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 |
E | 25 | V25V | syn | gtA | gtG | 3543 | 3390 | 0.956816 | 26317-26319 |
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 |
E | 25 | V25V | gtA | gtG | 3390 | 3543 | All | 0.000648 |
E | 25 | V25V | gtA | gtG | 957 | 957 | B.1.389 | 0.958918 |
E | 25 | V25V | gtA | gtG | 791 | 818 | AY.4 | 0.001231 |
E | 25 | V25V | gtA | gtG | 218 | 232 | B.1.1.7 | 0.000195 |
E | 25 | V25V | gtA | gtG | 222 | 222 | B.1.628 | 0.078224 |
E | 25 | V25V | gtA | gtG | 205 | 209 | B.1 | 0.001878 |
E | 25 | V25V | gtA | gtG | 97 | 97 | AY.103 | 0.000602 |
E | 25 | V25V | gtA | gtG | 77 | 88 | B.1.617.2 | 0.00029 |
E | 25 | V25V | gtA | gtG | 78 | 78 | B.1.2 | 0.000687 |
E | 25 | V25V | gtA | gtG | 75 | 75 | AY.98.1 | 0.003632 |
E | 25 | V25V | gtA | gtG | 70 | 70 | AY.4.5 | 0.007524 |
E | 25 | V25V | gtA | gtG | 65 | 65 | C.36.3 | 0.036869 |
E | 25 | V25V | gtA | gtG | 37 | 63 | AY.44 | 0.000225 |
E | 25 | V25V | gtA | gtG | 42 | 43 | AY.25 | 0.000253 |
E | 25 | V25V | gtA | gtG | 34 | 34 | AY.102 | 0.000901 |
E | 25 | V25V | gtA | gtG | 27 | 28 | AY.43 | 0.00012 |
E | 25 | V25V | gtA | gtG | 26 | 26 | AY.3 | 0.000259 |
E | 25 | V25V | gtA | gtG | 20 | 21 | AY.39 | 0.000494 |
E | 25 | V25V | gtA | gtG | 19 | 20 | B.1.1 | 0.000345 |
E | 25 | V25V | gtA | gtG | 18 | 19 | B.1.177 | 0.000237 |
E | 25 | V25V | gtA | gtG | 15 | 16 | AY.20 | 0.000583 |
E | 25 | V25V | gtA | gtG | 12 | 13 | B.1.258 | 0.000799 |
E | 25 | V25V | gtA | gtG | 10 | 12 | AY.29 | 0.000158 |
E | 25 | V25V | gtA | gtG | 10 | 10 | AY.47 | 0.000311 |
E | 25 | V25V | gtA | gtG | 1 | 10 | AY.85 | 0.000427 |
E | 25 | V25V | gtA | gtG | 6 | 10 | P.1.14 | 0.000287 |
E | 25 | V25V | gtA | gtG | 9 | 9 | AY.4.2 | 0.000195 |
E | 25 | V25V | gtA | gtG | 9 | 9 | B.1.429 | 0.000212 |
E | 25 | V25V | gtA | gtG | 9 | 9 | P.1 | 0.000142 |
E | 25 | V25V | gtA | gtG | 7 | 8 | AY.100 | 0.000322 |
E | 25 | V25V | gtA | gtG | 7 | 8 | AY.5 | 0.000145 |
E | 25 | V25V | gtA | gtG | 8 | 8 | AY.88 | 0.007073 |
E | 25 | V25V | gtA | gtG | 7 | 7 | AY.42 | 0.000282 |
E | 25 | V25V | gtA | gtG | 6 | 7 | AY.9.2 | 0.00022 |
E | 25 | V25V | gtA | gtG | 7 | 7 | B.1.177.77 | 0.005084 |
E | 25 | V25V | gtA | gtG | 6 | 6 | AY.107 | 0.002796 |
E | 25 | V25V | gtA | gtG | 6 | 6 | B.1.1.216 | 0.005343 |
E | 25 | V25V | gtA | gtG | 3 | 5 | 0.166667 | |
E | 25 | V25V | gtA | gtG | 5 | 5 | AY.23 | 0.000349 |
E | 25 | V25V | gtA | gtG | 5 | 5 | B.1.1.217 | 0.018182 |
E | 25 | V25V | gtA | gtG | 5 | 5 | B.1.1.318 | 0.001509 |
E | 25 | V25V | gtA | gtG | 4 | 5 | B.1.621 | 0.000354 |
E | 25 | V25V | gtA | gtG | 4 | 4 | B.1.160 | 0.000125 |
E | 25 | V25V | gtA | gtG | 4 | 4 | B.1.427 | 0.000202 |
E | 25 | V25V | gtA | gtG | 4 | 4 | B.1.525 | 0.000453 |
E | 25 | V25V | gtA | gtG | 4 | 4 | B.1.596 | 0.000349 |
E | 25 | V25V | gtA | gtG | 2 | 3 | AY.113 | 0.000285 |
E | 25 | V25V | gtA | gtG | 2 | 3 | AY.118 | 0.000125 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.120.1 | 0.000963 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.14 | 0.000264 |
E | 25 | V25V | gtA | gtG | 2 | 3 | AY.26 | 0.000057 |
E | 25 | V25V | gtA | gtG | 2 | 3 | AY.3.1 | 0.000171 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.45 | 0.000365 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.46 | 0.000312 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.57 | 0.001969 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.61 | 0.000314 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.64 | 0.001786 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.74 | 0.000347 |
E | 25 | V25V | gtA | gtG | 2 | 3 | AY.75 | 0.000112 |
E | 25 | V25V | gtA | gtG | 3 | 3 | AY.98 | 0.000237 |
E | 25 | V25V | gtA | gtG | 3 | 3 | B.1.241 | 0.002435 |
E | 25 | V25V | gtA | gtG | 3 | 3 | B.1.243 | 0.000209 |
E | 25 | V25V | gtA | gtG | 3 | 3 | B.1.36.29 | 0.001552 |
E | 25 | V25V | gtA | gtG | 1 | 3 | B.1.362 | 0.001541 |
E | 25 | V25V | gtA | gtG | 1 | 3 | B.1.617.1 | 0.000129 |
E | 25 | V25V | gtA | gtG | 3 | 3 | C.37 | 0.000348 |
E | 25 | V25V | gtA | gtG | 2 | 2 | A.1 | 0.000564 |
E | 25 | V25V | gtA | gtG | 2 | 2 | AY.119 | 0.000071 |
E | 25 | V25V | gtA | gtG | 2 | 2 | AY.13 | 0.000322 |
E | 25 | V25V | gtA | gtG | 1 | 2 | AY.46.6 | 0.000072 |
E | 25 | V25V | gtA | gtG | 1 | 2 | AY.5.4 | 0.000277 |
E | 25 | V25V | gtA | gtG | 2 | 2 | AY.9.1 | 0.000167 |
