,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15502G>T	p.Val5168Leu	15502/21291	15502/21291	5168/7096	5168	7096		",T"	V5168L	G15766T	V5168L	ORF1AB:V5168L	767	ORF1b	V767L	ORF1B:V767L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	16117	.	G	T	128	PASS	83	0.13253	0	"71,0,11,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.15853G>T	p.Asp5285Tyr	15853/21291	15853/21291	5285/7096	5285	7096		",T"	D5285Y	G16117T	D5285Y	ORF1AB:D5285Y	884	ORF1b	D884Y	ORF1B:D884Y	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	16279	.	A	T	1671	PASS	952	0.094538	0	"862,0,90,0"	FALSE	T	stop_gained	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16015A>T	p.Arg5339*	16015/21291	16015/21291	5339/7096	5339	7096		",T"	R5339*	A16279T	R5339*	ORF1AB:R5339*	938	ORF1b	R938*	ORF1B:R938*	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	16889	.	A	G	28348	PASS	3181	0.340773	0	"2089,0,1084,0"	FALSE	G	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16625A>G	p.Lys5542Arg	16625/21291	16625/21291	5542/7096	5542	7096		",G"	K5542R	A16889G	K5542R	ORF1AB:K5542R	1141	ORF1b	K1141R	ORF1B:K1141R	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	17019	.	G	T	11024	PASS	1622	0.281134	0	"1166,0,456,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16755G>T	p.Glu5585Asp	16755/21291	16755/21291	5585/7096	5585	7096		",T"	E5585D	G17019T	E5585D	ORF1AB:E5585D	1184	ORF1b	E1184D	ORF1B:E1184D	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	17059	.	C	CA	2975	PASS	1211	0.089182	0	"1103,0,108,0"	TRUE	CA	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.16799dupA	p.Tyr5601fs	16800/21291	16800/21291	5600/7096	5600	7096		"INFO_REALIGN_3_PRIME,CA"	del5601	C17059CA	del5601	ORF1AB:DEL5601	1200	ORF1b	del1200	ORF1B:DEL1200	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	18184	.	A	T	3750	PASS	1111	0.164716	0	"925,0,183,0"	FALSE	T	missense_variant	MODERATE	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.17920A>T	p.Met5974Leu	17920/21291	17920/21291	5974/7096	5974	7096		",T"	M5974L	A18184T	M5974L	ORF1AB:M5974L	1573	ORF1b	M1573L	ORF1B:M1573L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	18715	.	TG	T	688	PASS	1157	0.026793	0	"1126,0,31,0"	TRUE	T	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18452delG	p.Cys6151fs	18452/21291	18452/21291	6151/7096	6151	7096		",T"	del6151	TG18715T	del6151	ORF1AB:DEL6151	1750	ORF1b	del1750	ORF1B:DEL1750	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	18877	.	C	T	13484	PASS	1480	0.360135	0	"942,0,533,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.18613C>T	p.Leu6205Leu	18613/21291	18613/21291	6205/7096	6205	7096		",T"	L6205L	C18877T	L6205L	ORF1AB:L6205L	1804	ORF1b	L1804L	ORF1B:L1804L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	20725	.	GA	G	7204	PASS	2158	0.118165	0	"1905,0,255,0"	TRUE	G	frameshift_variant	HIGH	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20465delA	p.Lys6822fs	20465/21291	20465/21291	6822/7096	6822	7096		"INFO_REALIGN_3_PRIME,G"	del6822	GA20725G	del6822	ORF1AB:DEL6822	2421	ORF1b	del2421	ORF1B:DEL2421	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	21126	.	T	C	971	PASS	2012	0.045726	0	"1915,0,92,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20862T>C	p.Phe6954Phe	20862/21291	20862/21291	6954/7096	6954	7096		",C"	F6954F	T21126C	F6954F	ORF1AB:F6954F	2553	ORF1b	F2553F	ORF1B:F2553F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	21222	.	