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 |
N | 203 | R203R | syn | agG | agA | 2901 | 2881 | 0.993106 | 28880-28882 | |
N | 203 | R203R | syn | Agg | Cgg | 2901 | 19 | 0.00654947 | 28880-28882 | |
N | 203 | R203R | syn | AgG | CgT | 2901 | 1 | 0.000344709 | 28880-28882 |
Details of the mutation R203R 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 |
N | 203 | R203R | agG | agA | 2881 | 2901 | All | 0.000551 |
N | 203 | R203R | Agg | Cgg | 19 | 2901 | All | 0.000004 |
N | 203 | R203R | AgG | CgT | 1 | 2901 | All | 0 |
N | 203 | R203R | agG | agA | 1528 | 1528 | B.1 | 0.013996 |
N | 203 | R203R | agG | agA | 254 | 259 | B.1.1.7 | 0.000227 |
N | 203 | R203R | Agg | Cgg | 4 | 259 | B.1.1.7 | 0.000004 |
N | 203 | R203R | AgG | CgT | 1 | 259 | B.1.1.7 | 0.000001 |
N | 203 | R203R | agG | agA | 110 | 123 | B.1.2 | 0.000969 |
N | 203 | R203R | Agg | Cgg | 13 | 123 | B.1.2 | 0.000114 |
N | 203 | R203R | agG | agA | 96 | 96 | B.1.1 | 0.001742 |
N | 203 | R203R | agG | agA | 73 | 73 | B.1.596 | 0.006361 |
N | 203 | R203R | agG | agA | 66 | 68 | B | 0.008436 |
N | 203 | R203R | Agg | Cgg | 2 | 68 | B | 0.000256 |
N | 203 | R203R | agG | agA | 65 | 65 | B.1.177 | 0.000856 |
N | 203 | R203R | agG | agA | 65 | 65 | B.1.177.73 | 0.036806 |
N | 203 | R203R | agG | agA | 35 | 35 | B.1.160 | 0.001092 |
N | 203 | R203R | agG | agA | 22 | 22 | B.1.1.519 | 0.000874 |
N | 203 | R203R | agG | agA | 19 | 19 | B.1.429 | 0.000447 |
N | 203 | R203R | agG | agA | 18 | 18 | B.1.351 | 0.000535 |
N | 203 | R203R | agG | agA | 18 | 18 | B.1.36.29 | 0.009312 |
N | 203 | R203R | agG | agA | 18 | 18 | B.1.526 | 0.000423 |
N | 203 | R203R | agG | agA | 17 | 17 | B.1.221 | 0.001208 |
N | 203 | R203R | agG | agA | 17 | 17 | B.1.595 | 0.004436 |
N | 203 | R203R | agG | agA | 16 | 16 | P.1 | 0.000252 |
N | 203 | R203R | agG | agA | 15 | 15 | B.1.9.5 | 0.085227 |
N | 203 | R203R | agG | agA | 12 | 12 | B.1.576 | 0.010879 |
N | 203 | R203R | agG | agA | 12 | 12 | P.1.12 | 0.005808 |
N | 203 | R203R | agG | agA | 12 | 12 | P.2 | 0.00224 |
N | 203 | R203R | agG | agA | 11 | 11 | B.1.375 | 0.009016 |
N | 203 | R203R | agG | agA | 10 | 10 | B.1.311 | 0.002746 |
N | 203 | R203R | agG | agA | 10 | 10 | P.1.1 | 0.003177 |
N | 203 | R203R | agG | agA | 9 | 9 | B.1.177.83 | 0.013333 |
N | 203 | R203R | agG | agA | 8 | 8 | B.1.1.37 | 0.001543 |
N | 203 | R203R | agG | agA | 8 | 8 | B.1.564 | 0.003407 |
N | 203 | R203R | agG | agA | 8 | 8 | P.1.10 | 0.002156 |
N | 203 | R203R | agG | agA | 7 | 7 | B.1.177.7 | 0.001154 |
N | 203 | R203R | agG | agA | 7 | 7 | B.1.427 | 0.000353 |
N | 203 | R203R | agG | agA | 6 | 6 | A.21 | 0.01662 |
N | 203 | R203R | agG | agA | 6 | 6 | B.1.258 | 0.000399 |
N | 203 | R203R | agG | agA | 6 | 6 | C.37 | 0.000696 |
N | 203 | R203R | agG | agA | 5 | 5 | A.30 | 0.714286 |
N | 203 | R203R | agG | agA | 5 | 5 | B.1.1.311 | 0.001791 |
N | 203 | R203R | agG | agA | 5 | 5 | B.1.128 | 0.003177 |
N | 203 | R203R | agG | agA | 5 | 5 | B.1.206 | 0.004078 |
N | 203 | R203R | agG | agA | 5 | 5 | B.1.470 | 0.007022 |
N | 203 | R203R | agG | agA | 5 | 5 | B.3 | 0.004153 |
N | 203 | R203R | agG | agA | 4 | 4 | A | 0.001548 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.1.372 | 0.002755 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.1.39 | 0.002039 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.177.12 | 0.000607 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.234 | 0.000528 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.243 | 0.000278 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.247 | 0.059701 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.258.17 | 0.000416 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.284 | 0.052632 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.36.36 | 0.002408 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.378 | 0.027397 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.560 | 0.018519 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.623 | 0.002146 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.628 | 0.001409 |
N | 203 | R203R | agG | agA | 4 | 4 | B.1.637 | 0.000292 |
N | 203 | R203R | agG | agA | 3 | 3 | A.2.5 | 0.001497 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.1.434 | 0.001046 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.139 | 0.002199 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.177.86 | 0.00055 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.210 | 0.006397 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.351.3 | 0.002629 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.396 | 0.002117 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.420 | 0.03125 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.538 | 0.024194 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.558 | 0.013699 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.580 | 0.012195 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.612 | 0.007958 |
