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 |
M | 17 | L17F | nonsyn | Ctt | Ttt | 2936 | 2936 | 1 | 26571-26573 |
Details of the mutation L17F 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 |
M | 17 | L17F | Ctt | Ttt | 2936 | 2936 | All | 0.000562 |
M | 17 | L17F | Ctt | Ttt | 586 | 586 | B.1.429 | 0.013788 |
M | 17 | L17F | Ctt | Ttt | 496 | 496 | B.1.1.7 | 0.000444 |
M | 17 | L17F | Ctt | Ttt | 255 | 255 | AY.9.2 | 0.009366 |
M | 17 | L17F | Ctt | Ttt | 135 | 135 | AY.103 | 0.000838 |
M | 17 | L17F | Ctt | Ttt | 126 | 126 | AY.4 | 0.000196 |
M | 17 | L17F | Ctt | Ttt | 102 | 102 | B.1.177 | 0.001343 |
M | 17 | L17F | Ctt | Ttt | 93 | 93 | B.1.617.2 | 0.00035 |
M | 17 | L17F | Ctt | Ttt | 92 | 92 | B.1.2 | 0.00081 |
M | 17 | L17F | Ctt | Ttt | 68 | 68 | D.2 | 0.005103 |
M | 17 | L17F | Ctt | Ttt | 51 | 51 | B.1 | 0.000467 |
M | 17 | L17F | Ctt | Ttt | 49 | 49 | AY.5 | 0.001012 |
M | 17 | L17F | Ctt | Ttt | 46 | 46 | B.1.460 | 0.821429 |
M | 17 | L17F | Ctt | Ttt | 45 | 45 | AY.44 | 0.000274 |
M | 17 | L17F | Ctt | Ttt | 44 | 44 | P.1 | 0.000693 |
M | 17 | L17F | Ctt | Ttt | 38 | 38 | AY.3 | 0.000378 |
M | 17 | L17F | Ctt | Ttt | 31 | 31 | AY.43 | 0.000137 |
M | 17 | L17F | Ctt | Ttt | 30 | 30 | AY.25 | 0.00018 |
M | 17 | L17F | Ctt | Ttt | 23 | 23 | AY.100 | 0.001058 |
M | 17 | L17F | Ctt | Ttt | 21 | 21 | B.1.621 | 0.001859 |
M | 17 | L17F | Ctt | Ttt | 18 | 18 | AY.47 | 0.00056 |
M | 17 | L17F | Ctt | Ttt | 17 | 17 | B.1.351 | 0.000505 |
M | 17 | L17F | Ctt | Ttt | 16 | 16 | B.1.1.284 | 0.001718 |
M | 17 | L17F | Ctt | Ttt | 16 | 16 | B.1.1.316 | 0.014801 |
M | 17 | L17F | Ctt | Ttt | 15 | 15 | AY.29 | 0.000237 |
M | 17 | L17F | Ctt | Ttt | 14 | 14 | B.1.1.432 | 0.017722 |
M | 17 | L17F | Ctt | Ttt | 14 | 14 | B.1.240 | 0.003018 |
M | 17 | L17F | Ctt | Ttt | 13 | 13 | B.1.427 | 0.000656 |
M | 17 | L17F | Ctt | Ttt | 13 | 13 | B.1.637 | 0.00095 |
M | 17 | L17F | Ctt | Ttt | 12 | 12 | AY.27 | 0.000777 |
M | 17 | L17F | Ctt | Ttt | 12 | 12 | B.1.526 | 0.000282 |
M | 17 | L17F | Ctt | Ttt | 12 | 12 | B.1.619 | 0.010453 |
M | 17 | L17F | Ctt | Ttt | 12 | 12 | P.1.14 | 0.000574 |
M | 17 | L17F | Ctt | Ttt | 10 | 10 | AY.26 | 0.000283 |
M | 17 | L17F | Ctt | Ttt | 10 | 10 | B.1.1 | 0.000181 |
M | 17 | L17F | Ctt | Ttt | 10 | 10 | B.1.1.214 | 0.000555 |
M | 17 | L17F | Ctt | Ttt | 10 | 10 | B.1.160 | 0.000312 |
M | 17 | L17F | Ctt | Ttt | 10 | 10 | B.1.36.31 | 0.017513 |
M | 17 | L17F | Ctt | Ttt | 10 | 10 | R.1 | 0.0009 |
M | 17 | L17F | Ctt | Ttt | 9 | 9 | AY.102 | 0.000239 |
M | 17 | L17F | Ctt | Ttt | 9 | 9 | AY.34 | 0.000873 |
M | 17 | L17F | Ctt | Ttt | 9 | 9 | AY.39 | 0.000222 |
M | 17 | L17F | Ctt | Ttt | 9 | 9 | B.1.1.28 | 0.002801 |
M | 17 | L17F | Ctt | Ttt | 9 | 9 | B.1.221 | 0.000639 |
M | 17 | L17F | Ctt | Ttt | 9 | 9 | C.37 | 0.001045 |
M | 17 | L17F | Ctt | Ttt | 8 | 8 | B.1.1.519 | 0.000318 |
M | 17 | L17F | Ctt | Ttt | 8 | 8 | B.1.258 | 0.000532 |
M | 17 | L17F | Ctt | Ttt | 8 | 8 | Q.8 | 0.001319 |
M | 17 | L17F | Ctt | Ttt | 7 | 7 | AY.4.2 | 0.000152 |
M | 17 | L17F | Ctt | Ttt | 7 | 7 | B.1.177.86 | 0.001284 |
M | 17 | L17F | Ctt | Ttt | 7 | 7 | Q.1 | 0.000884 |
M | 17 | L17F | Ctt | Ttt | 6 | 6 | AY.74 | 0.000694 |
M | 17 | L17F | Ctt | Ttt | 6 | 6 | AY.75 | 0.000336 |
M | 17 | L17F | Ctt | Ttt | 6 | 6 | B.1.1.280 | 0.018519 |
M | 17 | L17F | Ctt | Ttt | 6 | 6 | B.1.146 | 0.025424 |
M | 17 | L17F | Ctt | Ttt | 6 | 6 | B.1.177.4 | 0.001266 |
M | 17 | L17F | Ctt | Ttt | 6 | 6 | B.1.243 | 0.000418 |
M | 17 | L17F | Ctt | Ttt | 6 | 6 | B.1.36 | 0.000875 |
M | 17 | L17F | Ctt | Ttt | 5 | 5 | AY.46.5 | 0.000992 |
M | 17 | L17F | Ctt | Ttt | 5 | 5 | AY.6 | 0.000206 |
M | 17 | L17F | Ctt | Ttt | 5 | 5 | AY.98.1 | 0.000242 |
M | 17 | L17F | Ctt | Ttt | 5 | 5 | B.1.1.25 | 0.002843 |
M | 17 | L17F | Ctt | Ttt | 5 | 5 | B.1.234 | 0.00066 |
M | 17 | L17F | Ctt | Ttt | 5 | 5 | B.1.582 | 0.002453 |
M | 17 | L17F | Ctt | Ttt | 5 | 5 | P.1.17 | 0.000809 |
M | 17 | L17F | Ctt | Ttt | 4 | 4 | AY.116 | 0.001147 |
M | 17 | L17F | Ctt | Ttt | 4 | 4 | AY.20 | 0.000155 |
M | 17 | L17F | Ctt | Ttt | 4 | 4 | B.1.108 | 0.023256 |
M | 17 | L17F | Ctt | Ttt | 4 | 4 | B.1.177.12 | 0.000607 |
M | 17 | L17F | Ctt | Ttt | 4 | 4 | B.1.337 | 0.022346 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | A.2.5 | 0.001497 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | AY.110 | 0.000338 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | AY.23 | 0.000209 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | AY.29.1 | 0.000662 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | AY.39.1 | 0.000119 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | AY.46.6 | 0.000217 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | AY.54 | 0.000286 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | AY.99.2 | 0.000276 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | B.1.1.370 | 0.037975 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | B.1.1.382 | 0.107143 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | B.1.258.17 | 0.000312 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | B.1.36.27 | 0.00229 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | B.1.363 | 0.038961 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | B.1.438.1 | 0.000322 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | B.1.595 | 0.000783 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | P.1.10 | 0.000808 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | P.1.7 | 0.000958 |
