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 | 95 | L95F | nonsyn | ttG | ttT | 13431 | 13413 | 0.99866 | 25675-25677 |
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 |
ORF3a | 95 | L95F | ttG | ttT | 13413 | 13431 | All | 0.002565 |
ORF3a | 95 | L95F | ttG | ttT | 9245 | 9245 | B.1.438.1 | 0.991634 |
ORF3a | 95 | L95F | ttG | ttT | 737 | 741 | B.1.1.7 | 0.00066 |
ORF3a | 95 | L95F | ttG | ttT | 626 | 627 | AY.4 | 0.000974 |
ORF3a | 95 | L95F | ttG | ttT | 487 | 487 | B.1.177.45 | 0.185665 |
ORF3a | 95 | L95F | ttG | ttT | 188 | 188 | B.1.617.2 | 0.000708 |
ORF3a | 95 | L95F | ttG | ttT | 143 | 143 | AY.103 | 0.000888 |
ORF3a | 95 | L95F | ttG | ttT | 131 | 132 | AY.44 | 0.000797 |
ORF3a | 95 | L95F | ttG | ttT | 119 | 119 | B.1.1.214 | 0.006599 |
ORF3a | 95 | L95F | ttG | ttT | 104 | 104 | AY.118 | 0.006515 |
ORF3a | 95 | L95F | ttG | ttT | 101 | 102 | B.1.2 | 0.000889 |
ORF3a | 95 | L95F | ttG | ttT | 98 | 98 | AY.43 | 0.000434 |
ORF3a | 95 | L95F | ttG | ttT | 87 | 87 | AY.36 | 0.012895 |
ORF3a | 95 | L95F | ttG | ttT | 82 | 82 | AY.102 | 0.002174 |
ORF3a | 95 | L95F | ttG | ttT | 70 | 71 | AY.25 | 0.000421 |
ORF3a | 95 | L95F | ttG | ttT | 69 | 70 | B.1.1 | 0.001252 |
ORF3a | 95 | L95F | ttG | ttT | 62 | 62 | B.1.438 | 0.405229 |
ORF3a | 95 | L95F | ttG | ttT | 59 | 59 | B.1 | 0.00054 |
ORF3a | 95 | L95F | ttG | ttT | 55 | 55 | AY.100 | 0.00253 |
ORF3a | 95 | L95F | ttG | ttT | 52 | 52 | B.1.438.2 | 1 |
ORF3a | 95 | L95F | ttG | ttT | 43 | 43 | AY.13 | 0.006922 |
ORF3a | 95 | L95F | ttG | ttT | 43 | 43 | AY.3 | 0.000428 |
ORF3a | 95 | L95F | ttG | ttT | 36 | 36 | AY.42 | 0.001448 |
ORF3a | 95 | L95F | ttG | ttT | 32 | 32 | AY.4.2 | 0.000694 |
ORF3a | 95 | L95F | ttG | ttT | 31 | 31 | P.1 | 0.000488 |
ORF3a | 95 | L95F | ttG | ttT | 22 | 23 | B.1.177 | 0.00029 |
ORF3a | 95 | L95F | ttG | ttT | 22 | 22 | AY.116.1 | 0.006851 |
ORF3a | 95 | L95F | ttG | ttT | 20 | 20 | Q.7 | 0.022222 |
ORF3a | 95 | L95F | ttG | ttT | 19 | 19 | B.1.1.519 | 0.000755 |
ORF3a | 95 | L95F | ttG | ttT | 18 | 18 | AY.33 | 0.001202 |
ORF3a | 95 | L95F | ttG | ttT | 17 | 17 | AY.109 | 0.012574 |
ORF3a | 95 | L95F | ttG | ttT | 16 | 16 | B.1.351 | 0.000476 |
ORF3a | 95 | L95F | ttG | ttT | 15 | 15 | AY.98.1 | 0.000726 |
ORF3a | 95 | L95F | ttG | ttT | 15 | 15 | B.1.1.401 | 1 |
ORF3a | 95 | L95F | ttG | ttT | 14 | 14 | AY.34 | 0.001358 |
ORF3a | 95 | L95F | ttG | ttT | 13 | 13 | AY.120 | 0.000483 |
ORF3a | 95 | L95F | ttG | ttT | 13 | 13 | AY.120.2 | 0.01671 |
ORF3a | 95 | L95F | ttG | ttT | 13 | 13 | AY.26 | 0.000368 |
ORF3a | 95 | L95F | ttG | ttT | 13 | 13 | AY.5 | 0.000268 |
ORF3a | 95 | L95F | ttG | ttT | 13 | 13 | B.1.429 | 0.000306 |
ORF3a | 95 | L95F | ttG | ttT | 13 | 13 | B.1.438.3 | 1 |
ORF3a | 95 | L95F | ttG | ttT | 12 | 12 | AY.101 | 0.005885 |
ORF3a | 95 | L95F | ttG | ttT | 12 | 12 | AY.20 | 0.000466 |
ORF3a | 95 | L95F | ttG | ttT | 12 | 12 | AY.23 | 0.000837 |
ORF3a | 95 | L95F | ttG | ttT | 11 | 12 | AY.39 | 0.000272 |
ORF3a | 95 | L95F | ttG | ttT | 12 | 12 | AY.9.2 | 0.000441 |
ORF3a | 95 | L95F | ttG | ttT | 11 | 11 | AY.75 | 0.000616 |
ORF3a | 95 | L95F | ttG | ttT | 10 | 10 | AY.39.1 | 0.000396 |
ORF3a | 95 | L95F | ttG | ttT | 10 | 10 | AY.46 | 0.001041 |
ORF3a | 95 | L95F | ttG | ttT | 10 | 10 | B.1.396 | 0.007057 |
ORF3a | 95 | L95F | ttG | ttT | 9 | 9 | AY.5.3 | 0.003036 |
ORF3a | 95 | L95F | ttG | ttT | 9 | 9 | B.1.1.153 | 0.009858 |
ORF3a | 95 | L95F | ttG | ttT | 9 | 9 | B.1.160 | 0.000281 |
ORF3a | 95 | L95F | ttG | ttT | 8 | 8 | AY.29 | 0.000126 |
ORF3a | 95 | L95F | ttG | ttT | 8 | 8 | B.1.1.231 | 0.024768 |
ORF3a | 95 | L95F | ttG | ttT | 8 | 8 | B.1.1.265 | 0.025237 |
ORF3a | 95 | L95F | ttG | ttT | 8 | 8 | B.1.1.416 | 0.00724 |
ORF3a | 95 | L95F | ttG | ttT | 8 | 8 | B.1.36 | 0.001167 |
ORF3a | 95 | L95F | ttG | ttT | 8 | 8 | B.1.575 | 0.002427 |
ORF3a | 95 | L95F | ttG | ttT | 6 | 7 | AY.119 | 0.000212 |
ORF3a | 95 | L95F | ttG | ttT | 7 | 7 | AY.99.2 | 0.000645 |
ORF3a | 95 | L95F | ttG | ttT | 7 | 7 | B.1.337 | 0.039106 |
ORF3a | 95 | L95F | ttG | ttT | 7 | 7 | B.23 | 0.020468 |
ORF3a | 95 | L95F | ttG | ttT | 6 | 6 | AY.4.2.1 | 0.000894 |
ORF3a | 95 | L95F | ttG | ttT | 6 | 6 | AY.47 | 0.000187 |
ORF3a | 95 | L95F | ttG | ttT | 6 | 6 | B.1.1.176 | 0.002636 |
ORF3a | 95 | L95F | ttG | ttT | 6 | 6 | B.1.221 | 0.000426 |
ORF3a | 95 | L95F | ttG | ttT | 5 | 5 | AY.1 | 0.001979 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 5 | AY.116 | 0.00086 |
