CoV-GLUE | Mutations | Mutation
Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):
ORF | CodonNum | Mut | ORF1abMut | MutType | RefCodon | MutCodon | AACount | CodonCount | CodonProp | Genome Position |
ORF1ab/nsp15A1-B | 257 | R257R | R6709R | syn | cgT | cgG | 1775 | 1568 | 0.88338 | 20389-20391 |
ORF1ab/nsp15A1-B | 257 | R257R | R6709R | syn | cgT | cgC | 1775 | 200 | 0.112676 | 20389-20391 |
ORF1ab/nsp15A1-B | 257 | R257R | R6709R | syn | cgT | cgA | 1775 | 5 | 0.0028169 | 20389-20391 |
ORF1ab/nsp15A1-B | 257 | R257R | R6709R | syn | CgT | AgG | 1775 | 2 | 0.00112676 | 20389-20391 |
Details of the mutation R257R within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):
ORF | CodonNum | Mut | RefCodon | MutCodon | CodonCount | AACount | Lineage | LineageCodonProp |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1568 | 1775 | All | 0.0003 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 200 | 1775 | All | 0.000038 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgA | 5 | 1775 | All | 0.000001 |
ORF1ab/nsp15A1-B | 257 | R257R | CgT | AgG | 2 | 1775 | All | 0 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1420 | 1424 | AY.59 | 0.752119 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 4 | 1424 | AY.59 | 0.002119 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 75 | 106 | B.1.1.7 | 0.000067 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 30 | 106 | B.1.1.7 | 0.000027 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgA | 1 | 106 | B.1.1.7 | 0.000001 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 34 | 39 | AY.4 | 0.000053 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 5 | 39 | AY.4 | 0.000008 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 20 | 21 | B.1.429 | 0.000471 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 21 | B.1.429 | 0.000024 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 9 | 14 | AY.33 | 0.000601 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 5 | 14 | AY.33 | 0.000334 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 9 | 13 | B.1 | 0.000082 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 3 | 13 | B.1 | 0.000027 |
ORF1ab/nsp15A1-B | 257 | R257R | CgT | AgG | 1 | 13 | B.1 | 0.000009 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 8 | 12 | B.1.1 | 0.000145 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 4 | 12 | B.1.1 | 0.000073 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 12 | 12 | B.1.199 | 0.049587 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 10 | 11 | AY.23 | 0.000697 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 11 | AY.23 | 0.00007 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 8 | 11 | AY.43 | 0.000035 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 3 | 11 | AY.43 | 0.000013 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 11 | 11 | AY.9 | 0.000744 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 9 | 9 | B.1.351 | 0.000268 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 8 | 8 | B.1.1.33 | 0.003367 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 5 | 5 | AY.46.2 | 0.003177 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 5 | 5 | B.1.2 | 0.000044 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 3 | 5 | P.1 | 0.000047 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 2 | 5 | P.1 | 0.000032 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 4 | 4 | AY.69 | 0.000747 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 4 | 4 | B.1.1.430 | 0.166667 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 3 | 3 | AY.25 | 0.000018 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 3 | 3 | B.1.1.189 | 0.004539 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 3 | 3 | B.1.617.2 | 0.000011 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 2 | 3 | C.37 | 0.000232 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 3 | C.37 | 0.000116 |
ORF1ab/nsp15A1-B | 257 | R257R | CgT | AgG | 1 | 2 | 0.055556 | |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 2 | 0.055556 | |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 2 | AY.103 | 0.000006 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 2 | AY.103 | 0.000006 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 2 | 2 | AY.44 | 0.000012 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 2 | 2 | B.1.1.214 | 0.000111 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 2 | B.1.369 | 0.000285 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgA | 1 | 2 | B.1.369 | 0.000285 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | AU.2 | 0.002421 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | AY.10 | 0.00053 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgA | 1 | 1 | B.1.1.282 | 0.011628 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgA | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | B.1.1.420 | 0.001006 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | B.1.110 | 0.004525 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgA | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | B.1.177.10 | 0.000878 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | B.1.177.77 | 0.000726 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | B.1.265 | 0.001271 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | B.1.36.17 | 0.000494 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | B.1.470 | 0.001404 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | M.3 | 0.076923 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgG | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp15A1-B | 257 | R257R | cgT | cgC | 1 | 1 | Q.7 | 0.001111 |
CoV-GLUE is still in development. CoV-GLUE was originally developed as part of COG-UK by Josh Singer using the GLUE framework at the MRC-University of Glasgow Centre for Virus Research (CVR). In 2021 it was redeveloped by Richard Orton to scale to the millions of genome sequences available. We acknowledge support from the MRC (MC_UU_12014/12), WT (220977/Z/20/Z) and UKRI G2P (MR/W005611/1). Please contact Richard Orton with any queries: Richard.Orton@glasgow.ac.uk
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