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/nsp8 | 93 | T93I | T4035I | nonsyn | aCt | aTt | 997 | 997 | 1 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93A | T4035A | nonsyn | Act | Gct | 253 | 253 | 1 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93T | T4035T | syn | acT | acC | 170 | 162 | 0.952941 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93T | T4035T | syn | acT | acA | 170 | 5 | 0.0294118 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93T | T4035T | syn | acT | acG | 170 | 3 | 0.0176471 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93N | T4035N | nonsyn | aCt | aAt | 137 | 137 | 1 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93del | T4035del | del | ACT | --- | 11 | 11 | 1 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93S | T4035S | nonsyn | Act | Tct | 6 | 6 | 1 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93del1 | T4035del1 | del | Act | -ct | 3 | 2 | 0.666667 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93del1 | T4035del1 | del | acT | ac- | 3 | 1 | 0.333333 | 12368-12370 |
ORF1ab/nsp8 | 93 | T93Y | T4035Y | nonsyn | ACT | TAC | 1 | 1 | 1 | 12368-12370 |
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/nsp8 | 93 | T93I | aCt | aTt | 997 | 997 | All | 0.000191 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 394 | 394 | AY.5.2 | 0.970443 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 253 | 253 | All | 0.000048 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 219 | 219 | B.1.1.176 | 0.096221 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 162 | 170 | All | 0.000031 |
ORF1ab/nsp8 | 93 | T93T | acT | acA | 5 | 170 | All | 0.000001 |
ORF1ab/nsp8 | 93 | T93T | acT | acG | 3 | 170 | All | 0.000001 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 137 | 137 | All | 0.000026 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 120 | 120 | B.1.1.7 | 0.000107 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 104 | 104 | B.1.1.7 | 0.000093 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 86 | 86 | AY.29 | 0.001357 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 59 | 59 | AY.4 | 0.000092 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 49 | 49 | B.1.617.2 | 0.000185 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 37 | 37 | B.1.1.1 | 0.012088 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 35 | 35 | AY.3 | 0.000348 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 35 | 35 | B.1 | 0.000321 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 18 | 18 | AY.44 | 0.00011 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 16 | 16 | AY.25 | 0.000096 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 16 | 16 | B.1.2 | 0.000141 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 15 | 15 | B.1.1.7 | 0.000013 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 15 | 15 | B.1.596 | 0.001307 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 14 | 14 | B.1.351 | 0.000416 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 12 | 12 | AY.103 | 0.000075 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 11 | 11 | All | 0.000002 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 11 | 11 | AY.43 | 0.000049 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 10 | 10 | AY.100 | 0.00046 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 10 | 10 | AY.20 | 0.000389 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 10 | 10 | AY.4 | 0.000016 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 9 | 9 | B.1.1.434 | 0.003137 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 9 | 9 | B.1.526 | 0.000212 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 8 | 8 | B.1.351.2 | 0.002421 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 8 | 8 | B.1.429 | 0.000188 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 7 | 7 | AY.39 | 0.000173 |
ORF1ab/nsp8 | 93 | T93S | Act | Tct | 6 | 6 | All | 0.000001 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 6 | 6 | AY.103 | 0.000037 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 6 | 6 | AY.3 | 0.00006 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 6 | 6 | AY.4 | 0.000009 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 6 | 6 | AY.5 | 0.000124 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 6 | 6 | B.1.429 | 0.000141 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 4 | 5 | AY.103 | 0.000025 |
ORF1ab/nsp8 | 93 | T93T | acT | acA | 1 | 5 | AY.103 | 0.000006 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 5 | 5 | AY.121 | 0.000677 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 5 | 5 | AY.29 | 0.000079 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 5 | 5 | AY.4.2 | 0.000108 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 5 | 5 | B.1.1 | 0.000091 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 5 | 5 | B.1.1.265 | 0.015773 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 5 | 5 | B.1.1.280 | 0.015432 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 5 | 5 | B.1.351 | 0.000149 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 5 | 5 | P.1.14 | 0.000239 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 4 | 4 | AY.113 | 0.00057 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 4 | 4 | AY.45 | 0.000487 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 4 | 4 | B.1.1 | 0.000073 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 4 | 4 | B.1.110.3 | 0.002874 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 4 | 4 | B.1.281 | 0.086957 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 4 | 4 | B.1.621 | 0.000354 |
