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Add relevant issues to lineage notes
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@corneliusroemer
corneliusroemer committed Jul 11, 2023
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Showing 1 changed file with 13 additions and 13 deletions.
26 changes: 13 additions & 13 deletions lineage_notes.txt
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Expand Up @@ -700,7 +700,7 @@ FV.1 Alias of B.1.1.529.2.3.20.8.1.1.1, S:R346T, M:E11Q, Singapore/SouthKorea/Ja
CM.8.1.2 Alias of B.1.1.529.2.3.20.8.1.2, Germany/USA, S:K147I
CM.8.1.3 Alias of B.1.1.529.2.3.20.8.1.3, USA, S:Y1272H
CM.8.1.4 Alias of B.1.1.529.2.3.20.8.1.4, ORF1b:N1790D, Philippines, from #1554
CM.8.1.5 Alias of B.1.1.529.2.3.20.8.1.5, S:K150E, S:Y248H, N:A155V, Philippines
CM.8.1.5 Alias of B.1.1.529.2.3.20.8.1.5, S:K150E, S:Y248H, N:A155V, Philippines, from sars-cov-2-variants/lineage-proposals#293
CM.9 Alias of B.1.1.529.2.3.20.9, USA/Canada/Israel, S:S256L
CM.10 Alias of B.1.1.529.2.3.20.10, USA/South Korea/Singapore, S:K478T reversion, S:V445A
CM.11 Alias of B.1.1.529.2.3.20.11, USA/South Korea, S:R346T, S:F486S, from #1509
Expand Down Expand Up @@ -842,8 +842,8 @@ CJ.1 Alias of B.1.1.529.2.75.3.1.1.1.1, S:S486P, #1171
CJ.1.1 Alias of B.1.1.529.2.75.3.1.1.1.1.1, S:V445A, Singapore/Malaysia/Japan, from issue #1384
CJ.1.2 Alias of B.1.1.529.2.75.3.1.1.1.1.2, ORF1a:L2609F, Sweden/France/England
CJ.1.3 Alias of B.1.1.529.2.75.3.1.1.1.1.3, A261G reversion, G4960A, C14790T, South Korea
CJ.1.3.1 Alias of B.1.1.529.2.75.3.1.1.1.1.3.1, S:R214S, ORF1a:G3578S, South Korea/Japan
CJ.1.3.2 Alias of B.1.1.529.2.75.3.1.1.1.1.3.2, S:D936H, South Korea
CJ.1.3.1 Alias of B.1.1.529.2.75.3.1.1.1.1.3.1, S:R214S, ORF1a:G3578S, South Korea/Japan, sars-cov-2-variants/lineage-proposals#287
CJ.1.3.2 Alias of B.1.1.529.2.75.3.1.1.1.1.3.2, S:D936H, South Korea, sars-cov-2-variants/lineage-proposals#287
BM.1.1.2 Alias of B.1.1.529.2.75.3.1.1.2, England, S:T883I, S:S939F, S:P1079T
BM.1.1.3 Alias of B.1.1.529.2.75.3.1.1.3, India, defined by ORF10:A8V
CV.1 Alias of B.1.1.529.2.75.3.1.1.3.1, Ireland, S:L452R
Expand Down Expand Up @@ -879,7 +879,7 @@ DV.8 Alias of B.1.1.529.2.75.3.4.1.1.1.1.1.8, S:Q613H, C8299T, C19602T, Sweden
CH.1.1.2 Alias of B.1.1.529.2.75.3.4.1.1.1.1.2, defined by S:T883I, ORF1a:Y1846C, ORF1a:G2294S on T27576C branch
CH.1.1.3 Alias of B.1.1.529.2.75.3.4.1.1.1.1.3, S:S255P, New Zealand/Australia/Hong Kong, from #1405
GQ.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.3.1, S:486P, ORF1a:H1545Q, ORF1b:V1520L, Australia/New Zealand, from #1872
GQ.1.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.3.1.1, S:G213E, New Zealand
