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JN.1.4.5 + S:F456L with C28201T branch (96 seqs) #2607

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DailyCovidCases opened this issue May 24, 2024 · 6 comments
Closed

JN.1.4.5 + S:F456L with C28201T branch (96 seqs) #2607

DailyCovidCases opened this issue May 24, 2024 · 6 comments

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@DailyCovidCases
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From branch 21 of sars-cov-2-variants/lineage-proposals#1253
JN.1.4.5+S:F456L
Query: C28201T, T22928C, T22926C, -C28948T,-G2654A,-C3177T,-20823
No. of seqs: 46 (USA 18 New Zealand 2 Australia 9 Sweden 2 Spain 3 Greece 3 Israel 1 China 7 Switzerland 1)
First: EPI_ISL_18614037, 2023-11-26
Latest: EPI_ISL_19150487, 2024-05-14
usher
Screenshot (73)
@DailyCovidCases DailyCovidCases changed the title JN.1.4.5 + S:F456L with C28201T branch (46 seqs) JN.1.4.5 + S:F456L with C28201T branch (46 seqs, 9 countries) May 24, 2024
@FedeGueli FedeGueli mentioned this issue May 24, 2024
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@FedeGueli
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59 now

@DailyCovidCases DailyCovidCases changed the title JN.1.4.5 + S:F456L with C28201T branch (46 seqs, 9 countries) JN.1.4.5 + S:F456L with C28201T branch (59 seqs) Jun 18, 2024
@DailyCovidCases DailyCovidCases changed the title JN.1.4.5 + S:F456L with C28201T branch (59 seqs) JN.1.4.5 + S:F456L with C28201T branch (74 seqs, 17 countries) Jul 7, 2024
@FedeGueli
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not monophyletic at all close it down please (or find a good query):
https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/singleSubtreeAuspice_genome_test_41bb9_3f4f80.json?f_userOrOld=uploaded%20sample&label=id:node_6942273
Screenshot 2024-07-14 alle 18 14 03

@DailyCovidCases DailyCovidCases changed the title JN.1.4.5 + S:F456L with C28201T branch (74 seqs, 17 countries) JN.1.4.5 + S:F456L with C28201T branch (81 seqs) Jul 18, 2024
@DailyCovidCases
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Tracked in tracker21

@DailyCovidCases DailyCovidCases closed this as not planned Won't fix, can't repro, duplicate, stale Jul 18, 2024
@DailyCovidCases DailyCovidCases changed the title JN.1.4.5 + S:F456L with C28201T branch (81 seqs) JN.1.4.5 + S:F456L with C28201T branch (89 seqs) Aug 26, 2024
@FedeGueli
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it is not monophyletic. 47 have S:S31del and are form several variants spanning from XDY to LB.1s please close this.
ping @corneliusroemer
Screenshot 2024-08-27 alle 00 47 06
https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/singleSubtreeAuspice_genome_test_5717e_d059c0.json?f_userOrOld=uploaded%20sample&label=id:node_6948800

@DailyCovidCases DailyCovidCases closed this as not planned Won't fix, can't repro, duplicate, stale Sep 3, 2024
@DailyCovidCases DailyCovidCases changed the title JN.1.4.5 + S:F456L with C28201T branch (89 seqs) JN.1.4.5 + S:F456L with C28201T branch (96 seqs) Sep 25, 2024
@DailyCovidCases
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DailyCovidCases commented Sep 25, 2024 •
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Tree now:
usher
Screenshot (237)
@corneliusroemer Is this branch worth a designation?

@FedeGueli
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Close this no recent samples

@DailyCovidCases DailyCovidCases closed this as not planned Won't fix, can't repro, duplicate, stale Sep 25, 2024
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@FedeGueli @DailyCovidCases