A	T	7464	PASS	2048	0.177734	0	"1681,0,364,0"	FALSE	T	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20958A>T	p.Ala6986Ala	20958/21291	20958/21291	6986/7096	6986	7096		",T"	A6986A	A21222T	A6986A	ORF1AB:A6986A	2585	ORF1b	A2585A	ORF1B:A2585A	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	21255	.	G	C	49314	PASS	2425	0.678351	0	"773,0,1645,0"	FALSE	C	synonymous_variant	LOW	ORF1ab	GU280_gp01	transcript	GU280_gp01	protein_coding	2/2	c.20991G>C	p.Ala6997Ala	20991/21291	20991/21291	6997/7096	6997	7096		",C"	A6997A	G21255C	A6997A	ORF1AB:A6997A	2596	ORF1b	A2596A	ORF1B:A2596A	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	21691	.	C	T	11697	PASS	985	0.433503	0	"556,0,427,0"	FALSE	T	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.129C>T	p.Phe43Phe	129/3822	129/3822	43/1273	43	1273		",T"	F43F	C21691T	F43F	S:F43F	43	S	F43F	S:F43F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	21736	.	CT	C	922	PASS	667	0.055472	0	"630,0,37,0"	TRUE	C	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.178delT	p.Ser60fs	178/3822	178/3822	60/1273	60	1273		"INFO_REALIGN_3_PRIME,C"	del60	CT21736C	del60	S:DEL60	60	S	del60	S:DEL60	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	21782	.	A	G	201	PASS	526	0.041825	0	"502,0,22,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.220A>G	p.Asn74Asp	220/3822	220/3822	74/1273	74	1273		",G"	N74D	A21782G	N74D	S:N74D	74	S	N74D	S:N74D	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	21930	.	C	T	688	PASS	628	0.082803	0	"575,0,52,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.368C>T	p.Ala123Val	368/3822	368/3822	123/1273	123	1273		",T"	A123V	C21930T	A123V	S:A123V	123	S	A123V	S:A123V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	22227	.	C	T	2280	PASS	254	0.389764	0	"154,0,99,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.665C>T	p.Ala222Val	665/3822	665/3822	222/1273	222	1273		",T"	A222V	C22227T	A222V	S:A222V	222	S	A222V	S:A222V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	22992	.	G	A	4808	PASS	295	0.59661	0	"117,0,176,0"	FALSE	A	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1430G>A	p.Ser477Asn	1430/3822	1430/3822	477/1273	477	1273		",A"	S477N	G22992A	S477N	S:S477N	477	S	S477N	S:S477N	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	23236	.	G	GT	845	PASS	218	0.137615	0	"195,0,30,0"	TRUE	GT	frameshift_variant	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1677dupT	p.Leu560fs	1678/3822	1678/3822	560/1273	560	1273		"INFO_REALIGN_3_PRIME,GT"	del560	G23236GT	del560	S:DEL560	560	S	del560	S:DEL560	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	23403	.	A	G	3575	PASS	114	0.982456	2147483647	"0,0,112,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.1841A>G	p.Asp614Gly	1841/3822	1841/3822	614/1273	614	1273		",G"	D614G	A23403G	D614G	S:D614G	614	S	D614G	S:D614G	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	23924	.	A	T	352	PASS	149	0.120805	0	"131,0,18,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2362A>T	p.Ile788Phe	2362/3822	2362/3822	788/1273	788	1273		",T"	I788F	A23924T	I788F	S:I788F	788	S	I788F	S:I788F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	24492	.	T	A	1848	PASS	992	0.105847	0	"887,0,105,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2930T>A	p.Leu977*	2930/3822	2930/3822	977/1273	977	1273		",A"	L977*	T24492A	L977*	S:L977*	977	S	L977*	S:L977*	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	24506	.	T	G	4950	PASS	1016	0.215551	0	"796,0,219,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.2944T>G	p.Ser982Ala	2944/3822	2944/3822	982/1273	982	1273		",G"	S982A	T24506G	S982A	S:S982A	982	S	S982A	S:S982A	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	24688	.	