JN.1+S:F456L on C23683T branch(136 seqs, 7 countries)

cov-lineages / pango-designation

Repository for suggesting new lineages that should be added to the current scheme

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JN.1+S:F456L on C23683T branch(136 seqs, 7 countries) #2578

Open aviczhl2 opened 1 month ago

aviczhl2 commented 1 month ago

From branch 15 of https://github.com/sars-cov-2-variants/lineage-proposals/issues/1253 JN.1+C23683T+T22928C(S:F456L)

GISAID query: C23683T ,T22928C,C897A,-24821,-14877,-17334, -2782,-4795,-17746 No. of seqs:102(Canada 1 Japan 4 China 1 Thailand 1 USA 1 South Korea 94)

First: EPI_ISL_18853287, South Korea, 2024-1-9 Latset: EPI_ISL_19093084, South Korea, 2024-4-14

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aviczhl2 commented 1 month ago

I'm unsure about this C14877T+C23683T+S:F456L branch, likely something misplaced and shall belong to this branch? Or recomb?

FedeGueli commented 1 month ago

14877 is highly homoplasic toward a point it could be note real:

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/singleSubtreeAuspice_genome_test_5a205_1f3b50.json?f_userOrOld=uploaded%20sample&label=id:node_6914949

aviczhl2 commented 3 weeks ago

132, Singapore

FedeGueli commented 2 weeks ago

174