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 | 241 | L241del | del | TTA | --- | 38708 | 38708 | 1 | 22283-22285 | |
S | 241 | L241L | syn | Tta | Cta | 661 | 535 | 0.80938 | 22283-22285 | |
S | 241 | L241L | syn | ttA | ttG | 661 | 126 | 0.19062 | 22283-22285 | |
S | 241 | L241del1 | del | ttA | tt- | 87 | 82 | 0.942529 | 22283-22285 | |
S | 241 | L241del1 | del | TtA | Nt- | 87 | 3 | 0.0344828 | 22283-22285 | |
S | 241 | L241del1 | del | TTa | -Ca | 87 | 1 | 0.0114943 | 22283-22285 | |
S | 241 | L241del1 | del | TTA | -NN | 87 | 1 | 0.0114943 | 22283-22285 | |
S | 241 | L241F | nonsyn | ttA | ttT | 40 | 38 | 0.95 | 22283-22285 | |
S | 241 | L241F | nonsyn | ttA | ttC | 40 | 2 | 0.05 | 22283-22285 | |
S | 241 | L241del2 | del | TTa | --a | 39 | 26 | 0.666667 | 22283-22285 | |
S | 241 | L241del2 | del | TTA | --N | 39 | 11 | 0.282051 | 22283-22285 | |
S | 241 | L241del2 | del | tTA | t-- | 39 | 2 | 0.0512821 | 22283-22285 | |
S | 241 | L241V | nonsyn | Tta | Gta | 30 | 30 | 1 | 22283-22285 | |
S | 241 | L241S | nonsyn | tTa | tCa | 15 | 15 | 1 | 22283-22285 | |
S | 241 | L241X | nonsyn | tTa | tAa | 13 | 10 | 0.769231 | 22283-22285 | |
S | 241 | L241X | nonsyn | tTa | tGa | 13 | 2 | 0.153846 | 22283-22285 | |
S | 241 | L241X | nonsyn | tTA | tAG | 13 | 1 | 0.0769231 | 22283-22285 | |
S | 241 | L241I | nonsyn | Tta | Ata | 12 | 11 | 0.916667 | 22283-22285 | |
S | 241 | L241I | nonsyn | TtA | AtT | 12 | 1 | 0.0833333 | 22283-22285 | |
S | 241 | L241K | nonsyn | TTa | AAa | 3 | 2 | 0.666667 | 22283-22285 | |
S | 241 | L241K | nonsyn | TTA | AAG | 3 | 1 | 0.333333 | 22283-22285 | |
S | 241 | L241M | nonsyn | TtA | AtG | 2 | 2 | 1 | 22283-22285 | |
S | 241 | L241N | nonsyn | TTA | AAT | 1 | 1 | 1 | 22283-22285 | |
S | 241 | L241Y | nonsyn | tTA | tAT | 1 | 1 | 1 | 22283-22285 | |
S | 241 | L241Q | nonsyn | TTa | CAa | 1 | 1 | 1 | 22283-22285 | |
S | 241 | L241W | nonsyn | tTA | tGG | 1 | 1 | 1 | 22283-22285 |
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 | 241 | L241del | TTA | --- | 38708 | 38708 | All | 0.007403 |
S | 241 | L241del | TTA | --- | 30211 | 30211 | B.1.351 | 0.898068 |
S | 241 | L241del | TTA | --- | 3136 | 3136 | B.1.351.2 | 0.948865 |
S | 241 | L241del | TTA | --- | 1312 | 1312 | B.1.351.5 | 0.786571 |
S | 241 | L241del | TTA | --- | 1040 | 1040 | B.1.351.3 | 0.911481 |
S | 241 | L241del | TTA | --- | 997 | 997 | B.1.620 | 0.943236 |
S | 241 | L241L | Tta | Cta | 535 | 661 | All | 0.000102 |
S | 241 | L241L | ttA | ttG | 126 | 661 | All | 0.000024 |
S | 241 | L241del | TTA | --- | 567 | 567 | AY.4 | 0.000882 |
S | 241 | L241del | TTA | --- | 303 | 303 | B.1 | 0.002775 |
S | 241 | L241L | Tta | Cta | 283 | 283 | AY.46.6 | 0.020435 |
S | 241 | L241del | TTA | --- | 267 | 267 | B.1.1.7 | 0.000239 |
S | 241 | L241del1 | ttA | tt- | 82 | 87 | All | 0.000016 |
S | 241 | L241del1 | TtA | Nt- | 3 | 87 | All | 0.000001 |
S | 241 | L241del1 | TTa | -Ca | 1 | 87 | All | 0 |
S | 241 | L241del1 | TTA | -NN | 1 | 87 | All | 0 |
S | 241 | L241del1 | ttA | tt- | 74 | 76 | B.1.351.5 | 0.044365 |
S | 241 | L241del1 | TtA | Nt- | 2 | 76 | B.1.351.5 | 0.001199 |
S | 241 | L241L | Tta | Cta | 59 | 67 | B.1.1.7 | 0.000053 |
S | 241 | L241L | ttA | ttG | 8 | 67 | B.1.1.7 | 0.000007 |
S | 241 | L241L | ttA | ttG | 61 | 62 | AY.39 | 0.001507 |
S | 241 | L241L | Tta | Cta | 1 | 62 | AY.39 | 0.000025 |
S | 241 | L241del | TTA | --- | 50 | 50 | B.1.617.2 | 0.000188 |
