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 | 244 | L244del | del | TTA | --- | 3081 | 3081 | 1 | 22292-22294 |
Details of the mutation L244del 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 | 244 | L244del | TTA | --- | 3081 | 3081 | All | 0.000589 |
S | 244 | L244del | TTA | --- | 409 | 409 | B.1.1.7 | 0.000366 |
S | 244 | L244del | TTA | --- | 351 | 351 | P.3 | 0.559809 |
S | 244 | L244del | TTA | --- | 313 | 313 | AY.3 | 0.003113 |
S | 244 | L244del | TTA | --- | 218 | 218 | C.1.2 | 0.92766 |
S | 244 | L244del | TTA | --- | 176 | 176 | B.1.630 | 0.921466 |
S | 244 | L244del | TTA | --- | 169 | 169 | AY.4 | 0.000263 |
S | 244 | L244del | TTA | --- | 139 | 139 | B.1.617.2 | 0.000523 |
S | 244 | L244del | TTA | --- | 77 | 77 | AY.4.2 | 0.00167 |
S | 244 | L244del | TTA | --- | 72 | 72 | AY.44 | 0.000438 |
S | 244 | L244del | TTA | --- | 59 | 59 | B.1 | 0.00054 |
S | 244 | L244del | TTA | --- | 58 | 58 | AY.43 | 0.000257 |
S | 244 | L244del | TTA | --- | 55 | 55 | B.1.351 | 0.001635 |
S | 244 | L244del | TTA | --- | 51 | 51 | AY.25 | 0.000307 |
S | 244 | L244del | TTA | --- | 46 | 46 | AY.120 | 0.00171 |
S | 244 | L244del | TTA | --- | 46 | 46 | B.1.1 | 0.000834 |
S | 244 | L244del | TTA | --- | 44 | 44 | AY.103 | 0.000273 |
S | 244 | L244del | TTA | --- | 37 | 37 | B.1.427 | 0.001868 |
S | 244 | L244del | TTA | --- | 37 | 37 | P.1 | 0.000583 |
S | 244 | L244del | TTA | --- | 31 | 31 | AY.29 | 0.000489 |
S | 244 | L244del | TTA | --- | 25 | 25 | B.1.2 | 0.00022 |
S | 244 | L244del | TTA | --- | 24 | 24 | B.1.177 | 0.000316 |
S | 244 | L244del | TTA | --- | 22 | 22 | C.40 | 0.611111 |
S | 244 | L244del | TTA | --- | 20 | 20 | B.1.351.3 | 0.017528 |
S | 244 | L244del | TTA | --- | 19 | 19 | AY.69 | 0.003547 |
S | 244 | L244del | TTA | --- | 18 | 18 | AY.36 | 0.002668 |
S | 244 | L244del | TTA | --- | 18 | 18 | C.36.3.1 | 0.048913 |
S | 244 | L244del | TTA | --- | 14 | 14 | AY.102 | 0.000371 |
S | 244 | L244del | TTA | --- | 14 | 14 | B.1.526 | 0.000329 |
S | 244 | L244del | TTA | --- | 13 | 13 | B.1.1.297 | 0.029083 |
S | 244 | L244del | TTA | --- | 13 | 13 | B.1.214.2 | 0.007794 |
S | 244 | L244del | TTA | --- | 12 | 12 | AY.20 | 0.000466 |
S | 244 | L244del | TTA | --- | 12 | 12 | AY.39 | 0.000297 |
S | 244 | L244del | TTA | --- | 12 | 12 | AY.46 | 0.001249 |
S | 244 | L244del | TTA | --- | 12 | 12 | AY.47 | 0.000373 |
S | 244 | L244del | TTA | --- | 12 | 12 | B.1.160 | 0.000374 |
S | 244 | L244del | TTA | --- | 12 | 12 | C.37 | 0.001393 |
S | 244 | L244del | TTA | --- | 10 | 10 | B.1.525 | 0.001132 |
S | 244 | L244del | TTA | --- | 10 | 10 | B.1.637 | 0.000731 |
S | 244 | L244del | TTA | --- | 10 | 10 | P.1.15 | 0.002323 |
S | 244 | L244del | TTA | --- | 9 | 9 | AY.119 | 0.000318 |
S | 244 | L244del | TTA | --- | 9 | 9 | AY.9.2 | 0.000331 |
S | 244 | L244del | TTA | --- | 8 | 8 | AY.3.1 | 0.000682 |
S | 244 | L244del | TTA | --- | 8 | 8 | AY.99.2 | 0.000737 |
S | 244 | L244del | TTA | --- | 8 | 8 | B.1.429 | 0.000188 |
S | 244 | L244del | TTA | --- | 8 | 8 | B.1.596 | 0.000697 |
S | 244 | L244del | TTA | --- | 8 | 8 | P.1.4 | 0.007812 |
S | 244 | L244del | TTA | --- | 7 | 7 | AY.100 | 0.000322 |
S | 244 | L244del | TTA | --- | 7 | 7 | AY.65 | 0.003731 |
S | 244 | L244del | TTA | --- | 7 | 7 | B.1.369 | 0.001997 |
S | 244 | L244del | TTA | --- | 6 | 6 | AY.34 | 0.000582 |
S | 244 | L244del | TTA | --- | 6 | 6 | AY.45 | 0.00073 |
S | 244 | L244del | TTA | --- | 6 | 6 | AY.5 | 0.000124 |
S | 244 | L244del | TTA | --- | 6 | 6 | AY.61 | 0.000629 |
S | 244 | L244del | TTA | --- | 6 | 6 | B.1.621 | 0.000531 |
S | 244 | L244del | TTA | --- | 5 | 5 | AY.101 | 0.002452 |
S | 244 | L244del | TTA | --- | 5 | 5 | AY.33 | 0.000334 |
S | 244 | L244del | TTA | --- | 5 | 5 | AY.46.4 | 0.000823 |
S | 244 | L244del | TTA | --- | 5 | 5 | AY.74 | 0.000578 |
S | 244 | L244del | TTA | --- | 5 | 5 | B.1.1.519 | 0.000199 |
S | 244 | L244del | TTA | --- | 5 | 5 | P.5 | 0.068493 |
S | 244 | L244del | TTA | --- | 5 | 5 | Q.1 | 0.000632 |
S | 244 | L244del | TTA | --- | 4 | 4 | AY.113 | 0.00057 |
S | 244 | L244del | TTA | --- | 4 | 4 | AY.26 | 0.000113 |
S | 244 | L244del | TTA | --- | 4 | 4 | AY.9.1 | 0.000335 |
S | 244 | L244del | TTA | --- | 4 | 4 | AY.95 | 0.003044 |
S | 244 | L244del | TTA | --- | 4 | 4 | B.1.409 | 0.003125 |
S | 244 | L244del | TTA | --- | 4 | 4 | D.2 | 0.0003 |
S | 244 | L244del | TTA | --- | 4 | 4 | P.1.1 | 0.001271 |
S | 244 | L244del | TTA | --- | 4 | 4 | R.1 | 0.00036 |
S | 244 | L244del | TTA | --- | 3 | 3 | AY.27 | 0.000194 |
S | 244 | L244del | TTA | --- | 3 | 3 | AY.32 | 0.001597 |
S | 244 | L244del | TTA | --- | 3 | 3 | AY.38 | 0.001498 |
S | 244 | L244del | TTA | --- | 3 | 3 | AY.4.5 | 0.000322 |
S | 244 | L244del | TTA | --- | 3 | 3 | AY.5.3 | 0.001012 |
S | 244 | L244del | TTA | --- | 3 | 3 | AY.54 | 0.000286 |
