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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/XBB.2.3 recombinant(67 seqs, 2 countries) #2478

Closed aviczhl2 closed 4 months ago

aviczhl2 commented 6 months ago

From https://github.com/sars-cov-2-variants/lineage-proposals/issues/1315

HK.3+A17612G,T29625C(rev),G29706T

Orf1b:N1382S Orf10:F23S(rev)

HK.3--XBB.2.3 Breakpoint between 28298 and 29624

T29625C(rev),G29706T from XBB.2.3 A17612G from a HK.3 branch

GISAID query: A17612G,G29706T,G13627A No. of seqs: 56(South Korea 48 Japan 8)

First: EPI_ISL_18435719, South Korea, 2023-10-2 Latest: EPI_ISL_18809417, Japan, 2023-12-28

Usher places it on HK.27.1 but it has the HK.27 defining 5031 reverted, shall belong to HK.3. There are a lot of spike diversity in this recomb.

usher

image

corneliusroemer commented 5 months ago

I'm hesitating a bit here because the recombinant part is so small, with breakpoint between 28298 and 29624

aviczhl2 commented 4 months ago

Dead