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EG.5.1.1 with 356T, 681R and T28251G, C28253T,A28254C (3 seqs, US-NY/US-NJ-GBW/Austria) #2327
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I think usher shall mask 28245-28254 site. @AngieHinrichs 1:Although they're real, they are very convergent but only have minor effects. |
Sorry about the slow reply. I agree, and it looks like masking 28245, 28251 and 28254 will take care of most of the problems. I will mask those in the BA.2 branch (includes BA.4, BA.5 & XBB) starting in today's build 2023-11-09. |
14 sequences now but a bit slow/small for designation |
I was tracking it from @ryhisner proposal : sars-cov-2-variants/lineage-proposals#986 that came after this one. |
Not quite sure why I closed this as not planned, it keeps popping up and it's really a big saltation, I just rediscovered it 🤦 and had entirely forgotten I had made this issue a month ago. Thanks @ryhisner for tracking it in sars-cov-2-variants/lineage-proposals#986 |
…/Austria/France/US, from #2327 and sars-cov-2-variants/lineage-proposals#986) Resolves #2327 Resolves sars-cov-2-variants/lineage-proposals#986
I also usually have a case of forgetting, and my solution is to create a JSON file called a catalog so I can always look it up and see the title of the issues as well as the content, time, and author information. |
Came across what looks like an interesting saltation that popped up fairly suddenly in US and Austria.
@ryhisner do you know whether this pattern of T28251G,C28253T,A28254C could have something to do with TRSs? Doesn't look like for me, do you know of other reasons such a pattern could occur frequently?
Usher placement:
https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_5cae6_bd3fe0.json
Usher seems to mask the 28253 mutation?
This is the new pattern:
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