T	C	4939	PASS	935	0.228877	0	"720,0,214,0"	FALSE	C	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3126T>C	p.Phe1042Phe	3126/3822	3126/3822	1042/1273	1042	1273		",C"	F1042F	T24688C	F1042F	S:F1042F	1042	S	F1042F	S:F1042F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	24914	.	G	C	8523	PASS	908	0.368943	0	"569,0,335,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3352G>C	p.Asp1118His	3352/3822	3352/3822	1118/1273	1118	1273		",C"	D1118H	G24914C	D1118H	S:D1118H	1118	S	D1118H	S:D1118H	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25126	.	G	A	1688	PASS	1745	0.073352	0	"1611,0,128,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3564G>A	p.Glu1188Glu	3564/3822	3564/3822	1188/1273	1188	1273		",A"	E1188E	G25126A	E1188E	S:E1188E	1188	S	E1188E	S:E1188E	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25240	.	C	A	94	PASS	2005	0.019451	0	"1964,0,39,0"	FALSE	A	synonymous_variant	LOW	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3678C>A	p.Ala1226Ala	3678/3822	3678/3822	1226/1273	1226	1273		",A"	A1226A	C25240A	A1226A	S:A1226A	1226	S	A1226A	S:A1226A	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25247	.	A	T	78	PASS	2110	0.018009	0	"2066,0,38,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3685A>T	p.Met1229Leu	3685/3822	3685/3822	1229/1273	1229	1273		",T"	M1229L	A25247T	M1229L	S:M1229L	1229	S	M1229L	S:M1229L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25277	.	A	T	106	PASS	2113	0.024136	0	"2033,0,51,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3715A>T	p.Ser1239Cys	3715/3822	3715/3822	1239/1273	1239	1273		",T"	S1239C	A25277T	S1239C	S:S1239C	1239	S	S1239C	S:S1239C	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25280	.	T	G	72	PASS	2175	0.01931	0	"2129,0,42,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3718T>G	p.Cys1240Gly	3718/3822	3718/3822	1240/1273	1240	1273		",G"	C1240G	T25280G	C1240G	S:C1240G	1240	S	C1240G	S:C1240G	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25289	.	T	G	91	PASS	2169	0.02213	0	"2115,0,48,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3727T>G	p.Cys1243Gly	3727/3822	3727/3822	1243/1273	1243	1273		",G"	C1243G	T25289G	C1243G	S:C1243G	1243	S	C1243G	S:C1243G	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25296	.	A	C	182	PASS	2233	0.034483	0	"2108,0,77,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3734A>C	p.Lys1245Thr	3734/3822	3734/3822	1245/1273	1245	1273		",C"	K1245T	A25296C	K1245T	S:K1245T	1245	S	K1245T	S:K1245T	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25301	.	T	G	228	PASS	2210	0.036199	0	"2129,0,80,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3739T>G	p.Cys1247Gly	3739/3822	3739/3822	1247/1273	1247	1273		",G"	C1247G	T25301G	C1247G	S:C1247G	1247	S	C1247G	S:C1247G	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25312	.	T	G	117	PASS	2261	0.026095	0	"2194,0,59,0"	FALSE	G	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3750T>G	p.Cys1250Trp	3750/3822	3750/3822	1250/1273	1250	1273		",G"	C1250W	T25312G	C1250W	S:C1250W	1250	S	C1250W	S:C1250W	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25314	.	G	T	73	PASS	2257	0.023039	0	"2191,0,52,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3752G>T	p.Gly1251Val	3752/3822	3752/3822	1251/1273	1251	1273		",T"	G1251V	G25314T	G1251V	S:G1251V	1251	S	G1251V	S:G1251V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25324	.	