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 | 80 | R80I | nonsyn | aGa | aTa | 6563 | 6562 | 0.999848 | 27631-27633 | |
ORF7a | 80 | R80I | nonsyn | aGA | aTT | 6563 | 1 | 0.000152369 | 27631-27633 |
Details of the mutation R80I 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 | 80 | R80I | aGa | aTa | 6562 | 6563 | All | 0.001255 |
ORF7a | 80 | R80I | aGA | aTT | 1 | 6563 | All | 0 |
ORF7a | 80 | R80I | aGa | aTa | 1407 | 1407 | AY.26 | 0.039832 |
ORF7a | 80 | R80I | aGa | aTa | 1060 | 1060 | B.1.367 | 0.839937 |
ORF7a | 80 | R80I | aGa | aTa | 757 | 758 | B.1.1.7 | 0.000678 |
ORF7a | 80 | R80I | aGA | aTT | 1 | 758 | B.1.1.7 | 0.000001 |
ORF7a | 80 | R80I | aGa | aTa | 546 | 546 | AY.90 | 0.373717 |
ORF7a | 80 | R80I | aGa | aTa | 403 | 403 | AY.4 | 0.000627 |
ORF7a | 80 | R80I | aGa | aTa | 258 | 258 | B.1.617.2 | 0.000971 |
ORF7a | 80 | R80I | aGa | aTa | 160 | 160 | AY.44 | 0.000974 |
ORF7a | 80 | R80I | aGa | aTa | 152 | 152 | AY.33 | 0.01015 |
ORF7a | 80 | R80I | aGa | aTa | 140 | 140 | AY.43 | 0.00062 |
ORF7a | 80 | R80I | aGa | aTa | 110 | 110 | AY.5 | 0.002271 |
ORF7a | 80 | R80I | aGa | aTa | 105 | 105 | AY.9.2 | 0.003857 |
ORF7a | 80 | R80I | aGa | aTa | 99 | 99 | AY.42 | 0.003983 |
ORF7a | 80 | R80I | aGa | aTa | 78 | 78 | AY.103 | 0.000484 |
ORF7a | 80 | R80I | aGa | aTa | 76 | 76 | B.1 | 0.000696 |
ORF7a | 80 | R80I | aGa | aTa | 71 | 71 | AY.120 | 0.00264 |
ORF7a | 80 | R80I | aGa | aTa | 70 | 70 | AY.3 | 0.000696 |
ORF7a | 80 | R80I | aGa | aTa | 60 | 60 | AY.4.2 | 0.001301 |
ORF7a | 80 | R80I | aGa | aTa | 47 | 47 | AY.13 | 0.007566 |
ORF7a | 80 | R80I | aGa | aTa | 43 | 43 | AY.102 | 0.00114 |
ORF7a | 80 | R80I | aGa | aTa | 40 | 40 | AY.46.6 | 0.002888 |
ORF7a | 80 | R80I | aGa | aTa | 39 | 39 | B.1.621 | 0.003452 |
ORF7a | 80 | R80I | aGa | aTa | 33 | 33 | B.1.2 | 0.000291 |
ORF7a | 80 | R80I | aGa | aTa | 29 | 29 | AY.7 | 0.005684 |
ORF7a | 80 | R80I | aGa | aTa | 27 | 27 | AY.99.2 | 0.002488 |
ORF7a | 80 | R80I | aGa | aTa | 27 | 27 | P.1 | 0.000425 |
ORF7a | 80 | R80I | aGa | aTa | 26 | 26 | AY.100 | 0.001196 |
ORF7a | 80 | R80I | aGa | aTa | 25 | 25 | AY.25 | 0.00015 |
ORF7a | 80 | R80I | aGa | aTa | 23 | 23 | AY.93 | 0.006281 |
ORF7a | 80 | R80I | aGa | aTa | 22 | 22 | AY.117 | 0.001859 |
ORF7a | 80 | R80I | aGa | aTa | 22 | 22 | B.1.617.1 | 0.002837 |
ORF7a | 80 | R80I | aGa | aTa | 21 | 21 | B.1.1.222 | 0.004284 |
ORF7a | 80 | R80I | aGa | aTa | 19 | 19 | AY.9.1 | 0.001591 |
ORF7a | 80 | R80I | aGa | aTa | 17 | 17 | AY.34.1 | 0.008669 |
ORF7a | 80 | R80I | aGa | aTa | 17 | 17 | AY.47 | 0.000529 |
ORF7a | 80 | R80I | aGa | aTa | 16 | 16 | AY.9 | 0.001082 |
ORF7a | 80 | R80I | aGa | aTa | 15 | 15 | AY.119 | 0.00053 |
ORF7a | 80 | R80I | aGa | aTa | 15 | 15 | AY.39 | 0.000371 |
ORF7a | 80 | R80I | aGa | aTa | 15 | 15 | B.1.177 | 0.000198 |
ORF7a | 80 | R80I | aGa | aTa | 13 | 13 | B.1.1.1 | 0.004247 |
ORF7a | 80 | R80I | aGa | aTa | 13 | 13 | B.1.427 | 0.000656 |
ORF7a | 80 | R80I | aGa | aTa | 12 | 12 | AY.20 | 0.000466 |
ORF7a | 80 | R80I | aGa | aTa | 12 | 12 | AY.46 | 0.001249 |
ORF7a | 80 | R80I | aGa | aTa | 12 | 12 | AY.59 | 0.006356 |
ORF7a | 80 | R80I | aGa | aTa | 12 | 12 | AY.74 | 0.001388 |
ORF7a | 80 | R80I | aGa | aTa | 12 | 12 | B.1.351 | 0.000357 |
ORF7a | 80 | R80I | aGa | aTa | 11 | 11 | AY.114 | 0.002542 |
ORF7a | 80 | R80I | aGa | aTa | 11 | 11 | AY.6 | 0.000452 |
ORF7a | 80 | R80I | aGa | aTa | 11 | 11 | B.1.160 | 0.000343 |
ORF7a | 80 | R80I | aGa | aTa | 11 | 11 | P.1.1 | 0.003494 |
ORF7a | 80 | R80I | aGa | aTa | 10 | 10 | AY.98.1 | 0.000484 |
ORF7a | 80 | R80I | aGa | aTa | 10 | 10 | B.1.478 | 0.117647 |
ORF7a | 80 | R80I | aGa | aTa | 9 | 9 | AY.29 | 0.000142 |
ORF7a | 80 | R80I | aGa | aTa | 8 | 8 | AY.113 | 0.001139 |
ORF7a | 80 | R80I | aGa | aTa | 8 | 8 | AY.118 | 0.000501 |
ORF7a | 80 | R80I | aGa | aTa | 8 | 8 | AY.120.1 | 0.002568 |
ORF7a | 80 | R80I | aGa | aTa | 7 | 7 | AY.30 | 0.00277 |
ORF7a | 80 | R80I | aGa | aTa | 7 | 7 | AY.61 | 0.000733 |
ORF7a | 80 | R80I | aGa | aTa | 7 | 7 | B.1.1 | 0.000127 |
ORF7a | 80 | R80I | aGa | aTa | 6 | 6 | AY.120.2 | 0.007712 |
ORF7a | 80 | R80I | aGa | aTa | 6 | 6 | AY.27 | 0.000388 |
