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 | 681 | P681L | nonsyn | cCt | cTt | 1489 | 1489 | 1 | 23603-23605 |
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 | 681 | P681L | cCt | cTt | 1489 | 1489 | All | 0.000285 |
S | 681 | P681L | cCt | cTt | 340 | 340 | B.1.570 | 1 |
S | 681 | P681L | cCt | cTt | 187 | 187 | B.1.1.214 | 0.01037 |
S | 681 | P681L | cCt | cTt | 92 | 92 | B.1.258 | 0.006122 |
S | 681 | P681L | cCt | cTt | 90 | 90 | B.1 | 0.000824 |
S | 681 | P681L | cCt | cTt | 61 | 61 | B.1.1 | 0.001107 |
S | 681 | P681L | cCt | cTt | 59 | 59 | AY.4 | 0.000092 |
S | 681 | P681L | cCt | cTt | 47 | 47 | B.1.2 | 0.000414 |
S | 681 | P681L | cCt | cTt | 37 | 37 | B.1.617.2 | 0.000139 |
S | 681 | P681L | cCt | cTt | 33 | 33 | B.1.1.26 | 0.172775 |
S | 681 | P681L | cCt | cTt | 31 | 31 | AY.29 | 0.000489 |
S | 681 | P681L | cCt | cTt | 30 | 30 | AY.43 | 0.000133 |
S | 681 | P681L | cCt | cTt | 25 | 25 | P.1 | 0.000394 |
S | 681 | P681L | cCt | cTt | 23 | 23 | AY.103 | 0.000143 |
S | 681 | P681L | cCt | cTt | 23 | 23 | B.1.494 | 0.793103 |
S | 681 | P681L | cCt | cTt | 18 | 18 | B.1.351 | 0.000535 |
S | 681 | P681L | cCt | cTt | 14 | 14 | B.1.526 | 0.000329 |
S | 681 | P681L | cCt | cTt | 13 | 13 | B.1.1.7 | 0.000012 |
S | 681 | P681L | cCt | cTt | 13 | 13 | B.1.429 | 0.000306 |
S | 681 | P681L | cCt | cTt | 12 | 12 | AY.39.1 | 0.000475 |
S | 681 | P681L | cCt | cTt | 11 | 11 | AY.25 | 0.000066 |
S | 681 | P681L | cCt | cTt | 11 | 11 | B.1.221 | 0.000781 |
S | 681 | P681L | cCt | cTt | 11 | 11 | B.1.36 | 0.001605 |
S | 681 | P681L | cCt | cTt | 10 | 10 | P.1.14 | 0.000478 |
S | 681 | P681L | cCt | cTt | 10 | 10 | R.1 | 0.0009 |
S | 681 | P681L | cCt | cTt | 9 | 9 | B.1.1.277 | 0.006829 |
S | 681 | P681L | cCt | cTt | 9 | 9 | B.1.177 | 0.000119 |
S | 681 | P681L | cCt | cTt | 8 | 8 | AY.44 | 0.000049 |
S | 681 | P681L | cCt | cTt | 8 | 8 | B.1.427 | 0.000404 |
S | 681 | P681L | cCt | cTt | 7 | 7 | AY.102 | 0.000186 |
S | 681 | P681L | cCt | cTt | 7 | 7 | AY.117 | 0.000592 |
S | 681 | P681L | cCt | cTt | 7 | 7 | AY.120 | 0.00026 |
S | 681 | P681L | cCt | cTt | 7 | 7 | P.5 | 0.09589 |
S | 681 | P681L | cCt | cTt | 6 | 6 | AY.27 | 0.000388 |
S | 681 | P681L | cCt | cTt | 6 | 6 | B.1.234 | 0.000792 |
S | 681 | P681L | cCt | cTt | 5 | 5 | AY.26 | 0.000142 |
S | 681 | P681L | cCt | cTt | 5 | 5 | AY.4.2 | 0.000108 |
S | 681 | P681L | cCt | cTt | 5 | 5 | AY.5 | 0.000103 |
S | 681 | P681L | cCt | cTt | 5 | 5 | B.1.1.284 | 0.000537 |
S | 681 | P681L | cCt | cTt | 5 | 5 | B.1.1.39 | 0.002548 |
S | 681 | P681L | cCt | cTt | 5 | 5 | B.1.525 | 0.000566 |
S | 681 | P681L | cCt | cTt | 5 | 5 | P.1.17 | 0.000809 |
S | 681 | P681L | cCt | cTt | 4 | 4 | AY.107 | 0.001864 |
S | 681 | P681L | cCt | cTt | 4 | 4 | AY.98.1 | 0.000194 |
S | 681 | P681L | cCt | cTt | 4 | 4 | B.1.258.17 | 0.000416 |
S | 681 | P681L | cCt | cTt | 4 | 4 | C.37 | 0.000464 |
S | 681 | P681L | cCt | cTt | 3 | 3 | AY.121 | 0.000406 |
S | 681 | P681L | cCt | cTt | 3 | 3 | AY.24 | 0.001293 |
S | 681 | P681L | cCt | cTt | 3 | 3 | AY.3 | 0.00003 |
S | 681 | P681L | cCt | cTt | 3 | 3 | AY.39 | 0.000074 |
S | 681 | P681L | cCt | cTt | 3 | 3 | AY.6 | 0.000123 |
S | 681 | P681L | cCt | cTt | 3 | 3 | AY.68 | 0.000821 |
S | 681 | P681L | cCt | cTt | 3 | 3 | B.1.1.308 | 0.035294 |
S | 681 | P681L | cCt | cTt | 3 | 3 | B.1.1.37 | 0.000579 |
S | 681 | P681L | cCt | cTt | 3 | 3 | B.1.160 | 0.000094 |
S | 681 | P681L | cCt | cTt | 3 | 3 | B.1.527 | 0.011111 |
S | 681 | P681L | cCt | cTt | 3 | 3 | B.1.577 | 0.002062 |
S | 681 | P681L | cCt | cTt | 3 | 3 | C.35 | 0.002322 |
S | 681 | P681L | cCt | cTt | 3 | 3 | D.2 | 0.000225 |
S | 681 | P681L | cCt | cTt | 3 | 3 | N.5 | 0.0053 |
S | 681 | P681L | cCt | cTt | 3 | 3 | P.1.12 | 0.001452 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.20 | 0.000078 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.23 | 0.000139 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.36 | 0.000296 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.42 | 0.00008 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.46 | 0.000208 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.46.5 | 0.000397 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.47 | 0.000062 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.61 | 0.00021 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.71 | 0.00095 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.9.2 | 0.000073 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.97 | 0.003401 |