GQ.1.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.3.1.1, S:G213E, New Zealand, from sars-cov-2-variants/lineage-proposals#343
CH.1.1.4 Alias of B.1.1.529.2.75.3.4.1.1.1.1.4, S:H681R, Austria, from #1370
CH.1.1.5 Alias of B.1.1.529.2.75.3.4.1.1.1.1.5, ORF3a:P104S, found mainly in Denmark and UK, from pango-designation issue #1539
CH.1.1.6 Alias of B.1.1.529.2.75.3.4.1.1.1.1.6, UK, defined by S:T732I
Expand Down Expand Up @@ -949,7 +949,7 @@ FR.1 Alias of B.1.1.529.2.75.5.1.2.3.1, S:K187E, N:T366I, Japan/Taiwan/USA, from
FR.1.1 Alias of B.1.1.529.2.75.5.1.2.3.1.1, S:P82H, ORF1a:L293F, China
FR.1.2 Alias of B.1.1.529.2.75.5.1.2.3.1.2, S:R190M, China
FR.1.3 Alias of B.1.1.529.2.75.5.1.2.3.1.3, ORF1a:A206V, ORF1b:A517V, N:G34E, China, from #2039
FR.1.4 Alias of B.1.1.529.2.75.5.1.2.3.1.4, A3715G, C15960T, on shared T2372C, C7318T, ORF1a:L293F branch with FR.1.1, China
FR.1.4 Alias of B.1.1.529.2.75.5.1.2.3.1.4, A3715G, C15960T, on shared T2372C, C7318T, ORF1a:L293F branch with FR.1.1, China, sars-cov-2-variants/lineage-proposals#256
FR.2 Alias of B.1.1.529.2.75.5.1.2.3.2, ORF1a:Y1920H, ORF1b:I1799S, South Korea
BN.1.2.4 Alias of B.1.1.529.2.75.5.1.2.4, ORF1b:D1746H
BN.1.2.5 Alias of B.1.1.529.2.75.5.1.2.5, C3241T, C16833T, G22225A, South Korea
Expand Down Expand Up @@ -2709,7 +2709,7 @@ EU.1 Alias of XBB.1.5.26.1, S:P521S, Germany/Netherlands, from #1688
EU.1.1 Alias of XBB.1.5.26.1.1, S:I410V, Germany/Netherlands, from #1688
EU.1.1.1 Alias of XBB.1.5.26.1.1.1, C21646T, Germany
EU.1.1.2 Alias of XBB.1.5.26.1.1.2, S:A1070S, Germany/Finland/Denmark/Sweden
EU.1.1.3 Alias of XBB.1.5.26.1.1.3, S:F157L, Europe
EU.1.1.3 Alias of XBB.1.5.26.1.1.3, S:F157L, Europe, from sars-cov-2-variants/lineage-proposals#312
XBB.1.5.27 S:K478R, on T11431C branch, USA
XBB.1.5.28 S:K478R, on 17124C polytomy, USA
XBB.1.5.29 S:A348V, USA-NE
Expand Down Expand Up @@ -2766,7 +2766,7 @@ XBB.1.5.68 S:P521T, ORF3a:L71I, C18501T, USA
XBB.1.5.69 ORF1a:V2943I,C22513T, USA
XBB.1.5.70 S:L455F, S:F456L (T22928C), ORF1a:A4068S, Brazil, from #1982
GK.1 Alias of XBB.1.5.70.1, S:S704L, Brazil, from #2025
GK.2 Alias of XBB.1.5.70.2, S:V511I
GK.2 Alias of XBB.1.5.70.2, S:V511I, from sars-cov-2-variants/lineage-proposals#300
XBB.1.5.71 S:V511I, Spain
XBB.1.5.72 S:F456L (T22928C), ORF1a:G445S, T9823C, T10204C, South America
XBB.1.5.73 T28271C, USA/Peru
Expand All @@ -2789,7 +2789,7 @@ HA.2 Alias of XBB.1.5.86.2, S:P521S, Brazil
XBB.1.5.87 S:478R, ORF1a:E1633K, ORF1a:M1588K, C9763T, C20946T, Indonesia
XBB.1.5.88 C2299T, South Africa
XBB.1.5.89 S:478R, S:554A, Canada/Italy/France
XBB.1.5.90 S:P621S, ORF1ab:S6713L, Belgium/France
