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 |
S | 9 | P9L | nonsyn | cCa | cTa | 2956 | 2955 | 0.999662 | 21587-21589 | |
S | 9 | P9L | nonsyn | cCA | cTG | 2956 | 1 | 0.000338295 | 21587-21589 | |
S | 9 | P9S | nonsyn | Cca | Tca | 1017 | 1017 | 1 | 21587-21589 | |
S | 9 | P9P | syn | ccA | ccG | 274 | 238 | 0.868613 | 21587-21589 | |
S | 9 | P9P | syn | ccA | ccC | 274 | 25 | 0.0912409 | 21587-21589 | |
S | 9 | P9P | syn | ccA | ccT | 274 | 11 | 0.040146 | 21587-21589 | |
S | 9 | P9T | nonsyn | Cca | Aca | 115 | 113 | 0.982609 | 21587-21589 | |
S | 9 | P9T | nonsyn | CcA | AcT | 115 | 2 | 0.0173913 | 21587-21589 | |
S | 9 | P9del | del | CCA | --- | 44 | 44 | 1 | 21587-21589 | |
S | 9 | P9Q | nonsyn | cCa | cAa | 34 | 34 | 1 | 21587-21589 | |
S | 9 | P9R | nonsyn | cCa | cGa | 25 | 25 | 1 | 21587-21589 | |
S | 9 | P9del1 | del | Cca | -ca | 7 | 6 | 0.857143 | 21587-21589 | |
S | 9 | P9del1 | del | ccA | cc- | 7 | 1 | 0.142857 | 21587-21589 | |
S | 9 | P9del2 | del | CCa | --a | 1 | 1 | 1 | 21587-21589 | |
S | 9 | P9K | nonsyn | CCa | AAa | 1 | 1 | 1 | 21587-21589 | |
S | 9 | P9A | nonsyn | Cca | Gca | 1 | 1 | 1 | 21587-21589 | |
S | 9 | P9V | nonsyn | CCA | GTT | 1 | 1 | 1 | 21587-21589 |
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 |
S | 9 | P9L | cCa | cTa | 2955 | 2956 | All | 0.000565 |
S | 9 | P9L | cCA | cTG | 1 | 2956 | All | 0 |
S | 9 | P9S | Cca | Tca | 1017 | 1017 | All | 0.000195 |
S | 9 | P9L | cCa | cTa | 999 | 999 | B.1.1.7 | 0.000894 |
S | 9 | P9S | Cca | Tca | 440 | 440 | B.1.1.7 | 0.000394 |
S | 9 | P9L | cCa | cTa | 345 | 345 | B.1.427 | 0.017422 |
S | 9 | P9P | ccA | ccG | 238 | 274 | All | 0.000046 |
S | 9 | P9P | ccA | ccC | 25 | 274 | All | 0.000005 |
S | 9 | P9P | ccA | ccT | 11 | 274 | All | 0.000002 |
S | 9 | P9L | cCa | cTa | 218 | 218 | C.1.2 | 0.92766 |
S | 9 | P9L | cCa | cTa | 194 | 194 | P.3 | 0.30941 |
S | 9 | P9L | cCa | cTa | 183 | 183 | B.1.630 | 0.958115 |
S | 9 | P9L | cCa | cTa | 178 | 178 | AT.1 | 0.912821 |
S | 9 | P9P | ccA | ccG | 117 | 117 | AY.44 | 0.000712 |
S | 9 | P9T | Cca | Aca | 113 | 115 | All | 0.000022 |
S | 9 | P9T | CcA | AcT | 2 | 115 | All | 0 |
S | 9 | P9L | cCa | cTa | 105 | 105 | C.38 | 0.846774 |
S | 9 | P9L | cCa | cTa | 80 | 80 | B.1 | 0.000733 |
S | 9 | P9S | Cca | Tca | 66 | 66 | AY.4 | 0.000103 |
S | 9 | P9P | ccA | ccG | 52 | 52 | AY.47 | 0.001617 |
S | 9 | P9L | cCa | cTa | 46 | 46 | B.1.1 | 0.000834 |
S | 9 | P9del | CCA | --- | 44 | 44 | All | 0.000008 |
S | 9 | P9L | cCa | cTa | 44 | 44 | B.1.2 | 0.000387 |
S | 9 | P9L | cCa | cTa | 42 | 42 | B.1.1.524 | 0.875 |
S | 9 | P9S | Cca | Tca | 40 | 40 | B.1.617.2 | 0.000151 |
S | 9 | P9S | Cca | Tca | 38 | 38 | B.1.2 | 0.000335 |
S | 9 | P9Q | cCa | cAa | 34 | 34 | All | 0.000007 |
S | 9 | P9L | cCa | cTa | 31 | 31 | B.1.177 | 0.000408 |
S | 9 | P9L | cCa | cTa | 30 | 30 | N.10 | 0.882353 |
S | 9 | P9T | Cca | Aca | 29 | 29 | B.1.1.7 | 0.000026 |
S | 9 | P9L | cCa | cTa | 27 | 27 | C.36.3.1 | 0.07337 |
S | 9 | P9R | cCa | cGa | 25 | 25 | All | 0.000005 |
S | 9 | P9P | ccA | ccG | 22 | 24 | AY.4 | 0.000034 |
S | 9 | P9P | ccA | ccC | 1 | 24 | AY.4 | 0.000002 |
S | 9 | P9P | ccA | ccT | 1 | 24 | AY.4 | 0.000002 |
S | 9 | P9S | Cca | Tca | 23 | 23 | B.1.1 | 0.000417 |
S | 9 | P9L | cCa | cTa | 22 | 22 | A.2.5 | 0.010978 |
S | 9 | P9L | cCa | cTa | 22 | 22 | B.1.576 | 0.019946 |
S | 9 | P9L | cCa | cTa | 22 | 22 | C.39 | 0.415094 |
S | 9 | P9P | ccA | ccG | 18 | 20 | B.1.1.7 | 0.000016 |
S | 9 | P9P | ccA | ccC | 2 | 20 | B.1.1.7 | 0.000002 |
S | 9 | P9S | Cca | Tca | 20 | 20 | B.1.177 | 0.000263 |
S | 9 | P9L | cCa | cTa | 20 | 20 | B.1.351 | 0.000595 |
