bc1dd635cfd41140693da19ddcd578ad3f5b30d6 angie Fri May 1 10:03:42 2026 -0700 Added new lineages. diff --git src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv index 2b28ff782e2..ba71998e9ee 100644 --- src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv +++ src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv @@ -1897,69 +1897,76 @@ BA.2.87.1 BA.2.87 > G23040A , A22995C > A22206G > C541T,G542A,C2536T,C4012T,G4354T,T4379G,C5184T,C7296T,T7480C,C7764T,A10037G,C10702T,A11782G,C12008T,A12791C,C12896T,C15925T,C17644A,T19364C,C19698A,G21604A,G21786A,C21855T,T21939C,G22017T,G22132T,T22552C,A22812C,G22894T,T22896G,C22916A,T22942G,T23005G,C23423T,T23487G,A23598G,G23761A,C23934T,G23948C,A24369G,C25487A,T26311G,G26529A,C28045T,C28256T,T28474C,A28715G > C66N,A309N,G9190N,G15451N,C16575N,T23633N,C26833N BA.3 B.1.1 > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C26270T,C26577G,G26709A,A28271T,C28311T > C21762T,G22898A > T670G,G4184A,C4321T,C9534T,G10447A,C12880T,C15714T,G22775A,C26060T,C26858T,A29510C > C832T,C11235T BA.3.1 BA.3 > C29311T > G3791A,C3792A,A22812C BA.3.2 BA.3 > C11620T > C193N,C2037T,G2281T,T4579A,C5907T,G6476T,C9886T,C10747T,A12095C,T13375C,C14649T,T15047C,C21588T,G21624C,C21639T,T21864C,T22032C,T22054A,C22077T,A22122C,C22313T,A22538G,G22577T,G22604C,G22770A,A22786T,G22865T,A22881G,T22896C, A22898G ,G22899A,C22916T,T22917G,T22942G,A22996C,G23012A, C23013A, G23040A ,G23048A, C23075T ,G23149T,G23224T,G23311T,A23436G,T23485A,T23487G,G23522A,A23598G,C23625A,C23673T,A23946C,G24116A,C24117A,C24378T,C25114A,G25234A,G25699T,C25803T,A26275G,C26645T,A26771T,C27131T > G27382N,T27395N, A28996N BA.3.2.1 BA.3.2 > C23604G ,C25047G > A14920N,C17502N,C28849N,G29140N RD.1 BA.3.2.1 > A14920G,C17502T,C28849T,G29140A > A10978G RD.1.1 RD.1 > G22241T RD.1.1.1 RD.1.1 > C29085T > C2143N,C5100N,T12629N RD.1.2 RD.1 > C29160T > A8755N,C12073N BA.3.2.2 BA.3.2 > G27382C,T27395A, A28996N > A22629C,G23285T > G1043N,C7173N,G26718N RE.1 BA.3.2.2 > G1043A,C7173T,G26718T > G944A > C2592T,T6856C > T1195N RE.1.1 RE.1 > T1195C > G336A,A10323G,C14293T > C19707N,C21595N,T25129N,C25413N RE.1.1.1 RE.1.1 > C19707T,C21595T,T25129C,C25413A > C22591T > C657T > C18747T > C19156T > G2494N RS.1 RE.1.1.1 > G2494A > C4012T,C14889T RS.1.1 RS.1 > C11767T > T6661A +RS.1.1.1 RS.1.1 > C21930T RS.1.2 RS.1 > C11767T > C6190T,T12958C RS.1.3 RS.1 > C4891T RS.1.4 RS.1 > C10252T +RS.1.5 RS.1 > C11767T > C21618T RS.2 RE.1.1.1 > G2494A > G6443A RS.3 RE.1.1.1 > G2494A > C3634T,G29449T > G24794T RS.4 RE.1.1.1 > G2494A > C28994T > T25159N RS.5 RE.1.1.1 > G2494A > C21638T,C25571G RE.1.1.2 RE.1.1 > C19707T,C21595T,T25129C,C25413A > C22591T > C657T > C18747T > G4665A,C21707T SJ.1 RE.1.1.2 > C17985T,T21252C > G662T,G25244T > C6638N,C21691N,T22333N RE.1.1.3 RE.1.1 > C19707T,C21595T,T25129C,C25413A > C22591T > C657T > C25047T RE.1.1.4 RE.1.1 > C19707T,C21595T,T25129C,C25413A > C22591T > C657T > A14224G > T3766N +SS.1 RE.1.1.4 > T3766C > A17929G,G22332T > C1441N,C26028N,C27143N RE.1.1.5 RE.1.1 > C19707T,C21595T,T25129C,C25413A > C22591T > C657T > C9693T RE.1.1.6 RE.1.1 > C19707T,C21595T,T25129C,C25413A > C22591T > C657T > C5835T RE.1.2 RE.1 > T1195C > C203T,C5654T,C9836T,C22594T,C28987T RE.2 BA.3.2.2 > G1043A,C7173T,G26718T > A3309G > C18582N,C19029N,A29221N RE.2.1 RE.2 > C18582T,C19029T,A29221G > C7000T,A16938G,C19154T,C22388T > C29160T > C1063N RE.2.1.1 RE.2.1 > C1063T > C4891T,T8803C SK.1 RE.2.1.1 > A16095G,A29086T RE.2.1.2 RE.2.1 > C1063T > C10594T > T25580C RE.2.1.3 RE.2.1 > C1063T > C10594T > C24109T > C5184T SL.1 RE.2.1.3 > C24771T RE.2.1.4 RE.2.1 > C1063T > C2023T,C23230T > C6471A > G10180N,C21658N RE.2.1.5 RE.2.1 > C1063T > C2023T,C23230T > C5144T,C16293T,C25339T RE.2.1.6 RE.2.1 > C1063T > C18431T > A5275N,C20313N RE.2.2 RE.2 > C18582T,C19029T,A29221G > C7000T,A16938G,C19154T,C22388T > C5884T,A10864G,C28791T RE.2.2.1 RE.2.2 > T1177C > G354A > C1663T SN.1 RE.2.2.1 > G7360T,C21638T RE.2.2.2 RE.2.2 > T1177C > G10997A,G11930A > C2902N,C17766N RU.1 RE.2.2.2 > C2902T,C17766T > C28928T > A3133N RE.2.2.3 RE.2.2 > T1177C > C11020T SM.1 RE.2.2.3 > G942A,G8612T,G19072A > C2773N RE.2.2.4 RE.2.2 > T1177C > C13255T,A25998G > C7764T RT.1 RE.2.2.4 > C21855T,G22081T > C1441N RT.2 RE.2.2.4 > C16948T RE.2.2.5 RE.2.2 > C4438T RE.2.2.6 RE.2.2 > G3259T RE.2.2.7 RE.2.2 > T1177C > G354A > A22461G RE.2.2.8 RE.2.2 > T1177C > C10726T > C24042T RE.2.2.9 RE.2.2 > T17007C +SQ.1 RE.2.2.9 > G28423C +SQ.1.1 SQ.1 > C4276T > G22894T,G22898A > T2014N +SQ.2 RE.2.2.9 > C25069T +SQ.3 RE.2.2.9 > G25606A RE.2.3 RE.2 > C18582T,C19029T,A29221G > C7000T,A16938G,C19154T,C22388T > A10864G > G12268A > C8208A,C12459T > C3784N,C3817N,C14029N RE.2.4 RE.2 > C18582T,C19029T,A29221G > C28651A RE.2.5 RE.2 > C18582T,C19029T,A29221G > C7000T,C19154T,C22388T > A16938G > A18558G,G21452A,C24370T > C8043T,C8619T,C10776T > G21898N RE.3 BA.3.2.2 > C19718T RE.3.1 RE.3 > C11651A,C18508T > T13902N,C23086N RE.4 BA.3.2.2 > G1043A,C7173T,G26718T > G24812T,C29171T > G488N,C3176N,T4888N,C5167N,A14283N,C19018N,C19572N,G20995N,C22388N,C29144N BA.4_dropout B.1.1 > C10029T > C23854A,G23948T,C27807T > A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > C25000T > C22995A,A23055G,A23063T,T23075C,A24424T,T24469A,C25584T,A27259C > G22578A,C22674T,T22679C,C22686T > G22992A,A23013C > A18163G,T22882G,C26577G,G26709A > G22813T > T22200G > G22775A > C19955T > G10447A,C15714T,C26060T > A20055G > T670G,G4184A,C4321T,C26858T > C9534T > C12880T,C21618T > C17410T > G27382C,A27383T,T27384C > C9344T,A9424G > A22786C > A22688G > A29510C > C10198T > C2790T > C28724N > G12160A > G27788N > T22917N > T23018G BA.4 B.1.1 > C10029T > C23854A,G23948T,C27807T > A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > C25000T > C22995A,A23055G,A23063T,T23075C,A24424T,T24469A,C25584T,A27259C > G22578A,C22674T,T22679C,C22686T > G22992A,A23013C > A18163G,T22882G,C26577G,G26709A > G22813T > T22200G > G22775A > C19955T > G10447A,C15714T,C26060T > A20055G > T670G,G4184A,C4321T,C26858T > C9534T > C12880T,C21618T > C17410T > G27382C,A27383T,T27384C > C9344T,A9424G > A22786C > A22688G > A29510C > C10198T > C2790T > C28724T > G12160A,G27788T > T22917G > T23018G BA.4.1 BA.4 > T21570G BA.4.1.1 BA.4.1 > A23570G BA.4.1.2 BA.4.1 > C14407T > C27644T,C29686N > C3176T BA.4.1.3 BA.4.1 > C28435T > C11758T > A2435G BA.4.1.4 BA.4.1 > G25266T BA.4.1.5 BA.4.1 > C20762T BA.4.1.6 BA.4.1 > C13329T @@ -3770,30 +3777,31 @@ PQ.2.2 PQ.2 > A24825G PQ.2.3 PQ.2 > T20310C > G23593C PQ.2.4 PQ.2 > T17449C > T2680C PQ.2.4.1 PQ.2.4 > G21893A > A15367G PQ.2.4.2 PQ.2.4 > T22995C PQ.2.4.3 PQ.2.4 > C9246T PQ.2.4.4 PQ.2.4 > C11514T PQ.2.5 PQ.2 > T25451C PQ.2.5.1 PQ.2.5 > A23157G PQ.2.5.2 PQ.2.5 > C1912T RQ.1 PQ.2.5.2 > C13019T > A22994G > G1820A,G14632A RQ.2 PQ.2.5.2 > A22896C ,C25350T > C1471N,C4331N,T19955N PQ.2.5.3 PQ.2.5 > A17993G > G29449N PQ.2.5.4 PQ.2.5 > G25455T PQ.2.5.5 PQ.2.5 > C398T,G22599C,C26607T > G6352N,C19029N +PQ.2.5.6 PQ.2.5 > C16362T > C15045T > A22896C > A28065T > C28651N PQ.2.6 PQ.2 > T15366C > G8813A,G22899C,G29348T PQ.2.7 PQ.2 > C28603T PQ.2.7.1 PQ.2.7 > A23614G > A22004C > C4084N,T17838N PQ.2.8 PQ.2 > C8344T PQ.2.8.1 PQ.2.8 > A22896C > G26828N RC.1 PQ.2.8.1 > G26828T > T22995C RC.2 PQ.2.8.1 > G26828T > A3138G > C28603N RC.2.1 RC.2 > C28603T > C23601A RC.3 PQ.2.8.1 > G26828T > C21952T RC.4 PQ.2.8.1 > G26828T > T3802C RC.5 PQ.2.8.1 > C2226T RC.6 PQ.2.8.1 > G26828T > C1263T > C23601A > C15026N RC.7 PQ.2.8.1 > G26828T > C5784T > T15597N RC.7.1 RC.7 > T15597C > C22329T RC.7.1.1 RC.7.1 > G23612A > T6082N,A8062N,T10123N,G13379N @@ -3844,47 +3852,50 @@ PQ.8.1.2 PQ.8.1 > C186T > T24472C PQ.8.1.3 PQ.8.1 > C186T > T14781C > C15120T,C15720T PQ.8.1.4 PQ.8.1 > C619T PQ.9 NB.1.8.1 > T15843A > C22987T PQ.9.1 PQ.9 > T22995C > T11223N PQ.9.1.1 PQ.9 > T11223C > C8240T > G23604A ,T24377C PQ.10 NB.1.8.1 > T7492C PQ.10.1 PQ.10 > T22995C PQ.10.1.1 PQ.10.1 > C22224T > A13712N PQ.10.1.2 PQ.10.1 > C22082T PQ.10.1.3 PQ.10.1 > G25699T > C8386N SA.1 PQ.10.1.3 > C8386T > C27549T > C22419T SA.1.1 SA.1 > A12075G > A22896C PQ.10.1.4 PQ.10.1 > G1820T RH.1 PQ.10.1.4 > C13011T > A23267G,G25352T > T334N +PQ.10.1.5 PQ.10.1 > T20394C > C6432T,C23277T > C27945N,T28432N PQ.11 NB.1.8.1 > A3951G > C14599N PQ.12 NB.1.8.1 > C13968T PQ.13 NB.1.8.1 > T13764C PQ.13.1 PQ.13 > T22995C > C1213N PQ.13.2 PQ.13 > C20031T > G2035T,G3563A,G9203A,C23601T PQ.13.3 PQ.13 > C16293T,C25416T PQ.13.3.1 PQ.13.3 > C23277T > T29410N PQ.14 NB.1.8.1 > C3619T PQ.14.1 PQ.14 > A532G PQ.14.1.1 PQ.14.1 > T11371C,A16311G, T22995C > G22696N PQ.14.2 PQ.14 > C28603T > C12664T PQ.14.3 PQ.14 > C28603T > C26607T PQ.14.3.1 PQ.14.3 > A23598G RR.1 PQ.14.3.1 > A22896C ,G24047A > C1684T,T3477C,T25496N PQ.14.4 PQ.14 > C12049T PQ.15 NB.1.8.1 > C5583T > G1729N PQ.16 