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 | 1250 | C1250F | nonsyn | tGt | tTt | 2771 | 2771 | 1 | 25310-25312 |
Details of the mutation C1250F 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 | 1250 | C1250F | tGt | tTt | 2771 | 2771 | All | 0.00053 |
S | 1250 | C1250F | tGt | tTt | 532 | 532 | AY.4 | 0.000828 |
S | 1250 | C1250F | tGt | tTt | 295 | 295 | B.1.1.7 | 0.000264 |
S | 1250 | C1250F | tGt | tTt | 272 | 272 | P.1.14 | 0.013002 |
S | 1250 | C1250F | tGt | tTt | 169 | 169 | B.1.1.240 | 0.793427 |
S | 1250 | C1250F | tGt | tTt | 129 | 129 | B.1.160 | 0.004023 |
S | 1250 | C1250F | tGt | tTt | 122 | 122 | AY.119 | 0.004308 |
S | 1250 | C1250F | tGt | tTt | 107 | 107 | B.1.617.2 | 0.000403 |
S | 1250 | C1250F | tGt | tTt | 94 | 94 | AY.34 | 0.009115 |
S | 1250 | C1250F | tGt | tTt | 68 | 68 | AY.43 | 0.000301 |
S | 1250 | C1250F | tGt | tTt | 63 | 63 | AY.33 | 0.004207 |
S | 1250 | C1250F | tGt | tTt | 49 | 49 | AY.103 | 0.000304 |
S | 1250 | C1250F | tGt | tTt | 48 | 48 | B.1.177.87 | 0.034934 |
S | 1250 | C1250F | tGt | tTt | 43 | 43 | B.1.351.5 | 0.025779 |
S | 1250 | C1250F | tGt | tTt | 38 | 38 | B.1.267 | 0.703704 |
S | 1250 | C1250F | tGt | tTt | 33 | 33 | AY.44 | 0.000201 |
S | 1250 | C1250F | tGt | tTt | 29 | 29 | B.1.404 | 0.03776 |
S | 1250 | C1250F | tGt | tTt | 28 | 28 | P.1 | 0.000441 |
S | 1250 | C1250F | tGt | tTt | 24 | 24 | AY.102 | 0.000636 |
S | 1250 | C1250F | tGt | tTt | 24 | 24 | AY.25 | 0.000144 |
S | 1250 | C1250F | tGt | tTt | 22 | 22 | B.1 | 0.000202 |
S | 1250 | C1250F | tGt | tTt | 22 | 22 | B.1.258 | 0.001464 |
S | 1250 | C1250F | tGt | tTt | 21 | 21 | AY.39 | 0.000519 |
S | 1250 | C1250F | tGt | tTt | 19 | 19 | AY.36 | 0.002816 |
S | 1250 | C1250F | tGt | tTt | 19 | 19 | B.1.177 | 0.00025 |
S | 1250 | C1250F | tGt | tTt | 17 | 17 | C.37 | 0.001973 |
S | 1250 | C1250F | tGt | tTt | 16 | 16 | AY.29 | 0.000252 |
S | 1250 | C1250F | tGt | tTt | 16 | 16 | B.1.2 | 0.000141 |
S | 1250 | C1250F | tGt | tTt | 15 | 15 | B.1.1 | 0.000272 |
S | 1250 | C1250F | tGt | tTt | 15 | 15 | B.1.621.1 | 0.007587 |
S | 1250 | C1250F | tGt | tTt | 14 | 14 | AY.3 | 0.000139 |
S | 1250 | C1250F | tGt | tTt | 14 | 14 | B.1.36.10 | 0.066986 |
S | 1250 | C1250F | tGt | tTt | 13 | 13 | B.1.1.298 | 0.011207 |
S | 1250 | C1250F | tGt | tTt | 12 | 12 | B.1.234 | 0.001583 |
S | 1250 | C1250F | tGt | tTt | 12 | 12 | B.1.427 | 0.000606 |
S | 1250 | C1250F | tGt | tTt | 11 | 11 | AY.6 | 0.000452 |
S | 1250 | C1250F | tGt | tTt | 9 | 9 | P.1.7 | 0.002874 |
S | 1250 | C1250F | tGt | tTt | 8 | 8 | AY.118 | 0.000501 |
S | 1250 | C1250F | tGt | tTt | 8 | 8 | AY.23 | 0.000558 |
S | 1250 | C1250F | tGt | tTt | 8 | 8 | AY.4.2 | 0.000174 |
S | 1250 | C1250F | tGt | tTt | 8 | 8 | B.1.1.28 | 0.00249 |
S | 1250 | C1250F | tGt | tTt | 8 | 8 | B.1.1.519 | 0.000318 |
S | 1250 | C1250F | tGt | tTt | 8 | 8 | B.1.526 | 0.000188 |
S | 1250 | C1250F | tGt | tTt | 7 | 7 | AY.106 | 0.002344 |
S | 1250 | C1250F | tGt | tTt | 7 | 7 | AY.42 | 0.000282 |
S | 1250 | C1250F | tGt | tTt | 7 | 7 | B.1.128 | 0.004447 |
S | 1250 | C1250F | tGt | tTt | 6 | 6 | AY.61 | 0.000629 |
S | 1250 | C1250F | tGt | tTt | 6 | 6 | AY.98 | 0.000474 |
S | 1250 | C1250F | tGt | tTt | 6 | 6 | B.1.177.38 | 0.0625 |
S | 1250 | C1250F | tGt | tTt | 6 | 6 | B.1.351 | 0.000178 |
S | 1250 | C1250F | tGt | tTt | 6 | 6 | B.40 | 0.002186 |
S | 1250 | C1250F | tGt | tTt | 6 | 6 | P.1.8 | 0.028708 |
S | 1250 | C1250F | tGt | tTt | 5 | 5 | AY.12 | 0.00158 |
S | 1250 | C1250F | tGt | tTt | 5 | 5 | AY.26 | 0.000142 |
S | 1250 | C1250F | tGt | tTt | 5 | 5 | AY.3.1 | 0.000426 |
S | 1250 | C1250F | tGt | tTt | 5 | 5 | AY.45 | 0.000608 |
S | 1250 | C1250F | tGt | tTt | 5 | 5 | AY.5 | 0.000103 |
S | 1250 | C1250F | tGt | tTt | 5 | 5 | B.1.429 | 0.000118 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | AY.100 | 0.000184 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | AY.107 | 0.001864 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | AY.108 | 0.00441 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | AY.120 | 0.000149 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | AY.92 | 0.001149 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | AY.93 | 0.001092 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | B.1.1.141 | 0.008048 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | B.1.1.286 | 0.011594 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | B.1.177.24 | 0.005181 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | B.1.596 | 0.000349 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | B.1.617.1 | 0.000516 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | B.1.621 | 0.000354 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | C.36.3 | 0.002269 |
S | 1250 | C1250F | tGt | tTt | 4 | 4 | P.1.17 | 0.000647 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | A.2.5.2 | 0.004717 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | AY.121 | 0.000406 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | AY.20 | 0.000117 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | AY.70 | 0.000626 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | AY.9.1 | 0.000251 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | AY.9.2 | 0.00011 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | B.1.1.486 | 0.004732 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | B.1.351.2 | 0.000908 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | B.1.36.29 | 0.001552 |
