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 |
ORF1ab/nsp7 | 56 | L56F | L3915F | nonsyn | Ctt | Ttt | 7374 | 7374 | 1 | 12008-12010 |
Details of the mutation L56F 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 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 7374 | 7374 | All | 0.00141 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 3911 | 3911 | AY.5 | 0.080759 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 977 | 977 | B.1.351 | 0.029043 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 727 | 727 | B.1.1.7 | 0.000651 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 295 | 295 | AY.9.1 | 0.024699 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 262 | 262 | P.4 | 0.996198 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 120 | 120 | AY.5.4 | 0.033204 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 108 | 108 | AY.4 | 0.000168 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 75 | 75 | B.1.617.2 | 0.000282 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 75 | 75 | P.1 | 0.001182 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 46 | 46 | B.1.243 | 0.003201 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 37 | 37 | AY.25 | 0.000223 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 37 | 37 | AY.62 | 0.016122 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 34 | 34 | B.1 | 0.000311 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 34 | 34 | B.1.639 | 0.73913 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 33 | 33 | B.1.1 | 0.000599 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 29 | 29 | B.1.1.317 | 0.011939 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 24 | 24 | AY.44 | 0.000146 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 24 | 24 | B.1.526 | 0.000564 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 23 | 23 | AY.40 | 0.022179 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 22 | 22 | AY.43 | 0.000097 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 20 | 20 | B.1.367 | 0.015848 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 20 | 20 | B.1.427 | 0.00101 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 17 | 17 | B.1.177 | 0.000224 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 16 | 16 | B.1.2 | 0.000141 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 16 | 16 | B.1.221 | 0.001137 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 15 | 15 | AY.103 | 0.000093 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 14 | 14 | AY.5.3 | 0.004723 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 14 | 14 | B.1.1.500 | 0.28 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 14 | 14 | B.1.165 | 0.166667 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 12 | 12 | B.1.1.519 | 0.000477 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 11 | 11 | AY.106 | 0.003684 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 10 | 10 | AY.23 | 0.000697 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 9 | 9 | AY.100 | 0.000414 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 9 | 9 | AY.119 | 0.000318 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 9 | 9 | AY.39 | 0.000222 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 9 | 9 | B.1.429 | 0.000212 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 9 | 9 | P.1.14 | 0.00043 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 8 | 8 | AY.29 | 0.000126 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 7 | 7 | AY.116 | 0.002007 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 7 | 7 | AY.61 | 0.000733 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 7 | 7 | B.1.1.1 | 0.002287 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 7 | 7 | B.1.160 | 0.000218 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 6 | 6 | AY.4.2 | 0.00013 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 6 | 6 | AY.75 | 0.000336 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 6 | 6 | B.1.177.57 | 0.001686 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 6 | 6 | Q.8 | 0.000989 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 5 | 5 | AY.20 | 0.000194 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 5 | 5 | AY.45 | 0.000608 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 5 | 5 | AY.59 | 0.002648 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 5 | 5 | AY.9.2 | 0.000184 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 5 | 5 | B.1.1.47 | 0.026738 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 5 | 5 | B.1.1.523 | 0.007812 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 5 | 5 | B.1.240 | 0.001078 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 5 | 5 | B.1.396 | 0.003529 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 4 | 4 | B.1.1.306 | 0.001754 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 4 | 4 | B.1.1.63 | 0.001543 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 4 | 4 | B.1.637 | 0.000292 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 4 | 4 | D.2 | 0.0003 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 4 | 4 | P.2 | 0.000747 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 3 | 3 | AY.102 | 0.00008 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 3 | 3 | AY.9 | 0.000203 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 3 | 3 | AY.93 | 0.000819 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 3 | 3 | B.1.234 | 0.000396 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 3 | 3 | B.1.258 | 0.0002 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 3 | 3 | B.1.621 | 0.000266 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 3 | 3 | C.37 | 0.000348 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.111 | 0.000366 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.13 | 0.000322 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.3 | 0.00002 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.37 | 0.000632 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.46.4 | 0.000329 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.51 | 0.001818 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.54 | 0.000191 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.70 | 0.000417 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.98 | 0.000158 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | AY.99 | 0.002099 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | B.1.1.222 | 0.000408 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | B.1.177.87 | 0.001456 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | B.1.260 | 0.006689 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | B.1.332 | 0.006993 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | B.1.425 | 0.005988 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 2 | 2 | B.1.466.2 | 0.000782 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | A.19 | 0.009434 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.23.1 | 0.000417 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.29.1 | 0.000221 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.4.1 | 0.000737 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.4.4 | 0.000409 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.50 | 0.000799 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.81 | 0.001992 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.87 | 0.000833 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B | 0.000128 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.174 | 0.003378 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.186 | 0.003436 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.216 | 0.00089 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.217 | 0.003636 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.258 | 0.003257 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.265 | 0.003155 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.289 | 0.002083 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.298 | 0.000862 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.316 | 0.000925 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.347 | 0.018182 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.389 | 0.006061 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.396 | 0.045455 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.398 | 0.003226 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.525 | 0.005464 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.1.528 | 0.004808 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.128 | 0.000635 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.145 | 0.052632 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.177.32 | 0.00135 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.177.45 | 0.000381 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.177.60 | 0.000218 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.206 | 0.000816 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.382 | 0.008929 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.413 | 0.004255 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.438.1 | 0.000107 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.468 | 0.005714 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.470 | 0.001404 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.480 | 0.002488 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.524 | 0.001406 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.560 | 0.00463 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.561 | 0.000397 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.565 | 0.00081 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.582 | 0.000491 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.1.629 | 0.013333 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | P.1.10.1 | 0.00813 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | P.1.7 | 0.000319 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | Q.3 | 0.000145 |
ORF1ab/nsp7 | 56 | L56F | Ctt | Ttt | 1 | 1 | R.1 | 0.00009 |
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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