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 | 14 | T14I | nonsyn | aCt | aTt | 5429 | 5429 | 1 | 25432-25434 |
Details of the mutation T14I 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 | 14 | T14I | aCt | aTt | 5429 | 5429 | All | 0.001038 |
ORF3a | 14 | T14I | aCt | aTt | 1320 | 1320 | B.1.147 | 0.997732 |
ORF3a | 14 | T14I | aCt | aTt | 1134 | 1134 | B.1.1.7 | 0.001015 |
ORF3a | 14 | T14I | aCt | aTt | 470 | 470 | AY.43 | 0.002082 |
ORF3a | 14 | T14I | aCt | aTt | 359 | 359 | B.1 | 0.003288 |
ORF3a | 14 | T14I | aCt | aTt | 237 | 237 | AY.4.2 | 0.00514 |
ORF3a | 14 | T14I | aCt | aTt | 220 | 220 | B.1.2 | 0.001937 |
ORF3a | 14 | T14I | aCt | aTt | 163 | 163 | AY.4 | 0.000254 |
ORF3a | 14 | T14I | aCt | aTt | 126 | 126 | B.1.582 | 0.061825 |
ORF3a | 14 | T14I | aCt | aTt | 85 | 85 | AY.29 | 0.001341 |
ORF3a | 14 | T14I | aCt | aTt | 75 | 75 | B.1.622 | 0.974026 |
ORF3a | 14 | T14I | aCt | aTt | 74 | 74 | B.1.617.2 | 0.000279 |
ORF3a | 14 | T14I | aCt | aTt | 71 | 71 | AY.99.2 | 0.006543 |
ORF3a | 14 | T14I | aCt | aTt | 70 | 70 | B.1.629 | 0.933333 |
ORF3a | 14 | T14I | aCt | aTt | 67 | 67 | AY.25 | 0.000403 |
ORF3a | 14 | T14I | aCt | aTt | 54 | 54 | AY.77 | 0.060879 |
ORF3a | 14 | T14I | aCt | aTt | 50 | 50 | AY.13 | 0.008049 |
ORF3a | 14 | T14I | aCt | aTt | 48 | 48 | P.1 | 0.000756 |
ORF3a | 14 | T14I | aCt | aTt | 44 | 44 | AY.47 | 0.001369 |
ORF3a | 14 | T14I | aCt | aTt | 42 | 42 | AY.103 | 0.000261 |
ORF3a | 14 | T14I | aCt | aTt | 38 | 38 | AY.3 | 0.000378 |
ORF3a | 14 | T14I | aCt | aTt | 35 | 35 | AY.26 | 0.000991 |
ORF3a | 14 | T14I | aCt | aTt | 35 | 35 | AY.44 | 0.000213 |
ORF3a | 14 | T14I | aCt | aTt | 30 | 30 | Q.3 | 0.004351 |
ORF3a | 14 | T14I | aCt | aTt | 25 | 25 | AY.119 | 0.000883 |
ORF3a | 14 | T14I | aCt | aTt | 25 | 25 | B.1.177 | 0.000329 |
ORF3a | 14 | T14I | aCt | aTt | 24 | 24 | B.1.241 | 0.019481 |
ORF3a | 14 | T14I | aCt | aTt | 22 | 22 | B.1.1.1 | 0.007187 |
ORF3a | 14 | T14I | aCt | aTt | 19 | 19 | AY.4.5 | 0.002042 |
ORF3a | 14 | T14I | aCt | aTt | 18 | 18 | AY.102 | 0.000477 |
ORF3a | 14 | T14I | aCt | aTt | 18 | 18 | AY.23 | 0.001255 |
ORF3a | 14 | T14I | aCt | aTt | 18 | 18 | B.1.160 | 0.000561 |
ORF3a | 14 | T14I | aCt | aTt | 16 | 16 | AY.100 | 0.000736 |
ORF3a | 14 | T14I | aCt | aTt | 16 | 16 | B.1.1 | 0.00029 |
ORF3a | 14 | T14I | aCt | aTt | 15 | 15 | B.1.429 | 0.000353 |
ORF3a | 14 | T14I | aCt | aTt | 13 | 13 | AY.20 | 0.000505 |
ORF3a | 14 | T14I | aCt | aTt | 12 | 12 | A | 0.004644 |
ORF3a | 14 | T14I | aCt | aTt | 11 | 11 | B.1.177.82 | 0.005251 |
ORF3a | 14 | T14I | aCt | aTt | 11 | 11 | B.1.525 | 0.001245 |
ORF3a | 14 | T14I | aCt | aTt | 10 | 10 | B.1.243 | 0.000696 |
ORF3a | 14 | T14I | aCt | aTt | 10 | 10 | D.2 | 0.00075 |
ORF3a | 14 | T14I | aCt | aTt | 9 | 9 | AY.39 | 0.000222 |
ORF3a | 14 | T14I | aCt | aTt | 8 | 8 | AY.118 | 0.000501 |
ORF3a | 14 | T14I | aCt | aTt | 8 | 8 | B.1.36.31 | 0.014011 |
ORF3a | 14 | T14I | aCt | aTt | 8 | 8 | B.1.621 | 0.000708 |
ORF3a | 14 | T14I | aCt | aTt | 8 | 8 | C.37 | 0.000929 |
ORF3a | 14 | T14I | aCt | aTt | 7 | 7 | AY.120 | 0.00026 |
ORF3a | 14 | T14I | aCt | aTt | 7 | 7 | AY.41 | 0.002058 |
ORF3a | 14 | T14I | aCt | aTt | 7 | 7 | B.1.1.214 | 0.000388 |
ORF3a | 14 | T14I | aCt | aTt | 6 | 6 | AY.75 | 0.000336 |
ORF3a | 14 | T14I | aCt | aTt | 6 | 6 | B.1.221 | 0.000426 |
ORF3a | 14 | T14I | aCt | aTt | 6 | 6 | B.1.526 | 0.000141 |
ORF3a | 14 | T14I | aCt | aTt | 5 | 5 | AY.117 | 0.000423 |
ORF3a | 14 | T14I | aCt | aTt | 5 | 5 | AY.45 | 0.000608 |
ORF3a | 14 | T14I | aCt | aTt | 5 | 5 | AY.98 | 0.000395 |
ORF3a | 14 | T14I | aCt | aTt | 5 | 5 | B.1.396 | 0.003529 |
ORF3a | 14 | T14I | aCt | aTt | 5 | 5 | B.1.575 | 0.001517 |
ORF3a | 14 | T14I | aCt | aTt | 4 | 4 | AY.92 | 0.001149 |
ORF3a | 14 | T14I | aCt | aTt | 4 | 4 | B.1.1.216 | 0.003562 |
ORF3a | 14 | T14I | aCt | aTt | 4 | 4 | B.1.1.368 | 0.012346 |
ORF3a | 14 | T14I | aCt | aTt | 4 | 4 | B.1.36 | 0.000584 |
ORF3a | 14 | T14I | aCt | aTt | 4 | 4 | B.1.36.29 | 0.002069 |
ORF3a | 14 | T14I | aCt | aTt | 4 | 4 | B.1.400 | 0.001716 |
ORF3a | 14 | T14I | aCt | aTt | 4 | 4 | B.1.619 | 0.003484 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | A.1 | 0.000846 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | A.3 | 0.006289 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | AY.27 | 0.000194 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | AY.5 | 0.000062 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | B.1.177.60 | 0.000655 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | B.1.177.77 | 0.002179 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | B.1.427 | 0.000151 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | B.1.506 | 0.071429 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | B.1.617.1 | 0.000387 |
ORF3a | 14 | T14I | aCt | aTt | 3 | 3 | L.3 | 0.010638 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AD.2 | 0.000438 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AE.8 | 0.000978 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.113 | 0.000285 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.121 | 0.000271 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.14 | 0.000176 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.29.1 | 0.000441 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.39.1 | 0.000079 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.42 | 0.00008 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.62 | 0.000871 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.7 | 0.000392 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.73 | 0.001331 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.74 | 0.000231 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | AY.99 | 0.002099 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.1.192 | 0.004619 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.1.33 | 0.000842 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.1.434 | 0.000697 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.1.519 | 0.000079 