S | 1250 | C1250F | tGt | tTt | 3 | 3 | B.1.620 | 0.002838 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | A.2.5 | 0.000998 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | A.2.5.3 | 0.020619 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | AY.117 | 0.000169 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | AY.29.1 | 0.000441 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | AY.30 | 0.000791 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | AY.46.5 | 0.000397 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | AY.46.6 | 0.000144 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | AY.69 | 0.000373 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | AY.98.1 | 0.000097 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | AY.99.2 | 0.000184 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B | 0.000256 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.1.222 | 0.000408 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.1.230 | 0.018349 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.1.25 | 0.001137 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.160.28 | 0.005848 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.177.81 | 0.000379 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.243 | 0.000139 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.36.16 | 0.002849 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.438.1 | 0.000215 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.525 | 0.000226 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.564 | 0.000852 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.576 | 0.001813 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.623 | 0.001073 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | B.1.9.5 | 0.011364 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | P.2 | 0.000373 |
S | 1250 | C1250F | tGt | tTt | 2 | 2 | Q.3 | 0.00029 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | A | 0.000387 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | A.2 | 0.000662 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AE.5 | 0.018519 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.105 | 0.000643 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.116 | 0.000287 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.120.2 | 0.001285 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.16 | 0.00038 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.16.1 | 0.00047 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.19 | 0.00114 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.35 | 0.000233 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.37 | 0.000316 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.38 | 0.000499 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.39.1 | 0.00004 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.39.2 | 0.001541 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.47 | 0.000031 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.5.3 | 0.000337 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.5.4 | 0.000277 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.52 | 0.000814 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.54 | 0.000095 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.55 | 0.000917 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.64 | 0.000595 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.68 | 0.000274 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.7.1 | 0.000113 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.71 | 0.000475 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.73 | 0.000665 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.75 | 0.000056 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.75.1 | 0.00018 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.76 | 0.004831 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | AY.8 | 0.000606 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.1 | 0.000327 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.187 | 0.00885 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.232 | 0.001815 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.305 | 0.003861 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.306 | 0.000438 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.329 | 0.003846 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.33 | 0.000421 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.351 | 0.002793 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.369 | 0.000446 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.394 | 0.02439 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.1.521 | 0.005348 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.177.21 | 0.000076 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.210 | 0.002132 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.221 | 0.000071 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.232 | 0.000537 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.240 | 0.000216 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.258.7 | 0.001912 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.293 | 0.0125 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.340 | 0.004292 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.36 | 0.000146 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.369 | 0.000285 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.420 | 0.010417 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.470 | 0.001404 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.558 | 0.004566 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.565 | 0.00081 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.595 | 0.000261 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | B.1.622 | 0.012987 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | C.35 | 0.000774 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | D.2 | 0.000075 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | D.3 | 0.005917 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | P.1.15 | 0.000232 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | P.1.17.1 | 0.000875 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | P.3 | 0.001595 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | Q.1 | 0.000126 |
S | 1250 | C1250F | tGt | tTt | 1 | 1 | Q.8 | 0.000165 |
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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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