S | 9 | P9L | cCa | cTa | 19 | 19 | B.1.214.2 | 0.011391 |
S | 9 | P9L | cCa | cTa | 19 | 19 | B.1.637 | 0.001388 |
S | 9 | P9S | Cca | Tca | 17 | 17 | B.1 | 0.000156 |
S | 9 | P9Q | cCa | cAa | 16 | 16 | B.1.1.7 | 0.000014 |
S | 9 | P9L | cCa | cTa | 16 | 16 | B.1.177.81 | 0.003029 |
S | 9 | P9S | Cca | Tca | 16 | 16 | B.1.427 | 0.000808 |
S | 9 | P9S | Cca | Tca | 15 | 15 | AY.3 | 0.000149 |
S | 9 | P9L | cCa | cTa | 15 | 15 | B.1.149 | 0.05137 |
S | 9 | P9S | Cca | Tca | 15 | 15 | B.1.177.15 | 0.009464 |
S | 9 | P9S | Cca | Tca | 15 | 15 | B.1.429 | 0.000353 |
S | 9 | P9R | cCa | cGa | 14 | 14 | AY.4 | 0.000022 |
S | 9 | P9S | Cca | Tca | 14 | 14 | AY.44 | 0.000085 |
S | 9 | P9P | ccA | ccC | 12 | 13 | AY.113 | 0.001709 |
S | 9 | P9P | ccA | ccG | 1 | 13 | AY.113 | 0.000142 |
S | 9 | P9S | Cca | Tca | 13 | 13 | Q.1 | 0.001642 |
S | 9 | P9S | Cca | Tca | 12 | 12 | AY.103 | 0.000075 |
S | 9 | P9L | cCa | cTa | 12 | 12 | B.1.160 | 0.000374 |
S | 9 | P9S | Cca | Tca | 11 | 11 | AY.25 | 0.000066 |
S | 9 | P9S | Cca | Tca | 11 | 11 | W.4 | 0.014865 |
S | 9 | P9S | Cca | Tca | 10 | 10 | AY.33 | 0.000668 |
S | 9 | P9L | cCa | cTa | 10 | 10 | B.1.1.1 | 0.003267 |
S | 9 | P9L | cCa | cTa | 10 | 10 | B.1.1.33 | 0.004209 |
S | 9 | P9S | Cca | Tca | 9 | 9 | AY.98.1 | 0.000436 |
S | 9 | P9T | Cca | Aca | 9 | 9 | B.1 | 0.000082 |
S | 9 | P9L | cCa | cTa | 9 | 9 | B.1.1.519 | 0.000357 |
S | 9 | P9S | Cca | Tca | 9 | 9 | B.1.526 | 0.000212 |
S | 9 | P9L | cCa | cTa | 9 | 9 | B.1.617.1 | 0.001161 |
S | 9 | P9L | cCa | cTa | 9 | 9 | C.37 | 0.001045 |
S | 9 | P9L | cCa | cTa | 8 | 8 | B.1.429 | 0.000188 |
S | 9 | P9del1 | Cca | -ca | 6 | 7 | All | 0.000001 |
S | 9 | P9del1 | ccA | cc- | 1 | 7 | All | 0 |
S | 9 | P9L | cCa | cTa | 7 | 7 | AY.4 | 0.000011 |
S | 9 | P9S | Cca | Tca | 7 | 7 | AY.4.2 | 0.000152 |
S | 9 | P9S | Cca | Tca | 7 | 7 | AY.43 | 0.000031 |
S | 9 | P9L | cCa | cTa | 7 | 7 | AY.45 | 0.000852 |
S | 9 | P9L | cCa | cTa | 7 | 7 | B.1.1.214 | 0.000388 |
S | 9 | P9L | cCa | cTa | 7 | 7 | B.1.526 | 0.000165 |
S | 9 | P9S | Cca | Tca | 7 | 7 | B.1.621 | 0.00062 |
S | 9 | P9S | Cca | Tca | 7 | 7 | P.3 | 0.011164 |
S | 9 | P9del | CCA | --- | 6 | 6 | AY.33 | 0.000401 |
S | 9 | P9S | Cca | Tca | 6 | 6 | B.1.160 | 0.000187 |
S | 9 | P9L | cCa | cTa | 6 | 6 | B.1.258 | 0.000399 |
S | 9 | P9S | Cca | Tca | 6 | 6 | B.1.351 | 0.000178 |
S | 9 | P9L | cCa | cTa | 6 | 6 | B.1.588 | 0.00546 |
S | 9 | P9S | Cca | Tca | 5 | 5 | AY.2 | 0.001781 |
S | 9 | P9R | cCa | cGa | 5 | 5 | AY.25 | 0.00003 |
S | 9 | P9T | Cca | Aca | 5 | 5 | AY.4 | 0.000008 |
S | 9 | P9S | Cca | Tca | 5 | 5 | AY.47 | 0.000156 |
S | 9 | P9P | ccA | ccC | 4 | 5 | B.1.160 | 0.000125 |
S | 9 | P9P | ccA | ccG | 1 | 5 | B.1.160 | 0.000031 |
S | 9 | P9T | Cca | Aca | 5 | 5 | B.1.2 | 0.000044 |
S | 9 | P9L | cCa | cTa | 5 | 5 | B.1.258.17 | 0.00052 |
S | 9 | P9S | Cca | Tca | 5 | 5 | B.1.556 | 0.037594 |
S | 9 | P9L | cCa | cTa | 5 | 5 | D.2 | 0.000375 |
S | 9 | P9S | Cca | Tca | 5 | 5 | P.1 | 0.000079 |
S | 9 | P9T | CcA | AcT | 2 | 4 | 0.111111 | |
S | 9 | P9T | Cca | Aca | 2 | 4 | 0.111111 | |
S | 9 | P9S | Cca | Tca | 4 | 4 | AY.113 | 0.00057 |
S | 9 | P9S | Cca | Tca | 4 | 4 | AY.29 | 0.000063 |
S | 9 | P9S | Cca | Tca | 4 | 4 | AY.39 | 0.000099 |
S | 9 | P9P | ccA | ccG | 4 | 4 | AY.5 | 0.000083 |
S | 9 | P9del | CCA | --- | 4 | 4 | B.1.1 | 0.000073 |
S | 9 | P9T | Cca | Aca | 4 | 4 | B.1.1 | 0.000073 |
S | 9 | P9S | Cca | Tca | 4 | 4 | B.1.1.318 | 0.001207 |
S | 9 | P9L | cCa | cTa | 4 | 4 | B.1.1.434 | 0.001394 |
S | 9 | P9S | Cca | Tca | 4 | 4 | B.1.258 | 0.000266 |
S | 9 | P9S | Cca | Tca | 4 | 4 | B.1.369 | 0.001141 |
S | 9 | P9S | Cca | Tca | 4 | 4 | B.1.438.1 | 0.000429 |