C	A	803	PASS	2303	0.065132	0	"2151,0,150,0"	FALSE	A	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3762C>A	p.Cys1254*	3762/3822	3762/3822	1254/1273	1254	1273		",A"	C1254*	C25324A	C1254*	S:C1254*	1254	S	C1254*	S:C1254*	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25327	.	A	T	89	PASS	2287	0.021863	0	"2235,0,50,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3765A>T	p.Lys1255Asn	3765/3822	3765/3822	1255/1273	1255	1273		",T"	K1255N	A25327T	K1255N	S:K1255N	1255	S	K1255N	S:K1255N	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25331	.	G	T	152	PASS	2263	0.034468	0	"2167,0,78,0"	FALSE	T	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3769G>T	p.Asp1257Tyr	3769/3822	3769/3822	1257/1273	1257	1273		",T"	D1257Y	G25331T	D1257Y	S:D1257Y	1257	S	D1257Y	S:D1257Y	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25334	.	G	T	76	PASS	2239	0.029031	0	"2123,0,65,0"	FALSE	T	stop_gained	HIGH	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3772G>T	p.Glu1258*	3772/3822	3772/3822	1258/1273	1258	1273		",T"	E1258*	G25334T	E1258*	S:E1258*	1258	S	E1258*	S:E1258*	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25336	.	A	C	355	PASS	2250	0.051556	0	"2110,0,116,0"	FALSE	C	missense_variant	MODERATE	S	GU280_gp02	transcript	GU280_gp02	protein_coding	1/1	c.3774A>C	p.Glu1258Asp	3774/3822	3774/3822	1258/1273	1258	1273		",C"	E1258D	A25336C	E1258D	S:E1258D	1258	S	E1258D	S:E1258D	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25563	.	G	T	10589	PASS	1488	0.291667	0	"1054,0,434,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.171G>T	p.Gln57His	171/828	171/828	57/275	57	275		",T"	Q57H	G25563T	Q57H	ORF3A:Q57H	57	ORF3a	Q57H	ORF3A:Q57H	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25706	.	TTC	T	3135	PASS	942	0.118896	0	"831,0,112,0"	TRUE	T	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318_319delCT	p.Tyr107fs	318/828	318/828	106/275	106	275		"INFO_REALIGN_3_PRIME,T"	del107	TTC25706T	del107	ORF3A:DEL107	107	ORF3a	del107	ORF3A:DEL107	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25710	.	C	T	4242	PASS	882	0.333333	0	"572,0,294,0"	FALSE	T	synonymous_variant	LOW	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.318C>T	p.Leu106Leu	318/828	318/828	106/275	106	275		",T"	L106L	C25710T	L106L	ORF3A:L106L	106	ORF3a	L106L	ORF3A:L106L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25883	.	C	CT	122	PASS	140	0.2	0	"112,0,28,0"	TRUE	CT	frameshift_variant	HIGH	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.493dupT	p.Ser165fs	494/828	494/828	165/275	165	275		"INFO_REALIGN_3_PRIME,CT"	del165	C25883CT	del165	ORF3A:DEL165	165	ORF3a	del165	ORF3A:DEL165	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	25886	.	C	T	1624	PASS	133	0.669173	0	"43,0,89,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.494C>T	p.Ser165Phe	494/828	494/828	165/275	165	275		",T"	S165F	C25886T	S165F	ORF3A:S165F	165	ORF3a	S165F	ORF3A:S165F	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	26062	.	G	T	461	PASS	124	0.193548	0	"100,0,24,0"	FALSE	T	missense_variant	MODERATE	ORF3a	GU280_gp03	transcript	GU280_gp03	protein_coding	1/1	c.670G>T	p.Gly224Cys	670/828	670/828	224/275	224	275		",T"	G224C	G26062T	G224C	ORF3A:G224C	224	ORF3a	G224C	ORF3A:G224C	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	26283	.	AGTT	A	5604	PASS	2171	0.099493	0	"1976,0,216,0"	TRUE	A	conservative_inframe_deletion	MODERATE	E	GU280_gp04	transcript	GU280_gp04	protein_coding	1/1	c.40_42delGTT	p.Val14del	40/228	40/228	14/75	14	75		",A"	del14	AGTT26283A	del14	E:DEL14	14	E	del14	E:DEL14	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	26735	.	