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 |
M | 134 | L134L | syn | Cta | Tta | 2626 | 1930 | 0.734958 | 26922-26924 | |
M | 134 | L134L | syn | ctA | ctG | 2626 | 578 | 0.220107 | 26922-26924 | |
M | 134 | L134L | syn | ctA | ctT | 2626 | 112 | 0.0426504 | 26922-26924 | |
M | 134 | L134L | syn | ctA | ctC | 2626 | 6 | 0.00228484 | 26922-26924 |
Details of the mutation L134L 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 |
M | 134 | L134L | Cta | Tta | 1930 | 2626 | All | 0.000369 |
M | 134 | L134L | ctA | ctG | 578 | 2626 | All | 0.000111 |
M | 134 | L134L | ctA | ctT | 112 | 2626 | All | 0.000021 |
M | 134 | L134L | ctA | ctC | 6 | 2626 | All | 0.000001 |
M | 134 | L134L | Cta | Tta | 998 | 1074 | B.1.1.7 | 0.000893 |
M | 134 | L134L | ctA | ctG | 58 | 1074 | B.1.1.7 | 0.000052 |
M | 134 | L134L | ctA | ctT | 15 | 1074 | B.1.1.7 | 0.000013 |
M | 134 | L134L | ctA | ctC | 3 | 1074 | B.1.1.7 | 0.000003 |
M | 134 | L134L | Cta | Tta | 463 | 467 | AY.44 | 0.002818 |
M | 134 | L134L | ctA | ctG | 4 | 467 | AY.44 | 0.000024 |
M | 134 | L134L | Cta | Tta | 96 | 99 | B.1.621 | 0.008498 |
M | 134 | L134L | ctA | ctG | 3 | 99 | B.1.621 | 0.000266 |
M | 134 | L134L | Cta | Tta | 47 | 86 | AY.4 | 0.000073 |
M | 134 | L134L | ctA | ctG | 38 | 86 | AY.4 | 0.000059 |
M | 134 | L134L | ctA | ctT | 1 | 86 | AY.4 | 0.000002 |
M | 134 | L134L | ctA | ctT | 75 | 80 | AY.33 | 0.005008 |
M | 134 | L134L | ctA | ctG | 3 | 80 | AY.33 | 0.0002 |
M | 134 | L134L | Cta | Tta | 2 | 80 | AY.33 | 0.000134 |
M | 134 | L134L | Cta | Tta | 54 | 61 | B.1.617.2 | 0.000203 |
M | 134 | L134L | ctA | ctG | 5 | 61 | B.1.617.2 | 0.000019 |
M | 134 | L134L | ctA | ctT | 2 | 61 | B.1.617.2 | 0.000008 |
M | 134 | L134L | ctA | ctG | 53 | 53 | A.15 | 0.84127 |
M | 134 | L134L | ctA | ctG | 49 | 49 | AE.8 | 0.023961 |
M | 134 | L134L | ctA | ctG | 25 | 47 | B.1 | 0.000229 |
M | 134 | L134L | Cta | Tta | 20 | 47 | B.1 | 0.000183 |
M | 134 | L134L | ctA | ctT | 2 | 47 | B.1 | 0.000018 |
M | 134 | L134L | ctA | ctG | 45 | 45 | B.1.1.306 | 0.019728 |
M | 134 | L134L | ctA | ctG | 25 | 39 | AY.25 | 0.00015 |
M | 134 | L134L | Cta | Tta | 14 | 39 | AY.25 | 0.000084 |
M | 134 | L134L | Cta | Tta | 33 | 33 | AY.102 | 0.000875 |
M | 134 | L134L | ctA | ctG | 30 | 30 | B.1.221 | 0.002131 |
M | 134 | L134L | Cta | Tta | 20 | 28 | AY.43 | 0.000089 |
M | 134 | L134L | ctA | ctG | 7 | 28 | AY.43 | 0.000031 |
M | 134 | L134L | ctA | ctT | 1 | 28 | AY.43 | 0.000004 |
M | 134 | L134L | Cta | Tta | 20 | 28 | B.1.177.21 | 0.001529 |
M | 134 | L134L | ctA | ctG | 8 | 28 | B.1.177.21 | 0.000612 |
M | 134 | L134L | ctA | ctG | 13 | 23 | B.1.2 | 0.000114 |
