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 |
ORF3a | 93 | H93H | syn | caC | caT | 1944 | 1944 | 1 | 25669-25671 |
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 |
ORF3a | 93 | H93H | caC | caT | 1944 | 1944 | All | 0.000372 |
ORF3a | 93 | H93H | caC | caT | 529 | 529 | AY.4 | 0.000823 |
ORF3a | 93 | H93H | caC | caT | 256 | 256 | B.1.1.7 | 0.000229 |
ORF3a | 93 | H93H | caC | caT | 239 | 239 | AY.23.1 | 0.09975 |
ORF3a | 93 | H93H | caC | caT | 153 | 153 | AY.110 | 0.017241 |
ORF3a | 93 | H93H | caC | caT | 97 | 97 | B.1.429 | 0.002282 |
ORF3a | 93 | H93H | caC | caT | 70 | 70 | B.1.349 | 0.050036 |
ORF3a | 93 | H93H | caC | caT | 45 | 45 | B.1.617.2 | 0.000169 |
ORF3a | 93 | H93H | caC | caT | 39 | 39 | AY.29 | 0.000615 |
ORF3a | 93 | H93H | caC | caT | 39 | 39 | B.1.1.524 | 0.8125 |
ORF3a | 93 | H93H | caC | caT | 24 | 24 | AY.43 | 0.000106 |
ORF3a | 93 | H93H | caC | caT | 22 | 22 | AY.103 | 0.000137 |
ORF3a | 93 | H93H | caC | caT | 22 | 22 | B.1 | 0.000202 |
ORF3a | 93 | H93H | caC | caT | 21 | 21 | B.1.526 | 0.000494 |
ORF3a | 93 | H93H | caC | caT | 20 | 20 | AY.44 | 0.000122 |
ORF3a | 93 | H93H | caC | caT | 17 | 17 | B.1.2 | 0.00015 |
ORF3a | 93 | H93H | caC | caT | 16 | 16 | AY.25 | 0.000096 |
ORF3a | 93 | H93H | caC | caT | 14 | 14 | AY.3 | 0.000139 |
ORF3a | 93 | H93H | caC | caT | 14 | 14 | AY.39 | 0.000346 |
ORF3a | 93 | H93H | caC | caT | 14 | 14 | AY.7.1 | 0.001578 |
ORF3a | 93 | H93H | caC | caT | 13 | 13 | AY.29.1 | 0.002867 |
ORF3a | 93 | H93H | caC | caT | 13 | 13 | B.1.427 | 0.000656 |
ORF3a | 93 | H93H | caC | caT | 12 | 12 | AY.42 | 0.000483 |
ORF3a | 93 | H93H | caC | caT | 12 | 12 | B.1.177 | 0.000158 |
ORF3a | 93 | H93H | caC | caT | 10 | 10 | B.1.243 | 0.000696 |
ORF3a | 93 | H93H | caC | caT | 10 | 10 | P.1 | 0.000158 |
ORF3a | 93 | H93H | caC | caT | 9 | 9 | AY.100 | 0.000414 |
ORF3a | 93 | H93H | caC | caT | 9 | 9 | AY.102 | 0.000239 |
ORF3a | 93 | H93H | caC | caT | 9 | 9 | B.1.177.81 | 0.001704 |
ORF3a | 93 | H93H | caC | caT | 8 | 8 | AY.5 | 0.000165 |
ORF3a | 93 | H93H | caC | caT | 7 | 7 | AY.20 | 0.000272 |
ORF3a | 93 | H93H | caC | caT | 7 | 7 | B.1.258.17 | 0.000728 |
ORF3a | 93 | H93H | caC | caT | 6 | 6 | AY.4.2 | 0.00013 |
ORF3a | 93 | H93H | caC | caT | 6 | 6 | AY.99.2 | 0.000553 |
ORF3a | 93 | H93H | caC | caT | 6 | 6 | B.1.1.519 | 0.000238 |
ORF3a | 93 | H93H | caC | caT | 6 | 6 | P.1.10 | 0.001617 |
ORF3a | 93 | H93H | caC | caT | 6 | 6 | P.1.14 | 0.000287 |
ORF3a | 93 | H93H | caC | caT | 5 | 5 | AY.13 | 0.000805 |
ORF3a | 93 | H93H | caC | caT | 5 | 5 | AY.33 | 0.000334 |
ORF3a | 93 | H93H | caC | caT | 5 | 5 | B.1.351 | 0.000149 |
ORF3a | 93 | H93H | caC | caT | 5 | 5 | B.1.621 | 0.000443 |
ORF3a | 93 | H93H | caC | caT | 4 | 4 | AY.113 | 0.00057 |
ORF3a | 93 | H93H | caC | caT | 4 | 4 | AY.119 | 0.000141 |
ORF3a | 93 | H93H | caC | caT | 4 | 4 | AY.120 | 0.000149 |
ORF3a | 93 | H93H | caC | caT | 4 | 4 | AY.23 | 0.000279 |
ORF3a | 93 | H93H | caC | caT | 4 | 4 | B.1.1 | 0.000073 |
ORF3a | 93 | H93H | caC | caT | 4 | 4 | B.1.1.153 | 0.004381 |
ORF3a | 93 | H93H | caC | caT | 4 | 4 | B.1.177.60 | 0.000874 |
ORF3a | 93 | H93H | caC | caT | 4 | 4 | C.16 | 0.004242 |
ORF3a | 93 | H93H | caC | caT | 3 | 3 | AY.46 | 0.000312 |
ORF3a | 93 | H93H | caC | caT | 3 | 3 | AY.54 | 0.000286 |
ORF3a | 93 | H93H | caC | caT | 3 | 3 | AY.9 | 0.000203 |
ORF3a | 93 | H93H | caC | caT | 3 | 3 | B.1.1.222 | 0.000612 |
ORF3a | 93 | H93H | caC | caT | 3 | 3 | B.1.177.7 | 0.000495 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.27 | 0.000129 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.3.1 | 0.000171 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.36 | 0.000296 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.4.4 | 0.000818 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.4.5 | 0.000215 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.41 | 0.000588 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.5.3 | 0.000675 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.6 | 0.000082 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.75 | 0.000112 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | AY.9.2 | 0.000073 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | B.1.234 | 0.000264 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | B.1.241 | 0.001623 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | P.1.7 | 0.000639 |