S | 241 | L241F | ttA | ttT | 38 | 40 | All | 0.000007 |
S | 241 | L241F | ttA | ttC | 2 | 40 | All | 0 |
S | 241 | L241del | TTA | --- | 40 | 40 | AY.43 | 0.000177 |
S | 241 | L241del2 | TTa | --a | 26 | 39 | All | 0.000005 |
S | 241 | L241del2 | TTA | --N | 11 | 39 | All | 0.000002 |
S | 241 | L241del2 | tTA | t-- | 2 | 39 | All | 0 |
S | 241 | L241del | TTA | --- | 39 | 39 | AY.25 | 0.000235 |
S | 241 | L241del | TTA | --- | 37 | 37 | B.1.1 | 0.000671 |
S | 241 | L241del | TTA | --- | 33 | 33 | AY.44 | 0.000201 |
S | 241 | L241L | Tta | Cta | 30 | 31 | AY.3 | 0.000298 |
S | 241 | L241L | ttA | ttG | 1 | 31 | AY.3 | 0.00001 |
S | 241 | L241V | Tta | Gta | 30 | 30 | All | 0.000006 |
S | 241 | L241del | TTA | --- | 28 | 28 | AY.103 | 0.000174 |
S | 241 | L241L | Tta | Cta | 28 | 28 | AY.39.1 | 0.001109 |
S | 241 | L241del | TTA | --- | 25 | 25 | B.1.160 | 0.00078 |
S | 241 | L241del | TTA | --- | 24 | 24 | B.1.2 | 0.000211 |
S | 241 | L241del | TTA | --- | 23 | 23 | AY.3 | 0.000229 |
S | 241 | L241del | TTA | --- | 23 | 23 | B.1.177 | 0.000303 |
S | 241 | L241del | TTA | --- | 23 | 23 | B.1.526 | 0.000541 |
S | 241 | L241del | TTA | --- | 23 | 23 | P.1 | 0.000362 |
S | 241 | L241del | TTA | --- | 22 | 22 | C.37 | 0.002553 |
S | 241 | L241del | TTA | --- | 19 | 19 | AY.119 | 0.000671 |
S | 241 | L241del | TTA | --- | 19 | 19 | P.3 | 0.030303 |
S | 241 | L241del | TTA | --- | 18 | 18 | B.1.429 | 0.000424 |
S | 241 | L241L | Tta | Cta | 17 | 17 | AY.103 | 0.000106 |
S | 241 | L241del | TTA | --- | 17 | 17 | B.1.636 | 0.114094 |
S | 241 | L241S | tTa | tCa | 15 | 15 | All | 0.000003 |
S | 241 | L241X | tTa | tAa | 10 | 13 | All | 0.000002 |
S | 241 | L241X | tTa | tGa | 2 | 13 | All | 0 |
S | 241 | L241X | tTA | tAG | 1 | 13 | All | 0 |
S | 241 | L241L | Tta | Cta | 13 | 13 | AY.75 | 0.000728 |
S | 241 | L241V | Tta | Gta | 13 | 13 | B.1.177 | 0.000171 |
S | 241 | L241del2 | TTa | --a | 8 | 13 | B.1.351.3 | 0.007011 |
S | 241 | L241del2 | TTA | --N | 5 | 13 | B.1.351.3 | 0.004382 |
S | 241 | L241I | Tta | Ata | 11 | 12 | All | 0.000002 |
S | 241 | L241I | TtA | AtT | 1 | 12 | All | 0 |
S | 241 | L241del | TTA | --- | 12 | 12 | B.1.177.7 | 0.001978 |
S | 241 | L241L | Tta | Cta | 12 | 12 | B.1.221 | 0.000852 |
S | 241 | L241del | TTA | --- | 11 | 11 | AY.26 | 0.000311 |
S | 241 | L241del | TTA | --- | 10 | 10 | B.1.177.86 | 0.001835 |
S | 241 | L241del | TTA | --- | 10 | 10 | P.1.15 | 0.002323 |
S | 241 | L241del | TTA | --- | 9 | 9 | AY.23 | 0.000628 |
S | 241 | L241L | ttA | ttG | 9 | 9 | AY.29 | 0.000142 |
S | 241 | L241del | TTA | --- | 9 | 9 | B | 0.00115 |
S | 241 | L241L | ttA | ttG | 7 | 9 | B.1.1 | 0.000127 |
S | 241 | L241L | Tta | Cta | 2 | 9 | B.1.1 | 0.000036 |
S | 241 | L241del2 | TTa | --a | 9 | 9 | B.1.351.5 | 0.005396 |
S | 241 | L241del | TTA | --- | 9 | 9 | B.1.525 | 0.001018 |
S | 241 | L241del | TTA | --- | 9 | 9 | B.1.554 | 0.039648 |
S | 241 | L241del | TTA | --- | 8 | 8 | AY.102 | 0.000212 |
S | 241 | L241L | Tta | Cta | 7 | 8 | AY.43 | 0.000031 |
S | 241 | L241L | ttA | ttG | 1 | 8 | AY.43 | 0.000004 |
S | 241 | L241del | TTA | --- | 8 | 8 | B.1.177.73 | 0.00453 |
S | 241 | L241L | ttA | ttG | 8 | 8 | B.1.240 | 0.001725 |
S | 241 | L241L | Tta | Cta | 5 | 7 | AY.42 | 0.000201 |
S | 241 | L241L | ttA | ttG | 2 | 7 | AY.42 | 0.00008 |
S | 241 | L241del | TTA | --- | 7 | 7 | AY.5 | 0.000145 |
