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/nsp3 | 1868 | R1868R | R2686R | syn | cgT | cgC | 1791 | 1702 | 0.950307 | 8321-8323 |
ORF1ab/nsp3 | 1868 | R1868R | R2686R | syn | cgT | cgG | 1791 | 51 | 0.0284757 | 8321-8323 |
ORF1ab/nsp3 | 1868 | R1868R | R2686R | syn | cgT | cgA | 1791 | 31 | 0.0173088 | 8321-8323 |
ORF1ab/nsp3 | 1868 | R1868R | R2686R | syn | CgT | AgA | 1791 | 6 | 0.00335008 | 8321-8323 |
ORF1ab/nsp3 | 1868 | R1868R | R2686R | syn | CgT | AgG | 1791 | 1 | 0.000558347 | 8321-8323 |
Details of the mutation R1868R 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/nsp3 | 1868 | R1868R | cgT | cgC | 1702 | 1791 | All | 0.000326 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 51 | 1791 | All | 0.00001 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 31 | 1791 | All | 0.000006 |
ORF1ab/nsp3 | 1868 | R1868R | CgT | AgA | 6 | 1791 | All | 0.000001 |
ORF1ab/nsp3 | 1868 | R1868R | CgT | AgG | 1 | 1791 | All | 0 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 488 | 488 | B.1.525 | 0.055222 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 325 | 336 | B.1.1.7 | 0.000291 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 8 | 336 | B.1.1.7 | 0.000007 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 3 | 336 | B.1.1.7 | 0.000003 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 164 | 181 | AY.4 | 0.000255 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 17 | 181 | AY.4 | 0.000026 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 179 | 179 | B.1.234 | 0.023618 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 147 | 147 | C.2.1 | 0.98 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 97 | 97 | B.1.617.2 | 0.000365 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 45 | 45 | C.2 | 0.725806 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 16 | 36 | B.1 | 0.000147 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 9 | 36 | B.1 | 0.000082 |
ORF1ab/nsp3 | 1868 | R1868R | CgT | AgA | 6 | 36 | B.1 | 0.000055 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 4 | 36 | B.1 | 0.000037 |
ORF1ab/nsp3 | 1868 | R1868R | CgT | AgG | 1 | 36 | B.1 | 0.000009 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 26 | 26 | AY.26 | 0.000736 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 24 | 26 | AY.43 | 0.000106 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 2 | 26 | AY.43 | 0.000009 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 25 | 25 | AY.102 | 0.000663 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 19 | 21 | B.1.2 | 0.000167 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 1 | 21 | B.1.2 | 0.000009 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 1 | 21 | B.1.2 | 0.000009 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 8 | 14 | P.1 | 0.000126 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 6 | 14 | P.1 | 0.000095 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 10 | 11 | AY.34 | 0.00097 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 11 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 9 | 10 | AY.103 | 0.000056 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 1 | 10 | AY.103 | 0.000006 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 9 | 9 | AY.120 | 0.000335 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 9 | 9 | AY.39 | 0.000222 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 9 | 9 | AY.39.1 | 0.000357 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 8 | 8 | AY.44 | 0.000049 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 8 | 8 | B.1.1.1 | 0.002614 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 6 | 6 | AY.20 | 0.000233 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 6 | 6 | AY.9 | 0.000406 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 5 | 5 | B.1.470 | 0.007022 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 2 | 4 | AY.25 | 0.000012 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 4 | AY.25 | 0.000012 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 4 | 4 | AY.5 | 0.000083 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 4 | 4 | AY.75 | 0.000224 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 3 | 4 | B.1.427 | 0.000151 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 4 | B.1.427 | 0.00005 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 4 | 4 | B.1.429 | 0.000094 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 3 | 3 | AY.45 | 0.000365 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 3 | B.1.1 | 0.000036 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 1 | 3 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 3 | 3 | B.1.596 | 0.000261 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 3 | 3 | C.37 | 0.000348 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 2 | AY.1 | 0.000791 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 1 | 2 | AY.111 | 0.000183 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 1 | 2 | AY.111 | 0.000183 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 2 | AY.99.2 | 0.000184 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 2 | B | 0.000256 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 2 | B.1.177 | 0.000026 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 2 | B.1.206 | 0.001631 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 1 | 2 | B.1.398 | 0.002976 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 1 | 2 | B.1.398 | 0.002976 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 2 | 2 | P.1.7 | 0.000639 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | A.23.1 | 0.000704 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | A.28 | 0.002646 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.108 | 0.001103 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 1 | 1 | AY.79 | 0.001211 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.160.15 | 0.00495 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 1 | 1 | B.1.177.6 | 0.000977 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.177.75 | 0.001041 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 1 | 1 | B.1.222 | 0.001692 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.397 | 0.004854 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.424 | 0.008065 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.485 | 0.014925 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.623 | 0.000536 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgC | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgG | 1 | 1 | C.23 | 0.005814 |
ORF1ab/nsp3 | 1868 | R1868R | cgT | cgA | 1 | 1 | P.1.14 | 0.000048 |
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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