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 | 452 | L452L | syn | ctG | ctT | 3137 | 2648 | 0.844119 | 22916-22918 | |
S | 452 | L452L | syn | Ctg | Ttg | 3137 | 304 | 0.0969079 | 22916-22918 | |
S | 452 | L452L | syn | ctG | ctA | 3137 | 164 | 0.0522792 | 22916-22918 | |
S | 452 | L452L | syn | CtG | TtA | 3137 | 19 | 0.00605674 | 22916-22918 | |
S | 452 | L452L | syn | ctG | ctC | 3137 | 2 | 0.000637552 | 22916-22918 |
Details of the mutation L452L 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 | 452 | L452L | ctG | ctT | 2648 | 3137 | All | 0.000506 |
S | 452 | L452L | Ctg | Ttg | 304 | 3137 | All | 0.000058 |
S | 452 | L452L | ctG | ctA | 164 | 3137 | All | 0.000031 |
S | 452 | L452L | CtG | TtA | 19 | 3137 | All | 0.000004 |
S | 452 | L452L | ctG | ctC | 2 | 3137 | All | 0 |
S | 452 | L452L | ctG | ctT | 386 | 641 | B.1.1.7 | 0.000346 |
S | 452 | L452L | Ctg | Ttg | 150 | 641 | B.1.1.7 | 0.000134 |
S | 452 | L452L | ctG | ctA | 104 | 641 | B.1.1.7 | 0.000093 |
S | 452 | L452L | ctG | ctC | 1 | 641 | B.1.1.7 | 0.000001 |
S | 452 | L452L | ctG | ctT | 607 | 607 | B.1.36.38 | 0.996716 |
S | 452 | L452L | ctG | ctT | 387 | 415 | B.1.2 | 0.003408 |
S | 452 | L452L | Ctg | Ttg | 23 | 415 | B.1.2 | 0.000203 |
S | 452 | L452L | ctG | ctA | 5 | 415 | B.1.2 | 0.000044 |
S | 452 | L452L | ctG | ctT | 324 | 324 | B.1.1.298 | 0.27931 |
S | 452 | L452L | ctG | ctT | 196 | 198 | B.1.160 | 0.006113 |
S | 452 | L452L | ctG | ctA | 2 | 198 | B.1.160 | 0.000062 |
S | 452 | L452L | ctG | ctT | 139 | 139 | P.1.10 | 0.037456 |
S | 452 | L452L | ctG | ctT | 70 | 70 | B.1.36.2 | 0.752688 |
S | 452 | L452L | ctG | ctT | 50 | 50 | B.1.1.305 | 0.19305 |
S | 452 | L452L | ctG | ctA | 26 | 46 | P.1 | 0.00041 |
S | 452 | L452L | ctG | ctT | 20 | 46 | P.1 | 0.000315 |
S | 452 | L452L | ctG | ctT | 35 | 44 | B.1 | 0.000321 |
S | 452 | L452L | Ctg | Ttg | 5 | 44 | B.1 | 0.000046 |
S | 452 | L452L | ctG | ctA | 3 | 44 | B.1 | 0.000027 |
S | 452 | L452L | CtG | TtA | 1 | 44 | B.1 | 0.000009 |
S | 452 | L452L | ctG | ctT | 37 | 39 | B.1.525 | 0.004187 |
S | 452 | L452L | Ctg | Ttg | 2 | 39 | B.1.525 | 0.000226 |
S | 452 | L452L | Ctg | Ttg | 32 | 32 | A.29 | 0.170213 |
S | 452 | L452L | ctG | ctT | 20 | 28 | B.1.1 | 0.000363 |
S | 452 | L452L | Ctg | Ttg | 6 | 28 | B.1.1 | 0.000109 |
S | 452 | L452L | ctG | ctA | 2 | 28 | B.1.1 | 0.000036 |
S | 452 | L452L | ctG | ctT | 25 | 27 | P.1.14 | 0.001195 |
S | 452 | L452L | ctG | ctA | 2 | 27 | P.1.14 | 0.000096 |
S | 452 | L452L | ctG | ctT | 27 | 27 | Q.4 | 0.012278 |
S | 452 | L452L | ctG | ctT | 23 | 26 | B.1.177 | 0.000303 |
S | 452 | L452L | Ctg | Ttg | 2 | 26 | B.1.177 | 0.000026 |
S | 452 | L452L | ctG | ctA | 1 | 26 | B.1.177 | 0.000013 |
S | 452 | L452L | ctG | ctT | 18 | 26 | B.1.351 | 0.000535 |
S | 452 | L452L | Ctg | Ttg | 7 | 26 | B.1.351 | 0.000208 |
S | 452 | L452L | ctG | ctA | 1 | 26 | B.1.351 | 0.00003 |
S | 452 | L452L | ctG | ctT | 21 | 21 | B.1.1.519 | 0.000834 |
S | 452 | L452L | ctG | ctT | 12 | 18 | B.1.1.214 | 0.000665 |