S | 241 | L241del | TTA | --- | 7 | 7 | AY.56 | 0.011236 |
S | 241 | L241del | TTA | --- | 7 | 7 | AY.75 | 0.000392 |
S | 241 | L241del | TTA | --- | 7 | 7 | AY.98.1 | 0.000339 |
S | 241 | L241F | ttA | ttT | 7 | 7 | B.1.2 | 0.000062 |
S | 241 | L241L | Tta | Cta | 6 | 7 | B.1.617.2 | 0.000023 |
S | 241 | L241L | ttA | ttG | 1 | 7 | B.1.617.2 | 0.000004 |
S | 241 | L241L | ttA | ttG | 4 | 6 | AY.25 | 0.000024 |
S | 241 | L241L | Tta | Cta | 2 | 6 | AY.25 | 0.000012 |
S | 241 | L241del | TTA | --- | 6 | 6 | AY.33 | 0.000401 |
S | 241 | L241del | TTA | --- | 6 | 6 | AY.39 | 0.000148 |
S | 241 | L241X | tTa | tAa | 6 | 6 | AY.4 | 0.000009 |
S | 241 | L241del | TTA | --- | 6 | 6 | AY.4.2 | 0.00013 |
S | 241 | L241del | TTA | --- | 6 | 6 | B.1.595 | 0.001566 |
S | 241 | L241L | Tta | Cta | 5 | 5 | A.2.5.1 | 0.024038 |
S | 241 | L241L | Tta | Cta | 5 | 5 | AY.100 | 0.00023 |
S | 241 | L241L | Tta | Cta | 3 | 5 | AY.4 | 0.000005 |
S | 241 | L241L | ttA | ttG | 2 | 5 | AY.4 | 0.000003 |
S | 241 | L241del | TTA | --- | 5 | 5 | AY.46.6 | 0.000361 |
S | 241 | L241L | Tta | Cta | 5 | 5 | AY.54 | 0.000477 |
S | 241 | L241del | TTA | --- | 5 | 5 | AY.75.1 | 0.000902 |
S | 241 | L241L | Tta | Cta | 5 | 5 | AY.92 | 0.001436 |
S | 241 | L241V | Tta | Gta | 5 | 5 | B.1.1.7 | 0.000004 |
S | 241 | L241F | ttA | ttT | 5 | 5 | B.1.1.7 | 0.000004 |
S | 241 | L241L | Tta | Cta | 4 | 5 | B.1.177 | 0.000053 |
S | 241 | L241L | ttA | ttG | 1 | 5 | B.1.177 | 0.000013 |
S | 241 | L241del2 | TTa | --a | 4 | 5 | B.1.351 | 0.000119 |
S | 241 | L241del2 | TTA | --N | 1 | 5 | B.1.351 | 0.00003 |
S | 241 | L241del | TTA | --- | 4 | 4 | AY.120 | 0.000149 |
S | 241 | L241del | TTA | --- | 4 | 4 | AY.14 | 0.000352 |
S | 241 | L241del | TTA | --- | 4 | 4 | AY.20 | 0.000155 |
S | 241 | L241S | tTa | tCa | 4 | 4 | AY.4 | 0.000006 |
S | 241 | L241L | Tta | Cta | 2 | 4 | AY.44 | 0.000012 |
S | 241 | L241L | ttA | ttG | 2 | 4 | AY.44 | 0.000012 |
S | 241 | L241L | Tta | Cta | 4 | 4 | B.1 | 0.000037 |
S | 241 | L241del | TTA | --- | 4 | 4 | B.1.1.432 | 0.005063 |
S | 241 | L241del | TTA | --- | 4 | 4 | B.1.258 | 0.000266 |
S | 241 | L241del | TTA | --- | 4 | 4 | B.1.609 | 0.001918 |
S | 241 | L241del | TTA | --- | 4 | 4 | B.1.621 | 0.000354 |
S | 241 | L241del | TTA | --- | 4 | 4 | P.5 | 0.054795 |
S | 241 | L241K | TTa | AAa | 2 | 3 | All | 0 |
S | 241 | L241K | TTA | AAG | 1 | 3 | All | 0 |
S | 241 | L241del | TTA | --- | 3 | 3 | AY.1 | 0.001187 |
S | 241 | L241del | TTA | --- | 3 | 3 | AY.100 | 0.000138 |
S | 241 | L241del | TTA | --- | 3 | 3 | AY.106 | 0.001005 |
S | 241 | L241del | TTA | --- | 3 | 3 | AY.116.1 | 0.000934 |
S | 241 | L241L | Tta | Cta | 2 | 3 | AY.20 | 0.000078 |
S | 241 | L241L | ttA | ttG | 1 | 3 | AY.20 | 0.000039 |
S | 241 | L241del | TTA | --- | 3 | 3 | AY.36 | 0.000445 |
S | 241 | L241V | Tta | Gta | 3 | 3 | AY.4 | 0.000005 |
S | 241 | L241del2 | TTA | --N | 1 | 3 | AY.4 | 0.000002 |
S | 241 | L241del2 | tTA | t-- | 1 | 3 | AY.4 | 0.000002 |
S | 241 | L241del2 | TTa | --a | 1 | 3 | AY.4 | 0.000002 |
S | 241 | L241del | TTA | --- | 3 | 3 | AY.4.5 | 0.000322 |
S | 241 | L241del | TTA | --- | 3 | 3 | AY.42 | 0.000121 |
S | 241 | L241del | TTA | --- | 3 | 3 | AY.45 | 0.000365 |
S | 241 | L241L | ttA | ttG | 3 | 3 | AY.68 | 0.000821 |
S | 241 | L241del | TTA | --- | 3 | 3 | B.1.1.389 | 0.018182 |
S | 241 | L241X | tTa | tGa | 2 | 3 | B.1.1.7 | 0.000002 |
S | 241 | L241X | tTa | tAa | 1 | 3 | B.1.1.7 | 0.000001 |
