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 | 1305 | A1305A | A2123A | syn | gcT | gcC | 956 | 940 | 0.983264 | 6632-6634 |
ORF1ab/nsp3 | 1305 | A1305A | A2123A | syn | gcT | gcA | 956 | 8 | 0.0083682 | 6632-6634 |
ORF1ab/nsp3 | 1305 | A1305A | A2123A | syn | gcT | gcG | 956 | 8 | 0.0083682 | 6632-6634 |
Details of the mutation A1305A 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 | 1305 | A1305A | gcT | gcC | 940 | 956 | All | 0.00018 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcA | 8 | 956 | All | 0.000002 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcG | 8 | 956 | All | 0.000002 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 251 | 253 | B.1.1.7 | 0.000225 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcG | 1 | 253 | B.1.1.7 | 0.000001 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcA | 1 | 253 | B.1.1.7 | 0.000001 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 203 | 203 | AY.106 | 0.067984 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 89 | 89 | AY.103 | 0.000553 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 40 | 41 | AY.25 | 0.000241 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcG | 1 | 41 | AY.25 | 0.000006 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 37 | 37 | AY.34 | 0.003588 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 35 | 35 | B.1.617.2 | 0.000132 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 34 | 34 | P.1.14 | 0.001625 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 28 | 28 | AY.3 | 0.000278 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 24 | 24 | AY.35 | 0.005593 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 17 | 17 | B.1.22 | 0.022398 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 15 | 15 | AY.4 | 0.000023 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 14 | 14 | B.1.2 | 0.000123 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 11 | 11 | C.37 | 0.001277 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 11 | 11 | Q.8 | 0.001814 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 10 | 10 | AY.120 | 0.000372 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 9 | 10 | AY.44 | 0.000055 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcA | 1 | 10 | AY.44 | 0.000006 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 9 | 9 | P.1 | 0.000142 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 8 | 8 | B.1.1.519 | 0.000318 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 7 | 7 | AY.111 | 0.001282 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 5 | 6 | B.1.177 | 0.000066 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcG | 1 | 6 | B.1.177 | 0.000013 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 4 | 4 | AY.119 | 0.000141 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 4 | 4 | AY.43 | 0.000018 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 3 | 4 | B.1.1 | 0.000054 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcG | 1 | 4 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 3 | AY.20 | 0.000078 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcA | 1 | 3 | AY.20 | 0.000039 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 3 | 3 | AY.23 | 0.000209 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 3 | 3 | AY.98 | 0.000237 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 3 | B.1 | 0.000018 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcG | 1 | 3 | B.1 | 0.000009 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 3 | 3 | B.1.429 | 0.000071 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | AY.117 | 0.000169 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | AY.26 | 0.000057 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | AY.33 | 0.000134 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | AY.36 | 0.000296 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcA | 1 | 2 | B.1.1.222 | 0.000204 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 2 | B.1.1.222 | 0.000204 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | B.1.1.487 | 0.011173 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcA | 2 | 2 | B.1.400 | 0.000858 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcG | 1 | 2 | B.1.427 | 0.00005 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 2 | B.1.427 | 0.00005 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcG | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | 0.055556 | |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcA | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.79 | 0.001211 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcA | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | AY.95 | 0.000761 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.1.464 | 0.001473 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.170 | 0.00431 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.177.20 | 0.001517 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.441 | 0.009615 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.561 | 0.000397 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.621.1 | 0.000506 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.10 | 0.008264 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp3 | 1305 | A1305A | gcT | gcC | 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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