ORF3a | 93 | H93H | caC | caT | 2 | 2 | P.3 | 0.00319 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.106 | 0.000335 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.116.1 | 0.000311 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.117 | 0.000085 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.121 | 0.000135 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.26 | 0.000028 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.32 | 0.000532 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.39.1 | 0.00004 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.46.6 | 0.000072 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.47 | 0.000031 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.65 | 0.000533 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.7 | 0.000196 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.71 | 0.000475 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.93 | 0.000273 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | AY.98 | 0.000079 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.137 | 0.0125 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.186 | 0.003436 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.207 | 0.001182 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.220 | 0.001859 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.306 | 0.000438 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.317 | 0.000412 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.318 | 0.000302 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.434 | 0.000349 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.485 | 0.016667 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.1.528 | 0.004808 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.160 | 0.000031 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.169 | 0.014925 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.177.33 | 0.001645 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.177.6 | 0.000977 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.221 | 0.000071 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.258 | 0.000067 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.311 | 0.000275 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.351.2 | 0.000303 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.351.3 | 0.000876 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.36 | 0.000146 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.375 | 0.00082 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.438.1 | 0.000107 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.525 | 0.000113 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.575 | 0.000303 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.575.1 | 0.002439 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.576 | 0.000907 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.582 | 0.000491 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.587 | 0.001898 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.600 | 0.005848 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.1.637 | 0.000073 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | B.11 | 0.005128 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | D.2 | 0.000075 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | P.1.12 | 0.000484 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | P.1.15 | 0.000232 |
ORF3a | 93 | H93H | caC | caT | 1 | 1 | Q.8 | 0.000165 |
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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