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 | 13 | S13I | nonsyn | aGt | aTt | 62027 | 62027 | 1 | 21599-21601 |
Details of the mutation S13I 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 | 13 | S13I | aGt | aTt | 62027 | 62027 | All | 0.011863 |
S | 13 | S13I | aGt | aTt | 40895 | 40895 | B.1.429 | 0.962213 |
S | 13 | S13I | aGt | aTt | 18934 | 18934 | B.1.427 | 0.956118 |
S | 13 | S13I | aGt | aTt | 700 | 700 | B.1 | 0.006412 |
S | 13 | S13I | aGt | aTt | 427 | 427 | B.1.1.7 | 0.000382 |
S | 13 | S13I | aGt | aTt | 119 | 119 | B.1.2 | 0.001048 |
S | 13 | S13I | aGt | aTt | 83 | 83 | B.1.429.1 | 1 |
S | 13 | S13I | aGt | aTt | 68 | 68 | AY.4 | 0.000106 |
S | 13 | S13I | aGt | aTt | 55 | 55 | B.1.1 | 0.000998 |
S | 13 | S13I | aGt | aTt | 46 | 46 | A.2.5 | 0.022954 |
S | 13 | S13I | aGt | aTt | 44 | 44 | AY.43 | 0.000195 |
S | 13 | S13I | aGt | aTt | 30 | 30 | B.1.1.220 | 0.055762 |
S | 13 | S13I | aGt | aTt | 28 | 28 | B.1.617.2 | 0.000105 |
S | 13 | S13I | aGt | aTt | 27 | 27 | B.1.596 | 0.002353 |
S | 13 | S13I | aGt | aTt | 26 | 26 | C.36.3 | 0.014748 |
S | 13 | S13I | aGt | aTt | 21 | 21 | B.1.367 | 0.01664 |
S | 13 | S13I | aGt | aTt | 20 | 20 | B.1.108 | 0.116279 |
S | 13 | S13I | aGt | aTt | 18 | 18 | AY.103 | 0.000112 |
S | 13 | S13I | aGt | aTt | 18 | 18 | AY.44 | 0.00011 |
S | 13 | S13I | aGt | aTt | 17 | 17 | B.1.595 | 0.004436 |
S | 13 | S13I | aGt | aTt | 16 | 16 | B.1.1.519 | 0.000635 |
S | 13 | S13I | aGt | aTt | 15 | 15 | B.1.311 | 0.004119 |
S | 13 | S13I | aGt | aTt | 13 | 13 | B.1.177 | 0.000171 |
S | 13 | S13I | aGt | aTt | 13 | 13 | B.1.575.1 | 0.031707 |
S | 13 | S13I | aGt | aTt | 12 | 12 | AY.25 | 0.000072 |
S | 13 | S13I | aGt | aTt | 12 | 12 | AY.3 | 0.000119 |
S | 13 | S13I | aGt | aTt | 12 | 12 | B.1.618 | 0.048387 |
S | 13 | S13I | aGt | aTt | 11 | 11 | B.1.336 | 0.026829 |
S | 13 | S13I | aGt | aTt | 11 | 11 | B.1.525 | 0.001245 |
S | 13 | S13I | aGt | aTt | 9 | 9 | B.1.1.416 | 0.008145 |
S | 13 | S13I | aGt | aTt | 9 | 9 | B.1.561 | 0.003573 |
S | 13 | S13I | aGt | aTt | 6 | 6 | AY.113 | 0.000854 |
S | 13 | S13I | aGt | aTt | 6 | 6 | B.1.1.369 | 0.002677 |
S | 13 | S13I | aGt | aTt | 6 | 6 | B.1.239 | 0.007326 |
S | 13 | S13I | aGt | aTt | 6 | 6 | B.1.258 | 0.000399 |
S | 13 | S13I | aGt | aTt | 6 | 6 | B.1.526 | 0.000141 |
S | 13 | S13I | aGt | aTt | 6 | 6 | B.1.609 | 0.002876 |
S | 13 | S13I | aGt | aTt | 6 | 6 | B.1.621.1 | 0.003035 |
S | 13 | S13I | aGt | aTt | 6 | 6 | B.1.623 | 0.003219 |
S | 13 | S13I | aGt | aTt | 5 | 5 | AY.5 | 0.000103 |
S | 13 | S13I | aGt | aTt | 5 | 5 | B | 0.000639 |
S | 13 | S13I | aGt | aTt | 5 | 5 | B.1.1.214 | 0.000277 |
S | 13 | S13I | aGt | aTt | 5 | 5 | B.1.1.335 | 0.064935 |
S | 13 | S13I | aGt | aTt | 5 | 5 | B.1.177.12 | 0.000758 |
S | 13 | S13I | aGt | aTt | 5 | 5 | B.1.351 | 0.000149 |
S | 13 | S13I | aGt | aTt | 4 | 4 | AY.4.2 | 0.000087 |
S | 13 | S13I | aGt | aTt | 4 | 4 | AY.6 | 0.000165 |
S | 13 | S13I | aGt | aTt | 4 | 4 | AY.67 | 0.001857 |
S | 13 | S13I | aGt | aTt | 4 | 4 | AY.71 | 0.0019 |
S | 13 | S13I | aGt | aTt | 4 | 4 | B.1.1.25 | 0.002274 |
S | 13 | S13I | aGt | aTt | 4 | 4 | B.1.324 | 0.006421 |
S | 13 | S13I | aGt | aTt | 4 | 4 | B.1.94 | 0.108108 |
S | 13 | S13I | aGt | aTt | 4 | 4 | C.35 | 0.003096 |
S | 13 | S13I | aGt | aTt | 4 | 4 | D.2 | 0.0003 |
S | 13 | S13I | aGt | aTt | 4 | 4 | P.1 | 0.000063 |
S | 13 | S13I | aGt | aTt | 4 | 4 | P.2 | 0.000747 |
S | 13 | S13I | aGt | aTt | 3 | 3 | AY.102 | 0.00008 |
S | 13 | S13I | aGt | aTt | 3 | 3 | AY.117 | 0.000254 |
S | 13 | S13I | aGt | aTt | 3 | 3 | AY.118 | 0.000188 |
S | 13 | S13I | aGt | aTt | 3 | 3 | AY.68 | 0.000821 |
S | 13 | S13I | aGt | aTt | 3 | 3 | AY.75 | 0.000168 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.1.1 | 0.00098 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.1.192 | 0.006928 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.1.269 | 0.00406 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.232 | 0.001612 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.241 | 0.002435 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.320 | 0.003736 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.580 | 0.012195 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.587 | 0.005693 |
S | 13 | S13I | aGt | aTt | 3 | 3 | B.1.621 | 0.000266 |
S | 13 | S13I | aGt | aTt | 3 | 3 | C.37 | 0.000348 |
S | 13 | S13I | aGt | aTt | 3 | 3 | P.1.1 | 0.000953 |
S | 13 | S13I | aGt | aTt | 3 | 3 | R.1 | 0.00027 |
S | 13 | S13I | aGt | aTt | 2 | 2 | 0.111111 | |
S | 13 | S13I | aGt | aTt | 2 | 2 | A.2.5.2 | 0.003145 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.120 | 0.000074 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.20 | 0.000078 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.23 | 0.000139 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.26 | 0.000057 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.33 | 0.000134 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.34 | 0.000194 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.39 | 0.000049 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.39.1 | 0.000079 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.42 | 0.00008 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.46.6 | 0.000144 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.47 | 0.000062 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.53 | 0.000575 |
S | 13 | S13I | aGt | aTt | 2 | 2 | AY.7.1 | 0.000225 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.1.118 | 0.020408 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.1.229 | 0.011494 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.1.318 | 0.000604 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.1.507 | 0.017391 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.157 | 0.00597 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.177.73 | 0.001133 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.234 | 0.000264 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.243 | 0.000139 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.281 | 0.043478 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.369 | 0.00057 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.375 | 0.001639 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.466.2 | 0.000782 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.517 | 0.000854 |