S | 452 | L452L | Ctg | Ttg | 6 | 18 | B.1.1.214 | 0.000333 |
S | 452 | L452L | ctG | ctT | 9 | 15 | B.1.596 | 0.000784 |
S | 452 | L452L | Ctg | Ttg | 6 | 15 | B.1.596 | 0.000523 |
S | 452 | L452L | Ctg | Ttg | 13 | 13 | B.1.311 | 0.003569 |
S | 452 | L452L | ctG | ctT | 12 | 12 | B.1.177.73 | 0.006795 |
S | 452 | L452L | ctG | ctT | 12 | 12 | B.1.221 | 0.000852 |
S | 452 | L452L | ctG | ctA | 10 | 11 | B.1.177.86 | 0.001835 |
S | 452 | L452L | ctG | ctT | 1 | 11 | B.1.177.86 | 0.000183 |
S | 452 | L452L | ctG | ctT | 7 | 11 | B.1.621 | 0.00062 |
S | 452 | L452L | Ctg | Ttg | 4 | 11 | B.1.621 | 0.000354 |
S | 452 | L452L | Ctg | Ttg | 10 | 10 | B.1.1.316 | 0.009251 |
S | 452 | L452L | Ctg | Ttg | 9 | 10 | B.1.258 | 0.000599 |
S | 452 | L452L | ctG | ctT | 1 | 10 | B.1.258 | 0.000067 |
S | 452 | L452L | ctG | ctT | 8 | 9 | B.1.1.306 | 0.003507 |
S | 452 | L452L | Ctg | Ttg | 1 | 9 | B.1.1.306 | 0.000438 |
S | 452 | L452L | ctG | ctT | 9 | 9 | B.1.399 | 0.017408 |
S | 452 | L452L | CtG | TtA | 6 | 8 | AY.43 | 0.000027 |
S | 452 | L452L | Ctg | Ttg | 2 | 8 | AY.43 | 0.000009 |
S | 452 | L452L | ctG | ctT | 8 | 8 | B.1.177.75 | 0.008325 |
S | 452 | L452L | ctG | ctT | 7 | 7 | B.1.1.70 | 0.002387 |
S | 452 | L452L | ctG | ctT | 7 | 7 | B.1.574 | 0.015054 |
S | 452 | L452L | ctG | ctT | 5 | 7 | B.1.575 | 0.001517 |
S | 452 | L452L | Ctg | Ttg | 2 | 7 | B.1.575 | 0.000607 |
S | 452 | L452L | ctG | ctT | 6 | 6 | B.1.1.222 | 0.001224 |
S | 452 | L452L | ctG | ctT | 5 | 6 | P.1.15 | 0.001162 |
S | 452 | L452L | Ctg | Ttg | 1 | 6 | P.1.15 | 0.000232 |
S | 452 | L452L | ctG | ctT | 5 | 5 | A.1 | 0.001409 |
S | 452 | L452L | ctG | ctT | 5 | 5 | B.1.1.128 | 0.035461 |
S | 452 | L452L | ctG | ctT | 5 | 5 | B.1.1.284 | 0.000537 |
S | 452 | L452L | ctG | ctT | 5 | 5 | B.1.1.433 | 0.007123 |
S | 452 | L452L | ctG | ctT | 5 | 5 | B.1.177.24 | 0.006477 |
S | 452 | L452L | ctG | ctT | 5 | 5 | B.1.415 | 0.071429 |
S | 452 | L452L | ctG | ctT | 3 | 5 | B.1.526 | 0.000071 |
S | 452 | L452L | Ctg | Ttg | 2 | 5 | B.1.526 | 0.000047 |
S | 452 | L452L | ctG | ctT | 5 | 5 | P.1.17 | 0.000809 |
S | 452 | L452L | ctG | ctT | 5 | 5 | P.2 | 0.000933 |
S | 452 | L452L | Ctg | Ttg | 1 | 4 | 0.055556 | |
S | 452 | L452L | ctG | ctA | 1 | 4 | 0.055556 | |
S | 452 | L452L | CtG | TtA | 1 | 4 | 0.055556 | |
S | 452 | L452L | ctG | ctT | 1 | 4 | 0.055556 | |
S | 452 | L452L | CtG | TtA | 2 | 4 | B.1.1.1 | 0.000653 |
S | 452 | L452L | ctG | ctT | 2 | 4 | B.1.1.1 | 0.000653 |
S | 452 | L452L | ctG | ctT | 4 | 4 | B.1.1.216 | 0.003562 |
S | 452 | L452L | ctG | ctT | 4 | 4 | B.1.177.40 | 0.020619 |
S | 452 | L452L | ctG | ctT | 3 | 4 | B.1.177.81 | 0.000568 |
S | 452 | L452L | Ctg | Ttg | 1 | 4 | B.1.177.81 | 0.000189 |
S | 452 | L452L | ctG | ctT | 4 | 4 | B.1.406 | 0.024242 |
S | 452 | L452L | ctG | ctT | 3 | 4 | B.1.509 | 0.002597 |
S | 452 | L452L | Ctg | Ttg | 1 | 4 | B.1.509 | 0.000866 |
S | 452 | L452L | CtG | TtA | 2 | 4 | B.1.617.2 | 0.000008 |
S | 452 | L452L | ctG | ctC | 1 | 4 | B.1.617.2 | 0.000004 |
S | 452 | L452L | ctG | ctT | 1 | 4 | B.1.617.2 | 0.000004 |
