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Slack / Private Message Drop, p.300 [SLACK_000514] · slack_pm:msg:03134

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Oh, but hang on - RmYN02 has 'C' in this position too - so pangos and RmYN02

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2020-12-06 11:13 Andrew Rambaut open

Synonymous though
2020-12-06 11:13 Kristian G. Andersen open

Haha, YES - I thought you had looked at the alignment!
2020-12-06 11:14 Andrew Rambaut open

No - was just looking for ones related to WA1 that were from more plausible locations
2020-12-06 11:14 Andrew Rambaut open

Given it is synonymous and the pangolin has loads of other mutations in that area it must be coincidence.
2020-12-06 11:15 Kristian G. Andersen

Oh, but hang on - RmYN02 has 'C' in this position too - so pangos and RmYN02
2020-12-06 11:15 Andrew Rambaut open

But spooky none the less
2020-12-06 11:15 Kristian G. Andersen open

Yeah, probably - but, yes, spooky.
2020-12-06 11:15 Kristian G. Andersen open

I think it's safe to say that we're definitely missing some early emergence stuff here
2020-12-06 11:16 Kristian G. Andersen open

... which is very interesting and worth a closer look. Would explain why we can't really root properly as well (Ihaven't checked recently, but back in the spring, BEAST insisted on a midpoint root when you took away the dates).