ORF7a | 80 | R80I | aGa | aTa | 6 | 6 | AY.39.1 | 0.000238 |
ORF7a | 80 | R80I | aGa | aTa | 6 | 6 | AY.7.1 | 0.000676 |
ORF7a | 80 | R80I | aGa | aTa | 6 | 6 | AY.92 | 0.001724 |
ORF7a | 80 | R80I | aGa | aTa | 6 | 6 | B | 0.000767 |
ORF7a | 80 | R80I | aGa | aTa | 6 | 6 | B.1.429 | 0.000141 |
ORF7a | 80 | R80I | aGa | aTa | 6 | 6 | Q.3 | 0.00087 |
ORF7a | 80 | R80I | aGa | aTa | 5 | 5 | AY.46.5 | 0.000992 |
ORF7a | 80 | R80I | aGa | aTa | 5 | 5 | AY.5.4 | 0.001384 |
ORF7a | 80 | R80I | aGa | aTa | 5 | 5 | AY.84 | 0.002187 |
ORF7a | 80 | R80I | aGa | aTa | 5 | 5 | AY.99 | 0.005247 |
ORF7a | 80 | R80I | aGa | aTa | 5 | 5 | B.1.438.1 | 0.000536 |
ORF7a | 80 | R80I | aGa | aTa | 5 | 5 | B.1.526 | 0.000118 |
ORF7a | 80 | R80I | aGa | aTa | 5 | 5 | D.2 | 0.000375 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | AY.23.1 | 0.001669 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | AY.3.1 | 0.000341 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | AY.34 | 0.000388 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | AY.36 | 0.000593 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | AY.45 | 0.000487 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | AY.5.3 | 0.00135 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | AY.75 | 0.000224 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | AY.98 | 0.000316 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | B.1.396 | 0.002823 |
ORF7a | 80 | R80I | aGa | aTa | 4 | 4 | B.1.621.1 | 0.002023 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | AY.121 | 0.000406 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | AY.19 | 0.003421 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | AY.23 | 0.000209 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | AY.46.3 | 0.002801 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | AY.62 | 0.001307 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | AY.85 | 0.001282 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | B.1.1.207 | 0.003546 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | B.1.1.277 | 0.002276 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | B.1.177.32 | 0.004049 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | B.1.258 | 0.0002 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | C.37 | 0.000348 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | P.1.10 | 0.000808 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | P.1.4 | 0.00293 |
ORF7a | 80 | R80I | aGa | aTa | 3 | 3 | Q.8 | 0.000495 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.1 | 0.000791 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.105 | 0.001286 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.111 | 0.000366 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.16 | 0.000759 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.24 | 0.000862 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.37 | 0.000632 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.41 | 0.000588 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.46.4 | 0.000329 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.52 | 0.001629 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.70 | 0.000417 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.75.1 | 0.000361 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | AY.80 | 0.002257 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | B.1.1.519 | 0.000079 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | B.1.311 | 0.000549 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | B.1.36.26 | 0.005714 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | B.1.400 | 0.000858 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | B.1.525 | 0.000226 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | B.1.637 | 0.000146 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | N.4 | 0.008511 |
