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JN.1+Orf1b:K82R, Orf1a:A2529S, D1513E+S:S680P(23 seqs, 5 countries, 4 with S:M153I) #1513

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xz-keg opened this issue Apr 12, 2024 · 3 comments
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JN.1+Orf1b:K82R, Orf1a:A2529S, D1513E+S:S680P(23 seqs, 5 countries, 4 with S:M153I) #1513

xz-keg opened this issue Apr 12, 2024 · 3 comments
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Apparently slow It means that a lineage is accumulating sequences slowly not that it is intrinsically slow. designated S:153 S:680
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JN.1.63 JN.1.63.1

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@xz-keg
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xz-keg commented Apr 12, 2024

JN.1+A13712G(Orf1b:K82R)+G7850T(Orf1a:A2529S)+T4804G(Orf1a:D1513E)+T23600C(S:S680P)

GISAID query: G7850T, T4804G, T23600C
No. of seqs: 20(South Korea 1 China 6 USA 1 Brunei 9 Japan 3)

First: EPI_ISL_18788923, Brunei, 2023-12-8
Latest: EPI_ISL_19045944, China, 2024-3-23

GISAID query for S:M153I branch: G22021C, T23600C, T4804G (4 seqs)

usher

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@FedeGueli
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FedeGueli commented Apr 12, 2024 •
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Orf1b:K82R, Orf1a:A2529S both reminds me of Delta, 2529V was AY.4 while Orf1b:K82R was in a sibling undesignated lineage of AY.41 that gave birth to a very bad south east europe wave.

(likely it seems slow)

@FedeGueli FedeGueli added the Apparently slow It means that a lineage is accumulating sequences slowly not that it is intrinsically slow. label Apr 12, 2024
@FedeGueli FedeGueli mentioned this issue Apr 18, 2024
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@xz-keg xz-keg changed the title JN.1+Orf1b:K82R, Orf1a:A2529S, D1513E+S:S680P(20 seqs, 5 countries, 4 with S:M153I) JN.1+Orf1b:K82R, Orf1a:A2529S, D1513E+S:S680P(23 seqs, 5 countries, 4 with S:M153I) Apr 24, 2024
@xz-keg
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xz-keg commented May 13, 2024

No new seqs

@xz-keg xz-keg closed this as not planned Won't fix, can't repro, duplicate, stale May 13, 2024
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xz-keg commented Jun 15, 2024 •
edited by FedeGueli
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JN.1+Orf1b:K82R, Orf1a:A2529S, D1513E designated JN.1.63 and JN.1.63.1 via cov-lineages/pango-designation@b72e69f

FedeGueli referenced this issue in cov-lineages/pango-designation Jun 15, 2024
@corneliusroemer
Designate JN.1.63 (ORF1b:K82R), JN.1.63.1 (ORF1a:D1513E, ORF1a:A2529S…
b72e69f 
…, Asia) and XEA (JN.1.63.1 and EG.5 (breakpoint between 27057-27915), East Asia)
@xz-keg xz-keg added this to the JN.1.63 JN.1.63.1 milestone Jul 13, 2024
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Apparently slow It means that a lineage is accumulating sequences slowly not that it is intrinsically slow. designated S:153 S:680
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