ORF3a | 95 | L95F | ttG | ttT | 5 | 5 | AY.6 | 0.000206 |
ORF3a | 95 | L95F | ttG | ttT | 5 | 5 | AY.7 | 0.00098 |
ORF3a | 95 | L95F | ttG | ttT | 5 | 5 | AY.98 | 0.000395 |
ORF3a | 95 | L95F | ttG | ttT | 5 | 5 | B.1.177.87 | 0.003639 |
ORF3a | 95 | L95F | ttG | ttT | 5 | 5 | B.1.258.17 | 0.00052 |
ORF3a | 95 | L95F | ttG | ttT | 5 | 5 | B.1.311 | 0.001373 |
ORF3a | 95 | L95F | ttG | ttT | 4 | 4 | AY.117 | 0.000338 |
ORF3a | 95 | L95F | ttG | ttT | 4 | 4 | AY.3.1 | 0.000341 |
ORF3a | 95 | L95F | ttG | ttT | 4 | 4 | AY.41 | 0.001176 |
ORF3a | 95 | L95F | ttG | ttT | 4 | 4 | AY.46.4 | 0.000658 |
ORF3a | 95 | L95F | ttG | ttT | 4 | 4 | B.1.177.21 | 0.000306 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 4 | B.1.526 | 0.000071 |
ORF3a | 95 | L95F | ttG | ttT | 4 | 4 | B.1.561 | 0.001588 |
ORF3a | 95 | L95F | ttG | ttT | 4 | 4 | B.1.595 | 0.001044 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | A.18 | 0.15 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | AY.11 | 0.004016 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | AY.12 | 0.000948 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | AY.4.5 | 0.000322 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | AY.74 | 0.000347 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | B.1.1.222 | 0.000612 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | B.1.36.29 | 0.001552 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | B.1.367 | 0.002377 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | B.1.468 | 0.017143 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | B.1.637 | 0.000219 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | B.6 | 0.00273 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 3 | D.2 | 0.00015 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | P.1.10 | 0.000808 |
ORF3a | 95 | L95F | ttG | ttT | 3 | 3 | P.1.14 | 0.000143 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.16.1 | 0.00094 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.24 | 0.000862 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.27 | 0.000129 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.45 | 0.000243 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.48 | 0.00093 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.56 | 0.00321 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.57 | 0.001312 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.61 | 0.00021 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.7.1 | 0.000225 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.70 | 0.000417 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | AY.75.1 | 0.000361 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.1.1 | 0.000653 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.1.70 | 0.000682 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.177.60 | 0.000437 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.177.81 | 0.000379 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.258 | 0.000133 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.36.38 | 0.003284 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.427 | 0.000101 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.596 | 0.000174 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | B.1.626 | 0.011429 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | C.1 | 0.004785 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | P.2 | 0.000373 |
ORF3a | 95 | L95F | ttG | ttT | 2 | 2 | Q.8 | 0.00033 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | A.1 | 0.000282 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AE.8 | 0.000489 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.10 | 0.00053 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.104 | 0.001984 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.106 | 0.000335 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.113 | 0.000142 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.114 | 0.000231 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.120.2.1 | 0.000498 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.121 | 0.000135 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.16 | 0.00038 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.34.1 | 0.00051 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.37 | 0.000316 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.4.1 | 