ORF7a | 80 | R80I | aGa | aTa | 2 | 2 | P.1.17 | 0.000324 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | A | 0.000387 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | A.1 | 0.000282 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | A.2.5 | 0.000499 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.101 | 0.00049 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.106 | 0.000335 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.109 | 0.00074 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.110 | 0.000113 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.116 | 0.000287 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.116.1 | 0.000311 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.12 | 0.000316 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.120.2.1 | 0.000498 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.16.1 | 0.00047 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.2 | 0.000356 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.29.1 | 0.000221 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.40 | 0.000964 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.53 | 0.000288 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.55 | 0.000917 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.57 | 0.000656 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.58 | 0.000907 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.7.2 | 0.000559 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.71 | 0.000475 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.86 | 0.00083 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.87 | 0.000833 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.88 | 0.000884 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | AY.95 | 0.000761 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.10 | 0.001115 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.101 | 0.01 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.214 | 0.000055 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.269 | 0.001353 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.28 | 0.000311 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.306 | 0.000438 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.317 | 0.000412 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.320 | 0.018182 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.1.444 | 0.142857 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.139 | 0.000733 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.157 | 0.002985 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.160.16 | 0.000929 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.177.38 | 0.010417 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.177.55 | 0.002331 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.177.56 | 0.000668 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.177.6 | 0.000977 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.177.77 | 0.000726 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.177.86 | 0.000183 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.214.2 | 0.0006 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.240 | 0.000216 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.243 | 0.00007 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.301 | 0.005917 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.315 | 0.006061 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.319 | 0.003049 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.320 | 0.001245 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.362 | 0.001541 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.404 | 0.001302 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.516 | 0.001957 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.596 | 0.000087 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.617.3 | 0.002985 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.623 | 0.000536 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | B.1.628 | 0.000352 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | D.5 | 0.004975 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | P.1.12 | 0.000484 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | P.1.13 | 0.000898 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | P.1.17.1 | 0.000875 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | P.1.7 | 0.000319 |
ORF7a | 80 | R80I | aGa | aTa | 1 | 1 | R.1 | 0.00009 |
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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