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New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (148 samples, 8 countries including Mexico and South Africa) #2661

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FedeGueli opened this issue Jun 18, 2024 · 15 comments

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@FedeGueli
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FedeGueli commented Jun 18, 2024

Jn.1.16.1 > Orf1b:Q215K (C14110A) > S:S31del (Del21653-55)
Query: C14110A,del21653
Query for S:A771S sub branch: C14110A,del21653,C13426T > 19
Samples: 81 (Canada, England, US
Tree:
Screenshot 2024-08-15 alle 10 38 52
https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_1f3f4_dbda70.json?label=id:node_7258807

IDs:
EPI_ISL_19158673, EPI_ISL_19165120, EPI_ISL_19175973,
EPI_ISL_19177682, EPI_ISL_19177701, EPI_ISL_19186223,
EPI_ISL_19186270, EPI_ISL_19186528, EPI_ISL_19192671,
EPI_ISL_19194452, EPI_ISL_19194467, EPI_ISL_19194469,
EPI_ISL_19194483, EPI_ISL_19194496, EPI_ISL_19195949,
EPI_ISL_19197519, EPI_ISL_19198933, EPI_ISL_19199087,
EPI_ISL_19199090-19199091, EPI_ISL_19199103, EPI_ISL_19205743,
EPI_ISL_19208013, EPI_ISL_19208085, EPI_ISL_19208097,
EPI_ISL_19212266, EPI_ISL_19215295, EPI_ISL_19218336,
EPI_ISL_19221195, EPI_ISL_19221905, EPI_ISL_19223539,
EPI_ISL_19225272, EPI_ISL_19232901, EPI_ISL_19233009,
EPI_ISL_19251255, EPI_ISL_19259346, EPI_ISL_19259378,
EPI_ISL_19262459, EPI_ISL_19262948, EPI_ISL_19262976,
EPI_ISL_19263370, EPI_ISL_19268552, EPI_ISL_19268577,
EPI_ISL_19269204, EPI_ISL_19274423, EPI_ISL_19277612,
EPI_ISL_19277679, EPI_ISL_19277734, EPI_ISL_19277794,
EPI_ISL_19281987, EPI_ISL_19282057, EPI_ISL_19282096,
EPI_ISL_19282762-19282763, EPI_ISL_19285288, EPI_ISL_19286773,
EPI_ISL_19286807, EPI_ISL_19289014, EPI_ISL_19289161,
EPI_ISL_19289396, EPI_ISL_19295157, EPI_ISL_19295505,
EPI_ISL_19302593, EPI_ISL_19304241, EPI_ISL_19304473,
EPI_ISL_19304491, EPI_ISL_19308528, EPI_ISL_19308585,
EPI_ISL_19308653, EPI_ISL_19313846, EPI_ISL_19313929,
EPI_ISL_19316933, EPI_ISL_19316979, EPI_ISL_19317080,
EPI_ISL_19325907, EPI_ISL_19326123, EPI_ISL_19327927,
EPI_ISL_19329022, EPI_ISL_19329147, EPI_ISL_19329460,
EPI_ISL_19332532

@FedeGueli
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Wrong repo i leave this here. in the case not growing i will close it as usual

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (21 samples) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (26 samples) Jun 24, 2024
@FedeGueli
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26

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (26 samples) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (28 samples) Jun 27, 2024
@FedeGueli FedeGueli reopened this Jun 29, 2024
@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (28 samples) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (32 samples) Jul 2, 2024
@FedeGueli
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@aviczhl2 @corneliusroemer this is worth to be designated so i won't transfer it back to secondary repo

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (32 samples) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (41 samples) Jul 17, 2024
@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (41 samples) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (41 samples, 6 countries including Mexico) Jul 17, 2024
@FedeGueli
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41

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (41 samples, 6 countries including Mexico) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (54 samples, 6 countries including Mexico) Jul 24, 2024
@FedeGueli
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54

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (54 samples, 6 countries including Mexico) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (60 samples, 6 countries including Mexico) Jul 28, 2024
@FedeGueli
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60

@FedeGueli
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no chance to survive closing it

@FedeGueli FedeGueli closed this as not planned Won't fix, can't repro, duplicate, stale Aug 1, 2024
@FedeGueli FedeGueli reopened this Aug 15, 2024
@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (60 samples, 6 countries including Mexico) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (81 samples, 6 countries including Mexico) Aug 15, 2024
@FedeGueli
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reopened hence it is 81 now and circualting recently also in Mexico. ping @corneliusroemer

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (81 samples, 6 countries including Mexico) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (81 samples, 6 countries including Mexico) with a S:A771S branch (19) Aug 15, 2024
@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (81 samples, 6 countries including Mexico) with a S:A771S branch (19) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (92 samples, 6 countries including Mexico) with a S:A771S branch (19) Aug 22, 2024
@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (92 samples, 6 countries including Mexico) with a S:A771S branch (19) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (104 samples, 7 countries including Mexico) with a S:A771S branch (20) Aug 30, 2024
@FedeGueli
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104

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (104 samples, 7 countries including Mexico) with a S:A771S branch (20) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (112 samples, 7 countries including Mexico) Sep 11, 2024
@DailyCovidCases
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DailyCovidCases commented Sep 17, 2024

Tree now:
usher
Tracked in issue2661
Screenshot (212)
ping @corneliusroemer Is this branch worth a designation?

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (112 samples, 7 countries including Mexico) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (114 samples, 7 countries including Mexico) Sep 18, 2024
@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (114 samples, 7 countries including Mexico) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (117 samples, 7 countries including Mexico) Sep 24, 2024
@FedeGueli
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This branch has slowed down a lot. I think you can close this

yeah but two very recent samples

@DailyCovidCases
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DailyCovidCases commented Oct 9, 2024

Now 121 seqs
@FedeGueli This branch has slowed down a lot. You can close this now

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (117 samples, 7 countries including Mexico) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (124 samples, 7 countries including Mexico) Oct 9, 2024
@FedeGueli FedeGueli closed this as not planned Won't fix, can't repro, duplicate, stale Oct 9, 2024
@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (124 samples, 7 countries including Mexico) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (135 samples, 8 countries including Mexico and South Africa) Nov 4, 2024
@FedeGueli
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4 recent samples of this from California

@FedeGueli FedeGueli reopened this Nov 4, 2024
@DailyCovidCases
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Slowing down now

@FedeGueli FedeGueli closed this as not planned Won't fix, can't repro, duplicate, stale Nov 11, 2024
@Over-There-Is
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148

@FedeGueli FedeGueli changed the title New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (135 samples, 8 countries including Mexico and South Africa) New JN.1.16.1 plus S:S31del after Orf1b:Q215K (C14110A) (148 samples, 8 countries including Mexico and South Africa) Dec 1, 2024
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