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.110 | 0.00905 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.157 | 0.00597 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.177.4 | 0.000422 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.258 | 0.000133 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.351 | 0.000059 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.36.8 | 0.002 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.391 | 0.002255 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.416 | 0.002538 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.416.1 | 0.003125 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.565 | 0.001621 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.576 | 0.001813 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | B.1.596 | 0.000174 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | P.1.14 | 0.000096 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | P.2 | 0.000373 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | Q.1 | 0.000253 |
ORF3a | 14 | T14I | aCt | aTt | 2 | 2 | Q.8 | 0.00033 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | A.4 | 0.012821 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.10 | 0.00053 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.111 | 0.000183 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.16.1 | 0.00047 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.33 | 0.000067 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.34 | 0.000097 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.35 | 0.000233 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.46 | 0.000104 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.46.6 | 0.000072 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.54 | 0.000095 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.59 | 0.00053 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.61 | 0.000105 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.64 | 0.000595 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.67 | 0.000464 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.69 | 0.000187 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.7.1 | 0.000113 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.84 | 0.000437 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.9 | 0.000068 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.9.1 | 0.000084 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.9.2 | 0.000037 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.90 | 0.000684 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.93 | 0.000273 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | AY.98.1 | 0.000048 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.132 | 0.014925 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.133 | 0.008475 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.141 | 0.002012 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.153 | 0.001095 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.222 | 0.000204 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.312 | 0.001912 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.318 | 0.000302 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.324 | 0.052632 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.348 | 0.000796 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.371 | 0.010417 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.39 | 0.00051 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.416 | 0.000905 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.62 | 0.027027 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.1.63 | 0.000386 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.139 | 0.000733 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.177.10 | 0.000878 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.177.16 | 0.000664 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.177.21 | 0.000076 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.177.7 | 0.000165 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.177.79 | 0.002342 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.177.81 | 0.000189 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.234 | 0.000132 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.240 | 0.000216 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.258.17 | 0.000104 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.336 | 0.002439 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.351.3 | 0.000876 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.375 | 0.00082 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.389 | 0.001002 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.466.2 | 0.000391 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.503 | 0.002488 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.509 | 0.000866 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.532 | 0.006211 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.544 | 0.006024 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.546 | 0.003704 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.568 | 0.001111 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.575.1 | 0.002439 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.602 | 0.006536 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.612 | 0.002653 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.619.1 | 0.000641 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.621.1 | 0.000506 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | B.1.637 | 0.000073 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | C.11 | 0.010638 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | C.37.1 | 0.002618 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | N.5 | 0.001767 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | P.1.1 | 0.000318 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | P.1.10 | 0.000269 |
ORF3a | 14 | T14I | aCt | aTt | 1 | 1 | P.1.17 | 0.000162 |
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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