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 | 477 | S477I | nonsyn | aGc | aTc | 6579 | 6567 | 0.998176 | 22991-22993 |
Details of the mutation no 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 | 477 | S477I | aGc | aTc | 6567 | 6579 | All | 0.001256 |
S | 477 | S477I | aGc | aTc | 2729 | 2729 | AY.41 | 0.802175 |
S | 477 | S477I | aGc | aTc | 738 | 739 | AY.4 | 0.001149 |
S | 477 | S477I | aGc | aTc | 716 | 716 | AY.39 | 0.017693 |
S | 477 | S477I | aGc | aTc | 414 | 414 | B.1.1.7 | 0.000371 |
S | 477 | S477I | aGc | aTc | 219 | 221 | AY.43 | 0.00097 |
S | 477 | S477I | aGc | aTc | 147 | 150 | B.1.617.2 | 0.000554 |
S | 477 | S477I | aGc | aTc | 140 | 140 | B.1.427 | 0.00707 |
S | 477 | S477I | aGc | aTc | 132 | 132 | B.1.1.311 | 0.047278 |
S | 477 | S477I | aGc | aTc | 95 | 95 | AY.85 | 0.040581 |
S | 477 | S477I | aGc | aTc | 85 | 85 | AY.25 | 0.000511 |
S | 477 | S477I | aGc | aTc | 84 | 84 | AY.103 | 0.000522 |
S | 477 | S477I | aGc | aTc | 65 | 66 | AY.44 | 0.000396 |
S | 477 | S477I | aGc | aTc | 47 | 47 | AY.29 | 0.000741 |
S | 477 | S477I | aGc | aTc | 46 | 46 | AY.102 | 0.00122 |
S | 477 | S477I | aGc | aTc | 43 | 43 | AY.98 | 0.003397 |
S | 477 | S477I | aGc | aTc | 43 | 43 | B.1.177.21 | 0.003288 |
S | 477 | S477I | aGc | aTc | 39 | 39 | AY.5.3 | 0.013158 |
S | 477 | S477I | aGc | aTc | 35 | 35 | AY.110 | 0.003944 |
S | 477 | S477I | aGc | aTc | 34 | 34 | AY.47 | 0.001058 |
S | 477 | S477I | aGc | aTc | 30 | 30 | AY.9.2 | 0.001102 |
S | 477 | S477I | aGc | aTc | 29 | 29 | B.1.177.60 | 0.006335 |
S | 477 | S477I | aGc | aTc | 28 | 28 | B.1 | 0.000256 |
S | 477 | S477I | aGc | aTc | 26 | 26 | AY.75.1 | 0.004688 |
S | 477 | S477I | aGc | aTc | 23 | 23 | AY.5 | 0.000475 |
S | 477 | S477I | aGc | aTc | 22 | 22 | AY.20 | 0.000855 |
S | 477 | S477I | aGc | aTc | 22 | 22 | AY.4.4 | 0.009002 |
S | 477 | S477I | aGc | aTc | 20 | 20 | AY.3 | 0.000199 |
S | 477 | S477I | aGc | aTc | 20 | 20 | AY.36 | 0.002964 |
S | 477 | S477I | aGc | aTc | 20 | 20 | AY.42 | 0.000805 |
S | 477 | S477I | aGc | aTc | 18 | 18 | AY.75 | 0.001008 |
S | 477 | S477I | aGc | aTc | 18 | 18 | B.1.429 | 0.000424 |
S | 477 | S477I | aGc | aTc | 17 | 17 | AY.99.2 | 0.001567 |
S | 477 | S477I | aGc | aTc | 15 | 15 | AY.119 | 0.00053 |
S | 477 | S477I | aGc | aTc | 15 | 15 | B.1.177.81 | 0.00284 |
S | 477 | S477I | aGc | aTc | 15 | 15 | B.1.2 | 0.000132 |
S | 477 | S477I | aGc | aTc | 14 | 14 | AY.26 | 0.000396 |
S | 477 | S477I | aGc | aTc | 13 | 13 | AY.4.2 | 0.000282 |
S | 477 | S477I | aGc | aTc | 12 | 12 | AY.23 | 0.000837 |
S | 477 | S477I | aGc | aTc | 12 | 12 | B.1.177 | 0.000158 |
S | 477 | S477I | aGc | aTc | 12 | 12 | B.1.577 | 0.008247 |
S | 477 | S477I | aGc | aTc | 10 | 10 | AY.98.1 | 0.000484 |
S | 477 | S477I | aGc | aTc | 10 | 10 | P.1.17 | 0.001618 |
S | 477 | S477I | aGc | aTc | 9 | 9 | B.1.243 | 0.000626 |
S | 477 | S477I | aGc | aTc | 8 | 8 | AY.33 | 0.000534 |
S | 477 | S477I | aGc | aTc | 8 | 8 | AY.34 | 0.000776 |
S | 477 | S477I | aGc | aTc | 8 | 8 | B.1.525 | 0.000905 |
S | 477 | S477I | aGc | aTc | 7 | 7 | AY.4.5 | 0.000752 |
S | 477 | S477I | aGc | aTc | 7 | 7 | AY.61 | 0.000733 |
S | 477 | S477I | aGc | aTc | 7 | 7 | B.1.351.5 | 0.004197 |
S | 477 | S477I | aGc | aTc | 7 | 7 | B.1.617.1 | 0.000903 |
S | 477 | S477I | aGc | aTc | 6 | 6 | AY.116 | 0.001721 |
S | 477 | S477I | aGc | aTc | 6 | 6 | AY.120 | 0.000223 |
S | 477 | S477I | aGc | aTc | 6 | 6 | AY.74 | 0.000694 |
S | 477 | S477I | aGc | aTc | 6 | 6 | AY.9 | 0.000406 |
S | 477 | S477I | aGc | aTc | 6 | 6 | P.1 | 0.000095 |
S | 477 | S477I | aGc | aTc | 5 | 5 | AY.48 | 0.002326 |
S | 477 | S477I | aGc | aTc | 4 | 5 | AY.99 | 0.004197 |
S | 477 | S477I | aGc | aTc | 5 | 5 | B.1.36 | 0.00073 |
S | 477 | S477I | aGc | aTc | 5 | 5 | B.1.36.8 | 0.005 |
S | 477 | S477I | aGc | aTc | 2 | 4 | 0.111111 | |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.100 | 0.000184 |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.118 | 0.000251 |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.121 | 0.000541 |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.32 | 0.00213 |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.35 | 0.000932 |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.38 | 0.001997 |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.45 | 0.000487 |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.46 | 0.000416 |
S | 477 | S477I | aGc | aTc | 3 | 4 | AY.6 | 0.000123 |
S | 477 | S477I | aGc | aTc | 4 | 4 | AY.7.1 | 0.000451 |
S | 477 | S477I | aGc | aTc | 4 | 4 | B.1.1 | 0.000073 |
S | 477 | S477I | aGc | aTc | 4 | 4 | B.1.229 | 0.038835 |
S | 477 | S477I | aGc | aTc | 4 | 4 | B.1.637 | 0.000292 |
S | 477 | S477I | aGc | aTc | 4 | 4 | B.1.9.5 | 0.022727 |
S | 477 | S477I | aGc | aTc | 3 | 3 | AY.1 | 0.001187 |
S | 477 | S477I | aGc | aTc | 3 | 3 | AY.111 | 0.000549 |
S | 477 | S477I | aGc | aTc | 3 | 3 | AY.117 | 0.000254 |
S | 477 | S477I | aGc | aTc | 3 | 3 | AY.4.2.1 | 0.000447 |
S | 477 | S477I | aGc | aTc | 3 | 3 | AY.46.4 | 0.000494 |
S | 477 | S477I | aGc | aTc | 3 | 3 | AY.46.6 | 0.000217 |
S | 477 | S477I | aGc | aTc | 3 | 3 | AY.53 | 0.000863 |
S | 477 | S477I | aGc | aTc | 3 | 3 | B.1.1.33 | 0.001263 |
