Haplotypes of Echinococcus granulosus sensu stricto in Chile and Their Comparison Through Sequences of the Mitochondrial cox1 Gene with Haplotypes from South America and Other Continents
Abstract
1. Introduction
2. Materials and Methods
2.1. Origin of Hydatid Cysts
2.2. DNA Extraction and Cox1 Gene Amplification
2.3. Sequence Analysis and Construction of Phylogenetic Trees
2.4. Cox1 Sequence Comparisons with GenBank Deposited Sequences
2.5. Diversity and Genetic Structuring of the Population
3. Results
4. Discussion
5. Conclusions
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
Abbreviations
AMOVA | Molecular Analysis of Variance |
cox1 | cytochrome oxidase subunit I |
FST | Fixation index |
G1-G3 | E. granulosus sensu stricto (sheep strain and buffalo strain) |
G4 | E. equinus (horse strain) |
G5 | E. ortleppi (bovine strain) |
G6-G7 | E. intermedius |
G8-G10 | E. canadensis |
Hd | haplotypic diversity |
K | number of haplotypes |
mtDNA | mitochondrial DNA |
N | number of samples |
s.l. | sensu lato |
s.s. | sensu stricto |
S | number of segregation sites |
π | nucleotide diversity |
Appendix A
Locality/Country | Dog (HF) | Sheep (HF) | Goats (HF) | Bovine (HF) | Human (HF) |
---|---|---|---|---|---|
South America | |||||
La Araucanía (IX), Maule (VII), Coquimbo (IV), Chile | KX227122 (EgCLP20) KX227123 (EgCLP21) | KX227116 (EgCLO11) KX227120 (EgCLO17) KX227126 (EgCLO22) MN399400 (EgCLO27) EgCLOM01-6,8-23* EgCLOCo07* KX227131(EgCL36) KX227125 (EgCL37) KX227121 (EgCL38) KX227124 (EgCL39) KX227119 (EgCL40) | KX227118 (EgCLC14) EgCLCCo03* | JQ250806.1 (EgCLB28) KT968704.1 (EgCLB05) KT968703 (EgCLB06) AB777904 (EgCLB08) KX227116 (EgCLB10) KX227117 (EgCLB13) KX227118 (EgCLB15) KX227120 (EgCLB18) KX227130 (EgCLB24) EgCLBA01-16,19,20* EgCLBCo17,18,21* AF458872 (EgCLB30) | U50464 (EgCLH01) M84666 (EgCLH02) AB522646 (EgCLH03) JQ250806.1 (EgCLH04) AB777904 (EgCLH07) KX227116 ((EgCLH09) KX227117 (EgCLH12) KX227118 (EgCLH16) KX227127 (EgCLH23) KX227128 (EgCLH25) KX227129 (EgCLH26) EgCLHCo01* AF458874 (EgCLH19) AF458875 (EgCLH29) KX227136 (EgCL31) KX227135 (EgCL32) KX227134 (EgCL33) KX227133 (EgCL34) KX227132 (EgCL35) |
Perú | KT001408 (EgPeP09) KT001398 (EgPeP10) KT001407 (EgPeP11) KT001406 (EgPeP12) KT001405 (EgPeP13) KT001404 (EgPeP14) KT001403 (EgPeP15) KT001402 (EgPeP16) KT001401 (EgPeP17) KT001400 (EgPeP18) KT001399 (EgPeP19) KT001397 (EgPeP20) KT001396 (EgPeP21) KT001395 (EgPeP22) | AB458672 (EgPeO01) AB470527 (EgPeO02) AB688621 (EgPeO03) GU233854 (EgPeO04) GU23395 (EgPeO06) | MN732663 (EgPeLL23) AB458674 (EgPeB24) AB458673 (EgPeB23) AB688620 (EgPeB24) AB688621 (EgPeO25) | GU233952 (EgPeH05) AB458675 (EgPeH07) GU233951 (EgPeH08) | |
Bolivia | JQ250806 (EgBolB01) KX227118 (EgBolB02) MT072973 (EgBolB03) MT072974 (EgBolB04) MT072975 (EgBolB05) MT072976 (EgBolB06) MT072977 (EgBolB07) MT072978 (EgBolB08) MT072979 (EgBolB09) | ||||
Argentina | AF458875 (EgArgO03) MT796074 (EgArg07) KC579445 (EgArgO09) KC579450 (EgArgO10) KC579447 (EgArgO13) FN564569 (EgArgO16) GU980907 (EgArgO27) GU980906 (EgArgO28) KC954601 (EgArgO30) | MT796487 (EgArgC24) | AF458873 (EgArgB05) KC579445 (EgArgB08) KC579449 (EgArgB11) KC579448 (EgArgB12) KC579446 (EgArgB14) KC579447 (EgArgB18) KC954602 (EgArgB29) | M84661 (EgArgH01) AF458875 (EgArgH02) AF458873 (EgArgH04) AF458872 (EgArgH06) KT719395 (EgArgH15) MT800802 (EgArgH17) MT800801 (EgArgH19) MT800800 (EgArgH20) MT800797 (EgArgH21) MT800796 (EgArgH22) MT800795 (EgArgH23) MT796079 (EgArgH26) | |
Middle East | |||||
Palestine | KC109640 (EgPaO01), KC109657 (EgPaO02), KC109651 (EgPaO03) | ||||
Iran Saudi Arabia | JN604097 (EgIP08), JN604099 (EgIP09, JN604102 (EgIP10) | JQ250806 (EgIO05), JQ250808 (EgIO06), JQ250811 (EgIO07) MN720282 (EgASO01) | JQ250810 (EgIH01), JQ250812 (EgIH02), JQ250815 (EgIH03), AB677811 (EgIH04) MT073987 (EgIH11), MN807921 (EgITH12) | ||
Europe | |||||
Austria | JF513058 (EgAO01) JF513060 (EgAO03) JF513061 ( (EgAO05) | JF513058 (EgAH02) JF513060 (EgAH04) JF513061 (EgAH06) AJ508018 (EgAH07) AJ508019 (EgAH08) AJ508021 (EgAH09) AJ508028 (EgAH10) | |||
Bulgaria | JF513058 (EgBO01) JF513063 (EgBO02) JF513065 (EgBO03) JF513058 (EgBH07) JF513063 (EgBH08) JF513065 (EgBH09) | ||||
Hungry | JF513058 (EgHO01) JF513061 (EgHO02) JF513063 (EgHO03) JF513064 (EgHO04) JF513065 (EgHO05) JF513067 (EgHO06) | ||||
Italiy | JF513058 (EgIO01) F513059 (EgIO02) JF513060 (EgIO03) JF513062 (EgIO04) DQ062857 (EgIO06) | DQ062857 (EgIB05) | JF513058 (EgIH08) JF513060 (EgIH09) JF513062 (EgIH10) | ||
Portugal | JF513058 (EgPO01) JF513060 (EgPO02) JF513079 (EgPO03) HF947595 (EgPO04) HF947592 (EgPO05) HF947558 (EgPO06) HF947585 (EgPO07) HF947574 (EgPO08) HF947579 (EgPO09) HF947557 (EgPO10) HF947566 (EgPO11) | ||||
Romania | JF513058 (EgRO01) JF513061 (EgRO02) JF513063 (EgRO03) JF513072 (EgRO04) JF513079 (EgRO05) | JF513058 (EgRH06) JF513061 (EgRH07) JF513063 (EgRH08) JF513079 (EgRH09) JF520817 (EgRH010) JF520818 (EgRH011) AY686564 (EgRH012) AY686565 (EgRH013) | |||
