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 |
M | 175 | T175T | syn | acG | acA | 5115 | 3224 | 0.630303 | 27045-27047 |
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 |
M | 175 | T175T | acG | acA | 3224 | 5115 | All | 0.000617 |
M | 175 | T175T | acG | acA | 1385 | 1386 | AY.30 | 0.548081 |
M | 175 | T175T | acG | acA | 564 | 564 | AY.3.1 | 0.048086 |
M | 175 | T175T | acG | acA | 73 | 494 | AY.4 | 0.000114 |
M | 175 | T175T | acG | acA | 162 | 353 | B.1.1.7 | 0.000145 |
M | 175 | T175T | acG | acA | 221 | 254 | AY.43 | 0.000979 |
M | 175 | T175T | acG | acA | 144 | 233 | B.1.617.2 | 0.000542 |
M | 175 | T175T | acG | acA | 124 | 198 | AY.25 | 0.000746 |
M | 175 | T175T | acG | acA | 3 | 185 | AY.4.2 | 0.000065 |
M | 175 | T175T | acG | acA | 1 | 150 | P.1 | 0.000016 |
M | 175 | T175T | acG | acA | 12 | 98 | AY.44 | 0.000073 |
M | 175 | T175T | acG | acA | 59 | 71 | B.1.2 | 0.00052 |
M | 175 | T175T | acG | acA | 61 | 63 | B.1.177 | 0.000803 |
M | 175 | T175T | acG | acA | 11 | 46 | B.1 | 0.000101 |
M | 175 | T175T | acG | acA | 17 | 43 | AY.103 | 0.000106 |
M | 175 | T175T | acG | acA | 37 | 41 | AY.85 | 0.015805 |
M | 175 | T175T | acG | acA | 7 | 34 | AY.3 | 0.00007 |
M | 175 | T175T | acG | acA | 32 | 32 | AE.8 | 0.015648 |
M | 175 | T175T | acG | acA | 7 | 27 | AY.5 | 0.000145 |
M | 175 | T175T | acG | acA | 26 | 26 | B.1.8 | 0.051282 |
M | 175 | T175T | acG | acA | 1 | 25 | AY.13 | 0.000161 |
M | 175 | T175T | acG | acA | 15 | 25 | P.1.14 | 0.000717 |
M | 175 | T175T | acG | acA | 6 | 22 | AY.102 | 0.000159 |
M | 175 | T175T | acG | acA | 22 | 22 | B.1.160.26 | 0.053269 |
M | 175 | T175T | acG | acA | 18 | 20 | B.1.637 | 0.001315 |
M | 175 | T175T | acG | acA | 5 | 17 | B.1.1.519 | 0.000199 |
M | 175 | T175T | acG | acA | 1 | 17 | P.2 | 0.000187 |
M | 175 | T175T | acG | acA | 7 | 16 | AY.47 | 0.000218 |
M | 175 | T175T | acG | acA | 1 | 16 | B.1.1.50 | 0.000679 |
M | 175 | T175T | acG | acA | 12 | 12 | AY.20 | 0.000466 |
M | 175 | T175T | acG | acA | 2 | 12 | AY.39 | 0.000049 |
M | 175 | T175T | acG | acA | 1 | 12 | AY.61 | 0.000105 |
M | 175 | T175T | acG | acA | 3 | 12 | B.1.243 | 0.000209 |
M | 175 | T175T | acG | acA | 1 | 11 | B.1.1 | 0.000018 |
M | 175 | T175T | acG | acA | 11 | 11 | B.1.577 | 0.00756 |
M | 175 | T175T | acG | acA | 2 | 10 | B.1.429 | 0.000047 |
M | 175 | T175T | acG | acA | 10 | 10 | R.1 | 0.0009 |
M | 175 | T175T | acG | acA | 3 | 9 | B.1.160 | 0.000094 |
M | 175 | T175T | acG | acA | 2 | 9 | B.1.36.29 | 0.001035 |
M | 175 | T175T | acG | acA | 8 | 8 | A.2.5 | 0.003992 |
M | 175 | T175T | acG | acA | 5 | 8 | AY.46.6 | 0.000361 |
M | 175 | T175T | acG | acA | 8 | 8 | B.1.258.5 | 0.070175 |
M | 175 | T175T | acG | acA | 3 | 8 | B.1.617.1 | 0.000387 |
M | 175 | T175T | acG | acA | 5 | 7 | AY.26 | 0.000142 |
M | 175 | T175T | acG | acA | 2 | 7 | AY.29 | 0.000032 |
M | 175 | T175T | acG | acA | 1 | 6 | AY.23 | 0.00007 |
M | 175 | T175T | acG | acA | 4 | 6 | AY.54 | 0.000381 |
M | 175 | T175T | acG | acA | 1 | 6 | B.1.221 | 0.000071 |
M | 175 | T175T | acG | acA | 1 | 6 | B.1.351 | 0.00003 |
M | 175 | T175T | acG | acA | 4 | 6 | B.1.526 | 0.000094 |
M | 175 | T175T | acG | acA | 2 | 5 | AY.100 | 0.000092 |
M | 175 | T175T | acG | acA | 5 | 5 | AY.121 | 0.000677 |
M | 175 | T175T | acG | acA | 5 | 5 | AY.62 | 0.002179 |
M | 175 | T175T | acG | acA | 2 | 5 | B.1.1.306 | 0.000877 |
M | 175 | T175T | acG | acA | 5 | 5 | B.1.575 | 0.001517 |
M | 175 | T175T | acG | acA | 4 | 4 | AD.2 | 0.000876 |
M | 175 | T175T | acG | acA | 3 | 4 | AY.40 | 0.002893 |
M | 175 | T175T | acG | acA | 1 | 4 | AY.45 | 0.000122 |
M | 175 | T175T | acG | acA | 4 | 4 | AY.67 | 0.001857 |