S | 241 | L241del | TTA | --- | 3 | 3 | B.1.170 | 0.012931 |
S | 241 | L241L | Tta | Cta | 3 | 3 | B.1.2 | 0.000026 |
S | 241 | L241del | TTA | --- | 3 | 3 | B.1.221 | 0.000213 |
S | 241 | L241del | TTA | --- | 3 | 3 | B.1.240 | 0.000647 |
S | 241 | L241L | Tta | Cta | 3 | 3 | B.1.241 | 0.002435 |
S | 241 | L241del2 | TTa | --a | 2 | 3 | B.1.351.2 | 0.000605 |
S | 241 | L241del2 | TTA | --N | 1 | 3 | B.1.351.2 | 0.000303 |
S | 241 | L241I | Tta | Ata | 3 | 3 | B.1.36 | 0.000438 |
S | 241 | L241del | TTA | --- | 3 | 3 | B.1.416 | 0.003807 |
S | 241 | L241del | TTA | --- | 3 | 3 | B.1.427 | 0.000151 |
S | 241 | L241L | ttA | ttG | 3 | 3 | B.1.480 | 0.007463 |
S | 241 | L241del | TTA | --- | 3 | 3 | B.1.596 | 0.000261 |
S | 241 | L241L | Tta | Cta | 3 | 3 | P.1 | 0.000047 |
S | 241 | L241del | TTA | --- | 2 | 2 | 0.111111 | |
S | 241 | L241I | Tta | Ata | 1 | 2 | 0.055556 | |
S | 241 | L241K | TTa | AAa | 1 | 2 | 0.055556 | |
S | 241 | L241I | TtA | AtT | 1 | 2 | 0.055556 | |
S | 241 | L241X | tTA | tAG | 1 | 2 | 0.055556 | |
S | 241 | L241X | tTa | tAa | 1 | 2 | 0.055556 | |
S | 241 | L241K | TTA | AAG | 1 | 2 | 0.055556 | |
S | 241 | L241M | TtA | AtG | 2 | 2 | All | 0 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.105 | 0.001286 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.114 | 0.000462 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.118 | 0.000125 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.13 | 0.000322 |
S | 241 | L241del1 | TTA | -NN | 1 | 2 | AY.25 | 0.000006 |
S | 241 | L241del1 | ttA | tt- | 1 | 2 | AY.25 | 0.000006 |
S | 241 | L241L | Tta | Cta | 1 | 2 | AY.26 | 0.000028 |
S | 241 | L241L | ttA | ttG | 1 | 2 | AY.26 | 0.000028 |
S | 241 | L241del1 | ttA | tt- | 2 | 2 | AY.29 | 0.000032 |
S | 241 | L241F | ttA | ttT | 2 | 2 | AY.3 | 0.00002 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.3.1 | 0.000171 |
S | 241 | L241I | Tta | Ata | 2 | 2 | AY.36 | 0.000296 |
S | 241 | L241L | ttA | ttG | 1 | 2 | AY.4.2 | 0.000022 |
S | 241 | L241L | Tta | Cta | 1 | 2 | AY.4.2 | 0.000022 |
S | 241 | L241S | tTa | tCa | 2 | 2 | AY.43 | 0.000009 |
S | 241 | L241V | Tta | Gta | 2 | 2 | AY.43 | 0.000009 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.46 | 0.000208 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.47 | 0.000062 |
S | 241 | L241L | Tta | Cta | 2 | 2 | AY.5 | 0.000041 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.5.3 | 0.000675 |
S | 241 | L241L | Tta | Cta | 2 | 2 | AY.6 | 0.000082 |
S | 241 | L241L | Tta | Cta | 2 | 2 | AY.63 | 0.000774 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.63 | 0.000774 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.70 | 0.000417 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.95 | 0.001522 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.98 | 0.000158 |
S | 241 | L241del | TTA | --- | 2 | 2 | AY.99.2 | 0.000184 |
S | 241 | L241I | Tta | Ata | 2 | 2 | B.1 | 0.000018 |
S | 241 | L241F | ttA | ttT | 2 | 2 | B.1 | 0.000018 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.1.222 | 0.000408 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.1.28 | 0.000622 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.1.318 | 0.000604 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.1.375 | 0.02381 |
S | 241 | L241F | ttA | ttT | 2 | 2 | B.1.1.432 | 0.002532 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.1.507 | 0.017391 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.1.519 | 0.000079 |
