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 |
N | 217 | A217S | nonsyn | Gct | Tct | 2568 | 2567 | 0.999611 | 28922-28924 |
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 |
N | 217 | A217S | Gct | Tct | 2567 | 2568 | All | 0.000491 |
N | 217 | A217S | Gct | Tct | 436 | 436 | AY.4 | 0.000679 |
N | 217 | A217S | Gct | Tct | 224 | 224 | AY.43 | 0.000992 |
N | 217 | A217S | Gct | Tct | 213 | 213 | B.1.618 | 0.858871 |
N | 217 | A217S | Gct | Tct | 169 | 169 | B.1.1.7 | 0.000151 |
N | 217 | A217S | Gct | Tct | 133 | 133 | B.1.617.2 | 0.000501 |
N | 217 | A217S | Gct | Tct | 116 | 116 | AY.12 | 0.036662 |
N | 217 | A217S | Gct | Tct | 86 | 86 | AY.103 | 0.000534 |
N | 217 | A217S | Gct | Tct | 82 | 82 | B.1.525 | 0.009279 |
N | 217 | A217S | Gct | Tct | 81 | 81 | AY.44 | 0.000493 |
N | 217 | A217S | Gct | Tct | 75 | 75 | AY.6 | 0.003085 |
N | 217 | A217S | Gct | Tct | 69 | 69 | B.1 | 0.000632 |
N | 217 | A217S | Gct | Tct | 59 | 59 | B.1.1.519 | 0.002343 |
N | 217 | A217S | Gct | Tct | 51 | 51 | AY.26 | 0.001444 |
N | 217 | A217S | Gct | Tct | 37 | 37 | AY.25 | 0.000223 |
N | 217 | A217S | Gct | Tct | 36 | 36 | AY.102 | 0.000955 |
N | 217 | A217S | Gct | Tct | 31 | 31 | AY.100 | 0.001426 |
N | 217 | A217S | Gct | Tct | 30 | 30 | AY.3 | 0.000298 |
N | 217 | A217S | Gct | Tct | 29 | 29 | AY.4.3 | 0.024411 |
N | 217 | A217S | Gct | Tct | 27 | 27 | AY.46.4 | 0.004442 |
N | 217 | A217S | Gct | Tct | 27 | 27 | B.1.2 | 0.000238 |
N | 217 | A217S | Gct | Tct | 26 | 26 | AY.39 | 0.000642 |
N | 217 | A217S | Gct | Tct | 24 | 24 | AY.98.1 | 0.001162 |
N | 217 | A217S | Gct | Tct | 23 | 23 | B.1.177.60 | 0.005024 |
N | 217 | A217S | Gct | Tct | 21 | 21 | AY.29 | 0.000331 |
N | 217 | A217S | Gct | Tct | 19 | 19 | B.1.1.214 | 0.001054 |
N | 217 | A217S | Gct | Tct | 18 | 18 | B.1.177 | 0.000237 |
N | 217 | A217S | Gct | Tct | 18 | 18 | B.1.582 | 0.008832 |
N | 217 | A217S | Gct | Tct | 17 | 17 | P.1 | 0.000268 |
N | 217 | A217S | Gct | Tct | 16 | 16 | AY.42 | 0.000644 |
N | 217 | A217S | Gct | Tct | 13 | 13 | AY.113 | 0.001851 |
N | 217 | A217S | Gct | Tct | 11 | 11 | B.1.346 | 0.014417 |
N | 217 | A217S | Gct | Tct | 10 | 10 | AY.9.2 | 0.000367 |
N | 217 | A217S | Gct | Tct | 9 | 9 | AY.109 | 0.006657 |
N | 217 | A217S | Gct | Tct | 9 | 9 | AY.4.2 | 0.000195 |
N | 217 | A217S | Gct | Tct | 9 | 9 | B.1.429 | 0.000212 |
N | 217 | A217S | Gct | Tct | 8 | 8 | AY.119 | 0.000282 |
N | 217 | A217S | Gct | Tct | 8 | 8 | AY.5 | 0.000165 |
N | 217 | A217S | Gct | Tct | 8 | 8 | B.1.1.294 | 0.010127 |
N | 217 | A217S | Gct | Tct | 8 | 8 | B.1.1.37 | 0.001543 |
N | 217 | A217S | Gct | Tct | 8 | 8 | B.1.637 | 0.000585 |
N | 217 | A217S | Gct | Tct | 8 | 8 | C.37 | 0.000929 |
N | 217 | A217S | Gct | Tct | 7 | 7 | AY.111 | 0.001282 |
N | 217 | A217S | Gct | Tct | 7 | 7 | AY.117 | 0.000592 |
N | 217 | A217S | Gct | Tct | 7 | 7 | AY.27 | 0.000453 |
N | 217 | A217S | Gct | Tct | 7 | 7 | B.1.450 | 0.079545 |
N | 217 | A217S | Gct | Tct | 7 | 7 | B.1.621 | 0.00062 |
N | 217 | A217S | Gct | Tct | 6 | 6 | AY.36 | 0.000889 |
N | 217 | A217S | Gct | Tct | 6 | 6 | B.1.1 | 0.000109 |
N | 217 | A217S | Gct | Tct | 6 | 6 | B.1.324 | 0.009631 |
N | 217 | A217S | Gct | Tct | 6 | 6 | B.1.36 | 0.000875 |
N | 217 | A217S | Gct | Tct | 5 | 5 | AY.120 | 0.000186 |
N | 217 | A217S | Gct | Tct | 5 | 5 | AY.20 | 0.000194 |
N | 217 | A217S | Gct | Tct | 5 | 5 | AY.47 | 0.000156 |
N | 217 | A217S | Gct | Tct | 5 | 5 | AY.61 | 0.000524 |
N | 217 | A217S | Gct | Tct | 5 | 5 | AY.68 | 0.001369 |
N | 217 | A217S | Gct | Tct | 5 | 5 | B.1.526 | 0.000118 |
N | 217 | A217S | Gct | Tct | 4 | 4 | AY.118 | 0.000251 |
N | 217 | A217S | Gct | Tct | 4 | 4 | AY.46 | 0.000416 |
N | 217 | A217S | Gct | Tct | 4 | 4 | AY.46.6 | 0.000289 |
N | 217 | A217S | Gct | Tct | 4 | 4 | AY.99.2 | 0.000369 |
N | 217 | A217S | Gct | Tct | 4 | 4 | B.1.1.74 | 0.017241 |
N | 217 | A217S | Gct | Tct | 4 | 4 | B.1.351 | 0.000119 |
N | 217 | A217S | Gct | Tct | 4 | 4 | B.6.6 | 0.003556 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.121 | 0.000406 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.23 | 0.000209 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.33 | 0.0002 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.4.5 | 0.000322 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.45 | 0.000365 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.46.5 | 0.000595 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.7.2 | 0.001678 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.77 | 0.003382 |
N | 217 | A217S | Gct | Tct | 3 | 3 | AY.98 | 0.000237 |
N | 217 | A217S | Gct | Tct | 3 | 3 | B.1.177.46 | 0.002755 |
N | 217 | A217S | Gct | Tct | 3 | 3 | B.1.177.58 | 0.003995 |
N | 217 | A217S | Gct | Tct | 2 | 3 | B.1.221 | 0.000142 |
N | 217 | A217S | Gct | Tct | 3 | 3 | B.1.595 | 0.000783 |
N | 217 | A217S | Gct | Tct | 2 | 2 | AY.34 | 0.000194 |
N | 217 | A217S | Gct | Tct | 2 | 2 | AY.39.1 | 0.000079 |
N | 217 | A217S | Gct | Tct | 2 | 2 | AY.50 | 0.001599 |
N | 217 | A217S | Gct | Tct | 2 | 2 | AY.54 | 0.000191 |
N | 217 | A217S | Gct | Tct | 2 | 2 | AY.78 | 0.003082 |
N | 217 | A217S | Gct | Tct | 2 | 2 | AY.82 | 0.002714 |