M | 175 | T175T | acG | acA | 1 | 4 | AY.7.1 | 0.000113 |
M | 175 | T175T | acG | acA | 3 | 4 | AY.95 | 0.002283 |
M | 175 | T175T | acG | acA | 2 | 4 | B.1.1.318 | 0.000604 |
M | 175 | T175T | acG | acA | 3 | 3 | A.2 | 0.001985 |
M | 175 | T175T | acG | acA | 3 | 3 | AY.110 | 0.000338 |
M | 175 | T175T | acG | acA | 1 | 3 | AY.119 | 0.000035 |
M | 175 | T175T | acG | acA | 3 | 3 | AY.39.1 | 0.000119 |
M | 175 | T175T | acG | acA | 1 | 3 | AY.53 | 0.000288 |
M | 175 | T175T | acG | acA | 3 | 3 | AY.59 | 0.001589 |
M | 175 | T175T | acG | acA | 1 | 3 | B.1.1.39 | 0.00051 |
M | 175 | T175T | acG | acA | 2 | 3 | B.1.192 | 0.018519 |
M | 175 | T175T | acG | acA | 1 | 3 | B.1.524 | 0.001406 |
M | 175 | T175T | acG | acA | 2 | 2 | AY.14 | 0.000176 |
M | 175 | T175T | acG | acA | 2 | 2 | AY.23.1 | 0.000835 |
M | 175 | T175T | acG | acA | 1 | 2 | AY.34 | 0.000097 |
M | 175 | T175T | acG | acA | 2 | 2 | AY.5.3 | 0.000675 |
M | 175 | T175T | acG | acA | 1 | 2 | AY.6 | 0.000041 |
M | 175 | T175T | acG | acA | 2 | 2 | B.1.1.214 | 0.000111 |
M | 175 | T175T | acG | acA | 2 | 2 | B.1.1.284 | 0.000215 |
M | 175 | T175T | acG | acA | 2 | 2 | B.1.1.348 | 0.001592 |
M | 175 | T175T | acG | acA | 1 | 2 | B.1.1.63 | 0.000386 |
M | 175 | T175T | acG | acA | 1 | 2 | B.1.260 | 0.003344 |
M | 175 | T175T | acG | acA | 2 | 2 | B.1.336 | 0.004878 |
M | 175 | T175T | acG | acA | 2 | 2 | B.1.351.2 | 0.000605 |
M | 175 | T175T | acG | acA | 2 | 2 | B.1.576 | 0.001813 |
M | 175 | T175T | acG | acA | 2 | 2 | B.1.93 | 0.001867 |
M | 175 | T175T | acG | acA | 2 | 2 | C.37 | 0.000232 |
M | 175 | T175T | acG | acA | 1 | 2 | D.2 | 0.000075 |
M | 175 | T175T | acG | acA | 1 | 2 | N.5 | 0.001767 |
M | 175 | T175T | acG | acA | 2 | 2 | Q.8 | 0.00033 |
M | 175 | T175T | acG | acA | 1 | 1 | A.19 | 0.009434 |
M | 175 | T175T | acG | acA | 1 | 1 | AY.116 | 0.000287 |
M | 175 | T175T | acG | acA | 1 | 1 | AY.117 | 0.000085 |
M | 175 | T175T | acG | acA | 1 | 1 | AY.118 | 0.000063 |
M | 175 | T175T | acG | acA | 1 | 1 | AY.120.2 | 0.001285 |
M | 175 | T175T | acG | acA | 1 | 1 | AY.16 | 0.00038 |
M | 175 | T175T | acG | acA | 1 | 1 | AY.29.1 | 0.000221 |
M | 175 | T175T | acG | acA | 1 | 1 | AY.36 | 0.000148 |
M | 175 | T175T | acG | acA | 1 | 1 | AY.58 | 0.000907 |
M | 175 | T175T | acG | acA | 1 | 1 | B | 0.000128 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.1.28 | 0.000311 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.1.302 | 0.002075 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.1.317 | 0.000412 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.1.409 | 0.002833 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.177.59 | 0.016129 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.177.72 | 0.00339 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.177.82 | 0.000477 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.189 | 0.004292 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.241 | 0.000812 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.36.22 | 0.001208 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.375 | 0.00082 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.389 | 0.001002 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.409 | 0.000781 |
M | 175 | T175T | acG | acA | 1 | 1 | B.1.619 | 0.000871 |
M | 175 | T175T | acG | acA | 1 | 1 | B.6 | 0.00091 |
M | 175 | T175T | acG | acA | 1 | 1 | C.16 | 0.00106 |
M | 175 | T175T | acG | acA | 1 | 1 | P.1.15 | 0.000232 |
M | 175 | T175T | acG | acA | 1 | 1 | Q.2 | 0.000613 |
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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