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 |
ORF1ab/nsp3 | 1242 | D1242D | D2060D | syn | gaC | gaT | 5025 | 5025 | 1 | 6443-6445 |
Details of the mutation D1242D 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 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 5025 | 5025 | All | 0.000961 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1024 | 1024 | B.1.1.277 | 0.776935 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 706 | 706 | B.1.617.2 | 0.002658 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 544 | 544 | AY.43 | 0.00241 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 448 | 448 | B.1.1.7 | 0.000401 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 289 | 289 | B.1.398 | 0.860119 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 162 | 162 | K.3 | 1 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 161 | 161 | AY.25 | 0.000968 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 114 | 114 | B.1 | 0.001044 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 103 | 103 | B.1.1.519 | 0.00409 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 97 | 97 | AY.3 | 0.000965 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 89 | 89 | B.1.1.26 | 0.465969 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 87 | 87 | AY.4 | 0.000135 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 87 | 87 | B.1.588 | 0.079163 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 65 | 65 | B.1.1 | 0.001179 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 65 | 65 | B.1.569 | 0.942029 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 62 | 62 | AY.103 | 0.000385 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 61 | 61 | B.1.234 | 0.008049 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 60 | 60 | AY.44 | 0.000365 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 44 | 44 | B.1.596 | 0.003834 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 42 | 42 | AY.100 | 0.001932 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 41 | 41 | AY.39 | 0.001013 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 41 | 41 | B.1.429 | 0.000965 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 36 | 36 | AY.4.2 | 0.000781 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 34 | 34 | A.2.5 | 0.016966 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 33 | 33 | AY.42 | 0.001328 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 32 | 32 | B.1.1.284 | 0.003437 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 23 | 23 | B.1.258.17 | 0.002391 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 21 | 21 | AY.64 | 0.0125 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 21 | 21 | B.1.36 | 0.003064 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 14 | 14 | AY.20 | 0.000544 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 14 | 14 | B.1.637 | 0.001023 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 13 | 13 | B.1.526 | 0.000306 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 13 | 13 | B.1.621 | 0.001151 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 12 | 12 | AY.26 | 0.00034 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 12 | 12 | C.34 | 0.444444 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 11 | 11 | AY.5 | 0.000227 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 10 | 10 | AY.75 | 0.00056 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 9 | 9 | AY.117 | 0.000761 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 9 | 9 | AY.6 | 0.00037 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 9 | 9 | B.1.177 | 0.000119 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 9 | 9 | B.1.221 | 0.000639 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 9 | 9 | B.1.595 | 0.002349 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 9 | 9 | P.1 | 0.000142 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 8 | 8 | AY.119 | 0.000282 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 8 | 8 | AY.23 | 0.000558 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 8 | 8 | AY.46 | 0.000833 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 8 | 8 | AY.5.4 | 0.002214 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 8 | 8 | B.1.160 | 0.00025 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 8 | 8 | B.1.177.54 | 0.004851 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 8 | 8 | B.1.2 | 0.00007 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 8 | 8 | B.1.427 | 0.000404 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 6 | 6 | AY.121 | 0.000812 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 6 | 6 | B.1.1.318 | 0.001811 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 5 | 5 | AY.47 | 0.000156 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 5 | 5 | B.1.149 | 0.017123 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 5 | 5 | B.1.160.28 | 0.01462 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 5 | 5 | B.1.452 | 0.068493 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 5 | 5 | B.1.525 | 0.000566 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 5 | 5 | C.37 | 0.00058 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 5 | 5 | P.1.14 | 0.000239 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | AY.110 | 0.000451 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | AY.116 | 0.001147 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | AY.36 | 0.000593 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | AY.45 | 0.000487 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | AY.67 | 0.001857 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | B.1.1.25 | 0.002274 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | B.1.177.4 | 0.000844 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | B.1.177.58 | 0.005326 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 4 | 4 | B.1.258 | 0.000266 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | AY.120 | 0.000112 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | AY.120.2.1 | 0.001495 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | AY.29 | 0.000047 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | AY.33 | 0.0002 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | AY.41 | 0.000882 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | AY.46.4 | 0.000494 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | AY.91 | 0.002191 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | B | 0.000383 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | B.1.1.10 | 0.003344 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | B.1.1.214 | 0.000166 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | B.1.177.7 | 0.000495 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | B.1.617.1 | 0.000387 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 3 | 3 | P.1.7 | 0.000958 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | AY.102 | 0.000053 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | AY.113 | 0.000285 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | AY.114 | 0.000462 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | AY.9 | 0.000135 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | AY.99 | 0.002099 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.1.240 | 0.00939 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.1.28 | 0.000622 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.1.316 | 0.00185 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.1.326 | 0.003521 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.396 | 0.001411 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.409 | 0.001563 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.438.1 | 0.000215 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.480 | 0.004975 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.1.575 | 0.000607 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | B.13 | 0.090909 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 2 | 2 | K.1 | 0.047619 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | A.2.5.1 | 0.004808 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AD.2 | 0.000219 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.105 | 0.000643 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.46.5 | 0.000198 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.58 | 0.000907 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.7 | 0.000196 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.71 | 0.000475 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.89 | 0.004902 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.164 | 0.005155 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.176 | 0.000439 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.189 | 0.001513 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.311 | 0.000358 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.312 | 0.001912 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.432 | 0.001266 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.435 | 0.034483 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.50 | 0.000679 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.517 | 0.006803 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.1.525 | 0.005464 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.12 | 0.008 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.13 | 0.002375 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.160.24 | 0.004425 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.267 | 0.018519 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.340 | 0.004292 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.351.2 | 0.000303 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.36.17 | 0.000494 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.362.2 | 0.004717 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.421 | 0.007463 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.572 | 0.025 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | B.1.576 | 0.000907 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | C.18 | 0.002591 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | G.1 | 0.041667 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | N.4 | 0.004255 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | P.5 | 0.013699 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 1 | 1 | Q.2 | 0.000613 |
ORF1ab/nsp3 | 1242 | D1242D | gaC | gaT | 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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