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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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XDK+S:F456L+N:G30V, Orf9b:V30L on C29762T branch(47, GB-EN 45, CN-HK 2), most with S:R237K(GB-EN 45) and then S:Q1201K(42) #2610

Closed Over-There-Is closed 5 months ago

Over-There-Is commented 5 months ago

Transferred from sars-cov-2-variants/lineage-proposals#1572

XDK> C29762T> T22297C, T22928C(S:F456L), G28371T(N:G30V, Orf9b:V30L)> A1633G, G22272A(S:R237K)> C25162A, C25163A(S:Q1201K) G28371T is also in a BA.5.2.1 branch with BF.7, BF.38, etc., and an FE.1.1 branch with FE.1.1.3. C25162A, C25163A is also in BF.7.10, BF.38.1 and KP.2.1.

Query: C5314T, T22297C, T22928C

Earliest sequence: 04-16 Shatin, Hong Kong SAR, China EPI_ISL_19146025 Latest sequence: 05-10 England, United Kingdom EPI_ISL_19161837 Regions Detected: UK 45(England), China 2(Hong Kong)

2024-05-25 nextclade.auspice.json

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, EPI_ISL_19161837, EPI_ISL_19161854
Over-There-Is commented 5 months ago

@FedeGueli

FedeGueli commented 5 months ago
Screenshot 2024-05-25 alle 17 12 05

this should be the real pattern there.

Screenshot 2024-05-25 alle 17 14 10
Over-There-Is commented 5 months ago

FE.1.1.3 has G28371T too. But why this branch evolves C25162A, C25163A combo convergent to BF.7.10 and BF.38.1?

FedeGueli commented 5 months ago

FE.1.1.3 has G28371T too. But why this branch evolves C25162A, C25163A combo convergent to BF.7.10 and BF.38.1?

that is very common double nuc mutation

xz-keg commented 5 months ago

Designated XDK.6

FedeGueli commented 5 months ago

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