N | 217 | A217S | Gct | Tct | 2 | 2 | AY.92 | 0.000575 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.1.194 | 0.009901 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.1.216 | 0.001781 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.1.291 | 0.001485 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.1.448 | 0.004065 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.160 | 0.000062 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.22 | 0.002635 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.258 | 0.000133 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.258.17 | 0.000208 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.311 | 0.000549 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.36.31 | 0.003503 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.427 | 0.000101 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.575 | 0.000607 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.1.596 | 0.000174 |
N | 217 | A217S | Gct | Tct | 2 | 2 | B.47 | 0.040816 |
N | 217 | A217S | Gct | Tct | 2 | 2 | C.36 | 0.001821 |
N | 217 | A217S | Gct | Tct | 2 | 2 | P.1.15 | 0.000465 |
N | 217 | A217S | Gct | Tct | 1 | 1 | A.19 | 0.009434 |
N | 217 | A217S | Gct | Tct | 1 | 1 | A.2.2 | 0.001689 |
N | 217 | A217S | Gct | Tct | 1 | 1 | A.29 | 0.005319 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.1 | 0.000396 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.10 | 0.00053 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.105 | 0.000643 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.108 | 0.001103 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.116 | 0.000287 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.120.1 | 0.000321 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.29.1 | 0.000221 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.30 | 0.000396 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.39.2 | 0.001541 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.5.3 | 0.000337 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.5.4 | 0.000277 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.51 | 0.000909 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.55 | 0.000917 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.57 | 0.000656 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.60 | 0.000938 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.64 | 0.000595 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.69 | 0.000187 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.7.1 | 0.000113 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.70 | 0.000209 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.71 | 0.000475 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.75.1 | 0.00018 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.9 | 0.000068 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.9.1 | 0.000084 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.91 | 0.00073 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.94 | 0.000443 |
N | 217 | A217S | Gct | Tct | 1 | 1 | AY.99 | 0.001049 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.1 | 0.000327 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.153 | 0.001095 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.176 | 0.000439 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.213 | 0.021739 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.222 | 0.000204 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.243 | 0.004082 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.306 | 0.000438 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.325 | 0.025641 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.326 | 0.001761 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.348 | 0.000796 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.373 | 0.02381 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.389 | 0.006061 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.434 | 0.000349 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.1.50 | 0.000679 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.112 | 0.005181 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.177.12 | 0.000152 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.177.15 | 0.000631 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.177.75 | 0.001041 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.177.77 | 0.000726 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.177.8 | 0.000752 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.177.82 | 0.000477 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.188 | 0.016667 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.221.2 | 0.004016 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.234 | 0.000132 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.314 | 0.007519 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.389 | 0.001002 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.391 | 0.001127 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.527 | 0.003704 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.576 | 0.000907 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.619.1 | 0.000641 |
N | 217 | A217S | Gct | Tct | 1 | 1 | B.1.631 | 0.003367 |
N | 217 | A217S | Gct | Tct | 1 | 1 | P.1.12 | 0.000484 |
N | 217 | A217S | Gct | Tct | 1 | 1 | P.1.7 | 0.000319 |
N | 217 | A217S | Gct | Tct | 1 | 1 | P.2 | 0.000187 |
N | 217 | A217S | Gct | Tct | 1 | 1 | Q.7 | 0.001111 |
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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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