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 |
ORF1ab/nsp4 | 94 | V94V | V2857V | syn | gtC | gtT | 1923 | 1877 | 0.976079 | 8834-8836 |
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 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1877 | 1923 | All | 0.000359 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 410 | 410 | B.1.1.374 | 0.973872 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 305 | 305 | B.1.551 | 0.393548 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 226 | 233 | B.1.1.7 | 0.000202 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 147 | 147 | AY.33 | 0.009816 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 113 | 114 | AY.4 | 0.000176 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 87 | 87 | B.1.2 | 0.000766 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 57 | 57 | B.1.617.2 | 0.000215 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 55 | 55 | B.1.36.8 | 0.055 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 38 | 38 | P.1.1 | 0.012071 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 33 | 36 | B.1 | 0.000302 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 23 | 35 | P.1 | 0.000362 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 20 | 23 | AY.43 | 0.000089 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 22 | 22 | AY.44 | 0.000134 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 19 | 19 | B.1.1 | 0.000345 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 18 | 18 | B.1.429 | 0.000424 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 16 | 16 | AY.14 | 0.001408 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 15 | 15 | B.1.177 | 0.000198 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 15 | 15 | B.1.36 | 0.002189 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 11 | 11 | B.1.351 | 0.000327 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 10 | 10 | AY.5 | 0.000206 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 9 | 10 | B.1.1.12 | 0.067164 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 9 | 9 | B.1.1.526 | 0.031915 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 9 | 9 | B.1.526 | 0.000212 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 8 | 8 | B.1.1.5 | 0.066667 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 7 | 7 | AY.25 | 0.000042 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 6 | 7 | B.1.1.519 | 0.000238 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 7 | 7 | B.1.258 | 0.000466 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 7 | 7 | C.37 | 0.000812 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 6 | 6 | AY.118 | 0.000376 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 6 | 6 | B.1.160 | 0.000187 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 6 | 6 | B.1.621 | 0.000531 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 4 | 5 | AY.103 | 0.000025 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 5 | 5 | AY.35 | 0.001165 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 5 | 5 | AY.39 | 0.000124 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 5 | 5 | AY.39.1 | 0.000198 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 5 | 5 | B.1.1.192 | 0.011547 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 5 | 5 | B.1.177.57 | 0.001405 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 4 | AY.23 | 0.000209 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 4 | 4 | AY.3 | 0.00004 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 4 | 4 | AY.61 | 0.000419 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 4 | 4 | B.1.1.462 | 0.034483 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | B.1.1.39 | 0.001529 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | B.1.1.398 | 0.009677 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | B.1.1.50 | 0.002037 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | B.1.177.20 | 0.004552 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | B.1.36.31 | 0.005254 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | B.1.416.1 | 0.004687 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | B.1.617.1 | 0.000387 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | B.39 | 0.006993 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 3 | 3 | P.1.17 | 0.000485 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | 0.111111 | |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | AY.27 | 0.000129 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | AY.6 | 0.000082 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | AY.9.2 | 0.000073 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 2 | B | 0.000128 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | B.1.1.1 | 0.000653 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | B.1.1.134 | 0.022727 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | B.1.1.222 | 0.000408 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | B.1.1.33 | 0.000842 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | B.1.265 | 0.002541 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 2 | B.1.301 | 0.005917 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | B.1.323 | 0.041667 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | B.1.470 | 0.002809 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 2 | P.1.12 | 0.000484 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 2 | 2 | Q.3 | 0.00029 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | A.2.2 | 0.001689 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.116.1 | 0.000311 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.2 | 0.000356 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.46.3 | 0.000934 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.96 | 0.002075 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.161 | 0.003534 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.200 | 0.007463 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.334 | 0.016393 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.354 | 0.004386 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.363 | 0.005988 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.437 | 0.010417 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.464 | 0.001473 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.56 | 0.017857 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.1.63 | 0.000386 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.14 | 0.017544 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.177.40 | 0.005155 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.241 | 0.000812 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.396 | 0.000706 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.569 | 0.014493 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.621.1 | 0.000506 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.1.627 | 0.00202 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | B.4.7 | 0.010101 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | C.36.3 | 0.000567 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp4 | 94 | V94V | gtC | gtT | 1 | 1 | Q.1 | 0.000126 |
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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