ORF1ab/nsp8 | 93 | T93del1 | Act | -ct | 2 | 3 | All | 0 |
ORF1ab/nsp8 | 93 | T93del1 | acT | ac- | 1 | 3 | All | 0 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 2 | 3 | AY.4 | 0.000003 |
ORF1ab/nsp8 | 93 | T93T | acT | acG | 1 | 3 | AY.4 | 0.000002 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 3 | 3 | AY.91 | 0.002191 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 3 | 3 | B.1.1.348 | 0.002389 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 3 | 3 | B.1.2 | 0.000026 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 3 | 3 | B.1.36.31 | 0.005254 |
ORF1ab/nsp8 | 93 | T93T | acT | acA | 3 | 3 | B.1.391 | 0.003382 |
ORF1ab/nsp8 | 93 | T93S | Act | Tct | 3 | 3 | B.1.526 | 0.000071 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 3 | 3 | P.1 | 0.000047 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 3 | 3 | P.1.16 | 0.001122 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | AY.102 | 0.000053 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | AY.23 | 0.000139 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 2 | 2 | AY.25 | 0.000012 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 2 | 2 | AY.26 | 0.000057 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 2 | 2 | AY.33 | 0.000134 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 2 | 2 | AY.43 | 0.000009 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 2 | 2 | B.1.1.214 | 0.000111 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | B.1.147 | 0.001512 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | B.1.177 | 0.000026 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | B.1.240 | 0.000431 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | B.1.36 | 0.000292 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | B.1.362 | 0.003082 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 2 | 2 | B.1.429 | 0.000047 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 2 | 2 | B.1.617.2 | 0.000008 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | B.1.628 | 0.000705 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 2 | 2 | B.1.637 | 0.000146 |
ORF1ab/nsp8 | 93 | T93T | acT | acG | 1 | 2 | B.1.637 | 0.000073 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 2 | B.1.637 | 0.000073 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp8 | 93 | T93Y | ACT | TAC | 1 | 1 | All | 0 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.101 | 0.00049 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp8 | 93 | T93T | acT | acG | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp8 | 93 | T93S | Act | Tct | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | AY.29.1 | 0.000221 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | AY.44 | 0.000006 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | AY.44 | 0.000006 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | AY.8 | 0.000606 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | AY.84 | 0.000437 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | AY.99 | 0.001049 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp8 | 93 | T93S | Act | Tct | 1 | 1 | B.1 | 0.000009 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.1.123 | 0.017857 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.1.186 | 0.003436 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.1.216 | 0.00089 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.1.317 | 0.000412 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.1.432 | 0.001266 |
ORF1ab/nsp8 | 93 | T93del1 | Act | -ct | 1 | 1 | B.1.1.433 | 0.001425 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | B.1.1.7 | 0.000001 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.177.82 | 0.000477 |
ORF1ab/nsp8 | 93 | T93S | Act | Tct | 1 | 1 | B.1.177.86 | 0.000183 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp8 | 93 | T93del1 | acT | ac- | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.505 | 0.004386 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | B.1.509 | 0.000866 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.1.541 | 0.004425 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | B.1.554 | 0.004405 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp8 | 93 | T93Y | ACT | TAC | 1 | 1 | B.1.617.2 | 0.000004 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 1 | 1 | B.1.623 | 0.000536 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp8 | 93 | T93N | aCt | aAt | 1 | 1 | B.29 | 0.003509 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | B.3 | 0.000831 |
ORF1ab/nsp8 | 93 | T93del1 | Act | -ct | 1 | 1 | B.34 | 0.013699 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp8 | 93 | T93del | ACT | --- | 1 | 1 | N.4 | 0.004255 |
ORF1ab/nsp8 | 93 | T93T | acT | acC | 1 | 1 | P.1 | 0.000016 |
ORF1ab/nsp8 | 93 | T93T | acT | acA | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp8 | 93 | T93A | Act | Gct | 1 | 1 | P.2 | 0.000187 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | Q.4 | 0.000455 |
ORF1ab/nsp8 | 93 | T93I | aCt | aTt | 1 | 1 | Q.8 | 0.000165 |
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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