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 | 272 | P272L | nonsyn | cCt | cTt | 11297 | 11267 | 0.997344 | 22376-22378 |
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 |
S | 272 | P272L | cCt | cTt | 11267 | 11297 | All | 0.002155 |
S | 272 | P272L | cCt | cTt | 5726 | 5726 | B.1.177 | 0.075398 |
S | 272 | P272L | cCt | cTt | 2068 | 2068 | B.1.177.82 | 0.987112 |
S | 272 | P272L | cCt | cTt | 1327 | 1327 | B.1.177.87 | 0.965793 |
S | 272 | P272L | cCt | cTt | 675 | 675 | B.1.177.83 | 1 |
S | 272 | P272L | cCt | cTt | 389 | 389 | AY.39.1 | 0.01541 |
S | 272 | P272L | cCt | cTt | 201 | 209 | B.1.1.7 | 0.00018 |
S | 272 | P272L | cCt | cTt | 141 | 141 | B.1.177.84 | 0.94 |
S | 272 | P272L | cCt | cTt | 80 | 80 | B.1.177.88 | 0.987654 |
S | 272 | P272L | cCt | cTt | 78 | 78 | Q.2 | 0.047853 |
S | 272 | P272L | cCt | cTt | 72 | 74 | B.1 | 0.000659 |
S | 272 | P272L | cCt | cTt | 40 | 40 | B.1.177.89 | 0.97561 |
S | 272 | P272L | cCt | cTt | 33 | 33 | AY.4 | 0.000051 |
S | 272 | P272L | cCt | cTt | 33 | 33 | B.1.177.10 | 0.028973 |
S | 272 | P272L | cCt | cTt | 29 | 29 | AY.25 | 0.000174 |
S | 272 | P272L | cCt | cTt | 19 | 19 | B.1.177.69 | 0.02819 |
S | 272 | P272L | cCt | cTt | 18 | 18 | B.1.177.16 | 0.01196 |
S | 272 | P272L | cCt | cTt | 15 | 17 | B.1.617.2 | 0.000056 |
S | 272 | P272L | cCt | cTt | 16 | 16 | AY.43 | 0.000071 |
S | 272 | P272L | cCt | cTt | 16 | 16 | B.1.160 | 0.000499 |
S | 272 | P272L | cCt | cTt | 12 | 16 | B.1.429 | 0.000282 |
S | 272 | P272L | cCt | cTt | 10 | 12 | AY.26 | 0.000283 |
S | 272 | P272L | cCt | cTt | 12 | 12 | AY.4.2 | 0.00026 |
S | 272 | P272L | cCt | cTt | 11 | 12 | AY.46.6 | 0.000794 |
S | 272 | P272L | cCt | cTt | 11 | 11 | AY.103 | 0.000068 |
S | 272 | P272L | cCt | cTt | 11 | 11 | AY.3 | 0.000109 |
S | 272 | P272L | cCt | cTt | 11 | 11 | B.1.1 | 0.0002 |
S | 272 | P272L | cCt | cTt | 10 | 11 | B.1.351 | 0.000297 |
S | 272 | P272L | cCt | cTt | 8 | 8 | AY.29 | 0.000126 |
S | 272 | P272L | cCt | cTt | 8 | 8 | B.1.177.33 | 0.013158 |
S | 272 | P272L | cCt | cTt | 7 | 7 | AY.116 | 0.002007 |
S | 272 | P272L | cCt | cTt | 7 | 7 | B.1.177.12 | 0.001062 |
S | 272 | P272L | cCt | cTt | 7 | 7 | B.1.404 | 0.009115 |
S | 272 | P272L | cCt | cTt | 6 | 6 | B.1.1.263 | 0.009346 |
S | 272 | P272L | cCt | cTt | 6 | 6 | B.1.177.23 | 0.019417 |
S | 272 | P272L | cCt | cTt | 4 | 6 | B.1.2 | 0.000035 |
S | 272 | P272L | cCt | cTt | 5 | 5 | B.1.177.44 | 0.002595 |
S | 272 | P272L | cCt | cTt | 5 | 5 | B.1.526 | 0.000118 |
S | 272 | P272L | cCt | cTt | 5 | 5 | Q.8 | 0.000825 |
S | 272 | P272L | cCt | cTt | 4 | 4 | AY.3.1 | 0.000341 |
S | 272 | P272L | cCt | cTt | 4 | 4 | AY.39.2 | 0.006163 |
S | 272 | P272L | cCt | cTt | 4 | 4 | AY.7.1 | 0.000451 |
S | 272 | P272L | cCt | cTt | 3 | 4 | B.1.1.214 | 0.000166 |
S | 272 | P272L | cCt | cTt | 4 | 4 | B.1.1.63 | 0.001543 |
S | 272 | P272L | cCt | cTt | 4 | 4 | B.1.160.30 | 0.011905 |
S | 272 | P272L | cCt | cTt | 4 | 4 | B.1.177.31 | 0.045977 |
S | 272 | P272L | cCt | cTt | 4 | 4 | B.1.177.6 | 0.003906 |
S | 272 | P272L | cCt | cTt | 4 | 4 | B.1.177.65 | 0.002661 |
S | 272 | P272L | cCt | cTt | 3 | 3 | AY.121 | 0.000406 |
S | 272 | P272L | cCt | cTt | 2 | 3 | AY.44 | 0.000012 |
S | 272 | P272L | cCt | cTt | 2 | 3 | AY.59 | 0.001059 |
S | 272 | P272L | cCt | cTt | 3 | 3 | AY.98.1 | 0.000145 |
S | 272 | P272L | cCt | cTt | 3 | 3 | B.1.177.17 | 0.002463 |
S | 272 | P272L | cCt | cTt | 3 | 3 | B.1.177.63 | 0.008108 |
S | 272 | P272L | cCt | cTt | 3 | 3 | B.1.177.73 | 0.001699 |
S | 272 | P272L | cCt | cTt | 3 | 3 | B.1.177.81 | 0.000568 |
S | 272 | P272L | cCt | cTt | 3 | 3 | B.1.177.86 | 0.00055 |
S | 272 | P272L | cCt | cTt | 2 | 3 | B.1.243 | 0.000139 |
S | 272 | P272L | cCt | cTt | 1 | 3 | B.1.396 | 0.000706 |
S | 272 | P272L | cCt | cTt | 2 | 2 | 0.111111 | |
S | 272 | P272L | cCt | cTt | 2 | 2 | AY.114 | 0.000462 |
S | 272 | P272L | cCt | cTt | 2 | 2 | AY.20 | 0.000078 |