S | 241 | L241F | ttA | ttT | 2 | 2 | B.1.1.519 | 0.000079 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.1.528 | 0.009615 |
S | 241 | L241L | Tta | Cta | 1 | 2 | B.1.160 | 0.000031 |
S | 241 | L241L | ttA | ttG | 1 | 2 | B.1.160 | 0.000031 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.177.2 | 0.009091 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.177.31 | 0.022989 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.177.54 | 0.001213 |
S | 241 | L241L | Tta | Cta | 2 | 2 | B.1.177.60 | 0.000437 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.177.81 | 0.000379 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.258.11 | 0.000793 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.258.3 | 0.00335 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.336 | 0.004878 |
S | 241 | L241del1 | ttA | tt- | 2 | 2 | B.1.351 | 0.000059 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.351.1 | 0.076923 |
S | 241 | L241L | Tta | Cta | 2 | 2 | B.1.526 | 0.000047 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.617.1 | 0.000258 |
S | 241 | L241F | ttA | ttC | 1 | 2 | B.1.617.2 | 0.000004 |
S | 241 | L241F | ttA | ttT | 1 | 2 | B.1.617.2 | 0.000004 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.623 | 0.001073 |
S | 241 | L241del | TTA | --- | 2 | 2 | B.1.637 | 0.000146 |
S | 241 | L241del | TTA | --- | 2 | 2 | C.16 | 0.002121 |
S | 241 | L241del | TTA | --- | 2 | 2 | C.36.3 | 0.001134 |
S | 241 | L241del | TTA | --- | 2 | 2 | P.1.12 | 0.000968 |
S | 241 | L241del | TTA | --- | 2 | 2 | Q.1 | 0.000253 |
S | 241 | L241L | ttA | ttG | 1 | 1 | 0.055556 | |
S | 241 | L241Y | tTA | tAT | 1 | 1 | 0.055556 | |
S | 241 | L241M | TtA | AtG | 1 | 1 | 0.055556 | |
S | 241 | L241N | TTA | AAT | 1 | 1 | 0.055556 | |
S | 241 | L241F | ttA | ttT | 1 | 1 | 0.055556 | |
S | 241 | L241del | TTA | --- | 1 | 1 | A | 0.000387 |
S | 241 | L241del | TTA | --- | 1 | 1 | A.2 | 0.000662 |
S | 241 | L241L | ttA | ttG | 1 | 1 | A.2 | 0.000662 |
S | 241 | L241del | TTA | --- | 1 | 1 | A.2.5 | 0.000499 |
S | 241 | L241L | ttA | ttG | 1 | 1 | A.2.5.2 | 0.001572 |
S | 241 | L241del | TTA | --- | 1 | 1 | A.23 | 0.010526 |
S | 241 | L241del | TTA | --- | 1 | 1 | A.27 | 0.001656 |
S | 241 | L241del | TTA | --- | 1 | 1 | A.29 | 0.005319 |
S | 241 | L241F | ttA | ttT | 1 | 1 | A.3 | 0.002096 |
S | 241 | L241del | TTA | --- | 1 | 1 | AD.2 | 0.000219 |
S | 241 | L241Q | TTa | CAa | 1 | 1 | All | 0 |
S | 241 | L241Y | tTA | tAT | 1 | 1 | All | 0 |
S | 241 | L241N | TTA | AAT | 1 | 1 | All | 0 |
S | 241 | L241W | tTA | tGG | 1 | 1 | All | 0 |
S | 241 | L241del | TTA | --- | 1 | 1 | AU.3 | 0.00211 |
S | 241 | L241del2 | TTA | --N | 1 | 1 | AY.100 | 0.000046 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.101 | 0.00049 |
S | 241 | L241L | ttA | ttG | 1 | 1 | AY.102 | 0.000027 |
S | 241 | L241S | tTa | tCa | 1 | 1 | AY.103 | 0.000006 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.111 | 0.000183 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.113 | 0.000142 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.117 | 0.000085 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.121 | 0.000135 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.2 | 0.000356 |
S | 241 | L241S | tTa | tCa | 1 | 1 | AY.23.1 | 0.000417 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.24 | 0.000431 |