S | 244 | L244del | TTA | --- | 3 | 3 | B | 0.000383 |
S | 244 | L244del | TTA | --- | 3 | 3 | B.1.1.294 | 0.003797 |
S | 244 | L244del | TTA | --- | 3 | 3 | B.1.1.50 | 0.002037 |
S | 244 | L244del | TTA | --- | 3 | 3 | B.1.177.60 | 0.000655 |
S | 244 | L244del | TTA | --- | 3 | 3 | B.1.177.86 | 0.00055 |
S | 244 | L244del | TTA | --- | 3 | 3 | B.1.221 | 0.000213 |
S | 244 | L244del | TTA | --- | 3 | 3 | B.1.258 | 0.0002 |
S | 244 | L244del | TTA | --- | 3 | 3 | B.1.36 | 0.000438 |
S | 244 | L244del | TTA | --- | 3 | 3 | B.1.433 | 0.009585 |
S | 244 | L244del | TTA | --- | 3 | 3 | Q.2 | 0.00184 |
S | 244 | L244del | TTA | --- | 3 | 3 | Q.8 | 0.000495 |
S | 244 | L244del | TTA | --- | 2 | 2 | 0.111111 | |
S | 244 | L244del | TTA | --- | 2 | 2 | A | 0.000774 |
S | 244 | L244del | TTA | --- | 2 | 2 | AB.1 | 0.016393 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.118 | 0.000125 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.13 | 0.000322 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.37 | 0.000632 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.4.4 | 0.000818 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.42 | 0.00008 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.46.6 | 0.000144 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.5.4 | 0.000553 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.6 | 0.000082 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.7 | 0.000392 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.75 | 0.000112 |
S | 244 | L244del | TTA | --- | 2 | 2 | AY.92 | 0.000575 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.1.318 | 0.000604 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.1.432 | 0.002532 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.1.464 | 0.002946 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.1.524 | 0.041667 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.1.95 | 0.039216 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.177.12 | 0.000303 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.177.16 | 0.001329 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.177.81 | 0.000379 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.332 | 0.006993 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.404 | 0.002604 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.416 | 0.002538 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.568 | 0.002222 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.595 | 0.000522 |
S | 244 | L244del | TTA | --- | 2 | 2 | B.1.619 | 0.001742 |
S | 244 | L244del | TTA | --- | 2 | 2 | P.1.14 | 0.000096 |
S | 244 | L244del | TTA | --- | 2 | 2 | P.1.16 | 0.000748 |
S | 244 | L244del | TTA | --- | 2 | 2 | P.4 | 0.007605 |
S | 244 | L244del | TTA | --- | 2 | 2 | Q.3 | 0.00029 |
S | 244 | L244del | TTA | --- | 2 | 2 | Q.4 | 0.00091 |
S | 244 | L244del | TTA | --- | 1 | 1 | A.2 | 0.000662 |
S | 244 | L244del | TTA | --- | 1 | 1 | A.2.5 | 0.000499 |
S | 244 | L244del | TTA | --- | 1 | 1 | A.23.1 | 0.000704 |
S | 244 | L244del | TTA | --- | 1 | 1 | A.3 | 0.002096 |
S | 244 | L244del | TTA | --- | 1 | 1 | AA.1 | 0.007246 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.111 | 0.000183 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.116 | 0.000287 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.117 | 0.000085 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.120.2 | 0.001285 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.16 | 0.00038 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.23 | 0.00007 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.29.1 | 0.000221 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.30 | 0.000396 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.35 | 0.000233 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.64 | 0.000595 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.67 | 0.000464 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.70 | 0.000209 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.75.1 | 0.00018 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.82 | 0.001357 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.84 | 0.000437 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.88 | 0.000884 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.90 | 0.000684 |
