d3ab1ece644f987c98b64f9ce8933153de6f1cb5 angie Mon Oct 16 10:34:15 2023 -0700 Updated B.1.160 path and added paths for several older lineages that were not annotated correctly. Updated BA.2.86_dropout to cover more seqs. pango-designation release v1.23 diff --git src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv index 17086bd..20d1ba7 100644 --- src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv +++ src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv @@ -285,31 +285,41 @@ P.1.16 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C23525T > G23012A > A6613G,G25088T > A22812C,A23063T,T26149C > G21974T,A28877T,G28878C > C28512G > C13860T,G17259T > C12778T > A5648C > C3828T,G28167A > C24642T > T733C,C2749T > A6319G > G22132T > C21614T > C21621A > C21638T > A25746G P.1.17 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C23525T > G23012A > A6613G,G25088T > A22812C,A23063T,T26149C > G21974T,A28877T,G28878C > C28512G > C13860T,G17259T > C12778T > A5648C > C3828T,G28167A > C24642T > T733C,C2749T > A6319G > G22132T > C21614T > C21621A > C21638T > T11296N > C28603T > C346T P.1.17.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C23525T > G23012A > A6613G,G25088T > A22812C,A23063T,T26149C > G21974T,A28877T,G28878C > C28512G > C13860T,G17259T > C12778T > A5648C > C3828T,G28167A > C24642T > T733C,C2749T > A6319G > G22132T > C21614T > C21621A > C21638T > T11296N > C28603T > C346T > T11288N,G11291N > A6704G > G19999T > C21707T P.2 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > C12053T > C29754N > G23012A > C100N > G28975T > T10667G > C11824T > G28628T P.3 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > A22356N,C29724N > C23604A > T9867C > A4926G,C7564A,C11308A,T24187A,A27897C > T23341C > C12049T,C12053T,G23012A,A23063T > G24836A,C24863T > C17339T > C17074T P.4 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > G1811A > C3177T,C11450A,C12880T > A136N,C9693T,T9867C,C12008T,A15932G,G18756T,T20745C,G21987N,T22917G,A23720G,G25540A,C25708T,A28271C,C28932T P.5 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > C24904T > G25906T > G5180A,G9929A,C21846T > G23012C,A23064C,C27807T,A28271T,C28311T P.6 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > C12053T > G21305A > G2534T > C1077T,C3736T,C7043T,C10029T,A14113G,C24382T > G23587C,C25665T > C8980T,G23593T P.7 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > C12053T > C17676T > C17172T,C25844T,C28311T C.37 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > G10097A > C23731T > C4002T > C13536T > T7424G,T9867C,A28271T > C9857T > C10029T,C28311T > G21786T,C21789T > C7124T > T22917A,T23031C > C24138A C.37.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > G10097A > C23731T > C4002T > C13536T > T7424G,T9867C,A28271T > C9857T > C10029T,C28311T > G21786T,C21789T > C7124T > T22917A,T23031C > C24138A > G28913T > C29311T > C26894T > T11296N > A28877T > G28878C > C20806T B.1.621 C14408T > C241N > C3037T > A23403G > G25563T > C18877T > C28005T,C28093T > C27925A > A13057T,C23604A > A23063T > C6037T,G23012A > C10029T,A11451G,C20148T > C17491T,C21846T,C28887T > C4878T > A21993C,T21995A > T19035C,G22599A,A26492T > A3428G,A28272T B.1.621.1 C14408T > C241N > C3037T > A23403G > G25563T > C18877T > C28005T,C28093T > C27925A > A13057T,C23604A > A23063T > C6037T,G23012A > C10029T,A11451G,C20148T > C17491T,C21846T,C28887T > C4878T > A21993C,T21995A > T19035C,G22599A,A26492T > A3428G,A28272T > C17707T > C5192T > A6704G,T22384A > C9120T > C20402T > T29748N > C28657T > G26167T B.1.621.2 C14408T > C241N > C3037T > A23403G > G25563T > C18877T > C28005T,C28093T > C27925A > A23063T,C23604A > C10029T,C28887T > A28272T > G23012A > A26492T > A11451G,C17491T,C20148T > C21846T > C6037T > C4878T > A13057T,A21993C,T21995A > G22599A > T19035C > A3428G > C17707T > G29779N > C5192T > G29736N > G23311T,G26959A > T22907A BB.2 C14408T > C241N > C3037T > A23403G > G25563T > C18877T > C28005T,C28093N > C27925A > A13057T,C23604A > A23063T > C6037T,G23012A > C10029T,A11451G,C20148T > C17491T,C21846T,C28887T > C4878T > A21993C,T21995A > T19035C,G22599A,A26492T > A3428G,A28272T > C17707T > C5192T > A6704G,T22384A > C9120T > C20402T > T29748N > C28657T > G26167T > C15963T > C24378T,C29409T -B.1.160 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > G28975C > T26876C > G29399A > C25710T > G9526T,G22992A > G5629T > C11497T +B.1.160 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > G28975C > T26876C > G29399A > C25710T > G9526T,G22992A > G5629T +B.1.160.14 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > G28975C > T26876C > G29399N > C25710T > G9526T,G22992A > G5629T > G15766T,A16889G,G17019T > C11497T > G13993T > C4543T > C27434T > G25606T > C7504T +B.1.160.14_18580 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > G28975C > T26876C > G29399N > C25710T > G9526T,G22992A > G5629T > G15766T,A16889G,G17019T > C11497T > G13993T > C4543T > C27434T > G25606T > C7504T > G18580A > C313N +B.1.160.16 