Greece | DQ856467 (EgGO01) | ||||
UK | KT001398 (EgUKP01) KT001397 (EgUKP02) | ||||
Asia | |||||
Türkiye | JF513058 (EgTO01) JF513060 (EgTO02) JF513062 (EgTO03) JF513067 (EgTO04) JF513071 (EgTO05) JF513079 (EgTO06) JF775380 (EgTO07) EU929083 (EgTO08) | JF513058 (EgTH09) JF513060 (EgTH10) JF513062 (EgTH11) JF513067 (EgTH12) JF513079 (EgTH13) JF775379 (EgTH14) GU951512 (EgTH15) GU951513 (EgTH16) MT537165 (EgTH17) MN990735 (EgTH18) KX874714 (EgTH19) KX874725 (EgTH20) KX874719 (EgTH21) | |||
China | DQ356881 (EgCHP01) DQ356882 (EgCHP02) | AB491414 (EgCHO03) AB491418 (EgCHO04) AB491421 (EgCHO05) AB491424 (EgCHO06) AB491425 (EgCHO07) AB491432 (EgCHO08) AB491438 (EgCHO09) AB491449 (EgCHO10) AB491454 (EgCHO11) AB688612 (EgCHO12) MG674403 (EgCHO31) MG674404 (EgCHO34) MG674406 (EgCHO40) MG674412 (EgCHO43) MG674416 (EgCHO46) MG674418 (EgCHO49) | MG674403 (EgCHY32) MG674404 (EgCHY35) MG674406 (EgCHY41) MG674412 (EgCHY44) MG674416 (EgCHY47) MG674418 (EgCHY50) | AB688602 (EgCHH13) AB688611 (EgCHH14) AB688613 (EgCHH15) AB688619 (EgCHH16) AB491419 (EgCHH17) AB491420 (EgCHH18) AB491422 (EgCHH19) AB491423 (EgCHH20) AB491428 (EgCHH21) AB491431 (EgCHH22) AB491434 (EgCHH23) AB491437 (EgCHH24) AB491439 (EgCHH25) AB491447 (EgCHH26) AB491451 (EgCHH27) AB491453 (EgCHH28) AB491455 (EgCHH29) MG674403 (EgCHH30) MG674404 (EgCHH33) MG674406 (EgCHH39) MG674412 (EgCHH42) MG674416 (EgCHH45) MG674418 (EgCHH48) | |
Iraq, Kurdistan | MF004305 (EgKO01) MF004277 (EgKO04) MF004283 (EgKO07) MF004285 (EgKO10) MF004279 (EgKO13) MF004273 (EgKO14) MF004288 (EgKO15) | MF004305 (EgKC02) MF004277 (EgKC05) MF004283 (EgKC08) MF004285 (EgKC11) MF004278 (EgKO16) MF004287 (EgKO17) MF004293 (EgKO18) MF004306 (EgKO19) | MF004305 (EgKB03) MF004277 (EgKB06) MF004283 (EgKB09) MF004285 (EgKC12) MF004280 (EgKB20) MF004291 (EgKB21) | ||
Kyrgyztan | MN787554 (EgKirH01) MN787559 (EgKirH02) MN787560 (EgKirH03) | ||||
Oceania | |||||
Australia | KT001398 (EgAusP05) KT001395 (EgAusP05) KT968706 (EgAusD07) KT968707 (EgAusM08) KU697314 (EgAusD14) JQ250806 (EgAusM16) JQ250809 (EgAusM17) | AJ508005 (EgAusO01) AJ508006 (EgAusO02) AJ508009 (EgAusO03) AJ508010 (EgAusO04) KT968705 (EgAusO09) KT968704 (EgAusO10) KT968703 (EgAusO11) KT968708 (EgAusO12) KT968702 (EgAusO13) AB522646 (EgAusO15) AB688591 (EgAusO18) | |||
Africa | |||||
Libya | KT001407 (EgLP01) KT001405 (EgLP02) KT001398 (EgLP03) | HM636641 (EgLH04) | |||
Tunisia | KM014635 (EgTuP03) KM014636 (EgTuP04) KM014638 (EgTuP06) KM014640 (EgTuP08) KM001399 (EgTuP13) KT001401 (EgTuP14) KT001402 (EgTuP15) KT001403 (EgTuP16) KT001399 (EgTuP17) KT0014610 (EgTuP32) | KM014641 (EgTuO09) KM014644 (EgTuO12) KT0014628 (EgTuO20) KT0014627 (EgTuO21) KT0014614 (EgTuO28) KT0014613 (EgTuO29) | KT0014624 (EgTuC22) KT0014616 (EgTuC26) | KM014634 (EgTuB01) KM014633 (EgTuCam02) KM014639 (EgTuB07) KM014642 (EgTuB10) KT0014620 (EgTuB24 KT0014617 (EgTuB25) KT0014615 (EgTuB27) KT0014612 (EgTuB30) KT0014611 (EgTuCe31) KT0014606 (EgTuCe33) KT0014607 (EgTuCe34) | KM014637 (EgTuH05) KM014643 (EgTuH11) KT0014631 (EgTuH18) KT0014629 (EgTuH19) KT0014621 (EgTuH23) |
Kenya | KM01398 (EgKP01) |
Haplotypes | 1 | 96 | 101 | 134 | 137 | 182 | 197 | 218 | 251 | 253 | 348 | 359 | 368 | 371 | 383 | 400 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
EGO1-JQ250806 | C | T | G | C | G | G | C | G | A | A | A | T | G | A | G | T |
EG1A-AF458871 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG1B-AF458872 | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . |
EG1C-AF458873 | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . |
EG1D-AF458874 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . |
EG1E-AF458875 | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | |
EgCLCCoO3 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBCo17 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBCo18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCIBCo21 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH Co01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA03 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA04 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA07 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA10 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA12 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA13 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA14 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA15 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA16 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA19 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLBA20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM01 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . |
EgCLOM02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM03 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . |
EgCLOM04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM05 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . |
EgCLOM06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOCo07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM08 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . |
EgCLOM09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM10 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . |
EgCLOM11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM12 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM13 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM14 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM15 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM16 | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . |
EgCLOM17 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM19 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM21 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . |
EgCLOM22 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLOM23 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
Haplotypes | 1 | 2 | 26 | 32 | 36 | 38 | 39 | 59 | 60 | 66 | 74 | 79 | 80 | 89 | 96 | 101 | 116 | 128 | 131 | 134 | 137 | 146 | 159 | 167 | 170 | 182 | 197 | 218 | 251 | 260 | 269 | 271 | 280 | 287 | 290 | 299 | 306 | 320 | 332 | 338 | 341 | 344 | 348 | 349 | 371 | 378 | 383 | 400 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
EG01-JQ250806 | C | T | T | T | A | A | A | T | A | G | T | C | G | C | T | G | T | G | T | C | G | T | A | G | G | G | C | G | A | G | G | G | T | T | G | A | G | G | T | A | T | G | A | T | A | A | G | T |
EG1A AF458871 | - | - | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG1B AF458872 | - | - | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . |
EG1D AF458874 | - | - | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG1E AF458875 | - | - | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG02 M84662 | - | - | . | . | . | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EG03 M84663 | - | - | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EG6 M84666 | - | - | . | . | G | T | . | G | . | T | G | T | T | T | . | . | . | A | . | T | T | A | . | A | A | T | T | T | G | A | T | A | C | . | T | G | A | T | . | C | C | T | . | . | G | G | A | - |
EU178104 | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH01 | - | - | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH02 | - | - | . | . | G | T | . | G | . | T | G | T | T | T | . | . | . | A | . | T | T | A | . | A | A | T | T | T | G | A | T | A | C | . | T | G | A | T | . | C | C | T | . | . | G | G | A | - |
EgCLH04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB28 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH03 | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB10 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLO11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH12 | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB13 | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLC14 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB15 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH16 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLO17 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLP20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLP21 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLO22 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH23 | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLB24 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH25 | . | . | . | . | . | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCLH26 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgClH19 | - | - | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgClH29 | - | - | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgClB30 | - | - | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . |
EgCL31 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL32 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL33 | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL34 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL35 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL36 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL37 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL38 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL39 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCL40 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBolB01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBolB02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBolB03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBolB04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBolB05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBolB06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBolB07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBolB08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EgBolB09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH01 | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgO03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . |
EgArgH04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . |
EgArgB05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . |
EgArgH07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgB08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgO09 | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgO10 | . | . | . | . | . | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgB11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . |
EgArgB12 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgO13 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgB14 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH15 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EsArgO16 | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH17 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgB18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH19 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH21 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH22 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgH23 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgArgC24 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgArgH25 | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgArgH26 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgArgO27 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgArgO28 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgArgB29 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgArgO30 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgPeH07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgPeP09 | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP10 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP12 | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP13 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP14 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP15 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP16 | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP17 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP19 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP21 | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeP22 | . | . | . | . | . | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeLL23 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeO02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgPeB24(2) | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | - |
EgPeB23 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgPeO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgPeO03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeB24 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . |
EgPeO04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeH08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeH05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeO06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPeO25 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
Haplotypes | 1 | 26 | 29 | 63 | 66 | 74 | 79 | 80 | 89 | 96 | 109 | 130 | 134 | 146 | 182 | 197 | 206 | 214 | 224 | 227 | 230 | 280 | 329 | 338 | 371 | 377 | 378 | 379 | 383 | 385 | 386 | 388 | 391 | 398 | 400 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
EG01-JQ250806 | C | T | A | A | G | T | C | G | C | T | T | G | C | T | G | C | T | T | T | T | T | T | G | A | A | T | A | T | G | A | T | A | C | T | T |
EG1A AF458871 | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG1C AF458873 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . |
EG1D AF458874 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG2 M84662 | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG3 M84663 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EU178103 | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EU178104 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAH02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAO03 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAH04 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAO05 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAH06 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAH07 | . | C | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAH08 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAH09 | . | . | G | . | . | . | T | . | T | . | C | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAH10 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBH07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBO02 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBH08 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBO03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBH09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBO04 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . |
EgBO05 | . | . | . | . | . | . | . | . | T | . | . | . | . | C | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgBO06 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | T | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgHO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgHO02 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgHO03 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgHO04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgHO05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgHO06 | . | C | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItH08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItO02 | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItO03 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItH09 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItO04 | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItH10 | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItB05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItO06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgItP07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO02 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO03 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | A | T | T | A | G | A | A | . |
EgPO08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO10 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPO11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRH06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRO02 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRH07 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRO03 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRH08 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRO04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRO05 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRH09 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRH010 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRH011 | . | . | . | G | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRH012 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgRH013 | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgGO01 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | C | . | G | . | . | . | . | . | . | . | . | . | . | . |
EgUKP01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgUKP02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
Haplotypes | 1 | 2 | 9 | 11 | 13 | 15 | 17 | 19 | 26 | 29 | 38 | 42 | 44 | 47 | 79 | 80 | 89 | 91 | 96 | 134 | 146 | 197 | 230 | 249 | 268 | 269 | 280 | 282 | 287 | 291 | 299 | 319 | 329 | 332 | 335 | 344 | 348 | 362 | 365 | 371 | 377 | 400 |
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EG01-JQ250806 | C | T | T | T | T | T | G | T | T | A | A | A | T | T | C | G | C | A | T | C | T | C | T | T | C | G | T | A | T | G | A | T | G | T | G | G | A | T | T | A | T | T |
EG1A-AF458871 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG1B-AF458872 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . |
EG1C-AF458873 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . |
EG1D-AF458874 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG2-M84662 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG3-M84663 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH17 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH19 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH21 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKirH01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKirH02 | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKirH03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTO02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH10 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTO03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTO04 | . | . | . | . | . | . | . | . | C | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH12 | . | . | . | . | . | . | . | . | C | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTO05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . |
EgTO06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH13 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTO07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTO08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH14 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH15 | . | . | . | C | A | G | T | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTH16 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHP01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHP02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO04 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO08 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO10 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO12 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH13 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH14 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH15 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH16 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | T | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH17 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH18 | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH19 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . |
EgCHH21 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH22 | . | . | . | . | . | . | . | . | . | . | G | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH23 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . |
EgCHH24 | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH25 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH26 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH27 | . | . | . | . | . | . | . | . | . | . | . | G | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH28 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH29 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKC02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKB03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO04 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKC05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKB06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKC08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKB09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO10 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKC11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKB12 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO14 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO13 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO15 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO16 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO17 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | G | . |
EgKO18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKO19 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKB20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKB21 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH30 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO31 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHY32 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH33 | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO34 | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHY35 | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH36 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO37 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHY38 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH39 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO40 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHY41 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH42 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | C | . | C | C | C | . | C | . | C | . | . | . | . |
EgCHO43 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | C | . | C | C | C | . | C | . | C | . | . | . | . |
EgCHY44 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | C | . | C | C | C | . | C | . | C | . | . | . | . |
EgCHH45 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHO46 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHY47 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgCHH48 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . |
EgCHO49 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . |
EgCHY50 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . |
Haplotypes | 1 | 79 | 80 | 96 | 101 | 128 | 131 | 134 | 137 | 197 | 218 | 239 | 306 | 310 | 311 | 320 | 383 | 400 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
EG01-JQ250806 | C | C | G | T | G | G | T | C | G | C | G | G | G | C | T | G | G | T |
EG1A-AF458871 | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG1E-AF458875 | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . |
EU178104 | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPaO02 | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPaO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgPaO03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgIH01 | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgIH02 | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgIH03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgIH04 | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgIO05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgIO06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgIO07 | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgIP08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | - |
EgIP09 | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | - |
EgIP10 | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | - |
EgIH11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgITH12 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgASO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
Haplotypes | 1 | 2 | 32 | 39 | 46 | 63 | 66 | 74 | 79 | 80 | 89 | 96 | 101 | 116 | 125 | 128 | 131 | 134 | 146 | 149 | 151 | 175 | 182 | 197 | 227 | 245 | 251 | 263 | 269 | 280 | 287 | 311 | 335 | 347 | 348 | 359 | 368 | 371 | 400 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
EG01-JQ250806 | C | T | T | A | A | A | G | T | C | G | C | T | G | T | T | G | T | C | T | T | A | T | G | C | T | T | A | G | G | T | T | T | G | T | A | T | G | A | T |
