922009dcce8772c595c868e9d4377d2b12e183da angie Tue Jan 4 12:08:24 2022 -0800 Add Omicron label to 21L, add 21M. diff --git src/hg/utils/otto/sarscov2phylo/nextstrain.clade-mutations.tsv src/hg/utils/otto/sarscov2phylo/nextstrain.clade-mutations.tsv index 3ff0537..9166e53 100644 --- src/hg/utils/otto/sarscov2phylo/nextstrain.clade-mutations.tsv +++ src/hg/utils/otto/sarscov2phylo/nextstrain.clade-mutations.tsv @@ -9,16 +9,17 @@ 20D > C14408T > C241T > C3037T > A23403G > G28881A > G28882A,G28883C > G10097A > C23731T > C4002T > C13536T 20F > C14408T > C241T > C3037T > A23403G > G28881A > G28882A,G28883C > A1163T > T7540C,G16647T > G22992A,G23401A > C18555T 20E (EU1) > C14408T > C241T > C3037T > A23403G > C6286T > C28932T > C22227T > G29645T 21D (Eta) > C14408T > C241T > C3037T > A23403G > C28887T > C24748T,T26767C,A28699G > A21717G,G23012A,G23593C,T24224C,C26305T,C28308G > C1498T,A1807G,G2659A,C6285T,T8593C,C18171T,G29543T > C14407T,A20724G > C9565T 21G (Lambda) > C14408T > C241T > C3037T > A23403G > G28881A > G28882A,G28883C > G10097A > C23731T > C4002T > C13536T > T7424G,C9857T,T9867C,C10029T,A28271T,C28311T > G21786T,C21789T > C7124T,T22917A,T23031C 20G > C14408T > C241T > C3037T > A23403G > G25563T > C1059T > C27964T > C10319T > G25907T > C28869T > C28472T > A18424G > C21304T 20H (Beta,V2) > C14408T > C241T > C3037T > A23403G > G25563T > C1059T > C23664T > G5230T,A21801C,C25904T,C26456T > A10323G,G22813T > C28887T > G174T > A23063T > G23012A 21H (Mu) > C14408T > C241T > C3037T > A23403G > G25563T > C18877T > A13057T,C23604A,C27925A,C28005T,C28093T > A23063T > C6037T,G23012A > C4878T,C10029T,A11451G,C17491T,C20148T,C21846T,G24410N,C28887T > T19035C,A21993C,T21995A,G22599A,A26492T 21C (Epsilon) > C14408T > C241T > C3037T > A23403G > G25563T > C1059T > C28887T > A28272T > C29362T > T22917G > C26681T > G17014T > G22018T > G21600T 20J (Gamma,V3) > C14408T > C241T > C3037T > A23403G > G28881A > G28882A,G28883C > G25088T > T26149C > A6613G,G17259T,C23525T > G21974T,G23012A,A23063T,C28512G,A28877T,G28878C > C12778T,C13860T > C3828T,A5648C,G28167A > C2749T > C24642T > T733C,A6319G 21F (Iota) > C14408T > C241T > C3037T > A23403G > G25563T > C1059T > C28869T > C23664T > C25517T,G28975A > A20262G > T9867C > A22320G > C21846T > A16500C 20I (Alpha,V1) > C14408T > C241T > C3037T > A23403G > G28881A > G28882A,G28883C > G28280C,A28281T,T28282A > A23063T > C15279T > C28977T > A28111G > C913T > C5986T,T6954C,C23604A,C23709T > C23271A > T16176C,T24506G,G24914C > C14676T,C27972T 21I (Delta) > C14408T > C241T > C3037T > A23403G > G29742T > T22917G > G210T,C21618G,T27638C,G28881T > C23604G,G29402T > C25469T > C22995A,G24410N > C27752T > A28461G > C16466T > T26767C > G15451A > T11418C > C9891T > C11514T > C5184T > A5584G > C13019T > C22227T 21J (Delta) > C14408T > C241T > C3037T > A23403G > G29742T > T22917G > G210T,C21618G,T27638C,G28881T > C23604G,G29402T > C25469T > C22995A,G24410N > C27752T > A28461G > C16466T > T26767C > G15451A > C10029T > C19220T > G28916T > G4181T > C27874T > C7124T > G9053T > C8986T > A11332G > A11201G 21K (Omicron) 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 -21L 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,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C +21L (Omicron) 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,C10198T,G10447A,C12880T,C15714T,C17410T,C19955T,A20055G,C21618T,T22200G,A22688G,G22775A,A22786C,C26060T,C26858T,G27382C,A27383T,T27384C,A29510C +21M (Omicron) C14408T > C241N > C3037T > A23403G > G28881A > G28883C > G28882A > C21846T > C10029T > T22679C,C25584T,C27807T > C22995A,A27259C,A28461N > C7124N,C21762T,G22578A,G22898A,G22992A,G23048N,C23604A > G22813T,T22882G,A23013C,A23040G,A23055G,A23063T,T23075C,C23525T,T23599G