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 |
ORF7a | 45 | P45P | syn | ccA | ccT | 581 | 242 | 0.416523 | 27526-27528 | |
ORF7a | 45 | P45P | syn | ccA | ccC | 581 | 181 | 0.311532 | 27526-27528 | |
ORF7a | 45 | P45P | syn | ccA | ccG | 581 | 158 | 0.271945 | 27526-27528 |
Details of the mutation P45P 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 |
ORF7a | 45 | P45P | ccA | ccT | 242 | 581 | All | 0.000046 |
ORF7a | 45 | P45P | ccA | ccC | 181 | 581 | All | 0.000035 |
ORF7a | 45 | P45P | ccA | ccG | 158 | 581 | All | 0.00003 |
ORF7a | 45 | P45P | ccA | ccC | 26 | 52 | B.1.2 | 0.000229 |
ORF7a | 45 | P45P | ccA | ccG | 21 | 52 | B.1.2 | 0.000185 |
ORF7a | 45 | P45P | ccA | ccT | 5 | 52 | B.1.2 | 0.000044 |
ORF7a | 45 | P45P | ccA | ccG | 22 | 49 | B.1.1.7 | 0.00002 |
ORF7a | 45 | P45P | ccA | ccT | 15 | 49 | B.1.1.7 | 0.000013 |
ORF7a | 45 | P45P | ccA | ccC | 12 | 49 | B.1.1.7 | 0.000011 |
ORF7a | 45 | P45P | ccA | ccT | 33 | 41 | B.1.429 | 0.000776 |
ORF7a | 45 | P45P | ccA | ccC | 7 | 41 | B.1.429 | 0.000165 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 41 | B.1.429 | 0.000024 |
ORF7a | 45 | P45P | ccA | ccT | 27 | 27 | B.1.110.3 | 0.019397 |
ORF7a | 45 | P45P | ccA | ccG | 15 | 26 | AY.3 | 0.000149 |
ORF7a | 45 | P45P | ccA | ccT | 10 | 26 | AY.3 | 0.000099 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 26 | AY.3 | 0.00001 |
ORF7a | 45 | P45P | ccA | ccT | 20 | 22 | AY.46.6 | 0.001444 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 22 | AY.46.6 | 0.000144 |
ORF7a | 45 | P45P | ccA | ccT | 13 | 19 | AY.25 | 0.000078 |
ORF7a | 45 | P45P | ccA | ccC | 3 | 19 | AY.25 | 0.000018 |
ORF7a | 45 | P45P | ccA | ccG | 3 | 19 | AY.25 | 0.000018 |
ORF7a | 45 | P45P | ccA | ccT | 11 | 19 | AY.43 | 0.000049 |
ORF7a | 45 | P45P | ccA | ccC | 6 | 19 | AY.43 | 0.000027 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 19 | AY.43 | 0.000009 |
ORF7a | 45 | P45P | ccA | ccC | 7 | 17 | B.1.617.2 | 0.000026 |
ORF7a | 45 | P45P | ccA | ccT | 7 | 17 | B.1.617.2 | 0.000026 |
ORF7a | 45 | P45P | ccA | ccG | 3 | 17 | B.1.617.2 | 0.000011 |
ORF7a | 45 | P45P | ccA | ccC | 9 | 16 | B.1 | 0.000082 |
ORF7a | 45 | P45P | ccA | ccT | 6 | 16 | B.1 | 0.000055 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 16 | B.1 | 0.000009 |
ORF7a | 45 | P45P | ccA | ccT | 10 | 14 | AY.42 | 0.000402 |
ORF7a | 45 | P45P | ccA | ccG | 4 | 14 | AY.42 | 0.000161 |
ORF7a | 45 | P45P | ccA | ccT | 12 | 12 | B.1.346 | 0.015727 |
ORF7a | 45 | P45P | ccA | ccT | 6 | 11 | AY.4 | 0.000009 |
ORF7a | 45 | P45P | ccA | ccC | 3 | 11 | AY.4 | 0.000005 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 11 | AY.4 | 0.000003 |
ORF7a | 45 | P45P | ccA | ccC | 5 | 11 | AY.44 | 0.00003 |
ORF7a | 45 | P45P | ccA | ccG | 4 | 11 | AY.44 | 0.000024 |
ORF7a | 45 | P45P | ccA | ccT | 2 | 11 | AY.44 | 0.000012 |
ORF7a | 45 | P45P | ccA | ccT | 11 | 11 | C.36.3 | 0.006239 |
ORF7a | 45 | P45P | ccA | ccG | 11 | 11 | D.2 | 0.000825 |
ORF7a | 45 | P45P | ccA | ccT | 5 | 10 | AY.103 | 0.000031 |
ORF7a | 45 | P45P | ccA | ccC | 3 | 10 | AY.103 | 0.000019 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 10 | AY.103 | 0.000012 |
ORF7a | 45 | P45P | ccA | ccG | 4 | 7 | B.1.617.1 | 0.000516 |
ORF7a | 45 | P45P | ccA | ccT | 2 | 7 | B.1.617.1 | 0.000258 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 7 | B.1.617.1 | 0.000129 |
ORF7a | 45 | P45P | ccA | ccT | 4 | 7 | P.1 | 0.000063 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 7 | P.1 | 0.000032 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 7 | P.1 | 0.000016 |
ORF7a | 45 | P45P | ccA | ccG | 4 | 6 | AY.102 | 0.000106 |
ORF7a | 45 | P45P | ccA | ccT | 2 | 6 | AY.102 | 0.000053 |
ORF7a | 45 | P45P | ccA | ccG | 4 | 6 | AY.33 | 0.000267 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 6 | AY.33 | 0.000134 |
ORF7a | 45 | P45P | ccA | ccG | 3 | 6 | B.1.1 | 0.000054 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 6 | B.1.1 | 0.000036 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 6 | B.1.1 | 0.000018 |
ORF7a | 45 | P45P | ccA | ccC | 4 | 6 | B.1.596 | 0.000349 |
ORF7a | 45 | P45P | ccA | ccT | 2 | 6 | B.1.596 | 0.000174 |
ORF7a | 45 | P45P | ccA | ccG | 4 | 5 | AY.39 | 0.000099 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 5 | AY.39 | 0.000025 |
ORF7a | 45 | P45P | ccA | ccC | 3 | 5 | B.1.160 | 0.000094 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 5 | B.1.160 | 0.000062 |
ORF7a | 45 | P45P | ccA | ccC | 3 | 5 | B.1.177 | 0.00004 |
ORF7a | 45 | P45P | ccA | ccT | 2 | 5 | B.1.177 | 0.000026 |