S | 452 | L452L | ctG | ctT | 4 | 4 | Q.8 | 0.00066 |
S | 452 | L452L | ctG | ctT | 3 | 3 | B.1.139 | 0.002199 |
S | 452 | L452L | ctG | ctT | 3 | 3 | B.1.177.7 | 0.000495 |
S | 452 | L452L | ctG | ctT | 3 | 3 | B.1.243 | 0.000209 |
S | 452 | L452L | ctG | ctT | 3 | 3 | B.1.416.1 | 0.004687 |
S | 452 | L452L | ctG | ctT | 2 | 3 | Q.1 | 0.000253 |
S | 452 | L452L | Ctg | Ttg | 1 | 3 | Q.1 | 0.000126 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.110.3 | 0.001437 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.177.43 | 0.002954 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.237 | 0.00995 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.245 | 0.0625 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.36 | 0.000292 |
S | 452 | L452L | ctG | ctA | 2 | 2 | B.1.36.19 | 0.018519 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.36.22 | 0.002415 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.400 | 0.000858 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.462 | 0.014493 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.469 | 0.00722 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.595 | 0.000522 |
S | 452 | L452L | ctG | ctT | 2 | 2 | B.1.625 | 0.004706 |
S | 452 | L452L | Ctg | Ttg | 2 | 2 | B.40 | 0.000729 |
S | 452 | L452L | ctG | ctA | 2 | 2 | B.6.6 | 0.001778 |
S | 452 | L452L | ctG | ctT | 2 | 2 | P.1.2 | 0.002312 |
S | 452 | L452L | ctG | ctT | 2 | 2 | P.1.8 | 0.009569 |
S | 452 | L452L | ctG | ctT | 2 | 2 | R.1 | 0.00018 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | A.2 | 0.000662 |
S | 452 | L452L | ctG | ctT | 1 | 1 | A.2.4 | 0.003367 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | AD.2 | 0.000219 |
S | 452 | L452L | ctG | ctT | 1 | 1 | AP.1 | 0.001502 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | AY.106 | 0.000335 |
S | 452 | L452L | CtG | TtA | 1 | 1 | AY.113 | 0.000142 |
S | 452 | L452L | CtG | TtA | 1 | 1 | AY.42 | 0.00004 |
S | 452 | L452L | CtG | TtA | 1 | 1 | AY.44 | 0.000006 |
S | 452 | L452L | CtG | TtA | 1 | 1 | AY.45 | 0.000122 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | AY.55 | 0.000917 |
S | 452 | L452L | CtG | TtA | 1 | 1 | AY.84 | 0.000437 |
S | 452 | L452L | CtG | TtA | 1 | 1 | AY.9.2 | 0.000037 |
S | 452 | L452L | CtG | TtA | 1 | 1 | AY.99 | 0.001049 |
S | 452 | L452L | ctG | ctT | 1 | 1 | AZ.3 | 0.00152 |
S | 452 | L452L | ctG | ctA | 1 | 1 | B | 0.000128 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.148 | 0.008772 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.164 | 0.005155 |
S | 452 | L452L | ctG | ctA | 1 | 1 | B.1.1.317 | 0.000412 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.318 | 0.000302 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.328 | 0.016949 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.348 | 0.000796 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.1.39 | 0.00051 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.1.391 | 0.008547 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.397 | 0.002252 |