EG1-M84661 | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | - |
EG1A-AF458871 | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG1B-AF458872 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . |
EG1C-AF458873 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . |
EG1D-AF458874 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG1E-AF458875 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EG2-M84662 | . | . | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EG3-M84663 | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EF393619 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . |
EF595654 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . |
EU178103 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EU178104 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAusD07(2) | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAusO01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAusO02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAO03 | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | G | . | . | . | A | . | . | . | . | . | C | . | . | . | . | . | . | . | . |
EgAusO04 | . | . | . | . | T | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EgAusP05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAusP06 | . | . | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EgAusD07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAus08 | . | . | . | . | . | . | . | . | T | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EgAus09 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAus10 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAus11 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAus12 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAus13 | . | . | . | . | . | G | . | . | . | . | T | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EgAus14 | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EgAus15 | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . |
EgAus16 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAus17 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgAus18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgLP01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgLP02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . |
EgLP03 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuB01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuCam02 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP03 | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP04 | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuH05 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP06 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuB07 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP08 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
egTuO09 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuB10 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuH11 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuO12 | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . |
EgTuP13 | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP14 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP15 | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP16 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP17 | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuH18 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuH19 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuO20 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuH21 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuC22 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuH23 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuB24 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuB25 | . | . | . | . | . | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . |
EgTuC26 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . |
EgTuB27 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . |
EgTuO28 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuO29 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuB30 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuC31 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuP32 | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuC33 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgTuC34 | . | C | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
EgKP01 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
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Region | City/Locality | Number of Isolates | Host Speccies (Number of Isolates) |
---|---|---|---|
Coquimbo | Ovalle. Peña Blanca. Monte Patria. Illapel | 6 | goats (1). sheep (1). cattle (3). humans (1) |
La Araucanía | Santa Cruz. Nueva Imperial. San José. Cunco. Los Maitenes. Puyehue. El Carmen. Carahue | 18 | cattle (18) |
Magallanes | Magallanes | 22 | sheep (22) |
Total | 46 | goats (1). sheep (23). cattle (21). humans (1) |
Region | N | S | K | H | π | Tajima’s D | p | Fu’s FS | p |
