62b4b182a499b110f3bc2045b7859bc20e82e5e8 angie Wed Nov 10 17:03:41 2021 -0800 Adding missing mutation C1427T to P.1.10 (also mask 11296). diff --git src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv index 9afc8f5..34e2181 100644 --- src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv +++ src/hg/utils/otto/sarscov2phylo/pango.clade-mutations.tsv @@ -172,31 +172,31 @@ Q.4 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > T28282A > G28280C,A28281T > A23063T > C15279T > C28977T > A28111G > C913T > C5986T > C23709T > T6954C > C23604N > C23271A > G24914C > T24506G > T16176C > C27972T > C14676T > C3267T > C5388A > G28048T > T11296G > A17615G > A12162G > A4964G Q.5 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > T28282A > G28280C,A28281T > A23063T > C15279T > C28977T > A28111G > C913T > C5986T > C23709T > T6954C > C23604A > C23271A > G24914C > T24506G > T16176C > C27972T > C14676T > C3267T > C5388A > G28048T > T11296G > C2453T > G21974C > T23031C > C15656T,C28677T,C29114A,G29266C Q.6 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > T28282A > G28280C,A28281T > A23063T > C15279T > C28977T > A28111G > C913T > C5986T > C23709T > T6954C > C23604A > C23271A > G24914C > T24506G > T16176C > C27972T > C14676T > C3267T > C5388A > G28048T > A28095T > T11296G > T15096C > C25096T > C19164T > C29171T Q.7 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > T28282A > G28280C,A28281T > A23063T > C15279T > C28977T > A28111G > C913T > C5986T > C23709T > T6954C > C23604A > C23271A > G24914C > T24506G > T16176C > C27972T > C14676T > C3267T > C5388A > G28048T > A28095T > G28884C > T15096C > C5944T > T18018C > A17337G > A7069C Q.8 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > T28282A > G28280C,A28281T > A23063T > C15279T > C28977T > A28111G > C913T > C5986T > C23709T > T6954C > C23604A > C23271A > G24914C > T24506G > T16176C > C27972T > C14676T > C3267T > C5388A > G28048T > A28095T > T11296G > T15096C > C25096T > C19164T > G11291A > T11288A > A25974C > C12525T > G29751T P.1 C14408T > C241T > 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 P.1.1 C14408T > C241T > 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 > T11296G > G11291A > T13851C P.1.2 C14408T > C241T > 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 > T11296G > G25641T > C1912T > A2550G,C5724T,G25855T,C28789T P.1.3 C14408T > C241T > 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 > T11296G > C5526T > C27942T P.1.4 C14408T > C241T > 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 > T11296G > T23599G P.1.5 C14408T > C241T > 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 > C3117T,A18945G > T23599A P.1.6 C14408T > C241T > 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 > T11296G > C15714T > C10615T > C23604A P.1.7 C14408T > C241T > 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 > T11296G > C23604A P.1.8 C14408T > C241T > 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 > T11296G > T592C > C9891T > A4040G > C26039T > A20055G,C22971A,G27915T > C23604G,G25266T P.1.9 C14408T > C241T > 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 > T11296G > T592C > C9891T > A4040G > C6040T > C18647T,G23587C -P.1.10 C14408T > C241T > 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 > T11296G +P.1.10 C14408T > C241T > 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 > C1427T P.1.10.1 C14408T > C241T > 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 > C1427T > C13329T > G11291A,T11296G > C2841T > G4300T > C26873T P.1.10.2 C14408T > C241T > 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 > C1427T > C13329T > C20178T > T4033C,C5850T,T29726C P.1.11 C14408T > C241T > 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 > T11296G > G11291A > T11288A > C7945T > C23604G P.1.12 C14408T > C241T > 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 > T11296G > T3592C P.1.13 C14408T > C241T > 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 > C1912T > G10610T P.1.14 C14408T > C241T > 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 > C23380T > G9105A P.1.15 C14408T > C241T > 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 > T11296G > G11291A > A2596G > C18129T P.1.16 C14408T > C241T > 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 > C241T > 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 > T11296G > C28603T > C346T P.1.17.1 C14408T > C241T > 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 > T11296G > C28603T > C346T > T11288A,G11291A > A6704G > G19999T > C21707T P.2 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > C12053T > C29754T > G23012A > C100T > G28975T > T10667G > C11824T > G28628T P.3 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > A22356N,C29724T > C23604A > T9867C > A4926G,C7564A,C11308A,T24187A,A27897C > T23341C > C12049T,C12053T,G23012A,A23063T > G24836A,C24863T > C17339T > C17074T P.4 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > G1811A > C3177T,C11450A,C12880T > A136G,C9693T,T9867C,C12008T,A15932G,G18756T,T20745C,G21987N,T22917G,A23720G,G25540A,C25708T,A28271C,C28932T P.5 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > C24904T > G25906T > G5180A,G9929A,C21846T > G23012C,A23064C,G24410N,C27807T,A28271T,C28311T P.6 C14408T > C241T > C3037T > A23403G > G28881A > G28883C > G28882A > G25088T > C12053T > G21305A > G2534T > C1077T,C3736T,C7043T,C10029T,A14113G,C24382T > G23587C,C25665T > C8980T,G23593T