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/nsp1 | 169 | V169V | V169V | syn | gtT | gtC | 2655 | 2390 | 0.900188 | 770-772 |
ORF1ab/nsp1 | 169 | V169V | V169V | syn | gtT | gtA | 2655 | 264 | 0.099435 | 770-772 |
ORF1ab/nsp1 | 169 | V169V | V169V | syn | gtT | gtG | 2655 | 1 | 0.000376648 | 770-772 |
Details of the mutation V169V 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/nsp1 | 169 | V169V | gtT | gtC | 2390 | 2655 | All | 0.000457 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 264 | 2655 | All | 0.00005 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtG | 1 | 2655 | All | 0 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1148 | 1148 | B.1.1.277 | 0.871017 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 197 | 197 | AV.1 | 0.994949 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 161 | 161 | K.3 | 0.993827 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 154 | 157 | AY.103 | 0.000956 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 3 | 157 | AY.103 | 0.000019 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 99 | 110 | AY.4 | 0.000154 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 11 | 110 | AY.4 | 0.000017 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 101 | 105 | B.1.2 | 0.000889 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 4 | 105 | B.1.2 | 0.000035 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 98 | 99 | B.1.177.10 | 0.08604 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 99 | B.1.177.10 | 0.000878 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 64 | 73 | B.1.1.7 | 0.000057 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 9 | 73 | B.1.1.7 | 0.000008 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 47 | 48 | AY.3 | 0.000467 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 48 | AY.3 | 0.00001 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 38 | 48 | P.1 | 0.000599 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 10 | 48 | P.1 | 0.000158 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 43 | 46 | AY.25 | 0.000259 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 3 | 46 | AY.25 | 0.000018 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 44 | 44 | AY.44 | 0.000268 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 42 | 42 | B.1.177.5 | 0.052174 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 29 | 31 | B.1.526 | 0.000682 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 31 | B.1.526 | 0.000047 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 24 | 26 | B.1 | 0.00022 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 2 | 26 | B.1 | 0.000018 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 26 | 26 | B.1.429 | 0.000612 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 25 | 25 | B.1.596 | 0.002178 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 19 | 19 | B.1.575 | 0.005765 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 18 | 19 | B.1.617.2 | 0.000068 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 19 | B.1.617.2 | 0.000004 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 17 | 17 | B.1.1.222 | 0.003468 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 16 | 16 | B.1.422 | 0.012998 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 14 | 15 | B.1.258 | 0.000932 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 15 | B.1.258 | 0.000067 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 15 | 15 | B.1.369 | 0.004278 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 10 | 10 | AY.107 | 0.00466 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 9 | 9 | B.1.1 | 0.000163 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 8 | 8 | AY.26 | 0.000226 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 7 | 7 | AY.119 | 0.000247 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 7 | 7 | AY.43 | 0.000031 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 7 | 7 | AY.7 | 0.001372 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 7 | 7 | B.1.1.519 | 0.000278 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 5 | 7 | Q.7 | 0.005556 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 7 | Q.7 | 0.002222 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 6 | 6 | B.1.378 | 0.041096 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 5 | 5 | AY.34 | 0.000485 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 5 | 5 | AY.5 | 0.000103 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 5 | 5 | K.1 | 0.119048 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 4 | 4 | AY.27 | 0.000259 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 4 | 4 | B.1.160 | 0.000125 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 4 | 4 | B.1.177.21 | 0.000306 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 3 | AY.102 | 0.000053 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 3 | AY.102 | 0.000027 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 3 | 3 | AY.108 | 0.003308 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 3 | 3 | AY.29 | 0.000047 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 3 | 3 | AY.98.1 | 0.000145 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 3 | 3 | B.1.36 | 0.000438 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 2 | AY.64 | 0.00119 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 2 | B.1.1.37 | 0.000386 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 2 | B.1.1.522 | 0.034483 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 2 | B.1.177.86 | 0.000367 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 1 | 0.055556 | |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AD.2 | 0.000219 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AM.4 | 0.003571 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.1 | 0.000396 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.2 | 0.000356 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.84 | 0.000437 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.1.134 | 0.011364 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.1.241 | 0.00207 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.1.301 | 0.001179 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtA | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.1.380 | 0.009804 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.1.517 | 0.006803 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.177.35 | 0.000691 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.561 | 0.000397 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.619.1 | 0.000641 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.627 | 0.00202 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtG | 1 | 1 | P.2 | 0.000187 |
ORF1ab/nsp1 | 169 | V169V | gtT | gtC | 1 | 1 | R.1 | 0.00009 |
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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