C	T	6404	PASS	2519	0.142517	0	"2155,0,359,0"	FALSE	T	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.213C>T	p.Tyr71Tyr	213/669	213/669	71/222	71	222		",T"	Y71Y	C26735T	Y71Y	M:Y71Y	71	M	Y71Y	M:Y71Y	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	26801	.	C	G	49314	PASS	2254	0.870896	0	"291,0,1963,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.279C>G	p.Leu93Leu	279/669	279/669	93/222	93	222		",G"	L93L	C26801G	L93L	M:L93L	93	M	L93L	M:L93L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	26876	.	T	C	2857	PASS	1109	0.135257	0	"958,0,150,0"	FALSE	C	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.354T>C	p.Ile118Ile	354/669	354/669	118/222	118	222		",C"	I118I	T26876C	I118I	M:I118I	118	M	I118I	M:I118I	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	27095	.	A	G	7902	PASS	502	0.563745	0	"218,0,283,0"	FALSE	G	synonymous_variant	LOW	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.573A>G	p.Ser191Ser	573/669	573/669	191/222	191	222		",G"	S191S	A27095G	S191S	M:S191S	191	M	S191S	M:S191S	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	27166	.	AC	A	724	PASS	736	0.04212	0	"707,0,31,0"	TRUE	A	frameshift_variant	HIGH	M	GU280_gp05	transcript	GU280_gp05	protein_coding	1/1	c.645delC	p.Asp215fs	645/669	645/669	215/222	215	222		",A"	del215	AC27166A	del215	M:DEL215	215	M	del215	M:DEL215	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	27605	.	TA	T	65	PASS	2418	0.002068	0	"2416,0,5,0"	TRUE	T	frameshift_variant	HIGH	ORF7a	GU280_gp07	transcript	GU280_gp07	protein_coding	1/1	c.216delA	p.Lys72fs	216/366	216/366	72/121	72	121		"INFO_REALIGN_3_PRIME,T"	del72	TA27605T	del72	ORF7A:DEL72	72	ORF7a	del72	ORF7A:DEL72	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	27851	.	TG	T	5989	PASS	2310	0.102597	0	"2076,0,237,0"	TRUE	T	frameshift_variant	HIGH	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.97delG	p.Glu33fs	97/132	97/132	33/43	33	43		",T"	del33	TG27851T	del33	ORF7B:DEL33	33	ORF7b	del33	ORF7B:DEL33	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	27852	.	G	A	175	PASS	2311	0.018174	0	"2020,0,42,0"	FALSE	A	missense_variant	MODERATE	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.97G>A	p.Glu33Lys	97/132	97/132	33/43	33	43		",A"	E33K	G27852A	E33K	ORF7B:E33K	33	ORF7b	E33K	ORF7B:E33K	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	27881	.	C	T	4331	PASS	2153	0.114259	0	"1901,0,246,0"	FALSE	T	synonymous_variant	LOW	ORF7b	GU280_gp08	transcript	GU280_gp08	protein_coding	1/1	c.126C>T	p.His42His	126/132	126/132	42/43	42	43		",T"	H42H	C27881T	H42H	ORF7B:H42H	42	ORF7b	H42H	ORF7B:H42H	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	27944	.	C	T	37683	PASS	2008	0.623008	0	"756,0,1251,0"	FALSE	T	synonymous_variant	LOW	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.51C>T	p.His17His	51/366	51/366	17/121	17	121		",T"	H17H	C27944T	H17H	ORF8:H17H	17	ORF8	H17H	ORF8:H17H	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28179	.	G	T	1101	PASS	808	0.106436	0	"721,0,86,0"	FALSE	T	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.286G>T	p.Gly96Cys	286/366	286/366	96/121	96	121		",T"	G96C	G28179T	G96C	ORF8:G96C	96	ORF8	G96C	ORF8:G96C	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28254	.	A	C	80	PASS	802	0.018703	0	"785,0,15,0"	FALSE	C	missense_variant	MODERATE	ORF8	GU280_gp09	transcript	GU280_gp09	protein_coding	1/1	c.361A>C	p.Ile121Leu	361/366	361/366	121/121	121	121		",C"	I121L	A28254C	I121L	ORF8:I121L	121	ORF8	I121L	ORF8:I121L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28381	.	