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 | 414 | I414I | I1232I | syn | atC | atT | 10028 | 9683 | 0.965596 | 3959-3961 |
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 | 414 | I414I | atC | atT | 9683 | 10028 | All | 0.001852 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3270 | 3270 | B.1.1.318 | 0.986723 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1215 | 1215 | AZ.2 | 0.997537 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1150 | 1150 | AZ.1 | 0.997398 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 982 | 990 | AY.4 | 0.001528 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 657 | 657 | AZ.3 | 0.99848 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 215 | 335 | B.1.1.7 | 0.000192 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 297 | 297 | AZ.4 | 0.996644 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 285 | 285 | AZ.5 | 1 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 185 | 219 | B.1.617.2 | 0.000697 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 124 | 124 | AY.120 | 0.00461 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 121 | 121 | AZ.2.1 | 0.98374 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 119 | 119 | AZ.6 | 1 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 114 | 114 | B.1.351 | 0.003389 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 94 | 94 | B.1.1.25 | 0.053439 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 59 | 70 | AY.43 | 0.000261 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 6 | 67 | AY.47 | 0.000187 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 41 | 64 | AY.44 | 0.00025 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 52 | 54 | AY.3 | 0.000517 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 41 | 45 | AY.25 | 0.000247 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 37 | 44 | P.1 | 0.000583 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 30 | 40 | B.1 | 0.000275 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 32 | 33 | B.1.1.519 | 0.001271 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 33 | 33 | B.1.596 | 0.002876 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 29 | 29 | AY.80 | 0.032731 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 29 | 29 | B.1.240 | 0.006251 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 26 | 26 | AY.26 | 0.000736 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 23 | 25 | B.1.1 | 0.000417 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 19 | 23 | AY.103 | 0.000118 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 23 | 23 | P.1.14 | 0.001099 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 19 | 19 | B.1.160 | 0.000593 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 18 | 18 | B.1.177.60 | 0.003932 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 14 | 14 | B.1.429 | 0.000329 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 13 | 13 | B.1.1.253 | 0.032581 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 13 | 13 | B.1.177 | 0.000171 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 11 | 13 | B.1.2 | 0.000097 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 9 | 10 | B.1.427 | 0.000454 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 10 | 10 | C.1 | 0.023923 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 9 | 9 | B.1.526 | 0.000212 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 8 | 8 | AY.4.2.1 | 0.001192 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 6 | 8 | B.1.234 | 0.000792 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 8 | 8 | B.1.614 | 1 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 7 | 7 | AT.1 | 0.035897 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 5 | 7 | AY.100 | 0.00023 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 5 | 7 | AY.4.2 | 0.000108 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 7 | AY.45 | 0.000243 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 7 | 7 | B.1.637 | 0.000512 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 7 | 7 | C.36.3 | 0.003971 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 6 | 6 | AY.39.1 | 0.000238 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 6 | 6 | AY.4.5 | 0.000645 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 6 | 6 | AY.75 | 0.000336 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 6 | 6 | B.1.258 | 0.000399 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 6 | 6 | B.1.525 | 0.000679 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 5 | 5 | AY.119 | 0.000177 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 5 | 5 | AY.70 | 0.001043 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 5 | AY.9.2 | 0.00011 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 5 | 5 | AY.98 | 0.000395 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 5 | 5 | AY.98.1 | 0.000242 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 5 | 5 | B.1.1.37 | 0.000964 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 5 | 5 | B.1.497 | 0.001574 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 4 | AY.117 | 0.000254 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 4 | 4 | AY.5 | 0.000083 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 4 | B | 0.000383 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 4 | 4 | B.1.1.33 | 0.001684 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 4 | 4 | B.1.243 | 0.000278 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 4 | 4 | B.1.561 | 0.001588 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 4 | 4 | B.1.617.1 | 0.000516 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | AY.23 | 0.000209 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | AY.54 | 0.000286 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | AY.6 | 0.000123 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | AY.72 | 0.004082 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | AY.9 | 0.000203 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | B.1.1.133 | 0.025424 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | B.1.576 | 0.00272 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | C.14 | 0.012987 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | C.37 | 0.000348 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 3 | 3 | Q.8 | 0.000495 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | AY.102 | 0.000053 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 2 | AY.29 | 0.000016 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | AY.46.1 | 0.002053 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | AY.46.4 | 0.000329 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | AY.75.1 | 0.000361 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | AY.84 | 0.000875 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | AY.90 | 0.001369 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 2 | B.1.1.222 | 0.000204 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | B.1.1.28 | 0.000622 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | B.1.210 | 0.004264 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | B.1.258.14 | 0.001961 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 2 | P.2 | 0.000187 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 2 | 2 | R.1 | 0.00018 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | A.2.5 | 0.000499 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.105 | 0.000643 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.1 | 0.000327 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.142 | 0.017544 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.158 | 0.012195 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.285 | 0.006536 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.291 | 0.000742 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.317 | 0.000412 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.326 | 0.001761 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.329 | 0.003846 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.419 | 0.007407 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.1.8 | 0.003584 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.110.3 | 0.000718 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.160.14 | 0.002119 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.170 | 0.00431 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.177.2 | 0.004545 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.177.7 | 0.000165 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.349 | 0.000715 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.362.2 | 0.004717 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.503 | 0.002488 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.538 | 0.008065 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.546 | 0.003704 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.551 | 0.00129 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.564.1 | 0.001577 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.1.569 | 0.014493 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | C.26 | 0.007353 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | P.1.7 | 0.000319 |
ORF1ab/nsp3 | 414 | I414I | atC | atT | 1 | 1 | Q.3 | 0.000145 |
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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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