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/nsp12 | 398 | V398V | V4790V | syn | gtA | gtG | 1162 | 1150 | 0.989673 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398V | V4790V | syn | gtA | gtT | 1162 | 12 | 0.010327 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398I | V4790I | nonsyn | Gta | Ata | 90 | 90 | 1 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398del | V4790del | del | GTA | --- | 44 | 44 | 1 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398A | V4790A | nonsyn | gTa | gCa | 11 | 11 | 1 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398L | V4790L | nonsyn | Gta | Tta | 9 | 8 | 0.888889 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398L | V4790L | nonsyn | Gta | Cta | 9 | 1 | 0.111111 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398E | V4790E | nonsyn | gTa | gAa | 4 | 4 | 1 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398S | V4790S | nonsyn | GTa | TCa | 2 | 2 | 1 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398del2 | V4790del2 | del | GTa | --a | 2 | 2 | 1 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398G | V4790G | nonsyn | gTa | gGa | 2 | 2 | 1 | 14632-14634 |
ORF1ab/nsp12 | 398 | V398del1 | V4790del1 | del | Gta | -ta | 1 | 1 | 1 | 14632-14634 |
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/nsp12 | 398 | V398V | gtA | gtG | 1150 | 1162 | All | 0.00022 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtT | 12 | 1162 | All | 0.000002 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 709 | 709 | B.1.349 | 0.506791 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 90 | 90 | All | 0.000017 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 64 | 64 | B.1.2 | 0.000564 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 54 | 54 | B.1.1.317 | 0.022231 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 44 | 44 | All | 0.000008 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 40 | 40 | B.1 | 0.000366 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 38 | 38 | B.1.427 | 0.001919 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 34 | 34 | AY.25 | 0.000205 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 30 | 33 | B.1.1.7 | 0.000027 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtT | 3 | 33 | B.1.1.7 | 0.000003 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 23 | 23 | AY.4 | 0.000036 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 19 | 19 | B.1.1.7 | 0.000017 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 18 | 18 | B.1.1.7 | 0.000016 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 17 | 17 | AY.39 | 0.00042 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 15 | 15 | AY.3 | 0.000149 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 13 | 13 | AY.4 | 0.00002 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 11 | 11 | All | 0.000002 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 10 | 10 | B.1.177 | 0.000132 |
ORF1ab/nsp12 | 398 | V398L | Gta | Tta | 8 | 9 | All | 0.000002 |
ORF1ab/nsp12 | 398 | V398L | Gta | Cta | 1 | 9 | All | 0 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 8 | 8 | AY.103 | 0.00005 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 8 | 8 | AY.121 | 0.001083 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 8 | 8 | B.1.617.2 | 0.00003 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 7 | 7 | B.1.325 | 0.048276 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 7 | 7 | B.1.438.1 | 0.000751 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtT | 5 | 6 | AY.43 | 0.000022 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 6 | AY.43 | 0.000004 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 6 | 6 | B.1.1.301 | 0.007075 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 5 | 5 | AY.44 | 0.00003 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 5 | 5 | B.1.258.17 | 0.00052 |
ORF1ab/nsp12 | 398 | V398E | gTa | gAa | 4 | 4 | All | 0.000001 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 4 | 4 | AY.100 | 0.000184 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 4 | 4 | AY.43 | 0.000018 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 4 | 4 | B.1.1.282 | 0.046512 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 3 | 3 | AY.44 | 0.000018 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 3 | 3 | AY.46.4 | 0.000494 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 3 | 3 | AY.46.6 | 0.000217 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 3 | 3 | B.1.1 | 0.000054 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 3 | 3 | B.1.1.63 | 0.001157 |
ORF1ab/nsp12 | 398 | V398E | gTa | gAa | 3 | 3 | B.1.1.7 | 0.000003 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 3 | 3 | B.1.526 | 0.000071 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 3 | 3 | B.1.561 | 0.001191 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 3 | 3 | B.1.581 | 0.028302 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 3 | 3 | B.1.617.2 | 0.000011 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 3 | 3 | B.40 | 0.001093 |
