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Update lineage_notes.txt
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@Over-There-Is
Over-There-Is authored May 21, 2024
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30 changes: 15 additions & 15 deletions lineage_notes.txt
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Expand Up @@ -1056,14 +1056,14 @@ JN.1.1.2 Alias of B.1.1.529.2.86.1.1.1.2, S:G181E, France, from sars-cov-2-varia
JN.1.1.3 Alias of B.1.1.529.2.86.1.1.1.3, S:R346T
JN.1.1.4 Alias of B.1.1.529.2.86.1.1.1.4, S:V1264L on C9142T branch, from #2476
JN.1.1.5 Alias of B.1.1.529.2.86.1.1.1.5, S:R346T on C9142T branch, from #2492
KR.1 Alias of B.1.1.529.2.86.1.1.1.5.1, S:F456L, after C28498T, from sars-cov-2-variants/lineage-proposals#1253
JN.1.1.6 Alias of B.1.1.529.2.86.1.1.1.6, S:F456L, from sars-cov-2-variants/lineage-proposals#1253
KR.1 Alias of B.1.1.529.2.86.1.1.1.5.1, S:F456L (T22928C), after C28498T, from sars-cov-2-variants/lineage-proposals#1253
JN.1.1.6 Alias of B.1.1.529.2.86.1.1.1.6, S:F456L (T22928C), from sars-cov-2-variants/lineage-proposals#1253
KZ.1 Alias of B.1.1.529.2.86.1.1.1.6.1, ORF1b:V1092F
KZ.1.1 Alias of B.1.1.529.2.86.1.1.1.6.1.1, S:R346T from #2548
KZ.1.1.1 Alias of B.1.1.529.2.86.1.1.1.6.1.1.1, S:T572I from #2548
JN.1.1.7 Alias of B.1.1.529.2.86.1.1.1.7, S:S31F, from sars-cov-2-variants/lineage-proposals#1157
LC.1 Alias of B.1.1.529.2.86.1.1.1.7.1, S:R346T
JN.1.1.8 Alias of B.1.1.529.2.86.1.1.1.8, S:F456L (22930A), S:H445P, ORF1a:S2083I, C850T
JN.1.1.8 Alias of B.1.1.529.2.86.1.1.1.8, S:F456L (T22930A), S:H445P, ORF1a:S2083I, C850T
JN.1.2 Alias of B.1.1.529.2.86.1.1.2, S:M1229I, USA/Canada, from sars-cov-2-variants/lineage-proposals#1087
JN.1.2.1 Alias of B.1.1.529.2.86.1.1.2.1, S:H1101Y, Ireland, from sars-cov-2-variants/lineage-proposals#1322
JN.1.3 Alias of B.1.1.529.2.86.1.1.3, ORF8:Q18*, Netherlands
Expand Down Expand Up @@ -1102,7 +1102,7 @@ JN.1.9.2 Alias of B.1.1.529.2.86.1.1.9.2, S:R346T
LB.1 Alias of B.1.1.529.2.86.1.1.9.2.1, S:F456L (T22928C)
JN.1.10 Alias of B.1.1.529.2.86.1.1.10, S:T95I, USA/Canada, from sars-cov-2-variants/lineage-proposals#1135
JN.1.11 Alias of B.1.1.529.2.86.1.1.11, S:V1104L, G17334T, India, from #2446
JN.1.11.1 Alias of B.1.1.529.2.86.1.1.11.1, S:F456L, after ORF1a:T2283I, India, from sars-cov-2-variants/lineage-proposals#1253
JN.1.11.1 Alias of B.1.1.529.2.86.1.1.11.1, S:F456L (T22928C), after ORF1a:T2283I, India, from sars-cov-2-variants/lineage-proposals#1253
KP.1 Alias of B.1.1.529.2.86.1.1.11.1.1, S:K1086R, from sars-cov-2-variants/lineage-proposals#1364
KP.1.1 Alias of B.1.1.529.2.86.1.1.11.1.1.1, S:R346T, from sars-cov-2-variants/lineage-proposals#1089
KP.1.1.1 Alias of B.1.1.529.2.86.1.1.11.1.1.1.1, S:K182N from #2510
Expand Down Expand Up @@ -1135,10 +1135,10 @@ KP.5 Alias of B.1.1.529.2.86.1.1.11.1.5, S:T572I
JN.1.12 Alias of B.1.1.529.2.86.1.1.12, S:F456V, ORF7a:A8T, from sars-cov-2-variants/lineage-proposals#1253
JN.1.13 Alias of B.1.1.529.2.86.1.1.13, S:A1087S, after C26894T, C25680T, USA, from #2464