S | 244 | L244del | TTA | --- | 1 | 1 | AY.98 | 0.000079 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.1 | 0.000327 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.153 | 0.001095 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.159 | 0.004673 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.165 | 0.015385 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.214 | 0.000055 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.277 | 0.000759 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.28 | 0.000311 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.280 | 0.003086 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.298 | 0.000862 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.306 | 0.000438 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.311 | 0.000358 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.322 | 0.008772 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.33 | 0.000421 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.352 | 0.03125 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.368 | 0.003086 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.37 | 0.000193 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.374 | 0.002375 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.389 | 0.006061 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.39 | 0.00051 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.402 | 0.011111 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.420 | 0.001006 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.44 | 0.00241 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.526 | 0.003546 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.1.53 | 0.013699 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.147 | 0.000756 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.160.29 | 0.004219 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.177.17 | 0.000821 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.177.21 | 0.000076 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.177.24 | 0.001295 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.177.69 | 0.001484 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.177.7 | 0.000165 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.177.87 | 0.000728 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.213 | 0.014925 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.220 | 0.01087 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.234 | 0.000132 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.237 | 0.004975 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.241 | 0.000812 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.243 | 0.00007 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.258.14 | 0.00098 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.258.17 | 0.000104 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.36.17 | 0.000494 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.389 | 0.001002 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.400 | 0.000429 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.424 | 0.008065 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.439 | 0.005917 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.445 | 0.011765 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.453 | 0.003236 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.466.2 | 0.000391 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.468 | 0.005714 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.470 | 0.001404 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.499 | 0.00105 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.517 | 0.000427 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.524 | 0.001406 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.551 | 0.00129 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.561 | 0.000397 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.576 | 0.000907 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.589 | 0.007576 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.596.1 | 0.009346 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.599 | 0.00365 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.604 | 0.017241 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.606 | 0.006024 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.617.1 | 0.000129 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.620 | 0.000946 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.1.621.1 | 0.000506 |
S | 244 | L244del | TTA | --- | 1 | 1 | B.40 | 0.000364 |
S | 244 | L244del | TTA | --- | 1 | 1 | C.1 | 0.002392 |
S | 244 | L244del | TTA | --- | 1 | 1 | C.16 | 0.00106 |
S | 244 | L244del | TTA | --- | 1 | 1 | C.30 | 0.001727 |
S | 244 | L244del | TTA | --- | 1 | 1 | C.35 | 0.000774 |
S | 244 | L244del | TTA | --- | 1 | 1 | C.4 | 0.01 |
S | 244 | L244del | TTA | --- | 1 | 1 | N.5 | 0.001767 |
S | 244 | L244del | TTA | --- | 1 | 1 | P.1.2 | 0.001156 |
S | 244 | L244del | TTA | --- | 1 | 1 | P.1.6 | 0.001946 |
S | 244 | L244del | TTA | --- | 1 | 1 | P.2 | 0.000187 |
S | 244 | L244del | TTA | --- | 1 | 1 | Q.7 | 0.001111 |
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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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