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S:T478T seems another pathway the virus is exploring (see FL.22 and CM.10) especially on the immunity background of Philippines.
Defining mutations:
FL.1.3 >>> Orf1a:I2873M (A8884G = NSP4_I110M) …
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I spotted a recent GE.1 sublineage with a double spike mutation .
Tree:
![Schermata 2023-08-18 alle 17 53 08](https://github.com/cov-lineages/pango-designation/assets/87669813/a5a6777a-39c1-4ef2-a8b…
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Tree:
https://nextstrain.org/fetch/genome.ucsc.edu/trash/ct/subtreeAuspice1_genome_17457_659430.json?c=gt-S_314,1263&label=id:node_7038264
![Schermata 2023-07-06 alle 08 20 58](https://github.com/sa…
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Gisaid query: T22928C,C5730T,C23123T
Samples 9
EPI_ISL_17617147, EPI_ISL_17679055, EPI_ISL_17679964,
EPI_ISL_17722951, EPI_ISL_17723004, EPI_ISL_17784673,
EPI_ISL_17786070, EPI_ISL_17788606, EPI…
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My attention was caught by a recent brazilian sample carrying S:V16F S:A344V, S:R403K and S:F456L (EPI_ISL_17879723) when i discovered that despite belonging to XBB.1.18.1 was not a FE.1 family but ac…
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Defining mutations:
XBB.1.16 >> ORF1a:L450F (C1613T) > ORF1a:I3587T (T11025C = NSP6_I16T) > ORF1a:Q3777E (C11594G = NSP6_Q208E)
> Orf1a:L469F (C1609T = NSP2_L289F), ORF1a:Q526K (C1670T = NSP2_Q3…
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Noticed a weird South African sequence: `hCoV-19/South_Africa/CERI-KRISP-K058084/2023|EPI_ISL_18284171|2023-09-04`
This is the Spike:
S:A27S | S:V36I | S:V83A | S:H146Q | S:K147E | S:W152R
S:F1…
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Need to automate the upload of files to these different sources
GISAID
- Need to fix header errors
Github
Google Cloud
- No need to wait for analysis to be complete to start this. In a fully au…
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Tree:
![Schermata 2023-07-23 alle 15 58 26](https://github.com/sars-cov-2-variants/lineage-proposals/assets/87669813/15d7bf3c-bd38-4777-8432-ae4127fc8ebe)
https://nextstrain.org/fetch/genome.ucsc.ed…
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JN.2+T1030C+C11195T, C23277T,G28346T(Orf1a:L3644F,N:G25C,S:T572I )
GISAID query: C11195T, C23277T,G28346T
No. of seqs: 19(Denmark 2 Belgium 1 Sweden 1 Germany 2 UK 1 Netherlands 12)
First: EPI_…