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 | 21 | R21I | nonsyn | aGa | aTa | 6627 | 6624 | 0.999547 | 21623-21625 | |
S | 21 | R21I | nonsyn | aGA | aTT | 6627 | 3 | 0.000452694 | 21623-21625 |
Details of the mutation R21I 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 | 21 | R21I | aGa | aTa | 6624 | 6627 | All | 0.001267 |
S | 21 | R21I | aGA | aTT | 3 | 6627 | All | 0.000001 |
S | 21 | R21I | aGa | aTa | 1474 | 1474 | AY.4 | 0.002294 |
S | 21 | R21I | aGa | aTa | 890 | 890 | B.1.1.279 | 0.997758 |
S | 21 | R21I | aGa | aTa | 852 | 852 | B.1.1.7 | 0.000763 |
S | 21 | R21I | aGa | aTa | 384 | 384 | AY.43 | 0.001701 |
S | 21 | R21I | aGa | aTa | 314 | 314 | B.1.617.2 | 0.001182 |
S | 21 | R21I | aGa | aTa | 217 | 217 | AY.44 | 0.001321 |
S | 21 | R21I | aGa | aTa | 204 | 204 | B.1.1 | 0.003701 |
S | 21 | R21I | aGa | aTa | 172 | 172 | B.1.1.365 | 0.960894 |
S | 21 | R21I | aGa | aTa | 171 | 171 | B.1.1.237 | 0.924324 |
S | 21 | R21I | aGa | aTa | 160 | 160 | B.1.1.363 | 0.958084 |
S | 21 | R21I | aGa | aTa | 145 | 145 | C.37.1 | 0.379581 |
S | 21 | R21I | aGa | aTa | 102 | 102 | B.1.2 | 0.000898 |
S | 21 | R21I | aGa | aTa | 98 | 98 | AY.103 | 0.000608 |
S | 21 | R21I | aGa | aTa | 90 | 90 | AY.3 | 0.000895 |
S | 21 | R21I | aGa | aTa | 68 | 68 | AY.98.1 | 0.003293 |
S | 21 | R21I | aGa | aTa | 60 | 60 | B.1.1.149 | 0.983607 |
S | 21 | R21I | aGa | aTa | 57 | 57 | P.1.14 | 0.002725 |
S | 21 | R21I | aGa | aTa | 56 | 56 | AY.39 | 0.001384 |
S | 21 | R21I | aGa | aTa | 53 | 53 | B.1 | 0.000485 |
S | 21 | R21I | aGa | aTa | 49 | 49 | P.1 | 0.000772 |
S | 21 | R21I | aGa | aTa | 43 | 43 | B.1.177 | 0.000566 |
S | 21 | R21I | aGa | aTa | 40 | 40 | AY.117 | 0.003381 |
S | 21 | R21I | aGa | aTa | 39 | 39 | P.1.10 | 0.010509 |
S | 21 | R21I | aGa | aTa | 32 | 32 | AY.120 | 0.00119 |
S | 21 | R21I | aGa | aTa | 32 | 32 | B.1.1.360 | 1 |
S | 21 | R21I | aGa | aTa | 29 | 29 | R.1 | 0.00261 |
S | 21 | R21I | aGa | aTa | 28 | 28 | B.1.1.379 | 0.875 |
S | 21 | R21I | aGa | aTa | 27 | 27 | AY.12 | 0.008534 |
S | 21 | R21I | aGa | aTa | 26 | 26 | AY.25 | 0.000156 |
S | 21 | R21I | aGa | aTa | 22 | 22 | AY.5 | 0.000454 |
S | 21 | R21I | aGa | aTa | 22 | 22 | B.1.429 | 0.000518 |
S | 21 | R21I | aGa | aTa | 21 | 21 | AY.102 | 0.000557 |
S | 21 | R21I | aGa | aTa | 20 | 20 | B.1.351 | 0.000595 |
S | 21 | R21I | aGa | aTa | 19 | 19 | AY.29 | 0.0003 |
S | 21 | R21I | aGa | aTa | 18 | 18 | AY.46.6 | 0.0013 |
S | 21 | R21I | aGa | aTa | 17 | 17 | AY.26 | 0.000481 |
S | 21 | R21I | aGa | aTa | 15 | 15 | AY.86 | 0.012448 |
S | 21 | R21I | aGa | aTa | 14 | 14 | B.1.526 | 0.000329 |
S | 21 | R21I | aGa | aTa | 13 | 13 | AY.45 | 0.001582 |
S | 21 | R21I | aGa | aTa | 13 | 13 | AY.83 | 0.022414 |
S | 21 | R21I | aGa | aTa | 13 | 13 | B.1.1.30 | 1 |
S | 21 | R21I | aGa | aTa | 12 | 12 | AY.61 | 0.001257 |
S | 21 | R21I | aGa | aTa | 12 | 12 | C.37 | 0.001393 |
S | 21 | R21I | aGa | aTa | 11 | 11 | AY.104 | 0.021825 |
S | 21 | R21I | aGa | aTa | 11 | 11 | AY.6 | 0.000452 |
S | 21 | R21I | aGa | aTa | 10 | 10 | AY.100 | 0.00046 |
S | 21 | R21I | aGa | aTa | 10 | 10 | B.1.160 | 0.000312 |
S | 21 | R21I | aGa | aTa | 10 | 10 | B.1.177.73 | 0.005663 |
S | 21 | R21I | aGa | aTa | 10 | 10 | B.1.195 | 0.050251 |
S | 21 | R21I | aGa | aTa | 10 | 10 | B.1.311 | 0.002746 |
S | 21 | R21I | aGa | aTa | 9 | 9 | AY.121 | 0.001218 |
S | 21 | R21I | aGa | aTa | 9 | 9 | AY.33 | 0.000601 |
S | 21 | R21I | aGa | aTa | 9 | 9 | B.1.1.519 | 0.000357 |
S | 21 | R21I | aGa | aTa | 9 | 9 | B.1.177.21 | 0.000688 |
S | 21 | R21I | aGa | aTa | 8 | 8 | AY.47 | 0.000249 |
