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 | 482 | V482V | V1300V | syn | gtT | gtC | 504 | 444 | 0.880952 | 4163-4165 |
ORF1ab/nsp3 | 482 | V482V | V1300V | syn | gtT | gtA | 504 | 52 | 0.103175 | 4163-4165 |
ORF1ab/nsp3 | 482 | V482V | V1300V | syn | gtT | gtG | 504 | 8 | 0.015873 | 4163-4165 |
Details of the mutation V482V 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 | 482 | V482V | gtT | gtC | 444 | 504 | All | 0.000085 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 52 | 504 | All | 0.00001 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtG | 8 | 504 | All | 0.000002 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 252 | 252 | B.1.2 | 0.002219 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 21 | 25 | AY.43 | 0.000093 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 3 | 25 | AY.43 | 0.000013 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtG | 1 | 25 | AY.43 | 0.000004 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 18 | 21 | B.1.1.7 | 0.000016 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 3 | 21 | B.1.1.7 | 0.000003 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 17 | 17 | B.1.623 | 0.00912 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 16 | 16 | B.1.427 | 0.000808 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 9 | 16 | B.1.617.2 | 0.000034 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 7 | 16 | B.1.617.2 | 0.000026 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 13 | 14 | AY.4 | 0.00002 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 14 | AY.4 | 0.000002 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 9 | 10 | 0.5 | |
ORF1ab/nsp3 | 482 | V482V | gtT | gtG | 1 | 10 | 0.055556 | |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 10 | 10 | B.1.617.1 | 0.00129 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 5 | 9 | B.1 | 0.000046 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 4 | 9 | B.1 | 0.000037 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 6 | 7 | AY.46 | 0.000624 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 7 | AY.46 | 0.000104 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 4 | 7 | B.1.1 | 0.000073 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 3 | 7 | B.1.1 | 0.000054 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 7 | 7 | B.1.177.81 | 0.001325 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtG | 5 | 6 | AY.69 | 0.000933 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 6 | AY.69 | 0.000187 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 5 | 6 | B.1.177 | 0.000066 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 6 | B.1.177 | 0.000013 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 5 | 5 | B.1.1.337 | 0.017986 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 4 | 4 | AY.121 | 0.000541 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 4 | 4 | B.1.160 | 0.000125 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 4 | 4 | B.1.596 | 0.000349 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 2 | 3 | AY.42 | 0.00008 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 3 | AY.42 | 0.00004 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 3 | 3 | AY.46.4 | 0.000494 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 3 | 3 | AY.5.4 | 0.00083 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 3 | 3 | AY.75.1 | 0.000541 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 2 | 2 | AY.44 | 0.000012 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 2 | 2 | AY.46.6 | 0.000144 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 2 | 2 | AY.61 | 0.00021 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 2 | 2 | AY.9.1 | 0.000167 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 2 | 2 | AY.9.2 | 0.000073 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 2 | AY.98 | 0.000079 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 2 | AY.98 | 0.000079 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 2 | AY.98.1 | 0.000048 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 2 | AY.98.1 | 0.000048 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 2 | B.1.177.44 | 0.000519 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 2 | B.1.177.44 | 0.000519 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 2 | 2 | B.1.575 | 0.000607 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.103 | 0.000006 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtG | 1 | 1 | AY.21 | 0.001898 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.46.5 | 0.000198 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | AY.95 | 0.000761 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | B | 0.000128 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 1 | B.1.1.161 | 0.003534 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | B.1.1.50 | 0.000679 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 1 | B.1.177.31 | 0.011494 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | B.1.177.51 | 0.004566 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | B.1.188 | 0.016667 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | B.1.362 | 0.001541 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtA | 1 | 1 | B.1.462 | 0.007246 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | B.1.588 | 0.00091 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | B.1.93 | 0.000934 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | P.1 | 0.000016 |
ORF1ab/nsp3 | 482 | V482V | gtT | gtC | 1 | 1 | P.1.15 | 0.000232 |
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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