A single line often inverts meaning once you see what it
answers, so neighbouring messages are always shown.
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Wang _et al._ (2020a) sequenced PCR amplicons covering nu- cleotide sites 21,563 to 29,674 of the SARS-CoV-2 genome, which spans from the start of the spike gene to the end of ORF10. They also sequenced a short amplicon generated by nested PCR that covered a fragment of ORF1ab spanning sites 15,080 to 15,550. In this paper, I only analyze the region from spike through ORF10 because this is a much longer contiguous sequence and theamplicons were generated by conventional rather than nested PCR. I slightly trimmed the region of interest to21,570 to 29,550 because many samples had poor coverage at the termini."
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Ah - OK so not the ARTIC amplicons then
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WA1 is lineage A and has bat-like T8782 and C28144 plus another bat-like snp - what mutation is this?
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More top secret stuff - Tony and Francis have arranged a call with Jesse tomorrow - need to sort this out...
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2021-06-19 10:42
Robert F. Garry
C18060T?
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```But the earliest known SARS-CoV-2 sequences, whichare mostly derived from the Huanan Seafood Market, are no-tably more different from these bat coronaviruses than othersequences collected at later dates outside Wuhan.``` This is incorrect - WA1 is from Wuhan
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*Yes from your earlier post (Numbering off by 1) Andrew Rambaut* [12:11 PM] Wuhan-Hu-1: T:8781:C|T:18059:C|C:28143:T WH04: T:18059:C WA1: 0:
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So it is they are notably (2 or 3 mutations) more distant from RATG13 than other viruses in Wuhan at the same time
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Yes - he's got WA1 in the mix, but yes definitely WA1 early Wuhan for sure. I'm thinking Jesse making much ado about nothing - it's lineage A going to lineage B with WA1 from Wuhan ancestral.