ORF1ab/nsp12 | 398 | V398G | gTa | gGa | 2 | 2 | All | 0 |
ORF1ab/nsp12 | 398 | V398del2 | GTa | --a | 2 | 2 | All | 0 |
ORF1ab/nsp12 | 398 | V398S | GTa | TCa | 2 | 2 | All | 0 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 2 | 2 | AY.103 | 0.000012 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | AY.16.1 | 0.00094 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 2 | 2 | AY.4 | 0.000003 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 2 | 2 | AY.4.4 | 0.000818 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp12 | 398 | V398L | Gta | Tta | 2 | 2 | AY.44 | 0.000012 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | AY.59 | 0.001059 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | AY.61 | 0.00021 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | AY.79 | 0.002421 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 2 | 2 | B | 0.000256 |
ORF1ab/nsp12 | 398 | V398L | Gta | Tta | 2 | 2 | B.1.1 | 0.000036 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | B.1.1.335 | 0.025974 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 2 | 2 | B.1.1.397 | 0.004505 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp12 | 398 | V398L | Gta | Tta | 1 | 2 | B.1.1.7 | 0.000001 |
ORF1ab/nsp12 | 398 | V398L | Gta | Cta | 1 | 2 | B.1.1.7 | 0.000001 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | B.1.177.21 | 0.000153 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | B.1.36 | 0.000292 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 2 | 2 | B.1.617.2 | 0.000008 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 2 | 2 | C.37 | 0.000232 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtT | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp12 | 398 | V398del1 | Gta | -ta | 1 | 1 | All | 0 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | AY.17 | 0.008197 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp12 | 398 | V398S | GTa | TCa | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp12 | 398 | V398del1 | Gta | -ta | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp12 | 398 | V398L | Gta | Tta | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | AY.4 | 0.000002 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp12 | 398 | V398L | Gta | Tta | 1 | 1 | AY.43 | 0.000004 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | AY.44 | 0.000006 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.46.2 | 0.000635 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | AY.57 | 0.000656 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp12 | 398 | V398G | gTa | gGa | 1 | 1 | AY.72 | 0.001361 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | B | 0.000128 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp12 | 398 | V398del2 | GTa | --a | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.1.10 | 0.001115 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtT | 1 | 1 | B.1.1.13 | 0.035714 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp12 | 398 | V398L | Gta | Tta | 1 | 1 | B.1.1.221 | 0.010101 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | B.1.1.231 | 0.003096 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | B.1.1.254 | 0.011236 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.1.448 | 0.002033 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.1.46 | 0.004367 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.1.525 | 0.005464 |
ORF1ab/nsp12 | 398 | V398del2 | GTa | --a | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.170 | 0.00431 |
ORF1ab/nsp12 | 398 | V398S | GTa | TCa | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.177.16 | 0.000664 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.177.54 | 0.000606 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.187 | 0.033333 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.237 | 0.004975 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | B.1.268 | 0.010417 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.396 | 0.000706 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.416 | 0.001269 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | B.1.429 | 0.000024 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | B.1.517 | 0.000427 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtT | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | B.1.561 | 0.000397 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | B.1.572 | 0.025 |
ORF1ab/nsp12 | 398 | V398A | gTa | gCa | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp12 | 398 | V398G | gTa | gGa | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtT | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | C.39 | 0.018868 |
ORF1ab/nsp12 | 398 | V398E | gTa | gAa | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp12 | 398 | V398del | GTA | --- | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp12 | 398 | V398V | gtA | gtG | 1 | 1 | P.1.2 | 0.001156 |
ORF1ab/nsp12 | 398 | V398I | Gta | Ata | 1 | 1 | Q.4 | 0.000455 |
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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