S | 241 | L241I | Tta | Ata | 1 | 1 | AY.25 | 0.000006 |
S | 241 | L241del2 | tTA | t-- | 1 | 1 | AY.25 | 0.000006 |
S | 241 | L241L | Tta | Cta | 1 | 1 | AY.28 | 0.00189 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.29 | 0.000016 |
S | 241 | L241L | ttA | ttG | 1 | 1 | AY.29.1 | 0.000221 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.30 | 0.000396 |
S | 241 | L241L | Tta | Cta | 1 | 1 | AY.35 | 0.000233 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.37 | 0.000316 |
S | 241 | L241F | ttA | ttT | 1 | 1 | AY.39 | 0.000025 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.39.1 | 0.00004 |
S | 241 | L241F | ttA | ttT | 1 | 1 | AY.4 | 0.000002 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.4.2.1 | 0.000149 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.40 | 0.000964 |
S | 241 | L241X | tTa | tAa | 1 | 1 | AY.42 | 0.00004 |
S | 241 | L241K | TTa | AAa | 1 | 1 | AY.42 | 0.00004 |
S | 241 | L241del1 | TTa | -Ca | 1 | 1 | AY.43 | 0.000004 |
S | 241 | L241Q | TTa | CAa | 1 | 1 | AY.43 | 0.000004 |
S | 241 | L241F | ttA | ttT | 1 | 1 | AY.44 | 0.000006 |
S | 241 | L241S | tTa | tCa | 1 | 1 | AY.44 | 0.000006 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.46.1 | 0.001027 |
S | 241 | L241S | tTa | tCa | 1 | 1 | AY.46.5 | 0.000198 |
S | 241 | L241F | ttA | ttT | 1 | 1 | AY.47 | 0.000031 |
S | 241 | L241X | tTa | tAa | 1 | 1 | AY.5 | 0.000021 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.5.4 | 0.000277 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.50 | 0.000799 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.51 | 0.000909 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.54 | 0.000095 |
S | 241 | L241L | Tta | Cta | 1 | 1 | AY.58 | 0.000907 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.58 | 0.000907 |
S | 241 | L241L | ttA | ttG | 1 | 1 | AY.59 | 0.00053 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.59 | 0.00053 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.6 | 0.000041 |
S | 241 | L241L | Tta | Cta | 1 | 1 | AY.61 | 0.000105 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.61 | 0.000105 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.65 | 0.000533 |
S | 241 | L241F | ttA | ttT | 1 | 1 | AY.68 | 0.000274 |
S | 241 | L241L | Tta | Cta | 1 | 1 | AY.7.1 | 0.000113 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.7.2 | 0.000559 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.73 | 0.000665 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.74 | 0.000116 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.78 | 0.001541 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.89 | 0.004902 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.9 | 0.000068 |
S | 241 | L241L | Tta | Cta | 1 | 1 | AY.9.2 | 0.000037 |
S | 241 | L241del | TTA | --- | 1 | 1 | AY.91 | 0.00073 |
S | 241 | L241S | tTa | tCa | 1 | 1 | AY.98.1 | 0.000048 |
S | 241 | L241del2 | TTA | --N | 1 | 1 | B.1 | 0.000009 |
S | 241 | L241S | tTa | tCa | 1 | 1 | B.1 | 0.000009 |
S | 241 | L241V | Tta | Gta | 1 | 1 | B.1 | 0.000009 |
S | 241 | L241I | Tta | Ata | 1 | 1 | B.1.1 | 0.000018 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.148 | 0.008772 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.159 | 0.004673 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.192 | 0.002309 |