S | 9 | P9S | Cca | Tca | 4 | 4 | B.1.516 | 0.007828 |
S | 9 | P9L | cCa | cTa | 4 | 4 | B.1.617.2 | 0.000015 |
S | 9 | P9S | Cca | Tca | 4 | 4 | B.1.637 | 0.000292 |
S | 9 | P9L | cCa | cTa | 4 | 4 | Q.8 | 0.00066 |
S | 9 | P9P | ccA | ccT | 3 | 3 | 0.166667 | |
S | 9 | P9S | Cca | Tca | 3 | 3 | AY.102 | 0.00008 |
S | 9 | P9S | Cca | Tca | 3 | 3 | AY.120 | 0.000112 |
S | 9 | P9S | Cca | Tca | 3 | 3 | AY.3.1 | 0.000256 |
S | 9 | P9L | cCa | cTa | 3 | 3 | AZ.2.1 | 0.02439 |
S | 9 | P9del | CCA | --- | 3 | 3 | B.1 | 0.000027 |
S | 9 | P9P | ccA | ccG | 2 | 3 | B.1 | 0.000018 |
S | 9 | P9P | ccA | ccC | 1 | 3 | B.1 | 0.000009 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.1.28 | 0.000934 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.1.318 | 0.000905 |
S | 9 | P9S | Cca | Tca | 3 | 3 | B.1.1.449 | 0.068182 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.1.50 | 0.002037 |
S | 9 | P9R | cCa | cGa | 3 | 3 | B.1.1.7 | 0.000003 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.110.3 | 0.002155 |
S | 9 | P9T | Cca | Aca | 3 | 3 | B.1.160 | 0.000094 |
S | 9 | P9P | ccA | ccG | 1 | 3 | B.1.177 | 0.000013 |
S | 9 | P9P | ccA | ccC | 1 | 3 | B.1.177 | 0.000013 |
S | 9 | P9P | ccA | ccT | 1 | 3 | B.1.177 | 0.000013 |
S | 9 | P9del | CCA | --- | 3 | 3 | B.1.2 | 0.000026 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.234 | 0.000396 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.240 | 0.000647 |
S | 9 | P9S | Cca | Tca | 3 | 3 | B.1.243 | 0.000209 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.369 | 0.000856 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.404 | 0.003906 |
S | 9 | P9L | cCa | cTa | 2 | 3 | B.1.525 | 0.000226 |
S | 9 | P9L | cCA | cTG | 1 | 3 | B.1.525 | 0.000113 |
S | 9 | P9L | cCa | cTa | 3 | 3 | B.1.595 | 0.000783 |
S | 9 | P9P | ccA | ccT | 1 | 3 | B.1.617.2 | 0.000004 |
S | 9 | P9P | ccA | ccG | 1 | 3 | B.1.617.2 | 0.000004 |
S | 9 | P9P | ccA | ccC | 1 | 3 | B.1.617.2 | 0.000004 |
S | 9 | P9T | Cca | Aca | 3 | 3 | B.1.637 | 0.000219 |
S | 9 | P9S | Cca | Tca | 3 | 3 | D.2 | 0.000225 |
S | 9 | P9T | Cca | Aca | 3 | 3 | P.1 | 0.000047 |
S | 9 | P9del | CCA | --- | 3 | 3 | P.1 | 0.000047 |
S | 9 | P9T | Cca | Aca | 3 | 3 | Q.1 | 0.000379 |
S | 9 | P9S | Cca | Tca | 3 | 3 | Q.8 | 0.000495 |
S | 9 | P9L | cCa | cTa | 2 | 2 | AD.2 | 0.000438 |
S | 9 | P9T | Cca | Aca | 2 | 2 | AY.102 | 0.000053 |
S | 9 | P9P | ccA | ccG | 2 | 2 | AY.103 | 0.000012 |
S | 9 | P9S | Cca | Tca | 2 | 2 | AY.119 | 0.000071 |
S | 9 | P9P | ccA | ccG | 2 | 2 | AY.13 | 0.000322 |
S | 9 | P9S | Cca | Tca | 2 | 2 | AY.20 | 0.000078 |
S | 9 | P9S | Cca | Tca | 2 | 2 | AY.23 | 0.000139 |
S | 9 | P9del | CCA | --- | 2 | 2 | AY.25 | 0.000012 |
S | 9 | P9P | ccA | ccG | 2 | 2 | AY.26 | 0.000057 |
S | 9 | P9S | Cca | Tca | 2 | 2 | AY.26 | 0.000057 |
S | 9 | P9T | Cca | Aca | 2 | 2 | AY.29 | 0.000032 |
S | 9 | P9P | ccA | ccC | 1 | 2 | AY.3 | 0.00001 |
S | 9 | P9P | ccA | ccG | 1 | 2 | AY.3 | 0.00001 |
S | 9 | P9S | Cca | Tca | 2 | 2 | AY.34 | 0.000194 |
S | 9 | P9S | Cca | Tca | 2 | 2 | AY.39.1 | 0.000079 |
S | 9 | P9del | CCA | --- | 2 | 2 | AY.43 | 0.000009 |
S | 9 | P9L | cCa | cTa | 2 | 2 | AY.44 | 0.000012 |
S | 9 | P9S | Cca | Tca | 2 | 2 | AY.75 | 0.000112 |
S | 9 | P9S | Cca | Tca | 2 | 2 | AY.99.2 | 0.000184 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.1.159 | 0.009346 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.1.207 | 0.002364 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.1.265 | 0.006309 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.1.28 | 0.000622 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.1.37 | 0.000386 |
