CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 458 & Codon = atT
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 | 458 | I458I | I1276I | syn | atC | atT | 1512 | 1494 | 0.988095 | 4091-4093 |
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/nsp3 | 458 | I458I | atC | atT | 1494 | 1512 | All | 0.000286 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 257 | 257 | B.1.1.7 | 0.00023 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 236 | 236 | AY.4 | 0.000367 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 134 | 134 | B.1.525 | 0.015164 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 127 | 127 | B.1.381 | 0.992188 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 96 | 96 | B.1.526 | 0.002256 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 79 | 79 | AY.26 | 0.002237 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 54 | 56 | B.1.2 | 0.000475 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 45 | 45 | B.1.617.2 | 0.000169 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 36 | 37 | AY.43 | 0.000159 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 33 | 33 | B.1.1.328 | 0.559322 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 32 | 32 | AY.44 | 0.000195 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 31 | 31 | P.1 | 0.000488 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 22 | 22 | AY.103 | 0.000137 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 21 | 21 | B.1 | 0.000192 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 19 | 19 | B.1.1 | 0.000345 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 18 | 18 | AY.25 | 0.000108 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 14 | 14 | A.2.5.1 | 0.067308 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 12 | 12 | B.1.177 | 0.000158 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 11 | 11 | AY.33 | 0.000735 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 11 | 11 | B.1.1.37 | 0.002122 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 11 | 11 | B.1.427 | 0.000555 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 9 | 9 | AY.102 | 0.000239 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 8 | 8 | B.1.177.86 | 0.001468 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 6 | 6 | AY.14 | 0.000528 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 6 | 6 | AY.46 | 0.000624 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 6 | 6 | AY.9.2 | 0.00022 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 5 | 5 | AY.54 | 0.000477 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 5 | 5 | B.1.177.72 | 0.016949 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 5 | 5 | B.1.177.81 | 0.000947 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 5 | 5 | B.1.351 | 0.000149 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 5 | 5 | B.1.438.1 | 0.000536 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 4 | 4 | AY.120 | 0.000149 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 4 | 4 | AY.20 | 0.000155 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 4 | 4 | Q.8 | 0.00066 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | AY.119 | 0.000106 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | AY.3 | 0.00003 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | AY.39 | 0.000074 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | AY.4.2 | 0.000065 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | AY.5 | 0.000062 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | AY.6 | 0.000123 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | AY.61 | 0.000314 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | AY.74 | 0.000347 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | B.1.1.214 | 0.000166 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | B.1.160 | 0.000094 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 3 | B.1.177.60 | 0.000218 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | B.1.192 | 0.027778 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | B.1.243 | 0.000209 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | B.1.596 | 0.000261 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 3 | 3 | B.1.625 | 0.007059 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | AY.12 | 0.000632 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | AY.29.1 | 0.000441 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | AY.34 | 0.000194 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | AY.45 | 0.000243 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | AY.9.1 | 0.000167 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | B.1.1.28 | 0.000622 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | B.1.1.382 | 0.071429 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | B.1.1.486 | 0.003155 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | B.1.351.2 | 0.000605 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | B.1.36 | 0.000292 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 2 | B.1.369 | 0.000285 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | B.1.408 | 0.00738 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | C.37 | 0.000232 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | P.1.14 | 0.000096 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 2 | 2 | P.1.7 | 0.000639 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | 0.055556 | |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | A.1 | 0.000282 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AU.3 | 0.00211 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.110 | 0.000113 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.113 | 0.000142 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.116 | 0.000287 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.120.1 | 0.000321 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.121 | 0.000135 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.13 | 0.000161 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.15 | 0.002222 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.24 | 0.000431 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.29 | 0.000016 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.32 | 0.000532 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.4.5 | 0.000107 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.46.2 | 0.000635 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.75.1 | 0.00018 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.9 | 0.000068 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | AY.98 | 0.000079 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B | 0.000128 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.180 | 0.010753 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.27 | 0.00565 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.277 | 0.000759 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.306 | 0.000438 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.318 | 0.000302 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.372 | 0.000689 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.389 | 0.006061 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.448 | 0.002033 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.1.63 | 0.000386 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.128 | 0.000635 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.177.12 | 0.000152 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.177.4 | 0.000211 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.239 | 0.001221 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.240 | 0.000216 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.367 | 0.000792 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.389 | 0.001002 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.404 | 0.001302 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.416 | 0.001269 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.429 | 0.000024 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.459 | 0.004082 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.466.2 | 0.000391 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.524 | 0.001406 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.575 | 0.000303 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.612 | 0.002653 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.617.1 | 0.000129 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.1.621.1 | 0.000506 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | B.3 | 0.000831 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | D.2 | 0.000075 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | P.1.10 | 0.000269 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | P.1.12 | 0.000484 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | Q.6 | 0.006623 |
| ORF1ab/nsp3 | 458 | I458I | atC | atT | 1 | 1 | R.1 | 0.00009 |
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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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