S | 241 | L241L | Tta | Cta | 1 | 1 | B.1.1.194 | 0.00495 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.214 | 0.000055 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.217 | 0.003636 |
S | 241 | L241L | Tta | Cta | 1 | 1 | B.1.1.220 | 0.001859 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.236 | 0.006897 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.284 | 0.000107 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.298 | 0.000862 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.323 | 0.014085 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.1.352 | 0.03125 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.356 | 0.008547 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.369 | 0.000446 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.372 | 0.000689 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.1.389 | 0.006061 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.39 | 0.00051 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.409 | 0.002833 |
S | 241 | L241del1 | ttA | tt- | 1 | 1 | B.1.1.432 | 0.001266 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.448 | 0.002033 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.464 | 0.001473 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.1.486 | 0.001577 |
S | 241 | L241L | ttA | ttG | 1 | 1 | B.1.1.5 | 0.008333 |
S | 241 | L241L | Tta | Cta | 1 | 1 | B.1.1.519 | 0.00004 |
S | 241 | L241I | Tta | Ata | 1 | 1 | B.1.1.7 | 0.000001 |
S | 241 | L241del1 | ttA | tt- | 1 | 1 | B.1.1.7 | 0.000001 |
S | 241 | L241V | Tta | Gta | 1 | 1 | B.1.1.70 | 0.000341 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.110.3 | 0.000718 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.111 | 0.001175 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.139 | 0.000733 |
S | 241 | L241W | tTA | tGG | 1 | 1 | B.1.157 | 0.002985 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.160 | 0.000031 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.160.23 | 0.004831 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.160.7 | 0.002079 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.16 | 0.000664 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.18 | 0.00116 |
S | 241 | L241S | tTa | tCa | 1 | 1 | B.1.177.4 | 0.000211 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.4 | 0.000211 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.51 | 0.004566 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.60 | 0.000218 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.62 | 0.001192 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.69 | 0.001484 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.77 | 0.000726 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.82 | 0.000477 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.85 | 0.005435 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.177.87 | 0.000728 |
S | 241 | L241del2 | TTa | --a | 1 | 1 | B.1.2 | 0.000009 |
S | 241 | L241S | tTa | tCa | 1 | 1 | B.1.206 | 0.000816 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.22 | 0.001318 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.237 | 0.004975 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.243 | 0.00007 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.258.14 | 0.00098 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.258.17 | 0.000104 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.311 | 0.000275 |
S | 241 | L241V | Tta | Gta | 1 | 1 | B.1.311 | 0.000275 |