S | 9 | P9T | Cca | Aca | 2 | 2 | B.1.1.39 | 0.001019 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.1.525 | 0.010929 |
S | 9 | P9del | CCA | --- | 2 | 2 | B.1.1.7 | 0.000002 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.177.23 | 0.006472 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.177.33 | 0.003289 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.221 | 0.000142 |
S | 9 | P9del1 | Cca | -ca | 1 | 2 | B.1.221 | 0.000071 |
S | 9 | P9del1 | ccA | cc- | 1 | 2 | B.1.221 | 0.000071 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.232 | 0.001075 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.234 | 0.000264 |
S | 9 | P9T | Cca | Aca | 2 | 2 | B.1.258 | 0.000133 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.311 | 0.000549 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.351.5 | 0.001199 |
S | 9 | P9T | Cca | Aca | 2 | 2 | B.1.36.1 | 0.002281 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.36.35 | 0.005208 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.39 | 0.007812 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.396 | 0.001411 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.466.2 | 0.000782 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.466.2 | 0.000782 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.497 | 0.00063 |
S | 9 | P9del | CCA | --- | 2 | 2 | B.1.525 | 0.000226 |
S | 9 | P9S | Cca | Tca | 2 | 2 | B.1.596 | 0.000174 |
S | 9 | P9L | cCa | cTa | 2 | 2 | B.1.621 | 0.000177 |
S | 9 | P9Q | cCa | cAa | 2 | 2 | B.6.6 | 0.001778 |
S | 9 | P9L | cCa | cTa | 2 | 2 | C.1 | 0.004785 |
S | 9 | P9L | cCa | cTa | 2 | 2 | C.23 | 0.011628 |
S | 9 | P9S | Cca | Tca | 2 | 2 | C.36 | 0.001821 |
S | 9 | P9T | Cca | Aca | 2 | 2 | P.2 | 0.000373 |
S | 9 | P9L | cCa | cTa | 2 | 2 | P.2 | 0.000373 |
S | 9 | P9L | cCa | cTa | 2 | 2 | P.5 | 0.027397 |
S | 9 | P9P | ccA | ccG | 2 | 2 | Z.1 | 0.00578 |
S | 9 | P9del1 | Cca | -ca | 1 | 1 | 0.055556 | |
S | 9 | P9L | cCa | cTa | 1 | 1 | A | 0.000387 |
S | 9 | P9L | cCa | cTa | 1 | 1 | A.2 | 0.000662 |
S | 9 | P9del | CCA | --- | 1 | 1 | A.2.4 | 0.003367 |
S | 9 | P9P | ccA | ccG | 1 | 1 | A.2.4 | 0.003367 |
S | 9 | P9T | Cca | Aca | 1 | 1 | A.2.5 | 0.000499 |
S | 9 | P9S | Cca | Tca | 1 | 1 | A.2.5 | 0.000499 |
S | 9 | P9L | cCa | cTa | 1 | 1 | A.2.5.1 | 0.004808 |
S | 9 | P9S | Cca | Tca | 1 | 1 | A.2.5.3 | 0.010309 |
S | 9 | P9A | Cca | Gca | 1 | 1 | All | 0 |
S | 9 | P9V | CCA | GTT | 1 | 1 | All | 0 |
S | 9 | P9K | CCa | AAa | 1 | 1 | All | 0 |
S | 9 | P9del2 | CCa | --a | 1 | 1 | All | 0 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AU.1 | 0.001266 |
S | 9 | P9del | CCA | --- | 1 | 1 | AY.100 | 0.000046 |
S | 9 | P9P | ccA | ccC | 1 | 1 | AY.100 | 0.000046 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.100 | 0.000046 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.102 | 0.000027 |
S | 9 | P9P | ccA | ccG | 1 | 1 | AY.102 | 0.000027 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.103 | 0.000006 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.103 | 0.000006 |
S | 9 | P9del | CCA | --- | 1 | 1 | AY.103 | 0.000006 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.104 | 0.001984 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.11 | 0.001339 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.118 | 0.000063 |
S | 9 | P9P | ccA | ccG | 1 | 1 | AY.118 | 0.000063 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.120 | 0.000037 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.13 | 0.000161 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.16 | 0.00038 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.16.1 | 0.00047 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.16.1 | 0.00047 |