---|---|---|---|---|---|---|---|---|---|
Coquimbo | 6 | 1 | 2 | 0.333 ± 0.04630 | 0.00084 | −0.93302 * | 0.061 | −0.003 * | 0.502 |
La Araucanía | 17 | 1 | 2 | 0.425 ± 0.425 | 0.00107 | 0.8695 * | 0.780 | 1.039 | 0.801 |
Magallanes | 22 | 2 | 3 | 0.481 ± 0.00875 | 0.00128 | −0.17406 * | 0.386 | −0.121 * | 0.414 |
Total | 45 | 3 | 4 | 0.461 ± 0.00637 | 0.00141 | −0.52134 * | 0.326 | −0.856 * | 0.279 |
Coquimbo | La Araucanía | Magallanes | |
---|---|---|---|
Coquimbo | ----------- | 0.59809 | 0.6823 |
La Araucanía | −0.08761 | ---------- | 0.62728 ** |
Magallanes | 0.03341 | 0.10703 ** | -------- |
Source of Variation | D.f. | Sum of the Squares | Components of Variance | Percentage of Variation |
---|---|---|---|---|
Between populations | 2 | 3.285 | 0.062 | 20.340 |
Within the populations | 43 | 10.226 | 0.243 | 79.659 |
Total | 45 | 13.511 | 0.306 |
Population | Number of Sequences Analyzed | Diversity Index | Neutrality Index | |||||
---|---|---|---|---|---|---|---|---|
Hn | hd ± SD | nd ± SD | Tajima’s D | p | Fu’s FS | p | ||
Chile (this study) | 46 | 4 | 0.461 ± 0.00637 | 0.00181 ± 0.00036 | −0.54123 | 0.326 | −0.856 | 0.279 |
Chile | 85 | 9 | 0.542 ± 0.059 | 0.00461 ± 0.00203 | −2.36563 ** | 0.000 | −2.083 | 0.201 |
Argentina | 30 | 13 | 0.869 ± 0.042 | 0.0.00458 ± 0.00063 | −1.71486 ** | 0.010 | −8.639 ** | 0.000 |
Peru | 27 | 9 | 0.561 ± 0.114 | 0.00251 ± 0.00073 | −1.99558 ** | 0.002 | −6.421 ** | 0.000 |
Bolivia | 9 | 3 | 0.417 ± 0.191 | 0.00121 ± 0.00060 | −1.36240 ** | 0.016 | −1.081 ** | 0.022 |
Austria | 10 | 6 | 0.889 ± 0.075 | 0.00766 ± 0.00161 | −0.70843 | 0.263 | −1.102 | 0.205 |
Bulgaria | 9 | 6 | 0.917 ± 0.073 | 0.00607 ± 0.00104 | 0.62496 | 0.752 | −2.034 | 0.052 |
Hungary | 8 | 6 | 0.893 ± 0.111 | 0.00411 ± 0.00095 | −117,532 | 0.111 | −3.589 ** | 0.000 |
Italy | 10 | 4 | 0.733 ± 0.120 | 0.00428 ± 0.00102 | 0.20350 | 0.652 | −0.045 | 0.482 |
Portugal | 11 | 3 | 0.345 ± 0.172 | 0.00146 ± 0.00078 | −0.77815 | 0.211 | −0.659 | 0.126 |
Romania | 13 | 7 | 0.897 ± 0.054 | 0.00525 ± 0.00100 | −0.77485 | 0.215 | −2.640 | 0.015 |
UK | 2 | 1 | 0.00000 | 0.00000 | ------ | ------ | ------ | ------ |
Palestine | 3 | 1 | 0.00000 | 0.00000 | ------ | ------ | ------ | ------ |
Iran | 12 | 4 | 0.682 ± 0.102 | 0.00224 ± 0.00050 | −0.57864 | 0.285 | −1.048 | 0.104 |
Kiyrgyzstan | 3 | 2 | 0.667 ± 0.314 | 0.00182 ± 0.00086 | ----- | ------ | ------ | ------ |
Türkiye | 21 | 5 | 0.424 ± 0.131 | 0.00221 ± 0.00077 | −165,358 | 0.176 | −3.127 ** | 0.004 |
China | 50 | 21 | 0.935 ± 0.017 | 0.00729 ± 0.00106 | −1.63535 ** | 0.032 | −12.892 ** | 0.000 |
Kurdistan | 21 | 6 | 0.724 ± 0.078 | 0.00304 ± 0.00065 | −1.38535 ** | 0.040 | −1.852 ** | 0.017 |
Australia | 19 | 10 | 0.825 ± 0.084 | 0.00623 ± 0.00112 | −142,204 | 0.065 | −4.186 ** | 0.008 |
Libya | 3 | 3 | 1.00 ± 0.272 | 0.00364 ± 0.00121 | ------ | ------ | ------ | ------ |
Tunisia | 14 | 5 | 0.800 ± 0.068 | 0.00326 ± 0.00049 | −2.01165 ** | 0.001 | −12.237 ** | 0.000 |
Latin America | 151 | 19 | 0.578 ± 0.00206 | 0.000409 ± 0.00371 | −2.39076 ** | 0.000 | −13.852 ** | 0.000 |
Europe | 61 | 19 | 0.832 ± 0.041 | 0.00493 ± 0.00357 | −1.52138 ** | 0.036 | −13.824 ** | 0.142 |
Middle East | 16 | 4 | 0.617 ± 0.00927 | 0.00204 ± 0.00168 | −0.62771 | 0.268 | −1.019 | 0.000 |
Asia | 95 | 28 | 0.880 ± 0.00065 | 0.00581 ± 0.00477 | −1.95889 ** | 0.003 | −23.448 ** | 0.000 |
Africa | 38 | 17 | 0.819 ± 0.00382 | 0.00307 ± 0.00358 | −2.19849 ** | 0.002 | −17.437 ** | 0.000 |
total | 380 | 26 | 0.36539 ± 0.031 | 0.00321 ± 0.00054 | −2.42296 ** | 0.000 | −35.985 ** | 0.000 |
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Urriola-Urriola, N.; Rossi-Vargas, G.; Nilo-Bustios, Y. Haplotypes of Echinococcus granulosus sensu stricto in Chile and Their Comparison Through Sequences of the Mitochondrial cox1 Gene with Haplotypes from South America and Other Continents. Parasitologia 2025, 5, 40. https://doi.org/10.3390/parasitologia5030040
Urriola-Urriola N, Rossi-Vargas G, Nilo-Bustios Y. Haplotypes of Echinococcus granulosus sensu stricto in Chile and Their Comparison Through Sequences of the Mitochondrial cox1 Gene with Haplotypes from South America and Other Continents. Parasitologia. 2025; 5(3):40. https://doi.org/10.3390/parasitologia5030040
Chicago/Turabian StyleUrriola-Urriola, Nicole, Gabriela Rossi-Vargas, and Yenny Nilo-Bustios. 2025. "Haplotypes of Echinococcus granulosus sensu stricto in Chile and Their Comparison Through Sequences of the Mitochondrial cox1 Gene with Haplotypes from South America and Other Continents" Parasitologia 5, no. 3: 40. https://doi.org/10.3390/parasitologia5030040
APA StyleUrriola-Urriola, N., Rossi-Vargas, G., & Nilo-Bustios, Y. (2025). Haplotypes of Echinococcus granulosus sensu stricto in Chile and Their Comparison Through Sequences of the Mitochondrial cox1 Gene with Haplotypes from South America and Other Continents. Parasitologia, 5(3), 40. https://doi.org/10.3390/parasitologia5030040