JN.1.13.1 Alias of B.1.1.529.2.86.1.1.13.1, S:R346T, S:F59S, USA, from sars-cov-2-variants/lineage-proposals/issues/1386
KS.1 Alias of B.1.1.529.2.86.1.1.13.1.1, S:F456L, from sars-cov-2-variants/lineage-proposals#1253
KS.1 Alias of B.1.1.529.2.86.1.1.13.1.1, S:F456L (T22928C), from sars-cov-2-variants/lineage-proposals#1253
JN.1.14 Alias of B.1.1.529.2.86.1.1.14, S:R346S, after C26894T, C25680T, USA
JN.1.15 Alias of B.1.1.529.2.86.1.1.15, S:A688V
JN.1.16 Alias of B.1.1.529.2.86.1.1.16, S:F456L, from sars-cov-2-variants/lineage-proposals#1253
JN.1.16 Alias of B.1.1.529.2.86.1.1.16, S:F456L (T22928C), from sars-cov-2-variants/lineage-proposals#1253
JN.1.16.1 Alias of B.1.1.529.2.86.1.1.16.1, S:R346T, from sars-cov-2-variants/lineage-proposals#1089
LF.1 Alias of B.1.1.529.2.86.1.1.16.1.1, ORF1a:A1268T, ORF1a:S2103F
LF.1.1 Alias of B.1.1.529.2.86.1.1.16.1.1.1, S:P1263L
Expand All @@ -1163,15 +1163,15 @@ JN.1.27 Alias of B.1.1.529.2.86.1.1.27, S:M153I, after C26894T, C25680T, USA, fr
JN.1.28 Alias of B.1.1.529.2.86.1.1.28, C24034T, A29700G, East Asia/Oceania
JN.1.28.1 Alias of B.1.1.529.2.86.1.1.28.1, ORF1a:P1640L, C19545T, C24370T, from sars-cov-2-variants/lineage-proposals#1244
KW.1 Alias of B.1.1.529.2.86.1.1.28.1.1, S:T572I, Australia, from sars-cov-2-variants/lineage-proposals#1244
KW.1.1 Alias of B.1.1.529.2.86.1.1.28.1.1.1, S:F456L, ORF1b:R2009K, Australia/Japan, from sars-cov-2-variants/lineage-proposals#1244
KW.1.1 Alias of B.1.1.529.2.86.1.1.28.1.1.1, S:F456L (T22928C), ORF1b:R2009K, Australia/Japan, from sars-cov-2-variants/lineage-proposals#1244
KW.1.1.1 Alias of B.1.1.529.2.86.1.1.28.1.1.1.1, S:T95S, Australia
LG.1 Alias of B.1.1.529.2.86.1.1.28.1.1.1.1.1, S:R346T, Australia
KW.1.2 Alias of B.1.1.529.2.86.1.1.28.1.1.2, S:K529T, Australia
JN.1.29 Alias of B.1.1.529.2.86.1.1.29, ORF1a:T3224A, after C2644T, Brazil
JN.1.30 Alias of B.1.1.529.2.86.1.1.30, G21255T
JN.1.30.1 Alias of B.1.1.529.2.86.1.1.30.1, S:R346T, after T7789C, India, from sars-cov-2-variants/lineage-proposals#1089
KU.1 Alias of B.1.1.529.2.86.1.1.30.1.1, S:K182Q
KU.2 Alias of B.1.1.529.2.86.1.1.30.1.2, S:F456L, from sars-cov-2-variants/lineage-proposals#1089
KU.2 Alias of B.1.1.529.2.86.1.1.30.1.2, S:F456L (T22928C), from sars-cov-2-variants/lineage-proposals#1089
JN.1.31 Alias of B.1.1.529.2.86.1.1.31, ORF3a:V13L, C19186T, from sars-cov-2-variants/lineage-proposals#1319
JN.1.32 Alias of B.1.1.529.2.86.1.1.32, S:T572I, directly on JN.1 polytomy
JN.1.32.1 Alias of B.1.1.529.2.86.1.1.32.1, S:Q183H
Expand All @@ -1182,7 +1182,7 @@ JN.1.36.1 Alias of B.1.1.529.2.86.1.1.36.1, S:S680F, South Korea, from sars-cov-
JN.1.37 Alias of B.1.1.529.2.86.1.1.37, S:S680F
JN.1.38 Alias of B.1.1.529.2.86.1.1.38, ORF1b:R1736K, USA
JN.1.39 Alias of B.1.1.529.2.86.1.1.39, G2782T
JN.1.39.1 Alias of B.1.1.529.2.86.1.1.39.1, S:R346T, S:F456L, C21034T, T25631C, A16011G, T6913C
JN.1.39.1 Alias of B.1.1.529.2.86.1.1.39.1, S:R346T, S:F456L (T22928C), C21034T, T25631C, A16011G, T6913C
JN.1.39.2 Alias of B.1.1.529.2.86.1.1.39.2, S:R346T, after T111C
JN.1.39.3 Alias of B.1.1.529.2.86.1.1.39.3, S:A67V, C5512T, after T111C, China from #2498 (originally known as JN.1.33)