S | 452 | L452L | ctG | ctA | 1 | 1 | B.1.1.409 | 0.002833 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.462 | 0.008621 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.528 | 0.004808 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.59 | 0.006494 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.1.8 | 0.003584 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.110 | 0.004525 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.119 | 0.010526 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.142 | 0.002899 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.157 | 0.002985 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.160.26 | 0.002421 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.177.10 | 0.000878 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.177.18 | 0.00116 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.177.33 | 0.001645 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.177.4 | 0.000211 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.177.57 | 0.000281 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.177.84 | 0.006667 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.221.2 | 0.004016 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.234 | 0.000132 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.240 | 0.000216 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.258.17 | 0.000104 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.305 | 0.002151 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.329 | 0.000608 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.36.10 | 0.004785 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.36.18 | 0.00042 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.36.29 | 0.000517 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.36.8 | 0.001 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.378 | 0.006849 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.390 | 0.010638 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.396 | 0.000706 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.397 | 0.004854 |
S | 452 | L452L | Ctg | Ttg | 1 | 1 | B.1.404 | 0.001302 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.429 | 0.000024 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.556 | 0.007519 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.569 | 0.014493 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.619.1 | 0.000641 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.1.621.1 | 0.000506 |
S | 452 | L452L | ctG | ctT | 1 | 1 | B.57 | 0.015152 |
S | 452 | L452L | ctG | ctT | 1 | 1 | C.1.2 | 0.004255 |
S | 452 | L452L | ctG | ctT | 1 | 1 | C.35 | 0.000774 |
S | 452 | L452L | ctG | ctT | 1 | 1 | D.2 | 0.000075 |
S | 452 | L452L | ctG | ctT | 1 | 1 | N.5 | 0.001767 |
S | 452 | L452L | ctG | ctT | 1 | 1 | P.1.12 | 0.000484 |
S | 452 | L452L | ctG | ctT | 1 | 1 | P.1.7 | 0.000319 |
S | 452 | L452L | ctG | ctT | 1 | 1 | P.3 | 0.001595 |
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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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