S | 21 | R21I | aGa | aTa | 7 | 7 | AY.119 | 0.000247 |
S | 21 | R21I | aGa | aTa | 7 | 7 | AY.14 | 0.000616 |
S | 21 | R21I | aGa | aTa | 7 | 7 | AY.4.2 | 0.000152 |
S | 21 | R21I | aGa | aTa | 7 | 7 | AY.42 | 0.000282 |
S | 21 | R21I | aGa | aTa | 7 | 7 | AY.46 | 0.000729 |
S | 21 | R21I | aGa | aTa | 7 | 7 | B.1.258 | 0.000466 |
S | 21 | R21I | aGa | aTa | 6 | 6 | AY.118 | 0.000376 |
S | 21 | R21I | aGa | aTa | 6 | 6 | AY.20 | 0.000233 |
S | 21 | R21I | aGa | aTa | 6 | 6 | AY.9.2 | 0.00022 |
S | 21 | R21I | aGa | aTa | 6 | 6 | B.1.1.222 | 0.001224 |
S | 21 | R21I | aGa | aTa | 6 | 6 | B.1.617.1 | 0.000774 |
S | 21 | R21I | aGa | aTa | 5 | 5 | AY.113 | 0.000712 |
S | 21 | R21I | aGa | aTa | 5 | 5 | AY.9.1 | 0.000419 |
S | 21 | R21I | aGa | aTa | 5 | 5 | B.1.232 | 0.002687 |
S | 21 | R21I | aGa | aTa | 5 | 5 | B.1.252 | 0.033113 |
S | 21 | R21I | aGa | aTa | 5 | 5 | B.1.427 | 0.000252 |
S | 21 | R21I | aGa | aTa | 5 | 5 | C.36.3 | 0.002836 |
S | 21 | R21I | aGa | aTa | 4 | 4 | AY.101 | 0.001962 |
S | 21 | R21I | aGa | aTa | 4 | 4 | AY.116.1 | 0.001246 |
S | 21 | R21I | aGa | aTa | 4 | 4 | AY.23 | 0.000279 |
S | 21 | R21I | aGa | aTa | 4 | 4 | AY.36 | 0.000593 |
S | 21 | R21I | aGa | aTa | 4 | 4 | AY.39.1 | 0.000158 |
S | 21 | R21I | aGA | aTT | 3 | 4 | AY.52 | 0.002443 |
S | 21 | R21I | aGa | aTa | 1 | 4 | AY.52 | 0.000814 |
S | 21 | R21I | aGa | aTa | 4 | 4 | AY.84 | 0.00175 |
S | 21 | R21I | aGa | aTa | 4 | 4 | AY.98 | 0.000316 |
S | 21 | R21I | aGa | aTa | 4 | 4 | B | 0.000511 |
S | 21 | R21I | aGa | aTa | 4 | 4 | B.1.177.12 | 0.000607 |
S | 21 | R21I | aGa | aTa | 4 | 4 | B.1.177.60 | 0.000874 |
S | 21 | R21I | aGa | aTa | 4 | 4 | B.1.206 | 0.003263 |
S | 21 | R21I | aGa | aTa | 4 | 4 | B.1.351.2 | 0.00121 |
S | 21 | R21I | aGa | aTa | 4 | 4 | B.1.36 | 0.000584 |
S | 21 | R21I | aGa | aTa | 4 | 4 | C.36 | 0.003643 |
S | 21 | R21I | aGa | aTa | 4 | 4 | P.2 | 0.000747 |
S | 21 | R21I | aGa | aTa | 4 | 4 | Q.1 | 0.000505 |
S | 21 | R21I | aGa | aTa | 3 | 3 | A.23.1 | 0.002113 |
S | 21 | R21I | aGa | aTa | 3 | 3 | AY.106 | 0.001005 |
S | 21 | R21I | aGa | aTa | 3 | 3 | AY.7 | 0.000588 |
S | 21 | R21I | aGa | aTa | 3 | 3 | AY.7.1 | 0.000338 |
S | 21 | R21I | aGa | aTa | 3 | 3 | AY.7.2 | 0.001678 |
S | 21 | R21I | aGa | aTa | 3 | 3 | AY.74 | 0.000347 |
S | 21 | R21I | aGa | aTa | 3 | 3 | B.1.1.28 | 0.000934 |
S | 21 | R21I | aGa | aTa | 3 | 3 | B.1.1.284 | 0.000322 |
S | 21 | R21I | aGa | aTa | 3 | 3 | B.1.1.355 | 0.046154 |
S | 21 | R21I | aGa | aTa | 3 | 3 | B.1.1.369 | 0.001339 |
S | 21 | R21I | aGa | aTa | 3 | 3 | B.1.1.70 | 0.001023 |
S | 21 | R21I | aGa | aTa | 3 | 3 | B.1.243 | 0.000209 |
S | 21 | R21I | aGa | aTa | 3 | 3 | B.1.39 | 0.011719 |
S | 21 | R21I | aGa | aTa | 3 | 3 | B.1.576 | 0.00272 |
S | 21 | R21I | aGa | aTa | 3 | 3 | N.5 | 0.0053 |
S | 21 | R21I | aGa | aTa | 3 | 3 | P.1.12 | 0.001452 |
S | 21 | R21I | aGa | aTa | 3 | 3 | P.1.15 | 0.000697 |
S | 21 | R21I | aGa | aTa | 3 | 3 | P.1.2 | 0.003468 |
S | 21 | R21I | aGa | aTa | 2 | 2 | A | 0.000774 |
S | 21 | R21I | aGa | aTa | 2 | 2 | A.2.5 | 0.000998 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.109 | 0.001479 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.27 | 0.000129 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.34 | 0.000194 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.35 | 0.000466 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.4.2.1 | 0.000298 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.54 | 0.000191 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.68 | 0.000547 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.75 | 0.000112 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.9 | 0.000135 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.93 | 0.000546 |
