Slack / Private Message Drop — page 468

[2021-01-31 15:08:39] [Robert Garry] irus name: hCoV-19/South Africa/KRISP-EC-K006856/2020 Accession ID: EPI_ISL_736936 Type: betacoronavirus GISAID Clade GH PANGO Lineage B.1.351 (version: 2021-01-22) AA Substitutions Spike A243T, Spike A701V, Spike D80A, Spike D215G, Spike D614G, Spike E484K, Spike K417N, Spike L18F, Spike L241del, Spike N501Y, Spike Q239del, Spike T240del, E P71L, N T205I, NS3 Q57H, NS3 S171L, NSP2 T85I, NSP3 K837N, NSP5 K90R, NSP6 F108del, NSP6 G107del, NSP6 S106del, NSP12 M124I, NSP12 P323L Passage details/history: Original [2021-01-31 15:09:40] [Robert Garry] Here's one with LLA, but only three include LLA on GSAID. [2021-01-31 15:10:49] [Kristian Andersen] Here's the full alignment from RSA - the deletion is out of frame, so that's probably why there's some confusion. LLA is definitely what's deleted, so that's 241-243. This fucking virus... [shared file(s): Nucleotide alignment.geneious] [2021-01-31 15:11:28] [Robert Garry] Actually happy to hear all this ! [2021-01-31 15:12:45] [Robert Garry] Needs to be fixed on GSAID [2021-01-31 15:15:24] [Kristian Andersen] And NextStrain... And Covariats... I'll make sure we get it right on Outbreak.info :wink: [2021-01-31 15:16:02] [Robert Garry] But now I need to unfix the Christmas Card.:rage4: [2021-01-31 15:16:18] [Kristian Andersen] Sorry Bob... [2021-01-31 15:17:42] [Robert Garry] It what I got when I did the alignment myself which is why it shows up in our virological post that way. Somehow I thought I got it wrong. [2021-01-31 15:18:41] [Kristian Andersen] Trust yourself man! :wink: [2021-01-31 15:27:33] [Andrew Rambaut] The problem is it is ambiguous where the deletion is: [2021-01-31 15:27:37]