A	G	483	PASS	1225	0.048163	0	"1162,0,59,0"	FALSE	G	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.108A>G	p.Arg36Arg	108/1260	108/1260	36/419	36	419		",G"	R36R	A28381G	R36R	N:R36R	36	N	R36R	N:R36R	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28484	.	G	T	257	PASS	2271	0.023338	0	"2211,0,53,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.211G>T	p.Gly71Cys	211/1260	211/1260	71/419	71	419		",T"	G71C	G28484T	G71C	N:G71C	71	N	G71C	N:G71C	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28580	.	G	T	133	PASS	2545	0.012181	0	"2509,0,31,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.307G>T	p.Asp103Tyr	307/1260	307/1260	103/419	103	419		",T"	D103Y	G28580T	D103Y	N:D103Y	103	N	D103Y	N:D103Y	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28651	.	C	T	11005	PASS	2932	0.183151	0	"2388,0,537,0"	FALSE	T	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.378C>T	p.Asn126Asn	378/1260	378/1260	126/419	126	419		",T"	N126N	C28651T	N126N	N:N126N	126	N	N126N	N:N126N	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28778	.	A	G	450	PASS	4456	0.017729	0	"4366,0,79,0"	FALSE	G	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.505A>G	p.Lys169Glu	505/1260	505/1260	169/419	169	419		",G"	K169E	A28778G	K169E	N:K169E	169	N	K169E	N:K169E	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28851	.	G	T	16662	PASS	4215	0.190985	0	"3403,0,805,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.578G>T	p.Ser193Ile	578/1260	578/1260	193/419	193	419		",T"	S193I	G28851T	S193I	N:S193I	193	N	S193I	N:S193I	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28869	.	C	T	17185	PASS	4151	0.198747	0	"3308,0,825,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.596C>T	p.Pro199Leu	596/1260	596/1260	199/419	199	419		",T"	P199L	C28869T	P199L	N:P199L	199	N	P199L	N:P199L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28932	.	C	T	44270	PASS	4030	0.430273	0	"2284,0,1734,0"	FALSE	T	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.659C>T	p.Ala220Val	659/1260	659/1260	220/419	220	419		",T"	A220V	C28932T	A220V	N:A220V	220	N	A220V	N:A220V	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28945	.	T	C	221	PASS	3899	0.014363	0	"3831,0,56,0"	FALSE	C	synonymous_variant	LOW	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.672T>C	p.Leu224Leu	672/1260	672/1260	224/419	224	419		",C"	L224L	T28945C	L224L	N:L224L	224	N	L224L	N:L224L	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28975	.	G	C	34267	PASS	3751	0.357505	0	"2398,0,1341,0"	FALSE	C	missense_variant	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.702G>C	p.Met234Ile	702/1260	702/1260	234/419	234	419		",C"	M234I	G28975C	M234I	N:M234I	234	N	M234I	N:M234I	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	28987	.	CCAA	C	226	PASS	3442	0.004067	0	"3450,0,14,0"	TRUE	C	conservative_inframe_deletion	MODERATE	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.724_726delCAA	p.Gln242del	724/1260	724/1260	242/419	242	419		"INFO_REALIGN_3_PRIME,C"	del242	CCAA28987C	del242	N:DEL242	242	N	del242	N:DEL242	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
WIL38-2	NC_045512.2	29159	.	A	ACTAATCAGTTCCTTGT	1161	PASS	1194	0.040201	0	"1282,0,48,0"	TRUE	ACTAATCAGTTCCTTGT	frameshift_variant&stop_gained	HIGH	N	GU280_gp10	transcript	GU280_gp10	protein_coding	1/1	c.888_889insAATCAGTTCCTTGTCT	p.Asp297fs	889/1260	889/1260	297/419	297	419		"INFO_REALIGN_3_PRIME,ACTAATCAGTTCCTTGT"	del297	A29159ACTAATCAGTTCCTTGT	del297	N:DEL297	297	N	del297	N:DEL297	WIL38-2	WILTZ	2020-12-14T00:00:00Z	30.544	32.36	x	1022021	2020-12-14
