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 |
ORF3a | 72 | A72S | nonsyn | Gca | Tca | 6068 | 6063 | 0.999176 | 25606-25608 | |
ORF3a | 72 | A72S | nonsyn | GCA | AGC | 6068 | 3 | 0.000494397 | 25606-25608 | |
ORF3a | 72 | A72S | nonsyn | GcA | TcT | 6068 | 2 | 0.000329598 | 25606-25608 |
Details of the mutation A72S 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 |
ORF3a | 72 | A72S | Gca | Tca | 6063 | 6068 | All | 0.00116 |
ORF3a | 72 | A72S | GCA | AGC | 3 | 6068 | All | 0.000001 |
ORF3a | 72 | A72S | GcA | TcT | 2 | 6068 | All | 0 |
ORF3a | 72 | A72S | Gca | Tca | 2765 | 2765 | B.1.258 | 0.184002 |
ORF3a | 72 | A72S | Gca | Tca | 563 | 563 | B.1.1.7 | 0.000504 |
ORF3a | 72 | A72S | Gca | Tca | 445 | 445 | B.1.351 | 0.013228 |
ORF3a | 72 | A72S | Gca | Tca | 329 | 329 | B.1.160.14 | 0.697034 |
ORF3a | 72 | A72S | Gca | Tca | 259 | 259 | B.1 | 0.002372 |
ORF3a | 72 | A72S | Gca | Tca | 245 | 245 | AY.4 | 0.000381 |
ORF3a | 72 | A72S | Gca | Tca | 124 | 124 | B.1.617.2 | 0.000467 |
ORF3a | 72 | A72S | Gca | Tca | 118 | 118 | B.1.429 | 0.002776 |
ORF3a | 72 | A72S | Gca | Tca | 90 | 90 | B.1.151 | 1 |
ORF3a | 72 | A72S | Gca | Tca | 73 | 73 | AY.43 | 0.000323 |
ORF3a | 72 | A72S | Gca | Tca | 70 | 70 | AY.103 | 0.000435 |
ORF3a | 72 | A72S | Gca | Tca | 68 | 68 | AY.113 | 0.009682 |
ORF3a | 72 | A72S | Gca | Tca | 64 | 64 | B.1.177 | 0.000843 |
ORF3a | 72 | A72S | Gca | Tca | 57 | 57 | B.1.1 | 0.001034 |
ORF3a | 72 | A72S | Gca | Tca | 51 | 51 | P.1.14 | 0.002438 |
ORF3a | 72 | A72S | Gca | Tca | 50 | 50 | AY.44 | 0.000304 |
ORF3a | 72 | A72S | Gca | Tca | 40 | 40 | B.1.160 | 0.001248 |
ORF3a | 72 | A72S | Gca | Tca | 31 | 31 | B | 0.003962 |
ORF3a | 72 | A72S | Gca | Tca | 30 | 30 | AY.4.2 | 0.000651 |
ORF3a | 72 | A72S | Gca | Tca | 29 | 29 | AY.39 | 0.000717 |
ORF3a | 72 | A72S | Gca | Tca | 29 | 29 | B.1.2 | 0.000255 |
ORF3a | 72 | A72S | Gca | Tca | 27 | 27 | AY.102 | 0.000716 |
ORF3a | 72 | A72S | Gca | Tca | 20 | 20 | P.1 | 0.000315 |
ORF3a | 72 | A72S | Gca | Tca | 19 | 19 | B.1.427 | 0.000959 |
ORF3a | 72 | A72S | Gca | Tca | 18 | 18 | B.1.1.333 | 0.019376 |
ORF3a | 72 | A72S | Gca | Tca | 16 | 16 | AY.26 | 0.000453 |
ORF3a | 72 | A72S | Gca | Tca | 15 | 15 | AY.25 | 0.00009 |
ORF3a | 72 | A72S | Gca | Tca | 15 | 15 | B.1.617.1 | 0.001934 |
ORF3a | 72 | A72S | Gca | Tca | 14 | 14 | AY.29 | 0.000221 |
ORF3a | 72 | A72S | Gca | Tca | 13 | 13 | AY.5 | 0.000268 |
ORF3a | 72 | A72S | Gca | Tca | 12 | 12 | AY.119 | 0.000424 |
ORF3a | 72 | A72S | Gca | Tca | 11 | 11 | A | 0.004257 |
ORF3a | 72 | A72S | Gca | Tca | 10 | 10 | AY.16 | 0.003797 |
ORF3a | 72 | A72S | Gca | Tca | 10 | 10 | AY.3 | 0.000099 |
ORF3a | 72 | A72S | Gca | Tca | 10 | 10 | B.1.466.2 | 0.003912 |
ORF3a | 72 | A72S | Gca | Tca | 8 | 8 | AY.120 | 0.000297 |
ORF3a | 72 | A72S | Gca | Tca | 8 | 8 | AY.23 | 0.000558 |
ORF3a | 72 | A72S | Gca | Tca | 7 | 7 | AY.41 | 0.002058 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 6 | 0.111111 | |
ORF3a | 72 | A72S | GCA | AGC | 2 | 6 | 0.111111 | |
ORF3a | 72 | A72S | GcA | TcT | 2 | 6 | 0.111111 | |
ORF3a | 72 | A72S | Gca | Tca | 6 | 6 | AY.20 | 0.000233 |
ORF3a | 72 | A72S | Gca | Tca | 6 | 6 | AY.98 | 0.000474 |
ORF3a | 72 | A72S | Gca | Tca | 6 | 6 | C.9 | 0.181818 |
ORF3a | 72 | A72S | Gca | Tca | 5 | 5 | AY.14 | 0.00044 |
ORF3a | 72 | A72S | Gca | Tca | 5 | 5 | AY.34 | 0.000485 |
ORF3a | 72 | A72S | Gca | Tca | 5 | 5 | AY.36 | 0.000741 |
ORF3a | 72 | A72S | Gca | Tca | 5 | 5 | B.1.526 | 0.000118 |
ORF3a | 72 | A72S | Gca | Tca | 5 | 5 | P.1.15 | 0.001162 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | AY.45 | 0.000487 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | AY.6 | 0.000165 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | B.1.1.397 | 0.009009 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | B.1.221 | 0.000284 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | B.1.243 | 0.000278 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | B.1.258.21 | 0.031008 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | B.1.36 | 0.000584 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | B.1.459 | 0.016327 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | B.1.469 | 0.01444 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | B.1.609 | 0.001918 |
ORF3a | 72 | A72S | Gca | Tca | 4 | 4 | P.3 | 0.00638 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | AY.108 | 0.003308 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | AY.27 | 0.000194 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | AY.33 | 0.0002 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | AY.46.5 | 0.000595 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | AY.5.4 | 0.00083 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | AY.75 | 0.000168 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | AY.78 | 0.004622 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | AY.9.2 | 0.00011 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.1.214 | 0.000166 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.1.39 | 0.001529 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.139 | 0.002199 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.177.12 | 0.000455 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.218 | 0.015464 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.222 | 0.005076 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.258.11 | 0.001189 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.359 | 0.068182 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.1.621 | 0.000266 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | B.26 | 0.044118 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | C.37 | 0.000348 |
ORF3a | 72 | A72S | Gca | Tca | 3 | 3 | P.1.7 | 0.000958 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | A.2 | 0.001324 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | A.23.1 | 0.001408 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | A.29 | 0.010638 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AD.2 | 0.000438 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.1 | 0.000791 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.10 | 0.00106 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.117 | 0.000169 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.29.1 | 0.000441 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.4.5 | 0.000215 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.46 | 0.000208 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.59 | 0.001059 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.61 | 0.00021 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.7.1 | 0.000225 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.71 | 0.00095 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.98.1 | 0.000097 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | AY.99 | 0.002099 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.153 | 0.002191 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.170 | 0.002494 