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Add relevant issues to lineage notes
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‎lineage_notes.txt

Lines changed: 13 additions & 13 deletions
Original file line numberDiff line numberDiff line change
@@ -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
700700
CM.8.1.2 Alias of B.1.1.529.2.3.20.8.1.2, Germany/USA, S:K147I
701701
CM.8.1.3 Alias of B.1.1.529.2.3.20.8.1.3, USA, S:Y1272H
702702
CM.8.1.4 Alias of B.1.1.529.2.3.20.8.1.4, ORF1b:N1790D, Philippines, from #1554
703-
CM.8.1.5 Alias of B.1.1.529.2.3.20.8.1.5, S:K150E, S:Y248H, N:A155V, Philippines
703+
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
704704
CM.9 Alias of B.1.1.529.2.3.20.9, USA/Canada/Israel, S:S256L
705705
CM.10 Alias of B.1.1.529.2.3.20.10, USA/South Korea/Singapore, S:K478T reversion, S:V445A
706706
CM.11 Alias of B.1.1.529.2.3.20.11, USA/South Korea, S:R346T, S:F486S, from #1509
@@ -842,8 +842,8 @@ CJ.1 Alias of B.1.1.529.2.75.3.1.1.1.1, S:S486P, #1171
842842
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
843843
CJ.1.2 Alias of B.1.1.529.2.75.3.1.1.1.1.2, ORF1a:L2609F, Sweden/France/England
844844
CJ.1.3 Alias of B.1.1.529.2.75.3.1.1.1.1.3, A261G reversion, G4960A, C14790T, South Korea
845-
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
846-
CJ.1.3.2 Alias of B.1.1.529.2.75.3.1.1.1.1.3.2, S:D936H, South Korea
845+
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
846+
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
847847
BM.1.1.2 Alias of B.1.1.529.2.75.3.1.1.2, England, S:T883I, S:S939F, S:P1079T
848848
BM.1.1.3 Alias of B.1.1.529.2.75.3.1.1.3, India, defined by ORF10:A8V
849849
CV.1 Alias of B.1.1.529.2.75.3.1.1.3.1, Ireland, S:L452R
@@ -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
879879
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
880880
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
881881
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
882-
GQ.1.1 Alias of B.1.1.529.2.75.3.4.1.1.1.1.3.1.1, S:G213E, New Zealand
882+
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
883883
CH.1.1.4 Alias of B.1.1.529.2.75.3.4.1.1.1.1.4, S:H681R, Austria, from #1370
884884
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
885885
CH.1.1.6 Alias of B.1.1.529.2.75.3.4.1.1.1.1.6, UK, defined by S:T732I
@@ -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
949949
FR.1.1 Alias of B.1.1.529.2.75.5.1.2.3.1.1, S:P82H, ORF1a:L293F, China
950950
FR.1.2 Alias of B.1.1.529.2.75.5.1.2.3.1.2, S:R190M, China
951951
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
952-
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
952+
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
953953
FR.2 Alias of B.1.1.529.2.75.5.1.2.3.2, ORF1a:Y1920H, ORF1b:I1799S, South Korea
954954
BN.1.2.4 Alias of B.1.1.529.2.75.5.1.2.4, ORF1b:D1746H
955955
BN.1.2.5 Alias of B.1.1.529.2.75.5.1.2.5, C3241T, C16833T, G22225A, South Korea
@@ -2709,7 +2709,7 @@ EU.1 Alias of XBB.1.5.26.1, S:P521S, Germany/Netherlands, from #1688
27092709
EU.1.1 Alias of XBB.1.5.26.1.1, S:I410V, Germany/Netherlands, from #1688
27102710
EU.1.1.1 Alias of XBB.1.5.26.1.1.1, C21646T, Germany
27112711
EU.1.1.2 Alias of XBB.1.5.26.1.1.2, S:A1070S, Germany/Finland/Denmark/Sweden
2712-
EU.1.1.3 Alias of XBB.1.5.26.1.1.3, S:F157L, Europe
2712+
EU.1.1.3 Alias of XBB.1.5.26.1.1.3, S:F157L, Europe, from sars-cov-2-variants/lineage-proposals#312
27132713
XBB.1.5.27 S:K478R, on T11431C branch, USA
27142714
XBB.1.5.28 S:K478R, on 17124C polytomy, USA
27152715
XBB.1.5.29 S:A348V, USA-NE
