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 |
noncoding | 44 | C44T | noncoding | C | T | 2038 | 2038 | 1 | 44-44 |
Details of the mutation C44T 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 |
noncoding | 44 | C44T | C | T | 2038 | 2038 | All | 0.00039 |
noncoding | 44 | C44T | C | T | 486 | 486 | B.1.1.7 | 0.000435 |
noncoding | 44 | C44T | C | T | 198 | 198 | AY.25 | 0.001191 |
noncoding | 44 | C44T | C | T | 185 | 185 | B.1.617.2 | 0.000697 |
noncoding | 44 | C44T | C | T | 99 | 99 | B.1 | 0.000907 |
noncoding | 44 | C44T | C | T | 71 | 71 | A.28 | 0.187831 |
noncoding | 44 | C44T | C | T | 69 | 69 | B.1.2 | 0.000608 |
noncoding | 44 | C44T | C | T | 61 | 61 | B.1.1.174 | 0.206081 |
noncoding | 44 | C44T | C | T | 58 | 58 | AY.14 | 0.005105 |
noncoding | 44 | C44T | C | T | 58 | 58 | AY.44 | 0.000353 |
noncoding | 44 | C44T | C | T | 49 | 49 | B.1.427 | 0.002474 |
noncoding | 44 | C44T | C | T | 42 | 42 | AY.103 | 0.000261 |
noncoding | 44 | C44T | C | T | 41 | 41 | AY.20 | 0.001593 |
noncoding | 44 | C44T | C | T | 41 | 41 | B.1.609 | 0.019655 |
noncoding | 44 | C44T | C | T | 39 | 39 | AY.3 | 0.000388 |
noncoding | 44 | C44T | C | T | 38 | 38 | AY.4 | 0.000059 |
noncoding | 44 | C44T | C | T | 25 | 25 | B.1.1 | 0.000454 |
noncoding | 44 | C44T | C | T | 23 | 23 | AY.43 | 0.000102 |
noncoding | 44 | C44T | C | T | 21 | 21 | B.1.429 | 0.000494 |
noncoding | 44 | C44T | C | T | 20 | 20 | AY.102 | 0.00053 |
noncoding | 44 | C44T | C | T | 19 | 19 | AY.7 | 0.003724 |
noncoding | 44 | C44T | C | T | 19 | 19 | B.1.525 | 0.00215 |
noncoding | 44 | C44T | C | T | 16 | 16 | AY.26 | 0.000453 |
noncoding | 44 | C44T | C | T | 15 | 15 | B.1.529 | 0.833333 |
noncoding | 44 | C44T | C | T | 13 | 13 | AY.47 | 0.000404 |
noncoding | 44 | C44T | C | T | 13 | 13 | B.1.177.81 | 0.002461 |
noncoding | 44 | C44T | C | T | 13 | 13 | B.1.526 | 0.000306 |
noncoding | 44 | C44T | C | T | 12 | 12 | AY.41 | 0.003527 |
noncoding | 44 | C44T | C | T | 12 | 12 | P.1 | 0.000189 |
noncoding | 44 | C44T | C | T | 10 | 10 | AY.39 | 0.000247 |
noncoding | 44 | C44T | C | T | 10 | 10 | AY.62 | 0.004357 |
noncoding | 44 | C44T | C | T | 9 | 9 | B.1.351 | 0.000268 |
noncoding | 44 | C44T | C | T | 9 | 9 | P.1.1 | 0.002859 |
noncoding | 44 | C44T | C | T | 8 | 8 | AY.75 | 0.000448 |
noncoding | 44 | C44T | C | T | 8 | 8 | B.1.177 | 0.000105 |
noncoding | 44 | C44T | C | T | 7 | 7 | AY.3.1 | 0.000597 |
noncoding | 44 | C44T | C | T | 7 | 7 | B.1.160 | 0.000218 |
noncoding | 44 | C44T | C | T | 7 | 7 | B.1.177.21 | 0.000535 |
noncoding | 44 | C44T | C | T | 6 | 6 | AY.100 | 0.000276 |
noncoding | 44 | C44T | C | T | 6 | 6 | AY.106 | 0.002009 |
noncoding | 44 | C44T | C | T | 6 | 6 | B.1.1.284 | 0.000644 |
noncoding | 44 | C44T | C | T | 5 | 5 | AY.117 | 0.000423 |
noncoding | 44 | C44T | C | T | 5 | 5 | AY.46 | 0.00052 |
noncoding | 44 | C44T | C | T | 5 | 5 | B.1.258 | 0.000333 |
noncoding | 44 | C44T | C | T | 5 | 5 | B.1.517 | 0.002135 |
noncoding | 44 | C44T | C | T | 5 | 5 | P.1.15 | 0.001162 |
noncoding | 44 | C44T | C | T | 4 | 4 | AY.33 | 0.000267 |
noncoding | 44 | C44T | C | T | 4 | 4 | AY.98.1 | 0.000194 |
noncoding | 44 | C44T | C | T | 4 | 4 | B | 0.000511 |
noncoding | 44 | C44T | C | T | 4 | 4 | B.1.1.222 | 0.000816 |
noncoding | 44 | C44T | C | T | 4 | 4 | B.1.1.277 | 0.003035 |
noncoding | 44 | C44T | C | T | 4 | 4 | B.1.1.279 | 0.004484 |
noncoding | 44 | C44T | C | T | 4 | 4 | B.1.1.318 | 0.001207 |
noncoding | 44 | C44T | C | T | 4 | 4 | B.1.1.519 | 0.000159 |
noncoding | 44 | C44T | C | T | 4 | 4 | B.1.221 | 0.000284 |
noncoding | 44 | C44T | C | T | 3 | 3 | AY.109 | 0.002219 |
noncoding | 44 | C44T | C | T | 3 | 3 | AY.118 | 0.000188 |
noncoding | 44 | C44T | C | T | 3 | 3 | AY.23.1 | 0.001252 |
noncoding | 44 | C44T | C | T | 3 | 3 | AY.39.1 | 0.000119 |
noncoding | 44 | C44T | C | T | 3 | 3 | AY.5 | 0.000062 |
noncoding | 44 | C44T | C | T | 3 | 3 | AY.54 | 0.000286 |
noncoding | 44 | C44T | C | T | 3 | 3 | B.1.177.53 | 0.007177 |
noncoding | 44 | C44T | C | T | 3 | 3 | B.1.451 | 0.02459 |
noncoding | 44 | C44T | C | T | 3 | 3 | B.1.596 | 0.000261 |
noncoding | 44 | C44T | C | T | 2 | 2 | AK.1 | 0.025316 |
noncoding | 44 | C44T | C | T | 2 | 2 | AY.116 | 0.000574 |
noncoding | 44 | C44T | C | T | 2 | 2 | AY.119 | 0.000071 |
noncoding | 44 | C44T | C | T | 2 | 2 | AY.23 | 0.000139 |
noncoding | 44 | C44T | C | T | 2 | 2 | AY.46.1 | 0.002053 |
noncoding | 44 | C44T | C | T | 2 | 2 | AY.69 | 0.000373 |
noncoding | 44 | C44T | C | T | 2 | 2 | AY.9.1 | 0.000167 |
