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/nsp4 | 438 | L438P | L3201P | nonsyn | cTt | cCt | 67797 | 67797 | 1 | 9866-9868 |
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 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 67797 | 67797 | All | 0.012967 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 42274 | 42274 | B.1.526 | 0.99363 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 13595 | 13595 | B.1.637 | 0.993423 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 8552 | 8552 | C.37 | 0.992572 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1102 | 1102 | B.1 | 0.010094 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 580 | 580 | P.3 | 0.92504 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 362 | 362 | C.37.1 | 0.947644 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 302 | 302 | B.1.1.214 | 0.016748 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 260 | 260 | P.4 | 0.988593 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 127 | 127 | B.1.1 | 0.002304 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 98 | 98 | C.1.2 | 0.417021 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 59 | 59 | B.1.1.7 | 0.000053 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 36 | 36 | B.1.623 | 0.019313 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 29 | 29 | AY.4 | 0.000045 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 28 | 28 | B.1.177.73 | 0.015855 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 26 | 26 | C.39 | 0.490566 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 23 | 23 | B.1.177.7 | 0.003792 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 18 | 18 | B.1.2 | 0.000158 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 18 | 18 | B.1.214.2 | 0.010791 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 17 | 17 | C.36.3.1 | 0.046196 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 16 | 16 | P.1 | 0.000252 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 14 | 14 | B | 0.001789 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 12 | 12 | B.1.575 | 0.003641 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 11 | 11 | AY.3 | 0.000109 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 10 | 10 | B.1.1.507 | 0.086957 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 10 | 10 | P.1.15 | 0.002323 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 9 | 9 | B.1.638 | 0.473684 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 8 | 8 | B.1.1.348 | 0.006369 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 8 | 8 | B.1.617.2 | 0.00003 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 7 | 7 | B.1.1.312 | 0.013384 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 7 | 7 | B.1.625 | 0.016471 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 7 | 7 | B.1.636 | 0.04698 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 6 | 6 | B.1.1.1 | 0.00196 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 6 | 6 | B.1.1.372 | 0.004132 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 5 | 5 | B.1.427 | 0.000252 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | B.1.1.316 | 0.0037 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | B.1.1.317 | 0.001647 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | B.1.111 | 0.0047 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | B.1.351 | 0.000119 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | B.1.36 | 0.000584 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | B.1.429 | 0.000094 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | B.1.618 | 0.016129 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 4 | 4 | P.1.12 | 0.001936 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | AY.44 | 0.000018 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.1.28 | 0.000934 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.1.519 | 0.000119 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.1.528 | 0.014423 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.243.1 | 0.066667 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.523 | 0.007353 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.530 | 0.021429 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.544 | 0.018072 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.561 | 0.001191 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.596 | 0.000261 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | B.1.609 | 0.001438 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | P.1.1 | 0.000953 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | P.1.14 | 0.000143 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 3 | 3 | P.1.17 | 0.000485 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | AY.103 | 0.000012 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | AY.43 | 0.000009 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.1.220 | 0.003717 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.1.524 | 0.041667 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.214 | 0.007326 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.258.17 | 0.000208 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.311 | 0.000549 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.336 | 0.004878 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.375 | 0.001639 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.413 | 0.008511 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | AY.107 | 0.000466 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | AY.23.1 | 0.000417 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | AY.7 | 0.000196 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.1.241 | 0.00207 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.1.243 | 0.004082 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.1.304 | 0.002809 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.1.34 | 0.013158 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.1.389 | 0.006061 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.1.402 | 0.011111 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.1.432 | 0.001266 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.170 | 0.00431 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.237 | 0.004975 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.241 | 0.000812 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.276 | 0.016949 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.280 | 0.007143 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.324 | 0.001605 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.338 | 0.008621 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.350 | 0.002933 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.356 | 0.001727 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.399 | 0.001934 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.468 | 0.005714 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.499 | 0.00105 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.567 | 0.003333 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.574 | 0.002151 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.576 | 0.000907 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.580 | 0.004065 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.585 | 0.027778 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.590 | 0.004545 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.1.78 | 0.008547 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | C.1 | 0.002392 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | C.35 | 0.000774 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | P.1.16 | 0.000374 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | P.1.2 | 0.001156 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | P.1.7 | 0.000319 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 1 | 1 | P.2 | 0.000187 |
ORF1ab/nsp4 | 438 | L438P | cTt | cCt | 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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