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 |
S | 152 | W152C | nonsyn | tgG | tgT | 60976 | 60968 | 0.999869 | 22016-22018 | |
S | 152 | W152C | nonsyn | tgG | tgC | 60976 | 8 | 0.000131199 | 22016-22018 |
Details of the mutation W152C 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 |
S | 152 | W152C | tgG | tgT | 60968 | 60976 | All | 0.011661 |
S | 152 | W152C | tgG | tgC | 8 | 60976 | All | 0.000002 |
S | 152 | W152C | tgG | tgT | 41104 | 41105 | B.1.429 | 0.96713 |
S | 152 | W152C | tgG | tgC | 1 | 41105 | B.1.429 | 0.000024 |
S | 152 | W152C | tgG | tgT | 18203 | 18204 | B.1.427 | 0.919204 |
S | 152 | W152C | tgG | tgC | 1 | 18204 | B.1.427 | 0.00005 |
S | 152 | W152C | tgG | tgT | 917 | 917 | B.1 | 0.008399 |
S | 152 | W152C | tgG | tgT | 148 | 149 | D.2 | 0.011106 |
S | 152 | W152C | tgG | tgC | 1 | 149 | D.2 | 0.000075 |
S | 152 | W152C | tgG | tgT | 81 | 81 | B.1.429.1 | 0.975904 |
S | 152 | W152C | tgG | tgT | 74 | 74 | B.1.2 | 0.000652 |
S | 152 | W152C | tgG | tgT | 38 | 38 | B.1.1.220 | 0.070632 |
S | 152 | W152C | tgG | tgT | 34 | 34 | B.1.1 | 0.000617 |
S | 152 | W152C | tgG | tgT | 32 | 32 | B.1.311 | 0.008786 |
S | 152 | W152C | tgG | tgT | 18 | 18 | B.1.1.7 | 0.000016 |
S | 152 | W152C | tgG | tgT | 18 | 18 | B.1.367 | 0.014263 |
S | 152 | W152C | tgG | tgT | 18 | 18 | B.1.596 | 0.001568 |
S | 152 | W152C | tgG | tgT | 14 | 14 | B.1.561 | 0.005558 |
S | 152 | W152C | tgG | tgT | 13 | 13 | B.1.575.1 | 0.031707 |
S | 152 | W152C | tgG | tgT | 12 | 12 | AY.44 | 0.000073 |
S | 152 | W152C | tgG | tgT | 12 | 12 | B.1.239 | 0.014652 |
S | 152 | W152C | tgG | tgT | 11 | 11 | B.1.1.416 | 0.009955 |
S | 152 | W152C | tgG | tgT | 11 | 11 | B.1.618 | 0.044355 |
S | 152 | W152C | tgG | tgT | 8 | 10 | P.1 | 0.000126 |
S | 152 | W152C | tgG | tgC | 2 | 10 | P.1 | 0.000032 |
S | 152 | W152C | tgG | tgT | 9 | 9 | A.2.5 | 0.004491 |
S | 152 | W152C | tgG | tgT | 6 | 6 | AY.4 | 0.000009 |
S | 152 | W152C | tgG | tgT | 6 | 6 | B.1.1.519 | 0.000238 |
S | 152 | W152C | tgG | tgT | 6 | 6 | B.1.336 | 0.014634 |
S | 152 | W152C | tgG | tgT | 5 | 5 | B | 0.000639 |
S | 152 | W152C | tgG | tgT | 5 | 5 | B.1.1.335 | 0.064935 |
S | 152 | W152C | tgG | tgT | 5 | 5 | B.1.1.507 | 0.043478 |
S | 152 | W152C | tgG | tgT | 5 | 5 | B.1.157 | 0.014925 |
S | 152 | W152C | tgG | tgT | 5 | 5 | B.1.595 | 0.001305 |
S | 152 | W152C | tgG | tgT | 5 | 5 | B.1.617.2 | 0.000019 |
S | 152 | W152C | tgG | tgT | 5 | 5 | B.1.94 | 0.135135 |
S | 152 | W152C | tgG | tgT | 4 | 4 | AY.75 | 0.000224 |
S | 152 | W152C | tgG | tgT | 4 | 4 | B.1.1.192 | 0.009238 |
S | 152 | W152C | tgG | tgT | 3 | 4 | B.1.243 | 0.000209 |
S | 152 | W152C | tgG | tgC | 1 | 4 | B.1.243 | 0.00007 |
S | 152 | W152C | tgG | tgT | 4 | 4 | B.1.324 | 0.006421 |
S | 152 | W152C | tgG | tgT | 4 | 4 | B.1.609 | 0.001918 |
S | 152 | W152C | tgG | tgT | 4 | 4 | B.1.621.1 | 0.002023 |
S | 152 | W152C | tgG | tgT | 3 | 3 | A.2.5.2 | 0.004717 |
S | 152 | W152C | tgG | tgT | 3 | 3 | AY.103 | 0.000019 |
S | 152 | W152C | tgG | tgT | 3 | 3 | AY.14 | 0.000264 |
S | 152 | W152C | tgG | tgT | 3 | 3 | AY.25 | 0.000018 |
S | 152 | W152C | tgG | tgT | 3 | 3 | B.1.1.269 | 0.00406 |
S | 152 | W152C | tgG | tgT | 3 | 3 | B.1.375 | 0.002459 |
S | 152 | W152C | tgG | tgT | 3 | 3 | B.1.526 | 0.000071 |
S | 152 | W152C | tgG | tgT | 3 | 3 | B.1.617.1 | 0.000387 |
S | 152 | W152C | tgG | tgT | 3 | 3 | B.1.623 | 0.001609 |
S | 152 | W152C | tgG | tgT | 3 | 3 | P.1.17 | 0.000485 |
S | 152 | W152C | tgG | tgT | 3 | 3 | P.3 | 0.004785 |
S | 152 | W152C | tgG | tgT | 2 | 2 | 0.111111 | |
S | 152 | W152C | tgG | tgT | 2 | 2 | AY.1 | 0.000791 |
S | 152 | W152C | tgG | tgT | 2 | 2 | AY.102 | 0.000053 |
S | 152 | W152C | tgG | tgT | 2 | 2 | AY.29.1 | 0.000441 |
S | 152 | W152C | tgG | tgT | 2 | 2 | AY.4.2 | 0.000043 |
S | 152 | W152C | tgG | tgT | 2 | 2 | B.1.1.229 | 0.011494 |
S | 152 | W152C | tgG | tgT | 2 | 2 | B.1.177 | 0.000026 |
S | 152 | W152C | tgG | tgT | 2 | 2 | B.1.177.73 | 0.001133 |
S | 152 | W152C | tgG | tgT | 2 | 2 | B.1.221 | 0.000142 |
S | 152 | W152C | tgG | tgT | 2 | 2 | B.1.281 | 0.043478 |
S | 152 | W152C | tgG | tgT | 2 | 2 | B.1.580 | 0.00813 |
S | 152 | W152C | tgG | tgT | 2 | 2 | P.1.10 | 0.000539 |