noncoding | 44 | C44T | C | T | 2 | 2 | AY.9.2 | 0.000073 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.1.261 | 0.017241 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.1.263 | 0.003115 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.1.27 | 0.011299 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.1.28 | 0.000622 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.1.306 | 0.000877 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.1.345 | 0.086957 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.1.70 | 0.000682 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.143 | 0.042553 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.177.15 | 0.001262 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.241 | 0.001623 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.258.17 | 0.000208 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.36 | 0.000292 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.509 | 0.001732 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.561 | 0.000794 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.617.1 | 0.000258 |
noncoding | 44 | C44T | C | T | 2 | 2 | B.1.621 | 0.000177 |
noncoding | 44 | C44T | C | T | 2 | 2 | Q.3 | 0.00029 |
noncoding | 44 | C44T | C | T | 1 | 1 | A | 0.000387 |
noncoding | 44 | C44T | C | T | 1 | 1 | A.6 | 0.005128 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.10 | 0.00053 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.113 | 0.000142 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.120 | 0.000037 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.35 | 0.000233 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.4.5 | 0.000107 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.5.3 | 0.000337 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.61 | 0.000105 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.7.1 | 0.000113 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.75.1 | 0.00018 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.91 | 0.00073 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.92 | 0.000287 |
noncoding | 44 | C44T | C | T | 1 | 1 | AY.93 | 0.000273 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.10 | 0.001115 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.160 | 0.02381 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.220 | 0.001859 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.25 | 0.000569 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.251 | 0.007937 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.33 | 0.000421 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.37 | 0.000193 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.398 | 0.003226 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.409 | 0.002833 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.50 | 0.000679 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.1.56 | 0.017857 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.177.35 | 0.000691 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.177.54 | 0.000606 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.177.62 | 0.001192 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.177.7 | 0.000165 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.243 | 0.00007 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.258.14 | 0.00098 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.260 | 0.003344 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.311 | 0.000275 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.350 | 0.002933 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.361 | 0.001289 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.466.1 | 0.007194 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.504 | 0.03125 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.524 | 0.001406 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.541 | 0.004425 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.564 | 0.000426 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.576 | 0.000907 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.617.3 | 0.002985 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.619.1 | 0.000641 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.628 | 0.000352 |
noncoding | 44 | C44T | C | T | 1 | 1 | B.1.9.5 | 0.005682 |
noncoding | 44 | C44T | C | T | 1 | 1 | C.16 | 0.00106 |
noncoding | 44 | C44T | C | T | 1 | 1 | C.36.3 | 0.000567 |
noncoding | 44 | C44T | C | T | 1 | 1 | C.37 | 0.000116 |
noncoding | 44 | C44T | C | T | 1 | 1 | D.2 | 0.000075 |
noncoding | 44 | C44T | C | T | 1 | 1 | P.1.10 | 0.000269 |
noncoding | 44 | C44T | C | T | 1 | 1 | P.1.2 | 0.001156 |
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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