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 | 1260 | D1260Y | nonsyn | Gac | Tac | 2265 | 2264 | 0.999559 | 25340-25342 | |
S | 1260 | D1260Y | nonsyn | GaC | TaT | 2265 | 1 | 0.000441501 | 25340-25342 |
Details of the mutation D1260Y 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 | 1260 | D1260Y | Gac | Tac | 2264 | 2265 | All | 0.000433 |
S | 1260 | D1260Y | GaC | TaT | 1 | 2265 | All | 0 |
S | 1260 | D1260Y | Gac | Tac | 548 | 548 | AY.4 | 0.000853 |
S | 1260 | D1260Y | Gac | Tac | 482 | 482 | AY.81 | 0.960159 |
S | 1260 | D1260Y | Gac | Tac | 209 | 209 | B.1.1.7 | 0.000187 |
S | 1260 | D1260Y | Gac | Tac | 79 | 79 | B.1 | 0.000724 |
S | 1260 | D1260Y | Gac | Tac | 79 | 79 | B.1.36 | 0.011526 |
S | 1260 | D1260Y | Gac | Tac | 72 | 72 | B.1.160 | 0.002246 |
S | 1260 | D1260Y | Gac | Tac | 68 | 68 | B.1.160.20 | 0.607143 |
S | 1260 | D1260Y | Gac | Tac | 48 | 48 | B.1.617.2 | 0.000181 |
S | 1260 | D1260Y | Gac | Tac | 47 | 47 | B.1.351 | 0.001397 |
S | 1260 | D1260Y | Gac | Tac | 37 | 37 | AY.44 | 0.000225 |
S | 1260 | D1260Y | Gac | Tac | 34 | 34 | AY.3 | 0.000338 |
S | 1260 | D1260Y | Gac | Tac | 30 | 30 | B.1.2 | 0.000264 |
S | 1260 | D1260Y | Gac | Tac | 27 | 27 | B.1.1.214 | 0.001497 |
S | 1260 | D1260Y | Gac | Tac | 23 | 23 | AY.43 | 0.000102 |
S | 1260 | D1260Y | Gac | Tac | 21 | 21 | AY.103 | 0.00013 |
S | 1260 | D1260Y | Gac | Tac | 20 | 20 | B.1.1 | 0.000363 |
S | 1260 | D1260Y | Gac | Tac | 19 | 19 | AY.29 | 0.0003 |
S | 1260 | D1260Y | Gac | Tac | 19 | 19 | AY.75 | 0.001064 |
S | 1260 | D1260Y | Gac | Tac | 19 | 19 | B.1.206 | 0.015498 |
S | 1260 | D1260Y | Gac | Tac | 19 | 19 | P.1.14 | 0.000908 |
S | 1260 | D1260Y | Gac | Tac | 17 | 17 | B.1.1.57 | 0.195402 |
S | 1260 | D1260Y | Gac | Tac | 16 | 16 | AY.4.2 | 0.000347 |
S | 1260 | D1260Y | Gac | Tac | 16 | 16 | B.1.177 | 0.000211 |
S | 1260 | D1260Y | Gac | Tac | 13 | 13 | B.1.369 | 0.003708 |
S | 1260 | D1260Y | Gac | Tac | 13 | 13 | B.1.427 | 0.000656 |
S | 1260 | D1260Y | Gac | Tac | 12 | 12 | AY.25 | 0.000072 |
S | 1260 | D1260Y | Gac | Tac | 11 | 11 | P.1 | 0.000173 |
S | 1260 | D1260Y | Gac | Tac | 10 | 10 | B.1.1.244 | 0.153846 |
S | 1260 | D1260Y | Gac | Tac | 10 | 10 | B.1.1.519 | 0.000397 |
S | 1260 | D1260Y | Gac | Tac | 9 | 9 | AM.2 | 1 |
S | 1260 | D1260Y | Gac | Tac | 8 | 8 | AY.46.6 | 0.000578 |
S | 1260 | D1260Y | Gac | Tac | 6 | 6 | AY.102 | 0.000159 |
S | 1260 | D1260Y | Gac | Tac | 6 | 6 | AY.47 | 0.000187 |
S | 1260 | D1260Y | Gac | Tac | 6 | 6 | AY.9.2 | 0.00022 |
S | 1260 | D1260Y | Gac | Tac | 6 | 6 | B.1.258 | 0.000399 |
S | 1260 | D1260Y | Gac | Tac | 6 | 6 | B.1.470 | 0.008427 |
S | 1260 | D1260Y | Gac | Tac | 6 | 6 | P.1.7 | 0.001916 |
S | 1260 | D1260Y | Gac | Tac | 5 | 5 | AY.33 | 0.000334 |
S | 1260 | D1260Y | Gac | Tac | 5 | 5 | B.1.1.432 | 0.006329 |
S | 1260 | D1260Y | Gac | Tac | 5 | 5 | B.1.36.29 | 0.002587 |
S | 1260 | D1260Y | Gac | Tac | 5 | 5 | B.1.397 | 0.024272 |
S | 1260 | D1260Y | Gac | Tac | 5 | 5 | B.1.617.1 | 0.000645 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | AY.100 | 0.000184 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | AY.117 | 0.000338 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | AY.34 | 0.000388 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | AY.45 | 0.000487 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | AY.5 | 0.000083 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | B | 0.000511 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | B.1.1.28 | 0.001245 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | B.1.1.37 | 0.000771 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | B.1.416.1 | 0.00625 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | B.1.621.1 | 0.002023 |
S | 1260 | D1260Y | Gac | Tac | 4 | 4 | B.1.623 | 0.002146 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | AY.16.1 | 0.00141 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | AY.29.1 | 0.000662 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | AY.39 | 0.000074 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | B.1.1.284 | 0.000322 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | B.1.221 | 0.000213 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | B.1.497 | 0.000944 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | B.1.621 | 0.000266 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | C.37 | 0.000348 |
S | 1260 | D1260Y | Gac | Tac | 3 | 3 | P.2 | 0.00056 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.12 | 0.000632 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.120 | 0.000074 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.14 | 0.000176 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.24 | 0.000862 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.26 | 0.000057 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.36 | 0.000296 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.4.5 | 0.000215 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.42 | 0.00008 |
S | 1260 | D1260Y | Gac | Tac | 1 | 2 | AY.46.2 | 0.000635 |