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > G28975C > T26876C > G29399N > C25710T > G9526T,G22992A > G5629T > G15766T,A16889G,G17019T > C11497T > G13993T > C4543T > C27434T > C27964T > G29557T +B.1.160.16_13923 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > G28975C > T26876C > G29399N > C25710T > G9526T,G22992A > G5629T > G15766T,A16889G,G17019T > C11497T > G13993T > C4543T > C27434T > C27964T > G29557T > C13923T +B.1.222 C14408T > C241N > C3037T > A23403G > C22879A +B.1.466 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > C28887T +B.1.466.2 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > C28887T > C22879A > C3768T,C5184T +AU.2 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > C28887T > C22879A > C3768T,C5184T > C17012T > C3096T,C11195T,T22219C > C683T,C12880T,C23604G > C29743N > C29718N > C12439T > G20002T,G25314T > A11117G +AU.3 C14408T > C241N > C3037T > A23403G > G25563T > C26735T > C18877T > C28887T > C22879A > C3768T,C5184T > C17012T > C3096T,C11195T,T22219C > C683T,C12880T,C23604G > C29743N > C29718N > C8109T,G29315C > C19586T +B.1.526 C14408T > C241N > C3037T > A23403G > C1059T > G25563T > C25517T > T9867C,A20262G > A22320G > C21846T > A16500C > C28869N,C23664N,G28975N B.1.1.315 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C29466T > C22388T,C26060T,A29771N > T3256C,C19718T > A1163T,G19542T B.1.1.232 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C6573T > G12191T > T16479C > T2537G B.1.1.529_dropout C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846N > C10029N > C15240N,C23854N,G23948N,C27807N > C21762N,C24130N,A28271T > C10449N,C23525N,T23599G,C23604A,C26270N,C28311T > G22578N,T22673N,C22674N,T22679N,C22686N,A23040N,A23055N,A23063N,T23075N,A24424N,T24469N,C25000N,C25584N,A27259N B.1.1.529 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C10029T,C10449A > A18163N > G22578A,C22674T,T22679C,C22686T > G22813N,T22882N,G22992N,C22995N,A23013N,A23040N,A23055N,A23063N,T23075N,C23525N,T23599N,C23604N,C23854N > G23948T,A24424T,T24469A > C26270N,C26577N,G26709N > A27259C,C27807T,A28271T,C28311T > T670N,C2790N,A2832N,T5386N,G4184N,C4321N,G8393N,C9344N,A9424N,C9534N,C9866N,G10447N,A11537N,C12880N,T13195N,C15240N,C15714N,C17410N,C19955N,A20055N,C21618N,C21762N,C21846N,T22200N,T22673N,A22688N,G22775N,A22786N,G22898N,G23048N,C23202N,C24130N,C24503N,T25000N,C25584N,C26060N,A26530N,C26858N,G27382N,A27383N,T27384N,A29510N > G22599N BA.1_dropout C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C10029T > C15240T,C23854A,G23948T,C27807T > C21762T,A28271T > C10449A,C23525T,T23599G,C23604A,C26270T,C28311T > C25000T > A23055G,A23063T,T23075C,A27259C > G22578A,C22674T,T22679C,C22686T,A24424T,C25584T > T22673C,A23040G,T24469A > G22992A,C22995A,A23013C > A18163G,C26577G > G26709A > T22882G > G22813T > A11537G > G8393A > G23048A > C23202A > A2832N,T13195N,G22898N,C24130N,A26530N BA.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A,A26530G > G23048N BA.1.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A,A26530G > C24503T > T5386G > G23048A > G22599A BA.1.1.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C25000N > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A > A26530N > C24503T > T5386G > G23048A > G22599A > G11291N > A16064G BC.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A,A26530G > C24503T > T5386G > G23048A > G22599A > A16064G > C5833T > A22259G BC.2 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C25000N > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A > A26530N > C24503T > T5386G > G23048A > G22599A > G11291N > A16064G > C13862T > G19348A BA.1.1.2 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A,A26530G > C24503T > T5386G > G23048A > G22599A > C2470T > C10560G BA.1.1.3 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A,A26530G > C24503T > T5386G > G23048A > G22599A > C4582T > C23934T,A28416G BA.1.1.4 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A,A26530G > C24503T > T5386G > G23048A > G22599A > G16744A > T25711C BA.1.1.5 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A,A26530G > C24503T > T5386G > G23048A > G22599A > C2470T > C26996T > A2589G BA.1.1.6 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C23604A > A23063T > T22882G,C22995A,A23013C,C23525T,C24130A > C10029T,G22578A,C22674T,T22679C,C22686T,G22813T,G22992A,A23040G,A23055G,T23075C,T23599G,A27259C,C27807T > C10449A,A18163G,C23854A,G23948T,A24424T,T24469A,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > A2832G,G8393A,A11537G,T13195C,C15240T,C21762T,T22673C,G22898A,C23202A,A26530G > C24503T > T5386G > G23048A > G22599A > C2470T > C28757T @@ -740,31 +750,31 @@ BA.2.75.9 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C23604A > A23063T > T22882G,C22995A,A23013C,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 > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > A23040A > C22033A > C3796T,C3927T,C4586T,C5183T,A12444G,G15451A,A22190G,G22331A,G22577C,G22898A,T22942G,A26275G > A22001G,T22016C > G17679T > G22599C CB.