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 | 36 | H36H | H3895H | syn | caC | caT | 3101 | 3101 | 1 | 11948-11950 |
ORF1ab/nsp7 | 36 | H36Y | H3895Y | nonsyn | Cac | Tac | 56 | 56 | 1 | 11948-11950 |
ORF1ab/nsp7 | 36 | H36Q | H3895Q | nonsyn | caC | caA | 21 | 20 | 0.952381 | 11948-11950 |
ORF1ab/nsp7 | 36 | H36Q | H3895Q | nonsyn | caC | caG | 21 | 1 | 0.047619 | 11948-11950 |
ORF1ab/nsp7 | 36 | H36del | H3895del | del | CAC | --- | 9 | 9 | 1 | 11948-11950 |
ORF1ab/nsp7 | 36 | H36del1 | H3895del1 | del | Cac | -ac | 2 | 2 | 1 | 11948-11950 |
ORF1ab/nsp7 | 36 | H36L | H3895L | nonsyn | cAc | cTc | 2 | 2 | 1 | 11948-11950 |
ORF1ab/nsp7 | 36 | H36N | H3895N | nonsyn | Cac | Aac | 1 | 1 | 1 | 11948-11950 |
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 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3101 | 3101 | All | 0.000593 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 964 | 964 | B.1.214.2 | 0.577938 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 856 | 856 | AY.103 | 0.005315 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 208 | 208 | B.1.1.7 | 0.000186 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 164 | 164 | B.1.177 | 0.002159 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 112 | 112 | AY.4 | 0.000174 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 81 | 81 | B.1.617.2 | 0.000305 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 58 | 58 | AY.25 | 0.000349 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 56 | 56 | All | 0.000011 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 54 | 54 | AY.20 | 0.002099 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 52 | 52 | B.1.177.5 | 0.064596 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 45 | 45 | B.1.2 | 0.000396 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 41 | 41 | AY.9.2 | 0.001506 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 36 | 36 | AY.54 | 0.003432 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 30 | 30 | B.1 | 0.000275 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 28 | 28 | AY.43 | 0.000124 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 20 | 21 | All | 0.000004 |
ORF1ab/nsp7 | 36 | H36Q | caC | caG | 1 | 21 | All | 0 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 21 | 21 | AY.102 | 0.000557 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 19 | 19 | B.1.258.17 | 0.001975 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 18 | 18 | P.1 | 0.000284 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 15 | 15 | B.1.214.3 | 0.107143 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 15 | 15 | B.1.526 | 0.000353 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 14 | 14 | AY.42 | 0.000563 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 12 | 12 | AY.3 | 0.000119 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 12 | 12 | AY.98.1 | 0.000581 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 12 | 12 | B.1.1.519 | 0.000477 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 12 | 12 | B.1.351 | 0.000357 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 10 | 10 | AY.117 | 0.000845 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 10 | 10 | B.1.618 | 0.040323 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 9 | 9 | All | 0.000002 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 9 | 9 | B.1.234 | 0.001187 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 8 | 8 | AY.29 | 0.000126 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 8 | 8 | AY.4 | 0.000012 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 8 | 8 | AY.99.2 | 0.000737 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 8 | 8 | B.1.1 | 0.000145 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 7 | 7 | AY.44 | 0.000043 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 7 | 7 | AY.46.6 | 0.000505 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 7 | 7 | AY.69 | 0.001307 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 6 | 6 | AY.39 | 0.000148 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 6 | 6 | AY.39.1 | 0.000238 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 6 | 6 | B.1.1.7 | 0.000005 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 6 | 6 | P.2 | 0.00112 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 5 | 5 | AY.44 | 0.00003 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 5 | 5 | AY.47 | 0.000156 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 5 | 5 | B.1.258 | 0.000333 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 5 | 5 | C.37 | 0.00058 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 4 | 4 | 0.222222 | |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 4 | 4 | AY.33 | 0.000267 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 4 | 4 | B.1.214.1 | 0.08 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 4 | 4 | B.1.429 | 0.000094 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 4 | 4 | B.1.561 | 0.001588 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 4 | 4 | B.1.575 | 0.001214 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3 | 3 | AY.119 | 0.000106 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3 | 3 | AY.14 | 0.000264 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3 | 3 | AY.34 | 0.000291 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3 | 3 | B.1.1.58 | 0.016129 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 3 | 3 | B.1.177.86 | 0.00055 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3 | 3 | B.1.400 | 0.001287 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 3 | 3 | B.1.525 | 0.000339 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 3 | 3 | B.1.596 | 0.000261 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 3 | 3 | B.1.617.2 | 0.000011 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | A.23.1 | 0.001408 |
