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 | 1229 | V1229V | V2047V | syn | gtC | gtT | 2924 | 2674 | 0.914501 | 6404-6406 |
ORF1ab/nsp3 | 1229 | V1229V | V2047V | syn | gtC | gtA | 2924 | 248 | 0.0848153 | 6404-6406 |
ORF1ab/nsp3 | 1229 | V1229V | V2047V | syn | gtC | gtG | 2924 | 2 | 0.000683995 | 6404-6406 |
Details of the mutation V1229V 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 | 1229 | V1229V | gtC | gtT | 2674 | 2924 | All | 0.000511 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 248 | 2924 | All | 0.000047 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtG | 2 | 2924 | All | 0 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1639 | 1639 | B.1.329 | 0.995747 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 289 | 291 | B.1.1.7 | 0.000259 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 2 | 291 | B.1.1.7 | 0.000002 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 173 | 225 | AY.25 | 0.001041 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 52 | 225 | AY.25 | 0.000313 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 91 | 91 | AY.62 | 0.039651 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 49 | 55 | B.1.617.2 | 0.000185 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 6 | 55 | B.1.617.2 | 0.000023 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 50 | 54 | B.1 | 0.000458 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 4 | 54 | B.1 | 0.000037 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 45 | 45 | B.1.1.335 | 0.584416 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 43 | 43 | P.1 | 0.000677 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 35 | 36 | B.1.2 | 0.000308 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 36 | B.1.2 | 0.000009 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 32 | 32 | B.1.336 | 0.078049 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 27 | 27 | B.1.139 | 0.019795 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 26 | 26 | B.1.1.82 | 1 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 23 | 25 | AY.103 | 0.000143 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 2 | 25 | AY.103 | 0.000012 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 24 | 24 | B.1.1.519 | 0.000953 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 21 | 22 | AY.4 | 0.000033 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 22 | AY.4 | 0.000002 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 21 | 21 | B.1.351 | 0.000624 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 17 | 17 | A.27 | 0.028146 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 12 | 15 | B.1.1 | 0.000218 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 3 | 15 | B.1.1 | 0.000054 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 15 | 15 | P.1.4 | 0.014648 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 11 | 11 | AY.120 | 0.000409 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 10 | 11 | AY.23 | 0.000697 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 11 | AY.23 | 0.00007 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 9 | 10 | AY.3 | 0.00009 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 10 | AY.3 | 0.00001 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 5 | 9 | AY.44 | 0.00003 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 3 | 9 | AY.44 | 0.000018 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtG | 1 | 9 | AY.44 | 0.000006 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 8 | 8 | B.1.367 | 0.006339 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 7 | 7 | AY.102 | 0.000186 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 7 | 7 | AY.119 | 0.000247 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 7 | 7 | B.1.177 | 0.000092 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 7 | 7 | B.1.221 | 0.000497 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 6 | 6 | B.1.427 | 0.000303 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 5 | 5 | AY.74 | 0.000578 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 5 | 5 | B.1.565 | 0.004052 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 4 | 4 | AY.39 | 0.000099 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 4 | 4 | AY.5 | 0.000083 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 4 | 4 | AY.75 | 0.000224 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 3 | 3 | AY.100 | 0.000138 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 3 | 3 | AY.20 | 0.000117 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 3 | 3 | AY.42 | 0.000121 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 3 | 3 | AY.61 | 0.000314 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 3 | 3 | B.1.36.8 | 0.003 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | A.23.1 | 0.001408 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 2 | 2 | AY.105 | 0.001286 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | AY.26 | 0.000057 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | AY.43 | 0.000009 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | AY.54 | 0.000191 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | AY.75.1 | 0.000361 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | AY.98 | 0.000158 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | AY.99.1 | 0.003106 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | B.1.1.25 | 0.001137 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | B.1.177.11 | 0.003396 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 2 | 2 | B.1.235 | 0.005038 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 2 | B.1.243 | 0.00007 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 2 | B.1.243 | 0.00007 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | B.1.378 | 0.013699 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | B.1.429 | 0.000047 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | B.1.451 | 0.016393 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | B.1.466.2 | 0.000782 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | B.1.526 | 0.000047 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 2 | 2 | Q.8 | 0.00033 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | A.1 | 0.000282 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AU.3 | 0.00211 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.71 | 0.000475 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.88 | 0.000884 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B | 0.000128 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | B.1.1.117 | 0.009709 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.189 | 0.001513 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.216 | 0.00089 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.231 | 0.003096 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtG | 1 | 1 | B.1.1.263 | 0.001558 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.326 | 0.001761 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.381 | 0.04 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | B.1.1.404 | 0.015873 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.160.14 | 0.002119 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.177.51 | 0.004566 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.177.69 | 0.001484 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.195 | 0.005025 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.319 | 0.003049 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.325 | 0.006897 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.425 | 0.002994 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.509 | 0.000866 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.546 | 0.003704 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.551 | 0.00129 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | B.1.560 | 0.00463 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.575 | 0.000303 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | B.1.623 | 0.000536 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | N.5 | 0.001767 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtA | 1 | 1 | P.2 | 0.000187 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | P.3 | 0.001595 |
ORF1ab/nsp3 | 1229 | V1229V | gtC | gtT | 1 | 1 | W.4 | 0.001351 |
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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