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Slack / Private Message Drop, p.584 [SLACK_000798] · slack_pm:msg:06110

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Interesting recombinants - Andrew, do you have an automated way to detect these? We have seen some strange sequences lately.

In context

A single line often inverts meaning once you see what it answers, so neighbouring messages are always shown.

2021-03-10 14:21 Kristian G. Andersen open

I mean - they should have come across recombination by now if they actually cared about looking at this properly... But I guess that was never the purpose.
2021-03-10 14:23 Andrew Rambaut open

Found some lovely examples of recombinants between B.1.1.7 and other lineages: [shared file(s): group4_snp_plot.png]
2021-03-10 14:24 Andrew Rambaut open

Perhaps that is lab made too?
2021-03-10 14:31 Edward C. Holmes open

You can't argue with people so dumb.
2021-03-10 14:34 Kristian G. Andersen

Interesting recombinants - Andrew, do you have an automated way to detect these? We have seen some strange sequences lately.
2021-03-10 14:37 Andrew Rambaut open

Was just looking for intermediates of B.1.1.7 - i.e., perhaps involved in the genesis events. Came across a bunch with some of the mutations but not all. The best ones were some that had multiple genomes so were clearlytransmitting - but the cool thing is they were sequenced in different labs so no lab funny business. Probably loads more but these are the low hanging fruit (about 5-6 sets)
2021-03-10 14:38 Kristian G. Andersen open

Interesting - not really surprised. So Bette is right? As in, her analyses are right?
2021-03-10 14:42 Andrew Rambaut open

Once again Bette got the right answer but is using flawed methods. Her 3-sequence recombination method can't distinguish recombination from convergence.
2021-03-10 14:43 Andrew Rambaut open

But recombination is no surprise to any one.