S | 21 | R21I | aGa | aTa | 2 | 2 | AY.94 | 0.000885 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.1.371 | 0.020833 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.111 | 0.00235 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.13 | 0.004751 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.210 | 0.004264 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.258.17 | 0.000208 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.313 | 0.013158 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.351.3 | 0.001753 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.36.31 | 0.003503 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.398 | 0.005952 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.617.3 | 0.00597 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.621 | 0.000177 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.1.637 | 0.000146 |
S | 21 | R21I | aGa | aTa | 2 | 2 | B.6.5 | 0.153846 |
S | 21 | R21I | aGa | aTa | 2 | 2 | P.1.7 | 0.000639 |
S | 21 | R21I | aGa | aTa | 2 | 2 | Q.3 | 0.00029 |
S | 21 | R21I | aGa | aTa | 2 | 2 | V.1 | 0.045455 |
S | 21 | R21I | aGa | aTa | 1 | 1 | 0.055556 | |
S | 21 | R21I | aGa | aTa | 1 | 1 | AE.8 | 0.000489 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.1 | 0.000396 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.116 | 0.000287 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.13 | 0.000161 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.16 | 0.00038 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.16.1 | 0.00047 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.2 | 0.000356 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.28 | 0.00189 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.32 | 0.000532 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.4.4 | 0.000409 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.4.5 | 0.000107 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.46.2 | 0.000635 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.5.2 | 0.002463 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.5.3 | 0.000337 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.5.4 | 0.000277 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.55 | 0.000917 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.58 | 0.000907 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.59 | 0.00053 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.63 | 0.000387 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.69 | 0.000187 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.70 | 0.000209 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.78 | 0.001541 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.82 | 0.001357 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.88 | 0.000884 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.90 | 0.000684 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.92 | 0.000287 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.96 | 0.002075 |
