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/nsp4 | 458 | M458I | M3221I | nonsyn | atG | atT | 10270 | 10147 | 0.988023 | 9926-9928 |
Details of the mutation no 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/nsp4 | 458 | M458I | atG | atT | 10147 | 10270 | All | 0.001941 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 7596 | 7636 | B.1.2 | 0.066886 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 824 | 832 | B.1.1.7 | 0.000738 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 294 | 294 | B.1.1.232 | 0.533575 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 217 | 217 | B.1.527 | 0.803704 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 204 | 204 | B.1.177.21 | 0.0156 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 130 | 139 | B.1 | 0.001191 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 129 | 130 | B.1.596 | 0.011241 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 102 | 113 | B.1.1 | 0.00185 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 100 | 100 | B.1.177.27 | 0.943396 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 70 | 70 | B.1.1.317 | 0.028818 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 42 | 42 | B.1.1.50 | 0.028513 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 30 | 32 | AY.4 | 0.000047 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 17 | 26 | B.1.36 | 0.00248 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 24 | 24 | B.1.1.231 | 0.074303 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 23 | 23 | A.2.4 | 0.077441 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 23 | 23 | B.1.398 | 0.068452 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 22 | 22 | AY.26 | 0.000623 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 8 | 21 | B.1.351 | 0.000238 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 13 | 14 | B.1.1.432 | 0.016456 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 13 | 13 | B.1.438.3 | 1 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 5 | 12 | B.1.177 | 0.000066 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 12 | 12 | B.1.617.2 | 0.000045 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 10 | 10 | B.1.1.306 | 0.004384 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 10 | 10 | B.1.258.17 | 0.00104 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 10 | 10 | B.1.399 | 0.019342 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 9 | 9 | P.1.16 | 0.003367 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 8 | 8 | AY.4.2 | 0.000174 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 7 | 7 | AY.119 | 0.000247 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 7 | 7 | B.1.561 | 0.002779 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 6 | 6 | AY.102 | 0.000159 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 6 | 6 | B | 0.000767 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 6 | 6 | B.1.396 | 0.004234 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 6 | 6 | B.1.429 | 0.000141 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 5 | 5 | A.5 | 0.009615 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 4 | 5 | P.1 | 0.000063 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 4 | AY.44 | 0.000012 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 4 | 4 | B.1.1.226 | 0.023256 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 4 | 4 | B.1.1.294 | 0.005063 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 4 | 4 | B.1.1.358 | 0.137931 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 4 | 4 | B.1.1.364 | 0.266667 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 3 | 4 | B.1.36.29 | 0.001552 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 4 | 4 | B.1.369 | 0.001141 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 4 | 4 | B.1.467 | 0.16 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 4 | B.1.623 | 0.000536 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 4 | 4 | P.2 | 0.000747 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 3 | 3 | A | 0.001161 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 3 | 3 | B.1.1.519 | 0.000119 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 3 | 3 | B.1.177.81 | 0.000568 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 3 | 3 | B.1.234 | 0.000396 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 3 | 3 | B.1.427 | 0.000151 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 3 | B.1.567 | 0.006667 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 3 | 3 | B.1.595 | 0.000783 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | A.21 | 0.00554 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | AY.103 | 0.000012 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 2 | AY.3 | 0.00001 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 2 | AY.60 | 0.000938 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | AY.70 | 0.000417 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 2 | AY.71 | 0.000475 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.1.192 | 0.004619 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.1.222 | 0.000408 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.1.335 | 0.025974 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.1.464 | 0.002946 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.104 | 0.00738 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.177.24 | 0.002591 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 2 | B.1.177.7 | 0.000165 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.223 | 0.005556 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.329 | 0.001215 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.509 | 0.001732 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.525 | 0.000226 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | B.1.541 | 0.00885 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | C.36 | 0.001821 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 2 | 2 | Q.4 | 0.00091 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | A.17 | 0.090909 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | A.23.1 | 0.000704 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AL.1 | 0.012987 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.10 | 0.00053 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.35 | 0.000233 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.63 | 0.000387 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.174 | 0.003378 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.207 | 0.001182 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.291 | 0.000742 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.326 | 0.001761 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.351 | 0.002793 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.354 | 0.004386 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.365 | 0.005587 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.369 | 0.000446 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.442 | 0.018519 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.45 | 0.014085 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.1.93 | 0.025641 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.126 | 0.001276 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.177.5 | 0.001242 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.179 | 0.003759 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.199 | 0.004132 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.260 | 0.003344 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.330 | 0.028571 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.336 | 0.002439 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.346 | 0.001311 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.404 | 0.001302 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.438 | 0.006536 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.438.1 | 0.000107 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.462 | 0.007246 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.523 | 0.002451 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.524 | 0.001406 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.560 | 0.00463 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.576 | 0.000907 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.580 | 0.004065 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.582 | 0.000491 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.590 | 0.004545 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.597 | 0.00463 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.609 | 0.000479 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.612 | 0.002653 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | B.6.6 | 0.000889 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | P.1.8 | 0.004785 |
ORF1ab/nsp4 | 458 | M458I | atG | atT | 1 | 1 | Q.1 | 0.000126 |
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
|