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C23604A > A23063T > T22882G,C22995A,A23013C,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 > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > A23040A > C22033A > C3796T,C3927T,C4586T,C5183T,A12444G,G15451A,A22190G,G22331A,G22577C,G22898A,T22942G,A26275G > A22001G,T22016C > G17679T > G22599C > T23018G BA.2.75.10 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C23604A > A23063T > T22882G,C22995A,A23013C,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 > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > A23040A > C22033A > C3796T,C3927T,C4586T,C5183T,A12444G,G15451A,A22190G,G22331A,G22577C,G22898A,T22942G,A26275G > A22001G,T22016C > A12140G BA.2.76 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > G22599C > T22304A BA.2.76.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > G22599C > T22304A > C7528T > G19684T > T29233A > C18555T,G22632A > G5048A BA.2.76.2 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > G22599C > T22304A > C7528T > G19684T > C28603T > G11453A,A22115C BA.2.77 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C23604A > A23063T > T22882G,C22995A,A23013C,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 > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C10332T > C26305T > G24368C > G22580A,A22629C,T22917G,A23040A,G25691T,C26533T BA.2.78 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > A29700N > G29628T BA.2.79 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > A22910G > C16393T BA.2.79.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C25416T > A22910G > C16393T > A22305C > C6312T BA.2.80 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C22792T > C27923T > A9343G > A2783C,C4475T,C26873T > G22580A,G22599C,A22629C BA.2.81 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C22792T > C17502T > T14171C BA.2.82 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > T21765C > G12278A,C13197T > A7201G > G22599C BA.2.83 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C23604A > A23063T > T22882G, A23013C,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 > C2790T > T670G,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > T22942G > C13197T > A6785G,C19983T,C21587A,T21752C,G22203T,G22317A,G22898A,C22995N,G24834A,G25352T,G26416C > C6701N,C10340N,T21180N,A28467N BA.2.85 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,C25000T,C25584T,C26270T,C26577G,G26709A,A28271T,C28311T > T670G,C2790T,G4184A,C4321T,C9344T,A9424G,C9534T,C9866T,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C > C28432T > A23513G -BA.2.86_dropout C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G, C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A, T23018C,T23019C, C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > C21622N,G21624N,G22895N,T22896N,G22898N,A22910N,C22916N,T22942N,T23005N,G23012N,C23013N,G23222N +BA.2.86_dropout C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T22917G > C22295A > A22556G,A22629C > C897A,G3431T,A7842G,C8293T,G8393A,G11042T,C12789T,T13339C,T15756A,A18492G, C21711T,G21941T,T22032C,C22033A,A22034G,C22208T,C22353A,G22577C,G22770A, T23018C,T23019C, C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26833T,C28958A > C21622N,G21624N,G22895N,T22896N,G22898N,A22910N,C22916N,T22942N,T23005N,G23012N,C23013N,G23222N,C26681N BA.2.86 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,T22896A,G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A BA.2.86.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,T22896A,G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T JN.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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,T22896A,G22898A,A22910G,C22916T,T22942A,T23005A,G23012A,T23018C,T23019C,G23222A,C23271T,C23423T,C23604G,C24378T,C24990T,C25207T,G26529C,A26610G,C26681T,C26833T,C28958A > A6183G,C12815T > G21770A > T3565C,G11727A,C18894T,T22926C > T27810C BA.3 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > C29311T > G3791A,C3792A,A22812C BA.4_dropout C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T22917N > T23018G BA.4.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T21570G BA.4.1.1 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T21570G > A23570G BA.4.1.2 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T21570G > C14407T > C27644T,C29686N > C3176T BA.4.1.3 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T21570G > C28435T > C11758T > A2435G BA.4.1.4 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T21570G > G25266T BA.4.1.5 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T21570G > C20762T BA.4.1.6 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T21570G > C13329T BA.4.1.7 C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > 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 > T21570G > C17439T > A18941G > A6084G > A21717G > C26885T > C14407T