S | 13 | S13I | aGt | aTt | 2 | 2 | B.1.564 | 0.000852 |
S | 13 | S13I | aGt | aTt | 2 | 2 | P.1.10 | 0.000539 |
S | 13 | S13I | aGt | aTt | 2 | 2 | Q.8 | 0.00033 |
S | 13 | S13I | aGt | aTt | 1 | 1 | A.2 | 0.000662 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.100 | 0.000046 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.121 | 0.000135 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.13 | 0.000161 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.3.1 | 0.000085 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.37 | 0.000316 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.4.5 | 0.000107 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.46 | 0.000104 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.51 | 0.000909 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.52 | 0.000814 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.66 | 0.00107 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.82 | 0.001357 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.9 | 0.000068 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.9.2 | 0.000037 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.92 | 0.000287 |
S | 13 | S13I | aGt | aTt | 1 | 1 | AY.98 | 0.000079 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.128 | 0.007092 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.153 | 0.001095 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.217 | 0.003636 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.222 | 0.000204 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.263 | 0.001558 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.27 | 0.00565 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.28 | 0.000311 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.294 | 0.001266 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.306 | 0.000438 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.340 | 0.045455 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.39 | 0.00051 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.400 | 0.05 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.409 | 0.002833 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.412 | 0.007634 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.432 | 0.001266 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.464 | 0.001473 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.1.517 | 0.006803 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.119 | 0.010526 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.12 | 0.008 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.139 | 0.000733 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.140 | 0.018868 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.147 | 0.000756 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.23 | 0.003236 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.24 | 0.001295 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.40 | 0.005155 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.41 | 0.0025 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.46 | 0.000918 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.56 | 0.000668 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.7 | 0.000165 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.76 | 0.002494 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.177.83 | 0.001481 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.190 | 0.01 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.221 | 0.000071 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.240 | 0.000216 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.258.3 | 0.001675 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.280 | 0.007143 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.343 | 0.020833 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.344 | 0.008197 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.350 | 0.002933 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.351.3 | 0.000876 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.351.5 | 0.0006 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.354 | 0.043478 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.356 | 0.001727 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.366 | 0.004878 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.400 | 0.000429 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.404 | 0.001302 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.438.1 | 0.000107 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.441 | 0.009615 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.451 | 0.008197 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.468 | 0.005714 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.470 | 0.001404 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.497 | 0.000315 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.510 | 0.026316 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.540 | 0.009709 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.575 | 0.000303 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.576 | 0.000907 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.590 | 0.004545 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.603 | 0.010638 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.633 | 0.041667 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.637 | 0.000073 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.1.9.2 | 0.1 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.3 | 0.000831 |
S | 13 | S13I | aGt | aTt | 1 | 1 | B.4.1 | 0.018868 |
S | 13 | S13I | aGt | aTt | 1 | 1 | C.1 | 0.002392 |
S | 13 | S13I | aGt | aTt | 1 | 1 | P.1.6 | 0.001946 |
S | 13 | S13I | aGt | aTt | 1 | 1 | P.3 | 0.001595 |
S | 13 | S13I | aGt | aTt | 1 | 1 | W.1 | 0.008696 |
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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