XDK+S:F456L on C29762T branch (45)

[Over-There-Is]

XDK> C29762T> T22297C, T22928C (Not to be confused with T22927C)

Query: C5314T, T22297C, T22928C

EDITED By @FedeGueli : Most of the samples now have also S:N237K and S:Q1201K . Mutation in the branch : XDK> C5314T > A1633G, S:N237K (G22272A), T22297C ,S:F456L (T22928C) , S:Q1201K (C25162A, C25163A)

Earliest sequence: 04-16 Shatin, Hong Kong SAR, China EPI_ISL_19146025 Latest sequence: 05-09 England, United Kingdom EPI_ISL_19146708 Regions Detected: UK 43(England), China 2(Hong Kong)

Tree updated on May 23:

https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_4266b_f31600.json?label=id:node_7033495

Sequences: EPI_ISL_19088230, EPI_ISL_19088237, EPI_ISL_19133005, EPI_ISL_19133026, EPI_ISL_19133032, EPI_ISL_19133042, EPI_ISL_19139191, EPI_ISL_19139197, EPI_ISL_19143961, EPI_ISL_19146025, EPI_ISL_19146029, EPI_ISL_19146684, EPI_ISL_19146688, EPI_ISL_19146702, EPI_ISL_19146706, EPI_ISL_19146708, EPI_ISL_19146773, EPI_ISL_19151204, EPI_ISL_19157209-19157214, EPI_ISL_19157216-19157217, EPI_ISL_19157219-19157220, EPI_ISL_19157223, EPI_ISL_19157231-19157233, EPI_ISL_19157235, EPI_ISL_19157238, EPI_ISL_19157241, EPI_ISL_19157248, EPI_ISL_19157250, EPI_ISL_19157264, EPI_ISL_19157270-19157271, EPI_ISL_19157274, EPI_ISL_19157277-19157279, EPI_ISL_19157287,

[xz-keg]

17 seqs now

[FedeGueli]

Jumped to 45!

[FedeGueli]

Please propose it.

[FedeGueli]

Edited the proposal it seems it has also S:N237K and S:Q1201K, but i think it is a couple of english cluster.

[Over-There-Is]

the new tree is too flip-flopped.

[Over-There-Is]

only a part of british sequences have C25162A, C25163A.

[Over-There-Is]

it seems these sequences have mutation on 28371 too, but it's not shown on usher.

[Over-There-Is]

the real tree would be more similar to this:

[FedeGueli]

it seems these sequences have mutation on 28371 too, but it's not shown on usher.

Noticed that too, @Sinickle wasn't that in BF.7 too? i remember we proposed BF.7 two times in two issues one with and one without, ending to be the same lineage i don't recall how that thing was solved then!

[FedeGueli]

Thanks for proposing it. @ryhisner could you take a look at the deletion at N:33 it seems a similar pattern to BF.7

BF.7 deletion:

XDK Deletion:

The difference between N:S33F in BF.7 and N:S33V in XDK is cause BA.5.2.1 branch of BF.7 had G28361T (not sure it was noticed at that time) cc @Sinickle

[FedeGueli]

Designated XDK.6 via https://github.com/cov-lineages/pango-designation/commit/8bd6644bd4309f49d32f5a6f801346269d2529de