Closed BorisUitham closed 1 year ago
One more thing: the recombination must have occured here, since that nranch is the only of these shares nuc mutations. So pretty early on in the branch then.
mentioned the non recombinant in https://github.com/sars-cov-2-variants/lineage-proposals/issues/189
@Fearuncle yes, that is the other divergent branch i was talking about however this one takes another route
Wow! The calculated growth advantage after todays covspectrum update is high, even if i must learn to keep this with a grain of salt.
From top to bottom:
Seq counts updated: 20-07 Query without recomb 23 seqs: A25094G, C23673T, A16878T
Query recomb 2 seqs: A25094G, C23673T, -A16878T
Query combined 25 seqs: A25094G, C23673T
Query austrian Sublin 11 seqs: G27214A, A25094G, C23673T, A16878T
This is another branch of eg.5.2 with 704l. Perhaps the 1177d or the other orf mutations has something to to with the increased success of this one
Very interestingly, when creating the query, it kept including 2 very recent also from austria eu.1.1. I think these are recombinants with this tiny lineage! I think it is quite special when there is a recombination with 2 sequences where one parent sequence as of yet only has 18 Recombinants: (collected 6-14 and 6-19)
However the reason I made this proposal is mainly because of this non recombinant tree so lets watch both closely; https://nextstrain.org/fetch/genome-test.gi.ucsc.edu/trash/ct/subtreeAuspice1_genome_test_56955_80b4f0.json?f_userOrOld=uploaded%20sample&label=id:node_6668948
Based on comparison with usheres estimated common ancestor: I believe the breakpoint to be in between nuc 18723 (orf1b) and 22576 (spike, although aa wise the spikes are identical)