0.000737 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.46.5 | 0.000198 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.46.6 | 0.000072 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.52 | 0.000814 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.54 | 0.000095 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.59 | 0.00053 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.60 | 0.000938 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.63 | 0.000387 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.64 | 0.000595 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.67 | 0.000464 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.68 | 0.000274 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.78 | 0.001541 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.9 | 0.000068 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | AY.92 | 0.000287 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B | 0.000128 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.157 | 0.000913 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.174 | 0.003378 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.189 | 0.001513 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.237 | 0.005405 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.241 | 0.00207 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.272 | 0.005208 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.282 | 0.011628 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.284 | 0.000107 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.288 | 0.001916 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.306 | 0.000438 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.307 | 0.002532 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.317 | 0.000412 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.362 | 0.005618 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.1.528 | 0.004808 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.158 | 0.02381 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.177.44 | 0.000519 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.177.7 | 0.000165 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.177.83 | 0.001481 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.227 | 0.047619 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.236 | 0.002053 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.243 | 0.00007 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.258.3 | 0.001675 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.313 | 0.006579 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.369 | 0.000285 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.439 | 0.005917 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.453 | 0.003236 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.497 | 0.000315 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.499 | 0.00105 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.523 | 0.002451 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.564 | 0.000426 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.588 | 0.00091 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.609 | 0.000479 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.617.1 | 0.000129 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.618 | 0.004032 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.621 | 0.000089 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.1.627 | 0.00202 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.28 | 0.003279 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | B.4.5 | 0.011905 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | C.1.2 | 0.004255 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | C.26 | 0.007353 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | C.37 | 0.000116 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | M.1 | 0.023256 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | N.4 | 0.004255 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | N.5 | 0.001767 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | P.1.15 | 0.000232 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | P.7 | 0.004367 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | Q.1 | 0.000126 |
ORF3a | 95 | L95F | ttG | ttT | 1 | 1 | Q.3 | 0.000145 |
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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