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Proposal for a sublineage of B.1.617.2
Earliest sequence: 22.08.2022 (Philippines)
Countries detected: Philippines (4), Austria (1)
This sublineage is defined by c.75 mutations compared to root (…
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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_…
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Currently, when we go to `aggregated?compression=gzip`, we get a response with
```
Content-Encoding: gzip
Content-Type: application/json
```
Similarly, if choosing `?compression=zstd`, one ge…
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EDITED: This is a sublineage of GJ.1
and it is the sibling lineage of #109
There may be a XBB.2.3.3 sublineage with ORF1a:I4205V (NSP9:I65V, A12878G), ORF1b:V1110I (NSP13:V187I, G16795A), ORF8…
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We've been burning a lot of CPU re-aligning millions of sequences every time we process a new provision file. Even though this is pretty fast with minimap2, there is a *lot* of sequences! For the sa…
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Dear @j23414
I see that some of the sequences in all_sequences.fasta file have plasmid DNA as well and therefore are circular DNA and have length greater than 12000 bp. These include
```
AY243…
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To help users and potential collaborators, please update the readme to follow the flu doc style and explicitly call out how you like folks to submit issues, test issues, commit (eg, dev branches vs ma…
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I'd like to post this issue to help everyone propose any recombinant sequence that may be added to usher.
Anything with >5 reversion(refer to the last checkpoint ,usually a designation) or >20 pri…
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There may be a GK.1.1 sublineage with ORF7b:A15S (G27798T) first collected in Pernambuco, Brazil.
As of 2023-08-18, Cov-Spectrum reports 23 good-quality (24 total) GK.1.1+ORF7b:15S sequences.
Sour…
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There may be a XBB.2.3.11 sublineage with M:A104V (C26833T), ORF1a:A181T (G806A; NSP2:A1T), ORF3a:G172C (G25906T), G14268A, and C25701T first detected in France. This lineage also appears to have a G-…