ORF7a | 45 | P45P | ccA | ccC | 4 | 5 | B.1.351 | 0.000119 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 5 | B.1.351 | 0.00003 |
ORF7a | 45 | P45P | ccA | ccG | 4 | 4 | AY.20 | 0.000155 |
ORF7a | 45 | P45P | ccA | ccG | 3 | 4 | AY.5 | 0.000062 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 4 | AY.5 | 0.000021 |
ORF7a | 45 | P45P | ccA | ccT | 2 | 4 | B.1.221 | 0.000142 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 4 | B.1.221 | 0.000142 |
ORF7a | 45 | P45P | ccA | ccG | 4 | 4 | P.1.14 | 0.000191 |
ORF7a | 45 | P45P | ccA | ccC | 4 | 4 | Q.3 | 0.00058 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 3 | AY.10 | 0.00106 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 3 | AY.10 | 0.00053 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 3 | AY.26 | 0.000057 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 3 | AY.26 | 0.000028 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 3 | AY.46 | 0.000208 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 3 | AY.46 | 0.000104 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 3 | AY.61 | 0.00021 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 3 | AY.61 | 0.000105 |
ORF7a | 45 | P45P | ccA | ccC | 3 | 3 | B.1.1.39 | 0.001529 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 3 | B.1.139 | 0.001466 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 3 | B.1.139 | 0.000733 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 3 | B.1.234 | 0.000264 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 3 | B.1.234 | 0.000132 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 3 | B.1.291 | 0.038462 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 3 | B.1.291 | 0.019231 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | A | 0.000387 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 2 | A | 0.000387 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 2 | A.1 | 0.000282 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | A.1 | 0.000282 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 2 | AY.118 | 0.000125 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | AY.119 | 0.000035 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | AY.119 | 0.000035 |
ORF7a | 45 | P45P | ccA | ccT | 2 | 2 | AY.34 | 0.000194 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | AY.67 | 0.000464 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | AY.67 | 0.000464 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | AY.7.1 | 0.000113 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | AY.7.1 | 0.000113 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | AY.84 | 0.000437 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | AY.84 | 0.000437 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | AY.9 | 0.000068 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | AY.9 | 0.000068 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 2 | AY.98.1 | 0.000097 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 2 | B | 0.000256 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 2 | B.1.1.222 | 0.000408 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | B.1.1.409 | 0.002833 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | B.1.1.409 | 0.002833 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | B.1.146 | 0.004237 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 2 | B.1.146 | 0.004237 |
ORF7a | 45 | P45P | ccA | ccC | 2 | 2 | B.1.177.43 | 0.002954 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | B.1.466.2 | 0.000391 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | B.1.466.2 | 0.000391 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 2 | B.1.470 | 0.002809 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | B.1.497 | 0.000315 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 2 | B.1.497 | 0.000315 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 2 | B.1.525 | 0.000226 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | B.1.582 | 0.000491 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | B.1.582 | 0.000491 |