JN.1.40 Alias of B.1.1.529.2.86.1.1.40, S:S31P, Mexico, from sars-cov-2-variants/lineage-proposals#1451
Expand All @@ -1199,13 +1199,13 @@ JN.1.47 Alias of B.1.1.529.2.86.1.1.47, C8074T, C7594T
JN.1.47.1 Alias of B.1.1.529.2.86.1.1.47.1, S:S221L, USA/Mexico
JN.1.47.2 Alias of B.1.1.529.2.86.1.1.47.2, S:T572I, S:R683Q, USA
JN.1.48 Alias of B.1.1.529.2.86.1.1.48, G29134T, after T18471C, India
JN.1.48.1 Alias of B.1.1.529.2.86.1.1.48.1, S:S60P, S:R346T, S:F456L, after ORF3a:A99V from #2547
JN.1.48.1 Alias of B.1.1.529.2.86.1.1.48.1, S:S60P, S:R346T, S:F456L (T22928C), after ORF3a:A99V from #2547
LD.1 Alias of B.1.1.529.2.86.1.1.48.1.1, S:T572I
JN.1.48.2 Alias of B.1.1.529.2.86.1.1.48.2, S:R346T, ORF1a:A427V, A3829G, India
JN.1.49 Alias of B.1.1.529.2.86.1.1.49, ORF3a:T89I, India
JN.1.49.1 Alias of B.1.1.529.2.86.1.1.49.1, S:R346T
JN.1.49.2 Alias of B.1.1.529.2.86.1.1.49.2, S:F456L
JN.1.50 Alias of B.1.1.529.2.86.1.1.50, S:H445P,S:F456L, S:A67V, S:L249F, Europe
JN.1.49.2 Alias of B.1.1.529.2.86.1.1.49.2, S:F456L (T22930A)
JN.1.50 Alias of B.1.1.529.2.86.1.1.50, S:H445P,S:F456L (T22930G), S:A67V, S:L249F, Europe
JN.2 Alias of B.1.1.529.2.86.1.2, ORF1a:Y621C, Europe/North America, from #2284
JN.2.1 Alias of B.1.1.529.2.86.1.2.1, S:S31F, Sweden/Australia
JN.2.2 Alias of B.1.1.529.2.86.1.2.2, S:T572I, N:G25C, ORF1a:L3644F, Netherlands, from #2433
Expand Down Expand Up @@ -1242,7 +1242,7 @@ BA.2.86.3 Alias of B.1.1.529.2.86.3, C222T, C1960T, T12775C, South Africa
JQ.1 Alias of B.1.1.529.2.86.3.1, S:T95I, Denmark/France/South Africa, from sars-cov-2-variants/lineage-proposals#906
JQ.2 Alias of B.1.1.529.2.86.3.2, S:R346T, G2944A, South Africa, from #2505
JQ.2.1 Alias of B.1.1.529.2.86.3.2.1, S:L455S, South Africa, from sars-cov-2-variants/lineage-proposals#1373
JQ.2.1.1 Alias of B.1.1.529.2.86.3.2.1.1, S:F456L, South Africa
JQ.2.1.1 Alias of B.1.1.529.2.86.3.2.1.1, S:F456L (T22928C), South Africa
BA.2.86.4 Alias of B.1.1.529.2.86.4, S:A222V, ORF1a:V3892A, from sars-cov-2-variants/lineage-proposals#1032
BA.2.86.5 Alias of B.1.1.529.2.86.5, S:I197V, C5575T, T6085C, T23278C
BA.2.86.6 Alias of B.1.1.529.2.86.6, C9226T
Expand Down Expand Up @@ -3947,9 +3947,9 @@ XDJ Recombinant lineage of XBB.1.16.6 and HK.3.1 (breakpoint between 14857 and 1
XDK Recombinant lineage of XBB.1.16.11 (likely) and JN.1.1.1 (breakpoint between 5315 and 6182), France, from #2415
XDK.1 S:R346T, G11596A, most with S:E213G, from sars-cov-2-variants/lineage-proposals#1407
XDK.1.1 S:K182R, India
XDK.1.2 S:F456L, pre S:E213G
XDK.1.2 S:F456L (T22928C), pre S:E213G
XDK.2 S:K679R, T4996A, C11173T, A23598G, C27297T
XDK.3 S:F456L, ORF1a:F3397L
XDK.3 S:F456L (T22928C), ORF1a:F3397L
XDL Recombinant lineage of EG.5.1.1 and non-EG.5 (breakpoint between 25573-29624) with S:I1114T, most with S:L455F(G22927T), China, from #2351
XDM Recombinant lineage of XDA, GW.5, XDA (breakpoints between 22107-22926 and 24047-25838), from sars-cov-2-variants/lineage-proposals#1163
XDN Recombinant lineage of JN.1.1 and JD.1 (breakpoint between 24379 and 24989), from #2448
Expand Down

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