XBB.1.5.90 S:P621S, ORF1ab:S6713L, Belgium/France, from #1849
XBB.1.5.91 S:P621S, USA
XBB.1.6 USA, S:L216F, S:H146K, from issue #1428
XBB.1.7 USA-NY, S:V608I
Expand Down Expand Up @@ -2833,7 +2833,7 @@ FL.7 Alias of XBB.1.9.1.7, S:T51I
FL.8 Alias of XBB.1.9.1.8, ORF3a:I62F, Europe
FL.9 Alias of XBB.1.9.1.9, C23707T, T29691C, England
FL.10 Alias of XBB.1.9.1.10, ORF1a:C657Y
FL.10.1 Alias of XBB.1.9.1.10.1, S:E554K, C4234T, South Korea
FL.10.1 Alias of XBB.1.9.1.10.1, S:E554K, C4234T, South Korea, from #2040
FL.11 Alias of XBB.1.9.1.11, ORF1a:L349F, France/French Guiana, from #1947
FL.12 Alias of XBB.1.9.1.12, ORF1a:C2210F
FL.13 Alias of XBB.1.9.1.13, G4354A
Expand All @@ -2853,8 +2853,8 @@ FL.20 Alias of XBB.1.9.1.20, S:F456L (22928C), S:Q52H, Spain, from #2072
FL.21 Alias of XBB.1.9.1.21, A10564T, South Korea/China
FL.22 Alias of XBB.1.9.1.22, ORF1b:I1416V, T24184C
FL.23 Alias of XBB.1.9.1.23, ORF1b:V1132I, Philippines
FL.24 Alias of XBB.1.9.1.24, S:Q613H, S:A688V
FL.25 Alias of XBB.1.9.1.25, S:E554K, USA/England
FL.24 Alias of XBB.1.9.1.24, S:Q613H, S:A688V, from sars-cov-2-variants/lineage-proposals#284
FL.25 Alias of XBB.1.9.1.25, S:E554K, USA/England, from #2040
FL.26 Alias of XBB.1.9.1.26, C22264T
FL.26.1 Alias of XBB.1.9.1.26.1, S:493L, Sweden
XBB.1.9.2 S:F486P (after 27507C, 16878T), Indonesia/Singapore
Expand Down Expand Up @@ -2922,7 +2922,7 @@ XBB.1.16.10 N:G25D, from #1984
XBB.1.16.11 S:P521T, India
XBB.1.16.12 S:Q52H, South Korea
XBB.1.16.13 ORF1a:G519S, ORF1a:G1101D, India
XBB.1.16.14 S:L452Q, after A11782G, India/France/Canada
XBB.1.16.14 S:L452Q, after A11782G, India/France/Canada, from sars-cov-2-variants/lineage-proposals#329
XBB.1.17 Defined by T27995C and ORF1a:L469F, from issue #1712
XBB.1.17.1 Defined by S:215H, S:S486P, from issue #1712
GA.1 Alias of XBB.1.17.1.1, ORF1a:G728C
Expand Down Expand Up @@ -3124,7 +3124,7 @@ XCC Recombinant lineage of CH.1.1.1 and XBB.1.9.1, predominantly Pakistan, Austr
XCD Recombinant lineage of XBB.1* and BQ.1.1.25*, with S:R214H, S:478I, Indonesia, from #2042
XCE Recombinant lineage of BQ.1* and FY.1 (XBB.1.22.1.1), Indonesia, South Korea, France, from lineage-proposals#123
XCF Recombinant lineage of XBB* and FE.1 (XBB.1.18.1.1), possibly South America, from lineage-proposals#2
XCF.1 S:F157L, USA
XCF.1 S:F157L, USA, from sars-cov-2-variants/lineage-proposals#274
XCF.2 S:S929I, Canada
XCG Recombinant lineage of BA.5.2* and XBB.1, Mexico
*A.2.1 Withdrawn: Lineage with sequences predominantly from Panama
Expand Down

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@FedeGueli
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Thx!

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