f51e81544b68da673a608a8f8cb221c8f964af93 angie Thu Jun 18 15:20:35 2026 -0700 Latest new lineages. diff --git src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv index 3559470c462..349cda6e09b 100644 --- src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv +++ src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv @@ -3763,30 +3763,32 @@ PQ.2.1.3 PQ.2.1 > C19263T SH.1 PQ.2.1.3 > T2080C > T1330C > T2996G > T8296N,C10252N,C10747N,T24529N,T25099N PQ.2.1.4 PQ.2.1 > C2788T SY.1 PQ.2.1.4 > T25485C > G23126C > C10543N,G21255N PQ.2.1.5 PQ.2.1 > T24194C PQ.2.1.6 PQ.2.1 > C7420T PQ.2.1.7 PQ.2.1 > C20762T RZ.1 PQ.2.1.7 > A17008G > A22896C > T5179N,G10261N,C10702N,T11725N,C24082N RZ.2 PQ.2.1.7 > A22029T > C11962N,C29358N RZ.2.1 RZ.2 > C11962T,C29358T > G22599C > C5314N,A11576N,C15720N,C26885N PQ.2.1.8 PQ.2.1 > C13436T,G16741T,C20543T > T23386C PQ.2.1.9 PQ.2.1 > C10369T PQ.2.1.10 PQ.2.1 > C27149T PQ.2.1.11 PQ.2.1 > C24422T > T23600C,C24034T SZ.1 PQ.2.1.11 > A4774G,A6777T > C28657T > C11704T > A23267G > T23905N +SZ.2 PQ.2.1.11 > A4774G,A6777T > C28657T > C1594T +SZ.3 PQ.2.1.11 > A4774G,A6777T > A22896C > G1890N,C7083N PQ.2.1.12 PQ.2.1 > C6268T,T6376C PQ.2.1.13 PQ.2.1 > C21855T,T22016A > A6551N,T11737N,A11908N,C24370N,C25521N,C26768N,C28708N PQ.2.1.14 PQ.2.1 > T10612G PQ.2.1.15 PQ.2.1 > C16376T > A5353N PQ.2.1.16 PQ.2.1 > T20571C > T24235C,G25352T PQ.2.1.17 PQ.2.1 > A5235G > C6926T > T15870C,G22132T > C829N 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 @@ -4396,31 +4398,32 @@ XFG.4.1.5 XFG.4.1 > C29580T > C21762T > T26304N XFG.4.1.6 XFG.4.1 > C26894T XFG.4.1.7 XFG.4.1 > A5177G XFG.4.2 XFG.4 > A25134G XFG.4.3 XFG.4 > T28474A XFG.4.4 XFG.4 > G8017T XFG.4.5 XFG.4 > G22218A > A2825G XFG.5 XFG > C20178T > C10039T XFG.5.1 XFG.5 > C8152T > C6543T XFG.5.1.1 XFG.5.1 > C23625T,T25502C > C11300N,A19365N,C22570N XFG.5.1.2 XFG.5.1 > C853T > G25244T XFG.5.1.3 XFG.5.1 > C23601T 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.5.1.7 XFG.5.1 > A23598G,A28081G > C29311N +XFG.5.1.8 XFG.5.1 > C12676T > C19524T > C13119T,G22865T > A7240N,C11300N,T19737N 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 @@ -4575,30 +4578,33 @@ XFJ 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 > G22599C > G22132T > C5239T, G12892A,T16600C,T21653C,A22107G, > C21627A > C22986T > T22896C > T22884G > C22792T,T22930A,A23933G,C25844T,G27414A,T28297C > T20799C XFJ.1 XFJ > G12769T XFJ.1.1 XFJ.1 > A15036G > C29200T > A12928G XFJ.1.2 XFJ.1 > A15036G > A22010G > C14913N,C25671N,C26110N XFJ.1.3 XFJ.1 > C2388T,A21875G,A22893G > T10717N XFJ.2 XFJ > G18903A XFJ.2.1 XFJ.2 > A22995T XFJ.2.2 XFJ.2 > C29386T > C7768T XFJ.3 XFJ > G25352T XFJ.3.1 XFJ.3 > C4893T XFJ.3.1.1 XFJ.3.1 > G23599T RA.1 XFJ.3.1.1 > C4021T > A22268T XFJ.3.1.2 XFJ.3.1 > G28727T,A28959C > C9559N,C11962N RW.1 XFJ.3.1.2 > C9559T,C11962T > C2878T > A22995C > C29281N RW.1.1 RW.1 > G22865T +RW.1.1.1 RW.1.1 > T7092G > C15450N +RW.1.1.2 RW.1.1 > T8719C +RW.1.1.3 RW.1.1 > C25413T XFJ.3.1.3 XFJ.3.1 > C3587T > A6277N XFJ.3.1.4 XFJ.3.1 > A19890G XFJ.3.2 XFJ.3 > G14188A XFJ.4 XFJ > C18252T > A22012C, A22995C XFJ.4.1 XFJ.4 > A27300T > T1501C XFJ.5 XFJ > C7044T,G22346T > A2356N XFJ.6 XFJ > C7006T XFJ.7 XFJ > T27212C XFJ.8 XFJ > C1919T > C20470A XFJ.8.1 XFJ.8 > A1565G,G25352T > C24310N,G28079N XFJ.9 XFJ > T2308C,T10273C XFJ.10 XFJ > C21682T XFK XEC > C7113T > C12616T > A13121T > G15372T > C17502T,G21776A,G22203T,A25590G XFL XEC > T24376C > C593T,C3505T,G24193T > C5534T,A5535T,G28378T XFM 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 > G22599C > G22132T > C5239T, G12892A,T16600C,T21653C,A22107G, > C21627A > C22986T > T22896C > T22884G > C7869T,C8818T,T22930A,A23933G,C25844T,G27414A > G4504A,T4579A,T15207C,C21928T,A26555C