ORF1ab/nsp7 | 36 | H36del1 | Cac | -ac | 2 | 2 | All | 0 |
ORF1ab/nsp7 | 36 | H36L | cAc | cTc | 2 | 2 | All | 0 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 2 | 2 | AY.103 | 0.000012 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | AY.2 | 0.000712 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | AY.23 | 0.000139 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | AY.46 | 0.000208 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | AY.55 | 0.001835 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | AY.9.1 | 0.000167 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | AY.98 | 0.000158 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | B | 0.000256 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 2 | 2 | B.1 | 0.000018 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 2 | 2 | B.1 | 0.000018 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | B.1.1.317 | 0.000823 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | B.1.1.37 | 0.000386 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 2 | 2 | B.1.1.397 | 0.004505 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | B.1.1.424 | 0.090909 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 2 | 2 | B.1.1.7 | 0.000002 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | B.1.106 | 0.0625 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 2 | 2 | B.1.2 | 0.000018 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | B.1.459 | 0.008163 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 2 | 2 | B.1.623 | 0.001073 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | A.1 | 0.000282 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | A.2.5 | 0.000499 |
ORF1ab/nsp7 | 36 | H36N | Cac | Aac | 1 | 1 | All | 0 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AP.1 | 0.001502 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp7 | 36 | H36Q | caC | caG | 1 | 1 | AY.2 | 0.000356 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | AY.43 | 0.000004 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp7 | 36 | H36N | Cac | Aac | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.64 | 0.000595 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.79 | 0.001211 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | AY.99 | 0.001049 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | B | 0.000128 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | B | 0.000128 |
ORF1ab/nsp7 | 36 | H36del1 | Cac | -ac | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp7 | 36 | H36del1 | Cac | -ac | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp7 | 36 | H36L | cAc | cTc | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.1.141 | 0.002012 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | B.1.1.161 | 0.003534 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | B.1.1.25 | 0.000569 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.1.413 | 0.006897 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 1 | 1 | B.1.1.448 | 0.002033 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.1.50 | 0.000679 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.1.528 | 0.004808 |
ORF1ab/nsp7 | 36 | H36L | cAc | cTc | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | B.1.160.26 | 0.002421 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.160.32 | 0.004292 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.177.19 | 0.001431 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | B.1.177.84 | 0.006667 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.22 | 0.001318 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.239 | 0.001221 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.258.11 | 0.000396 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.289 | 0.00266 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.351.5 | 0.0006 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.36.39 | 0.002217 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 1 | 1 | B.1.415 | 0.014286 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.503 | 0.002488 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.509 | 0.000866 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.564.1 | 0.001577 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | B.1.606 | 0.006024 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.621.1 | 0.000506 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.4.7 | 0.010101 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | B.6.6 | 0.000889 |
ORF1ab/nsp7 | 36 | H36Q | caC | caA | 1 | 1 | C.35 | 0.000774 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp7 | 36 | H36del | CAC | --- | 1 | 1 | N.4 | 0.004255 |
ORF1ab/nsp7 | 36 | H36Y | Cac | Tac | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp7 | 36 | H36H | caC | caT | 1 | 1 | U.3 | 0.003861 |
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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