S | 272 | P272L | cCt | cTt | 2 | 2 | AY.39 | 0.000049 |
S | 272 | P272L | cCt | cTt | 2 | 2 | AY.46 | 0.000208 |
S | 272 | P272L | cCt | cTt | 2 | 2 | AY.47 | 0.000062 |
S | 272 | P272L | cCt | cTt | 2 | 2 | AY.6 | 0.000082 |
S | 272 | P272L | cCt | cTt | 2 | 2 | B.1.1.39 | 0.001019 |
S | 272 | P272L | cCt | cTt | 2 | 2 | B.1.177.9 | 0.002663 |
S | 272 | P272L | cCt | cTt | 2 | 2 | B.1.221 | 0.000142 |
S | 272 | P272L | cCt | cTt | 2 | 2 | B.1.524 | 0.002813 |
S | 272 | P272L | cCt | cTt | 2 | 2 | P.1 | 0.000032 |
S | 272 | P272L | cCt | cTt | 1 | 1 | A.23.1 | 0.000704 |
S | 272 | P272L | cCt | cTt | 1 | 1 | A.27 | 0.001656 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AD.2 | 0.000219 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AT.1 | 0.005128 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AY.119 | 0.000035 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AY.12 | 0.000316 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AY.24 | 0.000431 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AY.27 | 0.000065 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AY.42 | 0.00004 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AY.5 | 0.000021 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AY.75 | 0.000056 |
S | 272 | P272L | cCt | cTt | 1 | 1 | AY.78 | 0.001541 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B | 0.000128 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.1.153 | 0.001095 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.1.174 | 0.003378 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.1.222 | 0.000204 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.1.236 | 0.006897 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.1.318 | 0.000302 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.1.519 | 0.00004 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.160.16 | 0.000929 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.160.28 | 0.002924 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.160.32 | 0.004292 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.177.3 | 0.007634 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.177.35 | 0.000691 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.177.40 | 0.005155 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.177.52 | 0.001757 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.177.72 | 0.00339 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.177.75 | 0.001041 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.214.3 | 0.007143 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.222 | 0.001692 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.258 | 0.000067 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.351.2 | 0.000303 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.36.1 | 0.00114 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.367 | 0.000792 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.375 | 0.00082 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.429.1 | 0.012048 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.473 | 0.019231 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.480 | 0.002488 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.533 | 0.009615 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.564 | 0.000426 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.596 | 0.000087 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.621 | 0.000089 |
S | 272 | P272L | cCt | cTt | 1 | 1 | B.1.636 | 0.006711 |
S | 272 | P272L | cCt | cTt | 1 | 1 | C.36.3 | 0.000567 |
S | 272 | P272L | cCt | cTt | 1 | 1 | C.37 | 0.000116 |
S | 272 | P272L | cCt | cTt | 1 | 1 | D.5 | 0.004975 |
S | 272 | P272L | cCt | cTt | 1 | 1 | Q.1 | 0.000126 |
S | 272 | P272L | cCt | cTt | 1 | 1 | Z.1 | 0.00289 |
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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