S | 9 | P9P | ccA | ccG | 1 | 1 | AY.20 | 0.000039 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.23.1 | 0.000417 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.23.1 | 0.000417 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.25 | 0.000006 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.25 | 0.000006 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.26 | 0.000028 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.3 | 0.00001 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.30 | 0.000396 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.35 | 0.000233 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.36 | 0.000148 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.39 | 0.000025 |
S | 9 | P9P | ccA | ccG | 1 | 1 | AY.39.1 | 0.00004 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.39.1 | 0.00004 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.4 | 0.000002 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.4.2 | 0.000022 |
S | 9 | P9del | CCA | --- | 1 | 1 | AY.4.3 | 0.000842 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.42 | 0.00004 |
S | 9 | P9del | CCA | --- | 1 | 1 | AY.42 | 0.00004 |
S | 9 | P9P | ccA | ccG | 1 | 1 | AY.42 | 0.00004 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.42 | 0.00004 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.42 | 0.00004 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.43 | 0.000004 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.43 | 0.000004 |
S | 9 | P9del | CCA | --- | 1 | 1 | AY.44 | 0.000006 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.46 | 0.000104 |
S | 9 | P9R | cCa | cGa | 1 | 1 | AY.46.5 | 0.000198 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.46.5 | 0.000198 |
S | 9 | P9del | CCA | --- | 1 | 1 | AY.47 | 0.000031 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.53 | 0.000288 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.53 | 0.000288 |
S | 9 | P9del | CCA | --- | 1 | 1 | AY.54 | 0.000095 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.58 | 0.000907 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.6 | 0.000041 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.61 | 0.000105 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | AY.67 | 0.000464 |
S | 9 | P9del | CCA | --- | 1 | 1 | AY.68 | 0.000274 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.69 | 0.000187 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.7.1 | 0.000113 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.70 | 0.000209 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.75 | 0.000056 |
S | 9 | P9L | cCa | cTa | 1 | 1 | AY.75.1 | 0.00018 |
S | 9 | P9T | Cca | Aca | 1 | 1 | AY.76 | 0.004831 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.86 | 0.00083 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.9 | 0.000068 |
S | 9 | P9R | cCa | cGa | 1 | 1 | AY.9 | 0.000068 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AY.90 | 0.000684 |
S | 9 | P9S | Cca | Tca | 1 | 1 | AZ.3 | 0.00152 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | B | 0.000128 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B | 0.000128 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | B.1 | 0.000009 |
S | 9 | P9del1 | Cca | -ca | 1 | 1 | B.1 | 0.000009 |
S | 9 | P9V | CCA | GTT | 1 | 1 | B.1.1 | 0.000018 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.176 | 0.000439 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.176 | 0.000439 |
S | 9 | P9P | ccA | ccC | 1 | 1 | B.1.1.176 | 0.000439 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.185 | 0.076923 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.189 | 0.001513 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.189 | 0.001513 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.192 | 0.002309 |
