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

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xz-keg opened this issue Oct 5, 2023 · 5 comments
Closed

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

xz-keg opened this issue Oct 5, 2023 · 5 comments

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@xz-keg
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xz-keg commented Oct 5, 2023 •
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From sars-cov-2-variants/lineage-proposals#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
@xz-keg xz-keg changed the title HK.3+Orf1a:T340I+S:P809S(88 seqs, 17 countries) HK.3+Orf1a:T340I+S:P809S(94 seqs, 17 countries) Oct 7, 2023
@FedeGueli
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97

@xz-keg xz-keg changed the title HK.3+Orf1a:T340I+S:P809S(94 seqs, 17 countries) HK.3+Orf1a:T340I+S:P809S(97 seqs, 17 countries) Oct 9, 2023
@oobb45729
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One with S:A475V and ORF1a:141-143del

@oobb45729 oobb45729 mentioned this issue Oct 12, 2023
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@xz-keg
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xz-keg commented Oct 13, 2023

125, Belgium,Slovenia, South Korea

@xz-keg xz-keg changed the title HK.3+Orf1a:T340I+S:P809S(97 seqs, 17 countries) HK.3+Orf1a:T340I+S:P809S(125 seqs, 20 countries) Oct 13, 2023
@xz-keg
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xz-keg commented Oct 13, 2023

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

Orf1a:del141_143 seems convergent, also appears in
sars-cov-2-variants/lineage-proposals#947

Over-There-Is referenced this issue Oct 15, 2023
@corneliusroemer
Designate HK.3.4 (S:P809S)
3b5d3d1
@xz-keg
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xz-keg commented Oct 15, 2023

Designated HK.3.4

@xz-keg xz-keg closed this as completed Oct 15, 2023
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@xz-keg @FedeGueli @oobb45729