M | 17 | L17F | Ctt | Ttt | 3 | 3 | P.7 | 0.0131 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.105 | 0.001286 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.106 | 0.00067 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.113 | 0.000285 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.119 | 0.000071 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.16 | 0.000759 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.35 | 0.000466 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.4.5 | 0.000215 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.5.3 | 0.000675 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | AY.5.4 | 0.000553 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.1.301 | 0.002358 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.1.448 | 0.004065 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.1.486 | 0.003155 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.177.10 | 0.001756 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.36.8 | 0.002 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.524 | 0.002813 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.561 | 0.000794 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.577 | 0.001375 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | B.1.596 | 0.000174 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | C.1 | 0.004785 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | C.35 | 0.001548 |
M | 17 | L17F | Ctt | Ttt | 2 | 2 | P.1.15 | 0.000465 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | A | 0.000387 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | A.2.4 | 0.003367 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AD.2 | 0.000219 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AE.1 | 0.011364 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.104 | 0.001984 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.111 | 0.000183 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.114 | 0.000231 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.118 | 0.000063 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.14 | 0.000088 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.2 | 0.000356 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.37 | 0.000316 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.42 | 0.00004 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.45 | 0.000122 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.46 | 0.000104 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.55 | 0.000917 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.61 | 0.000105 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.63 | 0.000387 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.7 | 0.000196 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.7.2 | 0.000559 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.75.1 | 0.00018 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.82 | 0.001357 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.89 | 0.004902 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | AY.9 | 0.000068 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B | 0.000128 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.1 | 0.000327 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.192 | 0.002309 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.222 | 0.000204 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.266 | 0.012195 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.305 | 0.003861 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.311 | 0.000358 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.317 | 0.000412 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.338 | 0.017241 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.37 | 0.000193 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.40 | 0.034483 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.434 | 0.000349 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.447 | 0.035714 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.464 | 0.001473 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.1.63 | 0.000386 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.110.3 | 0.000718 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.160.22 | 0.006757 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.160.28 | 0.002924 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.177.50 | 0.004695 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.177.65 | 0.000665 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.177.7 | 0.000165 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.210 | 0.002132 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.214.2 | 0.0006 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.222 | 0.001692 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.237 | 0.004975 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.349 | 0.000715 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.36.18 | 0.00042 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.36.29 | 0.000517 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.377 | 0.004566 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.389 | 0.001002 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.396 | 0.000706 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.399 | 0.001934 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.400 | 0.000429 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.422 | 0.000812 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.426 | 0.001009 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.480 | 0.002488 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.509 | 0.000866 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.581 | 0.009434 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.612 | 0.002653 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.1.88.1 | 0.004808 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.3 | 0.000831 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | B.40 | 0.000364 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | C.16 | 0.00106 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | P.1.16 | 0.000374 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | Q.3 | 0.000145 |
M | 17 | L17F | Ctt | Ttt | 1 | 1 | Q.4 | 0.000455 |
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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