S | 681 | P681L | cCt | cTt | 2 | 2 | AY.98 | 0.000158 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.1.1 | 0.000653 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.1.28 | 0.000622 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.1.306 | 0.000877 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.1.335 | 0.025974 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.1.523 | 0.003125 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.1.58 | 0.010753 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.1.63 | 0.000772 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.177.44 | 0.001038 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.177.58 | 0.002663 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.206 | 0.001631 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.243 | 0.000139 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.279 | 0.001027 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.351.2 | 0.000605 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.385 | 0.021277 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.462 | 0.014493 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.564 | 0.000852 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.580 | 0.00813 |
S | 681 | P681L | cCt | cTt | 2 | 2 | B.1.595 | 0.000522 |
S | 681 | P681L | cCt | cTt | 2 | 2 | L.1 | 0.00381 |
S | 681 | P681L | cCt | cTt | 2 | 2 | P.1.15 | 0.000465 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AE.8 | 0.000489 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.111 | 0.000183 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.119 | 0.000035 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.120.1 | 0.000321 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.13 | 0.000161 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.15 | 0.002222 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.29.1 | 0.000221 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.30 | 0.000396 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.4.3 | 0.000842 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.7 | 0.000196 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.75 | 0.000056 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.83 | 0.001724 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.88 | 0.000884 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.9 | 0.000068 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.9.1 | 0.000084 |
S | 681 | P681L | cCt | cTt | 1 | 1 | AY.92 | 0.000287 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.129 | 0.009174 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.15 | 0.013514 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.220 | 0.001859 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.222 | 0.000204 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.25 | 0.000569 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.269 | 0.001353 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.275 | 0.011236 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.279 | 0.001121 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.311 | 0.000358 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.33 | 0.000421 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.397 | 0.002252 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.412 | 0.007634 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.519 | 0.00004 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.1.526 | 0.003546 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.160.16 | 0.000929 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.177.15 | 0.000631 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.177.5 | 0.001242 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.177.56 | 0.000668 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.177.73 | 0.000566 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.189 | 0.004292 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.330 | 0.028571 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.36.17 | 0.000494 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.36.29 | 0.000517 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.366 | 0.004878 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.369 | 0.000285 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.375 | 0.00082 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.517 | 0.000427 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.521 | 0.004975 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.574 | 0.002151 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.596 | 0.000087 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.617.1 | 0.000129 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.1.627 | 0.00202 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.3 | 0.000831 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.55 | 0.00295 |
S | 681 | P681L | cCt | cTt | 1 | 1 | B.6 | 0.00091 |
S | 681 | P681L | cCt | cTt | 1 | 1 | C.36 | 0.000911 |
S | 681 | P681L | cCt | cTt | 1 | 1 | P.1.16 | 0.000374 |
S | 681 | P681L | cCt | cTt | 1 | 1 | P.2 | 0.000187 |
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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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