@@ -2766,7 +2766,7 @@ XBB.1.5.68 S:P521T, ORF3a:L71I, C18501T, USA
27662766
XBB.1.5.69 ORF1a:V2943I,C22513T, USA
27672767
XBB.1.5.70 S:L455F, S:F456L (T22928C), ORF1a:A4068S, Brazil, from #1982
27682768
GK.1 Alias of XBB.1.5.70.1, S:S704L, Brazil, from #2025
2769-
GK.2 Alias of XBB.1.5.70.2, S:V511I
2769+
GK.2 Alias of XBB.1.5.70.2, S:V511I, from sars-cov-2-variants/lineage-proposals#300
27702770
XBB.1.5.71 S:V511I, Spain
27712771
XBB.1.5.72 S:F456L (T22928C), ORF1a:G445S, T9823C, T10204C, South America
27722772
XBB.1.5.73 T28271C, USA/Peru
@@ -2789,7 +2789,7 @@ HA.2 Alias of XBB.1.5.86.2, S:P521S, Brazil
27892789
XBB.1.5.87 S:478R, ORF1a:E1633K, ORF1a:M1588K, C9763T, C20946T, Indonesia
27902790
XBB.1.5.88 C2299T, South Africa
27912791
XBB.1.5.89 S:478R, S:554A, Canada/Italy/France
2792-
XBB.1.5.90 S:P621S, ORF1ab:S6713L, Belgium/France
2792+
XBB.1.5.90 S:P621S, ORF1ab:S6713L, Belgium/France, from #1849
27932793
XBB.1.5.91 S:P621S, USA
27942794
XBB.1.6 USA, S:L216F, S:H146K, from issue #1428
27952795
XBB.1.7 USA-NY, S:V608I
@@ -2833,7 +2833,7 @@ FL.7 Alias of XBB.1.9.1.7, S:T51I
28332833
FL.8 Alias of XBB.1.9.1.8, ORF3a:I62F, Europe
28342834
FL.9 Alias of XBB.1.9.1.9, C23707T, T29691C, England
28352835
FL.10 Alias of XBB.1.9.1.10, ORF1a:C657Y
2836-
FL.10.1 Alias of XBB.1.9.1.10.1, S:E554K, C4234T, South Korea
2836+
FL.10.1 Alias of XBB.1.9.1.10.1, S:E554K, C4234T, South Korea, from #2040
28372837
FL.11 Alias of XBB.1.9.1.11, ORF1a:L349F, France/French Guiana, from #1947
28382838
FL.12 Alias of XBB.1.9.1.12, ORF1a:C2210F
28392839
FL.13 Alias of XBB.1.9.1.13, G4354A
@@ -2853,8 +2853,8 @@ FL.20 Alias of XBB.1.9.1.20, S:F456L (22928C), S:Q52H, Spain, from #2072
28532853
FL.21 Alias of XBB.1.9.1.21, A10564T, South Korea/China
28542854
FL.22 Alias of XBB.1.9.1.22, ORF1b:I1416V, T24184C
28552855
FL.23 Alias of XBB.1.9.1.23, ORF1b:V1132I, Philippines
2856-
FL.24 Alias of XBB.1.9.1.24, S:Q613H, S:A688V
2857-
FL.25 Alias of XBB.1.9.1.25, S:E554K, USA/England
2856+
FL.24 Alias of XBB.1.9.1.24, S:Q613H, S:A688V, from sars-cov-2-variants/lineage-proposals#284
2857+
FL.25 Alias of XBB.1.9.1.25, S:E554K, USA/England, from #2040
28582858
FL.26 Alias of XBB.1.9.1.26, C22264T
28592859
FL.26.1 Alias of XBB.1.9.1.26.1, S:493L, Sweden
28602860
XBB.1.9.2 S:F486P (after 27507C, 16878T), Indonesia/Singapore
@@ -2922,7 +2922,7 @@ XBB.1.16.10 N:G25D, from #1984
29222922
XBB.1.16.11 S:P521T, India
29232923
XBB.1.16.12 S:Q52H, South Korea
29242924
XBB.1.16.13 ORF1a:G519S, ORF1a:G1101D, India
2925-
XBB.1.16.14 S:L452Q, after A11782G, India/France/Canada
2925+
XBB.1.16.14 S:L452Q, after A11782G, India/France/Canada, from sars-cov-2-variants/lineage-proposals#329
29262926
XBB.1.17 Defined by T27995C and ORF1a:L469F, from issue #1712
29272927
XBB.1.17.1 Defined by S:215H, S:S486P, from issue #1712
29282928
GA.1 Alias of XBB.1.17.1.1, ORF1a:G728C
@@ -3124,7 +3124,7 @@ XCC Recombinant lineage of CH.1.1.1 and XBB.1.9.1, predominantly Pakistan, Austr
31243124
XCD Recombinant lineage of XBB.1* and BQ.1.1.25*, with S:R214H, S:478I, Indonesia, from #2042
31253125
XCE Recombinant lineage of BQ.1* and FY.1 (XBB.1.22.1.1), Indonesia, South Korea, France, from lineage-proposals#123
31263126
XCF Recombinant lineage of XBB* and FE.1 (XBB.1.18.1.1), possibly South America, from lineage-proposals#2
3127-
XCF.1 S:F157L, USA
3127+
XCF.1 S:F157L, USA, from sars-cov-2-variants/lineage-proposals#274
31283128
XCF.2 S:S929I, Canada
31293129
XCG Recombinant lineage of BA.5.2* and XBB.1, Mexico
31303130
*A.2.1 Withdrawn: Lineage with sequences predominantly from Panama

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