S | 21 | R21I | aGa | aTa | 1 | 1 | AY.99 | 0.001049 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.101 | 0.01 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.111 | 0.014706 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.176 | 0.000439 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.226 | 0.005814 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.277 | 0.000759 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.29 | 0.010309 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.294 | 0.001266 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.306 | 0.000438 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.307 | 0.002532 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.318 | 0.000302 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.326 | 0.001761 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.33 | 0.000421 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.37 | 0.000193 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.378 | 0.007299 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.406 | 0.006494 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.416 | 0.000905 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.1.51 | 0.001718 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.142 | 0.002899 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.147 | 0.000756 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.177.17 | 0.000821 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.177.56 | 0.000668 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.177.8 | 0.000752 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.177.82 | 0.000477 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.177.9 | 0.001332 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.221 | 0.000071 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.221.2 | 0.004016 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.258.7 | 0.001912 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.279 | 0.000514 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.298 | 0.002114 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.301 | 0.005917 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.315 | 0.006061 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.336 | 0.002439 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.349 | 0.000715 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.36.16 | 0.001425 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.36.17 | 0.000494 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.36.22 | 0.001208 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.361 | 0.001289 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.369 | 0.000285 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.391 | 0.001127 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.396 | 0.000706 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.413 | 0.004255 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.438.1 | 0.000107 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.497 | 0.000315 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.517 | 0.000427 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.524 | 0.001406 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.533 | 0.009615 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.564 | 0.000426 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.565 | 0.00081 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.596 | 0.000087 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.619 | 0.000871 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.620 | 0.000946 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.1.623 | 0.000536 |
S | 21 | R21I | aGa | aTa | 1 | 1 | B.3.1 | 0.001658 |
S | 21 | R21I | aGa | aTa | 1 | 1 | P.1.10.2 | 0.041667 |
S | 21 | R21I | aGa | aTa | 1 | 1 | P.1.16 | 0.000374 |
S | 21 | R21I | aGa | aTa | 1 | 1 | P.1.17 | 0.000162 |
S | 21 | R21I | aGa | aTa | 1 | 1 | Q.7 | 0.001111 |
![]() |
![]() |
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
|