ORF7a | 45 | P45P | ccA | ccG | 2 | 2 | B.1.637 | 0.000146 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | C.37 | 0.000116 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 2 | C.37 | 0.000116 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 2 | Q.4 | 0.000455 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 2 | Q.4 | 0.000455 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | AY.109 | 0.00074 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | AY.116 | 0.000287 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | AY.116.1 | 0.000311 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | AY.12 | 0.000316 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | AY.120 | 0.000037 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | AY.121 | 0.000135 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | AY.14 | 0.000088 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | AY.16 | 0.00038 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | AY.23 | 0.00007 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | AY.29 | 0.000016 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | AY.4.2 | 0.000022 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | AY.45 | 0.000122 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | AY.46.2 | 0.000635 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | AY.75.1 | 0.00018 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | AY.77 | 0.001127 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | AY.9.1 | 0.000084 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | AY.9.2 | 0.000037 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | AY.95 | 0.000761 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | AY.96 | 0.002075 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | AY.99.2 | 0.000092 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.1.121 | 0.002427 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.226 | 0.005814 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.1.228 | 0.003049 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.231 | 0.003096 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.318 | 0.000302 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.334 | 0.016393 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.356 | 0.008547 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.376 | 0.005952 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.377 | 0.001381 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.412 | 0.007634 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.434 | 0.000349 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.448 | 0.002033 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.1.70 | 0.000341 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | B.1.128 | 0.000635 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.160.10 | 0.008065 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.160.26 | 0.002421 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.177.23 | 0.003236 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | B.1.177.53 | 0.002392 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.177.54 | 0.000606 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.177.6 | 0.000977 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.177.63 | 0.002703 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.241 | 0.000812 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.258.16 | 0.001637 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.311 | 0.000275 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.320 | 0.001245 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | B.1.334 | 0.018182 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.336 | 0.002439 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | B.1.36 | 0.000146 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.36.29 | 0.000517 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | B.1.36.37 | 0.002778 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.369 | 0.000285 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.399 | 0.001934 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.413 | 0.004255 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.426 | 0.001009 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.427 | 0.00005 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | B.1.467 | 0.04 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.503 | 0.002488 |
ORF7a | 45 | P45P | ccA | ccG | 1 | 1 | B.1.517 | 0.000427 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.551 | 0.00129 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.595 | 0.000261 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | B.1.609 | 0.000479 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | C.1 | 0.002392 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | C.16 | 0.00106 |
ORF7a | 45 | P45P | ccA | ccC | 1 | 1 | C.35 | 0.000774 |
ORF7a | 45 | P45P | ccA | ccT | 1 | 1 | P.1.7 | 0.000319 |
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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