S | 1260 | D1260Y | GaC | TaT | 1 | 2 | AY.46.2 | 0.000635 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.74 | 0.000231 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.98 | 0.000158 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | AY.99.2 | 0.000184 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | B.1.1.306 | 0.000877 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | B.1.177.35 | 0.001382 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | B.1.258.17 | 0.000208 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | B.1.560 | 0.009259 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | B.1.561 | 0.000794 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | B.1.636 | 0.013423 |
S | 1260 | D1260Y | Gac | Tac | 2 | 2 | D.2 | 0.00015 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | A | 0.000387 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.101 | 0.00049 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.119 | 0.000035 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.120.1 | 0.000321 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.121 | 0.000135 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.27 | 0.000065 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.39.1 | 0.00004 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.48 | 0.000465 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.5.3 | 0.000337 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.53 | 0.000288 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.66 | 0.00107 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.7 | 0.000196 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.70 | 0.000209 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.71 | 0.000475 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.77 | 0.001127 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.86 | 0.00083 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AY.95 | 0.000761 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | AZ.1 | 0.000867 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.1 | 0.000327 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.153 | 0.001095 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.216 | 0.00089 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.298 | 0.000862 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.347 | 0.018182 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.39 | 0.00051 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.54 | 0.003021 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.63 | 0.000386 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.1.91 | 0.166667 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.177.4 | 0.000211 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.177.81 | 0.000189 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.177.86 | 0.000183 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.234 | 0.000132 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.243 | 0.00007 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.301 | 0.005917 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.351.2 | 0.000303 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.351.3 | 0.000876 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.356 | 0.001727 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.36.1 | 0.00114 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.36.33 | 0.007576 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.36.7 | 0.004 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.400 | 0.000429 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.416 | 0.001269 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.429 | 0.000024 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.473 | 0.019231 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.525 | 0.000113 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.526 | 0.000024 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.544 | 0.006024 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.564 | 0.000426 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.567 | 0.003333 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.576 | 0.000907 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.587 | 0.001898 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.595 | 0.000261 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.596 | 0.000087 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | B.1.609 | 0.000479 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | C.14 | 0.004329 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | P.1.10 | 0.000269 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | P.1.15 | 0.000232 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | P.1.2 | 0.001156 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | Q.2 | 0.000613 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | Q.3 | 0.000145 |
S | 1260 | D1260Y | Gac | Tac | 1 | 1 | R.1 | 0.00009 |
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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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