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Slack / Private Message Drop, p.297 [SLACK_000511] · slack_pm:msg:03094

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WA1 has three differences to both WH04 and Hu-1 - all three ancestral.

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2020-12-06 10:08 Andrew Rambaut open

Hu-1 should have 2 differences from WH04 (EPI_ISL_406801): T:8781:C, C:28143:T
2020-12-06 10:11 Andrew Rambaut open

Wuhan-Hu-1: T:8781:C|T:18059:C|C:28143:T WH04: T:18059:C WA1: 0:
2020-12-06 10:11 Kristian G. Andersen open

The version I have of Hu-1 (MN908947) is identical - weird... Lemme check again
2020-12-06 10:13 Kristian G. Andersen open

Yup, identical based on NCBI records (except the ends). Here's the Geneious alignment [shared file(s): 2020.12.06_alignment.geneious]
2020-12-06 10:13 Kristian G. Andersen

WA1 has three differences to both WH04 and Hu-1 - all three ancestral.
2020-12-06 10:15 Kristian G. Andersen open

Lemme check these human sequences against the larger pango/bat alignment I have - since I have all the assemblies for those too.
2020-12-06 10:16 Andrew Rambaut open

Not sure that is the same WH04 - there are some confusing names
2020-12-06 10:16 Kristian G. Andersen open

[and I'll see if I can get the raw data for WA1 so I can check the assembly for that one too - although it's been sequenced multiple times, so I assume it's correct]
2020-12-06 10:17 Kristian G. Andersen open

Lemme get WH04 from GISAID (I have been using MT291829 from NCBI as WH04)