N | 203 | R203R | agG | agA | 3 | 3 | B.1.94 | 0.081081 |
N | 203 | R203R | agG | agA | 3 | 3 | B.6 | 0.00273 |
N | 203 | R203R | agG | agA | 3 | 3 | C.30 | 0.005181 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.1.128 | 0.014184 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.1.210 | 0.011429 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.1.258 | 0.006515 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.1.269 | 0.002706 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.1.318 | 0.000604 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.1.440 | 0.023529 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.1.526 | 0.007092 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.1.61 | 0.017544 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.149 | 0.006849 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.177.56 | 0.001335 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.179 | 0.007519 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.201 | 0.011364 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.214 | 0.007326 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.349 | 0.00143 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.438.1 | 0.000215 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.465 | 0.007605 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.581 | 0.018868 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.620 | 0.001892 |
N | 203 | R203R | agG | agA | 2 | 2 | B.1.627 | 0.00404 |
N | 203 | R203R | agG | agA | 2 | 2 | B.40 | 0.000729 |
N | 203 | R203R | agG | agA | 2 | 2 | C.37.1 | 0.005236 |
N | 203 | R203R | agG | agA | 2 | 2 | K.1 | 0.047619 |
N | 203 | R203R | agG | agA | 2 | 2 | P.1.14 | 0.000096 |
N | 203 | R203R | agG | agA | 1 | 1 | A.2 | 0.000662 |
N | 203 | R203R | agG | agA | 1 | 1 | A.2.5.2 | 0.001572 |
N | 203 | R203R | agG | agA | 1 | 1 | AA.1 | 0.007246 |
N | 203 | R203R | agG | agA | 1 | 1 | AD.2 | 0.000219 |
N | 203 | R203R | agG | agA | 1 | 1 | AN.1 | 0.02 |
N | 203 | R203R | agG | agA | 1 | 1 | AY.25 | 0.000006 |
N | 203 | R203R | agG | agA | 1 | 1 | AY.3.1 | 0.000085 |
N | 203 | R203R | agG | agA | 1 | 1 | AY.30 | 0.000396 |
N | 203 | R203R | agG | agA | 1 | 1 | AY.39.1 | 0.00004 |
N | 203 | R203R | agG | agA | 1 | 1 | AY.88 | 0.000884 |
N | 203 | R203R | agG | agA | 1 | 1 | AY.92 | 0.000287 |
N | 203 | R203R | agG | agA | 1 | 1 | AZ.2 | 0.000821 |
N | 203 | R203R | agG | agA | 1 | 1 | AZ.3 | 0.00152 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.10 | 0.001115 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.118 | 0.010204 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.123 | 0.017857 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.153 | 0.001095 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.189 | 0.001513 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.198 | 0.001468 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.201 | 0.02439 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.226 | 0.005814 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.231 | 0.003096 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.25 | 0.000569 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.277 | 0.000759 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.279 | 0.001121 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.306 | 0.000438 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.307 | 0.002532 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.315 | 0.008475 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.317 | 0.000412 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.353 | 0.020833 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.356 | 0.008547 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.369 | 0.000446 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.416 | 0.000905 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.432 | 0.001266 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.523 | 0.001563 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.528 | 0.004808 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.54 | 0.003021 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.1.82 | 0.038462 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.104 | 0.00369 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.110.2 | 0.166667 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.147 | 0.000756 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.160.14 | 0.002119 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.160.32 | 0.004292 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.170 | 0.00431 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.10 | 0.000878 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.17 | 0.000821 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.19 | 0.001431 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.31 | 0.011494 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.4 | 0.000211 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.52 | 0.001757 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.57 | 0.000281 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.58 | 0.001332 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.60 | 0.000218 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.63 | 0.002703 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.177.82 | 0.000477 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.187 | 0.033333 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.215 | 0.009615 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.223 | 0.002778 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.235 | 0.002519 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.236 | 0.002053 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.237 | 0.004975 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.240 | 0.000216 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.301 | 0.005917 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.326 | 0.007576 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.333 | 0.010526 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.336 | 0.002439 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.35 | 0.008475 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.351.2 | 0.000303 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.356 | 0.001727 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.36.10 | 0.004785 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.36.2 | 0.010753 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.36.39 | 0.002217 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.362 | 0.001541 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.367 | 0.000792 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.389 | 0.001002 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.393 | 0.028571 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.397 | 0.004854 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.404 | 0.001302 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.406 | 0.006061 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.413 | 0.004255 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.416 | 0.001269 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.416.1 | 0.001563 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.428 | 0.00102 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.468 | 0.005714 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.485 | 0.014925 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.517 | 0.000427 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.520 | 0.021739 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.524 | 0.001406 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.530 | 0.007143 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.540 | 0.009709 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.545 | 0.014493 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.557 | 0.05 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.565 | 0.00081 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.575 | 0.000303 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.578 | 0.017857 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.582 | 0.000491 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.600 | 0.005848 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.605 | 0.005952 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.606 | 0.006024 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.609 | 0.000479 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.617.3 | 0.002985 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.619 | 0.000871 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.634 | 0.003425 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.78 | 0.008547 |
N | 203 | R203R | agG | agA | 1 | 1 | B.1.93 | 0.000934 |
N | 203 | R203R | agG | agA | 1 | 1 | B.15 | 0.017544 |
N | 203 | R203R | agG | agA | 1 | 1 | B.29 | 0.003509 |
N | 203 | R203R | agG | agA | 1 | 1 | B.3.1 | 0.001658 |
N | 203 | R203R | agG | agA | 1 | 1 | B.52 | 0.010101 |
N | 203 | R203R | agG | agA | 1 | 1 | C.36 | 0.000911 |
N | 203 | R203R | agG | agA | 1 | 1 | C.36.3 | 0.000567 |
N | 203 | R203R | agG | agA | 1 | 1 | P.1.10.1 | 0.00813 |
N | 203 | R203R | agG | agA | 1 | 1 | P.1.7 | 0.000319 |
N | 203 | R203R | agG | agA | 1 | 1 | Q.1 | 0.000126 |
N | 203 | R203R | agG | agA | 1 | 1 | Q.3 | 0.000145 |
N | 203 | R203R | agG | agA | 1 | 1 | Y.1 | 0.012821 |
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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