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.204 | 0.006079 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.28 | 0.000622 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.306 | 0.000877 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.318 | 0.000604 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.375 | 0.02381 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.420 | 0.002012 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.434 | 0.000697 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.50 | 0.001358 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.1.70 | 0.000682 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.160.30 | 0.005952 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.177.60 | 0.000437 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.258.2 | 0.009009 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.351.2 | 0.000605 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.36.29 | 0.001035 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.369 | 0.00057 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | B.1.525 | 0.000226 |
ORF3a | 72 | A72S | Gca | Tca | 2 | 2 | Q.1 | 0.000253 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | A.1 | 0.000282 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | A.21 | 0.00277 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.116 | 0.000287 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.118 | 0.000063 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.12 | 0.000316 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.121 | 0.000135 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.24 | 0.000431 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.3.1 | 0.000085 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.39.1 | 0.00004 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.40 | 0.000964 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.42 | 0.00004 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.46.3 | 0.000934 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.47 | 0.000031 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.49 | 0.003195 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.53 | 0.000288 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.55 | 0.000917 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.68 | 0.000274 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.77 | 0.001127 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.9 | 0.000068 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.9.1 | 0.000084 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.90 | 0.000684 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.92 | 0.000287 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | AY.99.2 | 0.000092 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.1 | 0.000327 |
ORF3a | 72 | A72S | GCA | AGC | 1 | 1 | B.1.1.139 | 0.022727 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.174 | 0.003378 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.189 | 0.001513 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.216 | 0.00089 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.222 | 0.000204 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.241 | 0.00207 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.25 | 0.000569 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.301 | 0.001179 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.464 | 0.001473 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.1.519 | 0.00004 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.127 | 0.002198 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.157 | 0.002985 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.160.16 | 0.000929 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.160.23 | 0.004831 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.160.29 | 0.004219 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.177.16 | 0.000664 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.177.17 | 0.000821 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.177.44 | 0.000519 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.177.6 | 0.000977 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.177.75 | 0.001041 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.177.86 | 0.000183 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.210 | 0.002132 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.235 | 0.002519 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.258.12 | 0.007874 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.258.14 | 0.00098 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.258.15 | 0.018868 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.258.3 | 0.001675 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.284 | 0.013158 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.293 | 0.0125 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.326 | 0.007576 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.329 | 0.000608 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.349 | 0.000715 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.36.27 | 0.000763 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.36.35 | 0.002604 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.375 | 0.00082 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.40 | 0.019608 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.416.1 | 0.001563 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.437 | 0.020833 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.473 | 0.019231 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.499 | 0.00105 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.516 | 0.001957 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.527 | 0.003704 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.568 | 0.001111 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.575.1 | 0.002439 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.625 | 0.002353 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.627 | 0.00202 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.632 | 0.006711 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.78 | 0.008547 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.1.94 | 0.027027 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | B.3.1 | 0.001658 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | C.1.2 | 0.004255 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | D.2 | 0.000075 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | K.1 | 0.02381 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | P.1.12 | 0.000484 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | P.2 | 0.000187 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | Q.7 | 0.001111 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | Q.8 | 0.000165 |
ORF3a | 72 | A72S | Gca | Tca | 1 | 1 | R.1 | 0.00009 |
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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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