E | 25 | V25V | gtA | gtG | 2 | 2 | B.1.1.232 | 0.00363 |
E | 25 | V25V | gtA | gtG | 2 | 2 | B.1.1.416 | 0.00181 |
E | 25 | V25V | gtA | gtG | 2 | 2 | B.1.1.432 | 0.002532 |
E | 25 | V25V | gtA | gtG | 2 | 2 | B.1.1.519 | 0.000079 |
E | 25 | V25V | gtA | gtG | 2 | 2 | B.1.177.15 | 0.001262 |
E | 25 | V25V | gtA | gtG | 2 | 2 | B.1.177.8 | 0.001505 |
E | 25 | V25V | gtA | gtG | 1 | 2 | B.1.351 | 0.00003 |
E | 25 | V25V | gtA | gtG | 2 | 2 | B.1.420 | 0.020833 |
E | 25 | V25V | gtA | gtG | 1 | 2 | B.1.466.2 | 0.000391 |
E | 25 | V25V | gtA | gtG | 2 | 2 | B.1.526 | 0.000047 |
E | 25 | V25V | gtA | gtG | 2 | 2 | P.1.12 | 0.000968 |
E | 25 | V25V | gtA | gtG | 2 | 2 | P.2 | 0.000373 |
E | 25 | V25V | gtA | gtG | 2 | 2 | Q.1 | 0.000253 |
E | 25 | V25V | gtA | gtG | 2 | 2 | R.1 | 0.00018 |
E | 25 | V25V | gtA | gtG | 1 | 1 | A | 0.000387 |
E | 25 | V25V | gtA | gtG | 1 | 1 | A.2.5.2 | 0.001572 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.101 | 0.00049 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.114 | 0.000231 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.12 | 0.000316 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.120 | 0.000037 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.16.1 | 0.00047 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.24 | 0.000431 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.33 | 0.000067 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.34 | 0.000097 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.36 | 0.000148 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.46.1 | 0.001027 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.46.4 | 0.000165 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.67 | 0.000464 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.68 | 0.000274 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.7 | 0.000196 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.7.2 | 0.000559 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.75.1 | 0.00018 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.9 | 0.000068 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.95 | 0.000761 |
E | 25 | V25V | gtA | gtG | 1 | 1 | AY.99.2 | 0.000092 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.1 | 0.000327 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.134 | 0.011364 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.138 | 0.006061 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.176 | 0.000439 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.207 | 0.001182 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.25 | 0.000569 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.306 | 0.000438 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.309 | 0.005848 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.31 | 0.066667 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.317 | 0.000412 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.409 | 0.002833 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.412 | 0.007634 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.434 | 0.000349 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.1.525 | 0.005464 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.177.4 | 0.000211 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.199 | 0.004132 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.208 | 0.04 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.221 | 0.000071 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.293 | 0.0125 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.346 | 0.001311 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.36 | 0.000146 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.36.1 | 0.00114 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.409 | 0.000781 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.428 | 0.00102 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.503 | 0.002488 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.595 | 0.000261 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.600 | 0.005848 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.1.627 | 0.00202 |
E | 25 | V25V | gtA | gtG | 1 | 1 | B.6.6 | 0.000889 |
E | 25 | V25V | gtA | gtG | 1 | 1 | P.1.15 | 0.000232 |
E | 25 | V25V | gtA | gtG | 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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