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cov-lineages / pango-designation

Repository for suggesting new lineages that should be added to the current scheme
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HV.1+Orf1a:T1589I(1083 seqs, 31 countries) #2378

Closed aviczhl2 closed 4 months ago

aviczhl2 commented 10 months ago

From https://github.com/sars-cov-2-variants/lineage-proposals/issues/802

Like EG.5.1.1 (#2226), there is also a large HV.1+Orf1a:T1589I branch. It may also be EG.5.1.1/HV.1 recombination as these two are nothing different before 5030.

HV.1+C5031T(Orf1a:T1589I)

GISAID query: T22917G,C5031T,C5835T,C22033A No. of seqs: 337(Australia 5 Austria 4 Belgium 1 Canada 78 Denmark 1 UK 7 France 6 Greece 1 Israel 2 Italy 4 Japan 1 New Zealand 4 Norway 1 China 3(1 from Japan) Spain 4 Sweden 4 USA 211(1 from Mexico))

First: EPI_ISL_18270985, USA, 2023-7-17 Latest: EPI_ISL_18510962, Australia, 2023-11-12

usher

image

aviczhl2 commented 9 months ago

436, Switzerland, Netherlands,

aviczhl2 commented 9 months ago

505, Poland, Ireland, Brazil

aviczhl2 commented 9 months ago

583, Singapore

aviczhl2 commented 9 months ago

635, South Africa

aviczhl2 commented 9 months ago

648, South Korea

aviczhl2 commented 8 months ago

855, Peru

FedeGueli commented 8 months ago
Screenshot 2024-01-06 alle 11 32 57

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/singleSubtreeAuspice_genome_test_23e53_92b4d0.json?f_userOrOld=uploaded%20sample&label=id:node_3564178

Downsampled tree with recent samples

aviczhl2 commented 8 months ago

903, Germany

aviczhl2 commented 8 months ago

922, Malaysia

aviczhl2 commented 6 months ago

1072, Guatemala

aviczhl2 commented 6 months ago

1074, Thailand