S | 9 | P9K | CCa | AAa | 1 | 1 | B.1.1.214 | 0.000055 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | B.1.1.25 | 0.000569 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.25 | 0.000569 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.263 | 0.001558 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.277 | 0.000759 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.294 | 0.001266 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.1.303 | 0.002762 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.311 | 0.000358 |
S | 9 | P9del | CCA | --- | 1 | 1 | B.1.1.315 | 0.008475 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.317 | 0.000412 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.317 | 0.000412 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | B.1.1.329 | 0.003846 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.33 | 0.000421 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.333 | 0.001076 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.337 | 0.003597 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.369 | 0.000446 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.37 | 0.000193 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.1.372 | 0.000689 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.372 | 0.000689 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.377 | 0.001381 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.39 | 0.00051 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.397 | 0.002252 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.402 | 0.011111 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.432 | 0.001266 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.44 | 0.00241 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.448 | 0.002033 |
S | 9 | P9del | CCA | --- | 1 | 1 | B.1.1.46 | 0.004367 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.463 | 0.0625 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.48 | 0.002874 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.519 | 0.00004 |
S | 9 | P9R | cCa | cGa | 1 | 1 | B.1.1.519 | 0.00004 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.1.519 | 0.00004 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.1.53 | 0.013699 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.63 | 0.000386 |
S | 9 | P9del1 | Cca | -ca | 1 | 1 | B.1.1.7 | 0.000001 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.1.71 | 0.006061 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.111 | 0.001175 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.128 | 0.000635 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.13 | 0.002375 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.160.10 | 0.008065 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.160.11 | 0.005714 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.160.12 | 0.00641 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.160.14 | 0.002119 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.160.16 | 0.000929 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.160.26 | 0.002421 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.160.26 | 0.002421 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.160.31 | 0.008065 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.160.32 | 0.004292 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.177 | 0.000013 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.177.12 | 0.000152 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.177.21 | 0.000076 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.177.3 | 0.007634 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.177.35 | 0.000691 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.177.4 | 0.000211 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.177.44 | 0.000519 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.177.44 | 0.000519 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.177.44 | 0.000519 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.177.56 | 0.000668 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.177.57 | 0.000281 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.177.57 | 0.000281 |
S | 9 | P9del | CCA | --- | 1 | 1 | B.1.177.68 | 0.015152 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.177.7 | 0.000165 |
S | 9 | P9del | CCA | --- | 1 | 1 | B.1.177.81 | 0.000189 |
S | 9 | P9del | CCA | --- | 1 | 1 | B.1.177.83 | 0.001481 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.177.86 | 0.000183 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.177.87 | 0.000728 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.177.9 | 0.001332 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.177.9 | 0.001332 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.210 | 0.002132 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.210 | 0.002132 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.221 | 0.000071 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.221 | 0.000071 |
S | 9 | P9P | ccA | ccG | 1 | 1 | B.1.221 | 0.000071 |
S | 9 | P9P | ccA | ccT | 1 | 1 | B.1.221.3 | 0.000833 |
S | 9 | P9P | ccA | ccG | 1 | 1 | B.1.236 | 0.002053 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.239 | 0.001221 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.241 | 0.000812 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.241 | 0.000812 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.252 | 0.006623 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.258.10 | 0.011364 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.258.17 | 0.000104 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.258.17 | 0.000104 |
S | 9 | P9del1 | Cca | -ca | 1 | 1 | B.1.258.17 | 0.000104 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.258.7 | 0.001912 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.260 | 0.003344 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.281 | 0.021739 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.323 | 0.020833 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.324 | 0.001605 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.335 | 0.010309 |
S | 9 | P9P | ccA | ccT | 1 | 1 | B.1.343 | 0.020833 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.36 | 0.000146 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.36.17 | 0.000494 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.36.29 | 0.000517 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.36.29 | 0.000517 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.36.36 | 0.000602 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.361 | 0.001289 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.369 | 0.000285 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.380 | 0.006623 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.389 | 0.001002 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.391 | 0.001127 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.399 | 0.001934 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.411 | 0.003704 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.416 | 0.001269 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.416 | 0.001269 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.417 | 0.028571 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | B.1.429 | 0.000024 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.433 | 0.003195 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.433 | 0.003195 |