S | 241 | L241V | Tta | Gta | 1 | 1 | B.1.332 | 0.003497 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.351 | 0.00003 |
S | 241 | L241M | TtA | AtG | 1 | 1 | B.1.351.1 | 0.038462 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.36 | 0.000146 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.36 | 0.000146 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.36.20 | 0.016949 |
S | 241 | L241V | Tta | Gta | 1 | 1 | B.1.36.29 | 0.000517 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.36.37 | 0.002778 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.367 | 0.000792 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.369 | 0.000285 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.375 | 0.00082 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.399 | 0.001934 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.399 | 0.001934 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.400 | 0.000429 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.409 | 0.000781 |
S | 241 | L241del2 | TTa | --a | 1 | 1 | B.1.409 | 0.000781 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.416.1 | 0.001563 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.417 | 0.028571 |
S | 241 | L241L | ttA | ttG | 1 | 1 | B.1.429 | 0.000024 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.438.1 | 0.000107 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.441 | 0.009615 |
S | 241 | L241S | tTa | tCa | 1 | 1 | B.1.456 | 0.003268 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.497 | 0.000315 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.517 | 0.000427 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.525 | 0.000113 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.561 | 0.000397 |
S | 241 | L241F | ttA | ttT | 1 | 1 | B.1.576 | 0.000907 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.576 | 0.000907 |
S | 241 | L241L | Tta | Cta | 1 | 1 | B.1.582 | 0.000491 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.582 | 0.000491 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.599 | 0.00365 |
S | 241 | L241L | Tta | Cta | 1 | 1 | B.1.609 | 0.000479 |
S | 241 | L241del2 | TTA | --N | 1 | 1 | B.1.620 | 0.000946 |
S | 241 | L241del1 | TtA | Nt- | 1 | 1 | B.1.620 | 0.000946 |
S | 241 | L241L | Tta | Cta | 1 | 1 | B.1.621 | 0.000089 |
S | 241 | L241L | Tta | Cta | 1 | 1 | B.1.637 | 0.000073 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.1.8 | 0.001972 |
S | 241 | L241V | Tta | Gta | 1 | 1 | B.40 | 0.000364 |
S | 241 | L241L | ttA | ttG | 1 | 1 | B.40 | 0.000364 |
S | 241 | L241del | TTA | --- | 1 | 1 | B.6 | 0.00091 |
S | 241 | L241F | ttA | ttC | 1 | 1 | B.60 | 0.015873 |
S | 241 | L241del | TTA | --- | 1 | 1 | C.1.1 | 0.076923 |
S | 241 | L241del | TTA | --- | 1 | 1 | C.1.2 | 0.004255 |
S | 241 | L241del | TTA | --- | 1 | 1 | C.36 | 0.000911 |
S | 241 | L241V | Tta | Gta | 1 | 1 | P.1 | 0.000016 |
S | 241 | L241del1 | ttA | tt- | 1 | 1 | P.1 | 0.000016 |
S | 241 | L241del | TTA | --- | 1 | 1 | P.1.1 | 0.000318 |
S | 241 | L241del | TTA | --- | 1 | 1 | P.1.14 | 0.000048 |
S | 241 | L241del | TTA | --- | 1 | 1 | P.1.6 | 0.001946 |
S | 241 | L241del | TTA | --- | 1 | 1 | Q.2 | 0.000613 |
S | 241 | L241del | TTA | --- | 1 | 1 | Q.3 | 0.000145 |
S | 241 | L241del | TTA | --- | 1 | 1 | Q.8 | 0.000165 |
S | 241 | L241F | ttA | ttT | 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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