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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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HK.3+Orf1a:T340I+S:P809S(125 seqs, 20 countries) #2309

Closed xz-keg closed 1 year ago

xz-keg commented 1 year ago

From https://github.com/sars-cov-2-variants/lineage-proposals/issues/764

HK.3+C1284T, C23987T,T13324C, C27630T(Orf1a:T340I, S:P809S)

GISAID query: C23987T,G22927T,G13627A No. of seqs: 88( Canada 3 Denmark 35 UK 11 Finland 1 France 7 Germany 2 Greece 1 China 3 Israel 1 Italy 2 Netherlands 1 Poland 6 Singapore 1(from Denmark) Sweden 6 Switzerland 2 USA 6(1 from Norway))

87 using the given query, EPI_ISL_18222121 has C1284T but has S:809 masked. C1284T, -C23987T,G22927T,G13627A can find it(and its duplicate H10 pair)

FIrst: EPI_ISL_18158966, Denmark, 2023-7-31 Latest: EPI_ISL_18345194, Poland, 2023-9-26

usher

image

FedeGueli commented 1 year ago

97

oobb45729 commented 1 year ago

One with S:A475V and ORF1a:141-143del

xz-keg commented 1 year ago

125, Belgium,Slovenia, South Korea

xz-keg commented 1 year ago

One with S:A475V and ORF1a:141-143del

Orf1a:del141_143 seems convergent, also appears in https://github.com/sars-cov-2-variants/lineage-proposals/issues/947

xz-keg commented 1 year ago

Designated HK.3.4