S | 152 | W152C | tgG | tgT | 1 | 1 | A.2 | 0.000662 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.100 | 0.000046 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.114 | 0.000231 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.116.1 | 0.000311 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.117 | 0.000085 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.118 | 0.000063 |
S | 152 | W152C | tgG | tgC | 1 | 1 | AY.120 | 0.000037 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.121 | 0.000135 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.13 | 0.000161 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.23 | 0.00007 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.29 | 0.000016 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.3 | 0.00001 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.33 | 0.000067 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.34 | 0.000097 |
S | 152 | W152C | tgG | tgC | 1 | 1 | AY.36 | 0.000148 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.39 | 0.000025 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.40 | 0.000964 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.42 | 0.00004 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.43 | 0.000004 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.47 | 0.000031 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.52 | 0.000814 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.65 | 0.000533 |
S | 152 | W152C | tgG | tgT | 1 | 1 | AY.92 | 0.000287 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.1.222 | 0.000204 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.1.28 | 0.000311 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.1.317 | 0.000412 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.1.464 | 0.001473 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.119 | 0.010526 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.126 | 0.001276 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.147 | 0.000756 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.177.45 | 0.000381 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.179 | 0.003759 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.234 | 0.000132 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.241 | 0.000812 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.258.3 | 0.001675 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.280 | 0.007143 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.289 | 0.00266 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.350 | 0.002933 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.351 | 0.00003 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.356 | 0.001727 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.369 | 0.000285 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.400 | 0.000429 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.434 | 0.052632 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.441 | 0.009615 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.509 | 0.000866 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.510 | 0.026316 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.568 | 0.001111 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.574 | 0.002151 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.590 | 0.004545 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.610 | 0.003546 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.633 | 0.041667 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.1.637 | 0.000073 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.3 | 0.000831 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.35 | 0.007812 |
S | 152 | W152C | tgG | tgT | 1 | 1 | B.4.1 | 0.018868 |
S | 152 | W152C | tgG | tgT | 1 | 1 | D.3 | 0.005917 |
S | 152 | W152C | tgG | tgT | 1 | 1 | N.10 | 0.029412 |
S | 152 | W152C | tgG | tgT | 1 | 1 | P.1.1 | 0.000318 |
S | 152 | W152C | tgG | tgT | 1 | 1 | P.1.12 | 0.000484 |
S | 152 | W152C | tgG | tgT | 1 | 1 | P.1.16 | 0.000374 |
S | 152 | W152C | tgG | tgT | 1 | 1 | Q.3 | 0.000145 |
S | 152 | W152C | tgG | tgT | 1 | 1 | R.1 | 0.00009 |
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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