NB.1.8.1 > C10156T +PQ.16.1 PQ.16 > A22320G,A22812C,G22820A > T20361N,T25461N,G27916N,C28677N +PQ.16.1.1 PQ.16.1 > T20361C,T25461G,G27916A,C28677T > A19175G > T22995C PQ.17 NB.1.8.1 > T22995C PQ.17.1 PQ.17 > C7834T > C29708N PQ.17.2 PQ.17 > C13035T PQ.17.2.1 PQ.17.2 > C1102G > C13035N PQ.17.3 PQ.17 > C23601T PQ.17.4 PQ.17 > G23610A PQ.17.5 PQ.17 > A20658G > C29108T > C14818N PQ.17.6 PQ.17 > G25606T PQ.17.7 PQ.17 > A21343G PQ.17.7.1 PQ.17.7 > C23601T > A26046N PQ.17.7.2 PQ.17.7 > A26046G > A22896C > T6572N RK.1 PQ.17.7.2 > T6572C > G22820A PQ.17.8 PQ.17 > T12946C,C27813T,C28748T > C23664T > C23987T PQ.17.9 PQ.17 > T15009C > C26111T PQ.17.10 PQ.17 > T4441C @@ -4270,30 +4281,32 @@ QF.4 XFG.3.4.1 > C28651T > C15960A QF.5 XFG.3.4.1 > C5284T QF.5.1 QF.5 > C23673T > C18175N QF.6 XFG.3.4.1 > G24434T QF.7 XFG.3.4.1 > G25606A QF.7.1 QF.7 > C23673T XFG.3.4.2 XFG.3.4 > G1379A QT.1 XFG.3.4.2 > C3817T QT.1.1 QT.1 > C18377T > T23600C QT.1.2 QT.1 > C18377T > C6005A,C27752T QT.2 XFG.3.4.2 > T6023C,A23148G,G28681T > T28648N QT.3 XFG.3.4.2 > A23598G XFG.3.4.3 XFG.3.4 > T15762C > T24289A QS.1 XFG.3.4.3 > C8419T QS.2 XFG.3.4.3 > A23598G +QS.3 XFG.3.4.3 > C25658T +QS.4 XFG.3.4.3 > C1567T,G19656T,T23596C > G7756A > A22634T,T23781C > A21137N,C29555N XFG.3.4.4 XFG.3.4 > T15762C > T8566C > G15025A,G28727T > T26106N XFG.3.4.5 XFG.3.4 > T23600C > C25083T,G28287A XFG.3.4.6 XFG.3.4 > C15763T RN.1 XFG.3.4.6 > C26822T > C25708T > G1820A RN.2 XFG.3.4.6 > C28344T RN.2.1 RN.2 > A23598G > C3096N,G21255N,T28933N XFG.3.4.7 XFG.3.4 > T580A > C19972T XFG.3.4.8 XFG.3.4 > C29200T XFG.3.4.9 XFG.3.4 > G8561T XFG.3.5 XFG.3_10615 > A19540G XFG.3.5.1 XFG.3.5 > C18421T > C23625T XFG.3.5.2 XFG.3.5 > C23601T XFG.3.6 XFG.3_10615 > C9521T XFG.3.6.1 XFG.3.6 > C5178T > C18463T > G24386T > C19983N,C26111N XFG.3.6.2 XFG.3.6 > C5055T,A18836G,C28863T > A11947N @@ -4374,52 +4387,54 @@ XFG.5.1.4 XFG.5.1 > C2485T XFG.5.1.5 XFG.5.1 > C24034T > C22883A XFG.5.1.6 XFG.5.1 > G23624A XFG.5.1.7 XFG.5.1 > A23598G,A28081G,C29311T XFG.5.2 XFG.5 > A9079G XFG.5.2.1 XFG.5.2 > C23601T XFG.5.2.2 XFG.5.2 > T26972C XFG.5.2.3 XFG.5.2 > C23758T XFG.5.2.4 XFG.5.2 > A9204G XFG.5.2.5 XFG.5.2 > C6500T,C27590T,T27785C,C28344T,A29638G > C10456N,C26753N RM.1 XFG.5.2.5 > C10456T,C26753T > A25076G RM.2 XFG.5.2.5 > C10456T,C26753T > C21762T RM.3 XFG.5.2.5 > C10456T,C26753T > C22000A,A22005C,T23485A > C6762N XFG.5.2.6 XFG.5.2 > C12295T > C23673T XFG.5.2.7 XFG.5.2 > G25677T > T22566C,G22688T > C4582N,C5183N,T14907N,C25669N,C29065N +XFG.5.2.8 XFG.5.2 > C23595T > G25352T > C9778N,C28290N XFG.5.3 XFG.5 > C22323T > C7195N,C29272N XFG.5.4 XFG.5 > T2698C XFG.5.4.1 XFG.5.4 > G25855T QW.1 XFG.5.4.1 > G1463A > A23592G QW.1.1 QW.1 > C7834T > C22088T XFG.5.4.2 XFG.5.4 > C1420T,T16695C,G24199A,T27484C,A29617G XFG.6 XFG > C20178T > C22883A XFG.6.1 XFG.6 > C24034T > C23595T XFG.6.2 XFG.6 > C24034T > T29409C XFG.6.2.1 XFG.6.2 > A22320G SC.1 XFG.6.2.1 > C10228T XFG.6.2.2 XFG.6.2 > A18585T SB.1 XFG.6.2.2 > T21414C SB.1.1 SB.1 > T1501A > G22865T XFG.6.2.3 XFG.6.2 > C9226T XFG.6.3 XFG.6 > C24034T > T8359C XFG.6.3.1 XFG.6.3 > C3743T > G26730A > A1194C > C920T XFG.6.3.2 XFG.6.3 > C3743T > G26730A > A1194C > A23598G > C1594N XFG.6.3.3 XFG.6.3 > C3743T > G26730A > A1194C > G28904T > G22899A > C1528N,C2226N,C14120N XFG.6.4 XFG.6 > C24034T > C8097T XFG.6.5 XFG.6 > C24034T > C23758T XFG.6.5.1 XFG.6.5 > C23601A > G3892N,C5178N,C25528N +ST.1 XFG.6.5.1 > G3892A,C5178A,C25528T > T24703C > T12178C > G22865T > C23896N XFG.6.6 XFG.6 > C24034T > C5907T,C25282T,C25672T,A29621G > C25721T XFG.6.7 XFG.6 > C24034T > C17339T XFG.6.8 XFG.6 > C24034T > T6673C > C583T XFG.6.9 XFG.6 > C24034T > C27059T XFG.6.10 XFG.6 > C24034T > G28079T XFG.6.11 XFG.6 > C24034T > G18781A XFG.6.12 XFG.6 > C24034T > G2875A XFG.6.13 XFG.6 > C24034T > A23148C,T23158G XFG.7 XFG > C20178T > A28467T XFG.7.1 XFG.7 > A6351G,A9989G > A28268N XFG.7.1.1 XFG.7 > A6351G,A9989G > A28268C > A22010G,G28079T QZ.1 XFG.7.1.1 > C23625T XFG.7.1.2 XFG.7 > A6351G,A9989G > A28268C > A4822G > C19273T > G21830A,T22016C XFG.8 XFG > C20178T > C19170T > T17610C > A20163G XFG.8.1 XFG.8 > C15024T @@ -4567,30 +4582,31 @@ XFS B.1.1 > A23063T > T22882G,C22995A, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C, G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T22928C > G22599C > G22132T > C5239T,C7869T,G12892A,T16600C,T21653C,A22107G > C8818T, > C21627A > G24872T > C23039G > T22896G ,A24819G > C25925T > C6310T,G10642A,G15556A,C15678T,C22986T XFT B.1.1 > A23063T > T22882G,C22995A, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C, G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T22928C > G22599C > G22132T > C5239T,C7869T,G12892A,T16600C,T21653C, > C8818T > C21627A > G24872T > C23039G > T22896G ,A24819G > G3939T > C10594T > C22120A,A23598G,C25162A,C25163A,C25925T XFT.1 XFT > C18060T > C22986T > C23731N,C29445N XFU B.1.1 > A23063T > T22882G,C22995A, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C, G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T22928C > G22599C > G22132T > C5239T,C7869T,G12892A,T16600C,T21653C,A22107G > C8818T > C21627A > T15207C,C21928T > G4504A,T4579A > T22884G, A22893A , T22896C > C11008T > A21026G,C23039G,T24703C,G24872T,C25006T,C28291A,G28884C,G29227T XFV B.1.1 > A23063T > T22882G,C22995A, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C, G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T22928C > G22599C > G22132T > C7869T,G12892A,T16600C,T21653C,A22107G, T28297C > C8818T,C22792T,A22893G > C21627A > C29409T > T8350C, T22896G ,A23021G,C23039G,C23277T > C13608T > C10615T > C23601T > C6449T > C4999T,G25477A XFV.1 XFV > C4794T > G22316A XFV.2 XFV > C23625T XFV.3 XFV > G19851A > G22899A XFV.4 XFV > G19851A > G29449A > C18329T XFV.5 XFV > C6539T XFV.6 XFV > G24947A XFW B.1.1 > A23063T > T22882G, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C,T22896A,G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T23008N,T23010N > G24872T > T22928C > C23039G > G22599C > C22858T > C875A,A3908G,G12892A,T16600C,T22369C,G22865T, C22995C ,G26832T > C21627A,T21653C,A22012T,A22107G,G22132T XFW.1 XFW > C16457T, G23604A > C9724N,G21901N XFW.1.1 XFW.1 > C9724T,G21901A > A23588C XFW.1.1.1 XFW.1.1 > A2818G > C27509T > A23592G +SR.1 XFW.1.1.1 > C5100T,C22082T > C6883N,T8323N XFY B.1.1 > A23063T > T22882G,C22995A, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C, G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T22928C > G22599C > G22132T > C5239T,C7869T,G12892A,T16600C,T21653C,A22107G, T28297C > C8818T,C22792T,A22893G > C21627A > T4214C,T8350C, T22896G ,A23021G,C23039G,C23277T > C20178T > C10039T > C8152T > C6543T > T4714C > G23593C,C28432T,T29164C XFY.1 XFY > A18077G > C4456T,A25067G XFY.2 XFY > C8626T XFY.3 XFY > C29272T XFZ B.1.1 > A23063T > T22882G,C22995A, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C, G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T23008N,T23010N > G24872T > C7113T > T22928C > G22599C > C4999T > G1954A > T22896G ,C23039G > G22132T > G12892A,T16600C,C21627A,T21653C,A22107G > A23598G > G6647A > G6694A > G1148T,A22994G,C25006T,G25352T,G25552T,C26801T,C28291A,G28884C,C29272T XFZ.1 XFZ > A22486G > A22019G XFZ.2 XFZ > A28983G XFZ.2.1 XFZ.2 > A24999G > A2317N,A5097N,C17403N XFZ.3 XFZ > C19170T > T4330C > C2221T > A7864G > C5178T XGA B.1.1 > A23063T > T22882G,C22995A, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C, G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T22928C > G22599C > G22132T > C5239T, G12892A,T16600C,T21653C,A22107G, T28297C > C22792T,A22893G > C21627A > T22896G ,A23021G,C23039G,C23277T > T1501C,C19029T,C22883A,C24034T,G28913A XGA.1 XGA > C25578T XGA.2 XGA > C8140T XGA.3 XGA > C13647T,C21910T XGA.4 XGA > C5178T > G16197T > C18576N,C19152N,C23191N XGB B.1.1 > A23063T > T22882G,C22995A, C23525T > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A, A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T, C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > A23040A,A23013A > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G,C21622T,G21624C,C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A,G22895C, G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770N > T3565C,G11727A,C18894T,T22926C > T27810C > T22928C > G22599C > G22132T > C7869T,G12892A,T16600C,T21653C,A22107G, T28297C > C8818T,C22792T,A22893G > C21627A > C29409T > T8350C, T22896G ,A23021G,C23039G,C23277T > C13608T > C10615T > T28822G > C18885T > T15762C > T24289A > C8419T > C28737T > G1954A,T2074C,T3814C,C4999T @@ -4604,22 +4620,23 @@ miscBA1BA2Post5386 B.1.1 > C10029T > C23854A,G23948T,C27807T > A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > C25000T > C22995A,A23055G,A23063T,T23075C,A24424T,T24469A,C25584T,A27259C > G22578A,C22674T,T22679C,C22686T,A23040G > G22992A,A23013C > A18163G,T22882G,C26577G,G26709A > G22813T > T22200G > G22775A > C19955T > G10447A,C15714T,C26060T > A20055G > C26858T > C9534T > C12880T,C21618T > C17410T > G27382C,A27383T,T27384C > C9344T,A9424G,C9866T > A22786C > A22688G > A29510C > C10198N > C22792N > A2832G > T5386G > G22599N miscBA1BA2Post8393 B.1.1 > C10029T > C23854A,G23948T,C27807T > A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > C25000T > C22995A,A23055G,A23063T,T23075C,A24424T,T24469A,C25584T,A27259C > G22578A,C22674T,T22679C,C22686T,A23040G > G22992A,A23013C > A18163G,T22882G,C26577G,G26709A > G22813T > T22200G > G22775A > C19955T > G10447A,C15714T,C26060T > A20055G > C26858T > C9534T > C12880T,C21618T > C17410T > G27382C,A27383T,T27384C > C9344T,A9424G,C9866T > A22786C > A22688G > A29510C > C10198N > C22792N > A2832G > T5386G > G8393A > G22599N XGJ XFG > G22217A,A23598G > T979A,C4534T,C6990T,T15939C XGK XFG > G22217A,A23598G > A5560G > C2065T,C5822T,C6541T,G7027T XGL XFG > G22217A,A23598G > A5560G > C6629T,C6723T,C7051T,T18765A XGM LP.8.1 > T17334G > C21627A > T21653C > T16600C > A23598G,G23856T > C4467T,C4893T,G7675T,C7869T,C8818T,C17436T,A20364G XGN XFG.3.5.2 > C10369T > A6944G > C20104T,A24819G,G24872T,C25083T,G25401A,C25693T,C25925T,C27649T XGP XFG > C4214T > C8350T > T7869C > T8818C > T5239C > G1954A,C4999T,C7113T > A12892G , C16600T > G27948T > C4893T,C6720T,C7735T,C9166A,A17460G,C18646T,C20178T,T27164C XGQ XFG > C4214T > C8350T > T7869C > T8818C > T5239C > G1954A,C4999T,C7113T > A12892G , C16600T > G27948T > A9274G,T17268C, T29409C XGR XFG > C4214T > C8350T > T7869C > T8818C > T5239C > G1954A,C4999T,C7113T > A12892G , C16600T > T2074C,G3403A,G3404A,T3814C,T5701G,G17334T,A18298G,C18885T,C25708T,C26822T,T28822G XGS XFG > C8350T > C9592T > A10978T > C3096T,C21928T, T29409C XGT JN.1 > T28297C > T22930A > G18492A ,A19326G,T21738C > T16342C,T17859C, T18894C > G15451A,C15738T, A15756T ,T15939C > T15573C,C16323T,C21627A,G22112A > C15960T,G22865T,C23039G > T11042G ,C11572T, T12789C , T12815C ,C12854T > C9866T,A10042G, A11727G ,C12473T,C12924T,G14290T > C7113T, G7842A , T8293C ,C8299T,A8390G, A8393G > T4214C,C29409T > C3096T, C5239T ,T15366C,A22995C,T23600C,G25947A,C27812T,T28822G XGU XFG.5.2 > C14318T > G2051A,C10778T,C11008T > T22792C,G22893A,A22994G,G23021A,T23277C,A23598G,G24872T,C25006T,G25352T,G25552T,C26801T,C28291A,C28297T,G28884C,C29272T, T29409C XGV XFG > C4214T > C8350T > T7869C > T8818C > T5239C > G1954A,C4999T,C7113T > C1348T,T3814C,T4723C,C5144T,G9646A,C10525T,C10969T,C12400T,C13608T,C13824T,C23188T,C24319T XGW XFG > C4214T > C8350T > T7869C > T8818C > T5239C ,C20178T > G1954A,C4999T,C7113T > C3141A,C4893T,C10228T,T14418C,A22320G,C24034T,A25067G,G26109T, T29409C +XGY JN.1 > T28297C > T22930A > C7113T > G18492A ,A19326G,T21738C > T16342C,T17859C, T18894C > G15451A,C15738T, A15756T ,T15939C > T15573C,C16323T,C21627A,G22112A > C15960T,G22865T,C23039G > T11042G ,C11572T, T12789C , T12815C ,C12854T > C9866T,A10042G, A11727G ,C12473T,C12924T,G14290T > C6501A, G7842A , T8293C ,C8299T,A8390G, A8393G > C5878T,C28958A > C29409T > A22995C > T3431G , C3565T ,C3686T,C4683T,C11328T,A11947G,T13572C,C18306T,A21343G,G25617T miscBA1BA2Pre10k B.1.1 > C10029T > C23854A,G23948T,C27807T > A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > C25000T > C22995A,A23055G,A23063T,T23075C,A24424T,T24469A,C25584T,A27259C > G22578A,C22674T,T22679C,C22686T,A23040G > G22992A,A23013C > A18163G,T22882G,C26577G,G26709A > G22813T > T22200G > G22775A > C19955T > G10447A,C15714T,C26060T > A20055G > C26858T > C12880T,C21618T > C17410T > G27382C,A27383T,T27384C > C9866N > A22786C > A22688G > A29510C > C10198T > C22792N > A2832G > T5386G > G8393A > G22599N miscBA1BA2Post13k B.1.1 > C10029T > C23854A,G23948T,C27807T > A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > C25000T > C22995A,A23055G,A23063T,T23075C,A24424T,T24469A,C25584T,A27259C > G22578A,C22674T,T22679C,C22686T,A23040G > G22992A,A23013C > A18163G,T22882G,C26577G,G26709A > G22813T > T22200G > G22775A > C19955T > C15714T,C26060T > A20055G > C26858T > C21618T > C17410T > G27382C,A27383T,T27384C > A22786C > A22688G > A29510C > C10198N > C22792N > A2832G > T5386G > G8393A > A11537G > T13195C > G22599N miscBA2BA1PostSpike B.1.1 > C10029T > C23854A,G23948T,C27807T > A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > G22578A,C22674T,T22679C,C22686T,A23040G,A23055G,A23063T,T23075C,A24424T,T24469A,C25584T > G22992A,C22995A,A23013C,C25000T,A27259C > A18163G,T22882G,C26577G,G26709A > G22813T > T22200G > G22775A > C19955T > G10447A,C15714T,C26060T > A20055G > T670G,G4184A,C4321T > C9534T > C12880T,C21618T > C17410T > C9344T,A9424G > A22786C > A22688G > C2790T > C10198N > A26530N > C9866T miscDeltaBA1Post4k B.1.1 > C21846T > C10029T > C15240T,C23854A,G23948T,C27807T > C21762T,C24130A,A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > G22578A,T22673C,C22674T,T22679C,C22686T,A23040G,A23055G,A23063T,T23075C,A24424T,T24469A,C25584T > G22992A,C22995A,A23013C,C25000T,A27259C > A18163G,T22882G,C26577G,G26709A > G22813T > G8393A,A11537G > T13195C > G22898A,A26530G > C23202A > C24503T > G23048A > G4181T > G210N > C21595N > G22599N miscDeltaBA1Post11k B.1.1 > C21846T > C10029T > C15240T,C23854A,G23948T,C27807T > C21762T,C24130A,A28271T > T13195C,C23525T,T23599G,C23604A,C26270T,C28311T > C24503T,C25000T > C22995A,A23055G,A23063T,T23075C,C23202A,A24424T,T24469A,C25584T,A27259C > G22578A,T22673C,C22674T,T22679C,C22686T,A23040G > G22992A,A23013C > A18163G,T22882G,C26577G,G26709A > G22813T > A26530G > G23048A > G22898A > C21595N > G4181T > C6402T,C7124T > C8986T,G9053T > G210N > A11332G > A11201G > G22599N miscBA.5.2CJ.1 BM.1.1 > T23031C > C1627T > T23018C miscBA.5BA.2.75 BA.5 > A28330N > A27038N > C3796N,C3927T,C4586N,C5183T,C9866N,A12444N,G15451N