S | 477 | S477I | aGc | aTc | 3 | 3 | B.1.239 | 0.003663 |
S | 477 | S477I | aGc | aTc | 3 | 3 | B.1.521 | 0.014925 |
S | 477 | S477I | aGc | aTc | 3 | 3 | Q.8 | 0.000495 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.106 | 0.00067 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.109 | 0.001479 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.113 | 0.000285 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.12 | 0.000632 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.24 | 0.000862 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.37 | 0.000632 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.5.4 | 0.000553 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.54 | 0.000191 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.64 | 0.00119 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.67 | 0.000929 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.68 | 0.000547 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.79 | 0.002421 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.92 | 0.000575 |
S | 477 | S477I | aGc | aTc | 2 | 2 | AY.95 | 0.001522 |
S | 477 | S477I | aGc | aTc | 2 | 2 | B.1.1.306 | 0.000877 |
S | 477 | S477I | aGc | aTc | 2 | 2 | B.1.1.519 | 0.000079 |
S | 477 | S477I | aGc | aTc | 2 | 2 | B.1.128 | 0.001271 |
S | 477 | S477I | aGc | aTc | 2 | 2 | B.1.177.32 | 0.002699 |
S | 477 | S477I | aGc | aTc | 2 | 2 | B.1.260 | 0.006689 |
S | 477 | S477I | aGc | aTc | 2 | 2 | B.1.596 | 0.000174 |
S | 477 | S477I | aGc | aTc | 2 | 2 | B.1.621.1 | 0.001012 |
S | 477 | S477I | aGc | aTc | 1 | 1 | A.2.5 | 0.000499 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AD.2 | 0.000219 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.104 | 0.001984 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.107 | 0.000466 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.108 | 0.001103 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.114 | 0.000231 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.116.1 | 0.000311 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.14 | 0.000088 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.2 | 0.000356 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.29.1 | 0.000221 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.3.1 | 0.000085 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.34.1 | 0.00051 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.39.1 | 0.00004 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.55 | 0.000917 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.58 | 0.000907 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.7 | 0.000196 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.70 | 0.000209 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.77 | 0.001127 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.8 | 0.000606 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.88 | 0.000884 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.9.1 | 0.000084 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.93 | 0.000273 |
S | 477 | S477I | aGc | aTc | 1 | 1 | AY.96 | 0.002075 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.176 | 0.000439 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.192 | 0.002309 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.210 | 0.005714 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.214 | 0.000055 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.222 | 0.000204 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.263 | 0.001558 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.369 | 0.000446 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.37 | 0.000193 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.409 | 0.002833 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.448 | 0.002033 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.528 | 0.004808 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.1.54 | 0.003021 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.119 | 0.010526 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.177.7 | 0.000165 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.177.8 | 0.000752 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.206 | 0.000816 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.210 | 0.002132 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.279 | 0.000514 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.351 | 0.00003 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.36.16 | 0.001425 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.36.29 | 0.000517 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.369 | 0.000285 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.448 | 0.002625 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.470 | 0.001404 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.499 | 0.00105 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.621 | 0.000089 |
S | 477 | S477I | aGc | aTc | 1 | 1 | B.1.94 | 0.027027 |
S | 477 | S477I | aGc | aTc | 1 | 1 | L.3 | 0.003546 |
S | 477 | S477I | aGc | aTc | 1 | 1 | Q.2 | 0.000613 |
S | 477 | S477I | aGc | aTc | 1 | 1 | Q.3 | 0.000145 |
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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