S | 9 | P9del | CCA | --- | 1 | 1 | B.1.453 | 0.003236 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.459 | 0.004082 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.466.2 | 0.000391 |
S | 9 | P9P | ccA | ccG | 1 | 1 | B.1.466.2 | 0.000391 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.486 | 0.111111 |
S | 9 | P9P | ccA | ccT | 1 | 1 | B.1.497 | 0.000315 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.499.1 | 0.111111 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.501 | 0.007353 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.510 | 0.026316 |
S | 9 | P9P | ccA | ccT | 1 | 1 | B.1.526 | 0.000024 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.529 | 0.055556 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.534 | 0.0125 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.568 | 0.001111 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.575 | 0.000303 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.595 | 0.000261 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.596 | 0.000087 |
S | 9 | P9P | ccA | ccT | 1 | 1 | B.1.596 | 0.000087 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.609 | 0.000479 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.609 | 0.000479 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.610 | 0.003546 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.617.1 | 0.000129 |
S | 9 | P9A | Cca | Gca | 1 | 1 | B.1.617.2 | 0.000004 |
S | 9 | P9T | Cca | Aca | 1 | 1 | B.1.617.2 | 0.000004 |
S | 9 | P9del | CCA | --- | 1 | 1 | B.1.617.2 | 0.000004 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.618 | 0.004032 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.619.1 | 0.000641 |
S | 9 | P9del | CCA | --- | 1 | 1 | B.1.620 | 0.000946 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.623 | 0.000536 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.8 | 0.001972 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.1.88.1 | 0.004808 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.1.93 | 0.000934 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.15 | 0.017544 |
S | 9 | P9S | Cca | Tca | 1 | 1 | B.20 | 0.023256 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.31 | 0.003731 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.4 | 0.002208 |
S | 9 | P9P | ccA | ccG | 1 | 1 | B.4.1 | 0.018868 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.40 | 0.000364 |
S | 9 | P9L | cCa | cTa | 1 | 1 | B.6 | 0.00091 |
S | 9 | P9T | Cca | Aca | 1 | 1 | C.16 | 0.00106 |
S | 9 | P9S | Cca | Tca | 1 | 1 | C.16 | 0.00106 |
S | 9 | P9L | cCa | cTa | 1 | 1 | C.35 | 0.000774 |
S | 9 | P9L | cCa | cTa | 1 | 1 | C.4 | 0.01 |
S | 9 | P9L | cCa | cTa | 1 | 1 | P.1 | 0.000016 |
S | 9 | P9L | cCa | cTa | 1 | 1 | P.1.1 | 0.000318 |
S | 9 | P9del2 | CCa | --a | 1 | 1 | P.1.10 | 0.000269 |
S | 9 | P9S | Cca | Tca | 1 | 1 | P.1.14 | 0.000048 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | P.1.14 | 0.000048 |
S | 9 | P9S | Cca | Tca | 1 | 1 | P.1.15 | 0.000232 |
S | 9 | P9S | Cca | Tca | 1 | 1 | P.1.17 | 0.000162 |
S | 9 | P9S | Cca | Tca | 1 | 1 | P.1.7 | 0.000319 |
S | 9 | P9Q | cCa | cAa | 1 | 1 | P.3 | 0.001595 |
S | 9 | P9L | cCa | cTa | 1 | 1 | Q.1 | 0.000126 |
S | 9 | P9L | cCa | cTa | 1 | 1 | Q.3 | 0.000145 |
S | 9 | P9del1 | Cca | -ca | 1 | 1 | Q.8 | 0.000165 |
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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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