M | 134 | L134L | Cta | Tta | 6 | 23 | B.1.2 | 0.000053 |
M | 134 | L134L | ctA | ctT | 4 | 23 | B.1.2 | 0.000035 |
M | 134 | L134L | ctA | ctG | 13 | 22 | B.1.177 | 0.000171 |
M | 134 | L134L | Cta | Tta | 7 | 22 | B.1.177 | 0.000092 |
M | 134 | L134L | ctA | ctT | 2 | 22 | B.1.177 | 0.000026 |
M | 134 | L134L | ctA | ctG | 13 | 17 | AY.3 | 0.000129 |
M | 134 | L134L | Cta | Tta | 4 | 17 | AY.3 | 0.00004 |
M | 134 | L134L | Cta | Tta | 16 | 16 | AY.29 | 0.000252 |
M | 134 | L134L | ctA | ctG | 15 | 15 | AY.20 | 0.000583 |
M | 134 | L134L | ctA | ctG | 15 | 15 | B.1.177.45 | 0.005719 |
M | 134 | L134L | Cta | Tta | 7 | 13 | P.1 | 0.00011 |
M | 134 | L134L | ctA | ctG | 6 | 13 | P.1 | 0.000095 |
M | 134 | L134L | ctA | ctG | 12 | 12 | B.1.258.16 | 0.01964 |
M | 134 | L134L | ctA | ctG | 10 | 11 | AY.9.2 | 0.000367 |
M | 134 | L134L | Cta | Tta | 1 | 11 | AY.9.2 | 0.000037 |
M | 134 | L134L | Cta | Tta | 9 | 11 | B.1.351 | 0.000268 |
M | 134 | L134L | ctA | ctG | 2 | 11 | B.1.351 | 0.000059 |
M | 134 | L134L | Cta | Tta | 7 | 10 | B.1.1.519 | 0.000278 |
M | 134 | L134L | ctA | ctG | 3 | 10 | B.1.1.519 | 0.000119 |
M | 134 | L134L | Cta | Tta | 8 | 9 | AY.103 | 0.00005 |
M | 134 | L134L | ctA | ctG | 1 | 9 | AY.103 | 0.000006 |
M | 134 | L134L | ctA | ctG | 9 | 9 | AY.111 | 0.001648 |
M | 134 | L134L | ctA | ctG | 6 | 9 | B.1.1 | 0.000109 |
M | 134 | L134L | Cta | Tta | 3 | 9 | B.1.1 | 0.000054 |
M | 134 | L134L | ctA | ctG | 9 | 9 | B.1.177.16 | 0.00598 |
M | 134 | L134L | Cta | Tta | 5 | 9 | Q.8 | 0.000825 |
M | 134 | L134L | ctA | ctT | 3 | 9 | Q.8 | 0.000495 |
M | 134 | L134L | ctA | ctG | 1 | 9 | Q.8 | 0.000165 |
M | 134 | L134L | Cta | Tta | 6 | 8 | AY.39 | 0.000148 |
M | 134 | L134L | ctA | ctG | 2 | 8 | AY.39 | 0.000049 |
M | 134 | L134L | Cta | Tta | 7 | 8 | AY.54 | 0.000667 |
M | 134 | L134L | ctA | ctG | 1 | 8 | AY.54 | 0.000095 |
M | 134 | L134L | ctA | ctG | 6 | 8 | P.1.14 | 0.000287 |
M | 134 | L134L | ctA | ctT | 1 | 8 | P.1.14 | 0.000048 |
M | 134 | L134L | Cta | Tta | 1 | 8 | P.1.14 | 0.000048 |
M | 134 | L134L | ctA | ctG | 6 | 6 | B.1.1.63 | 0.002315 |
M | 134 | L134L | ctA | ctG | 6 | 6 | B.1.160.16 | 0.005576 |
M | 134 | L134L | Cta | Tta | 5 | 6 | B.1.596 | 0.000436 |
M | 134 | L134L | ctA | ctG | 1 | 6 | B.1.596 | 0.000087 |
M | 134 | L134L | Cta | Tta | 4 | 5 | B.1.160 | 0.000125 |
M | 134 | L134L | ctA | ctG | 1 | 5 | B.1.160 | 0.000031 |
M | 134 | L134L | ctA | ctG | 4 | 5 | B.1.526 | 0.000094 |
M | 134 | L134L | Cta | Tta | 1 | 5 | B.1.526 | 0.000024 |
M | 134 | L134L | Cta | Tta | 4 | 4 | AY.116.1 | 0.001246 |
M | 134 | L134L | Cta | Tta | 4 | 4 | AY.34 | 0.000388 |
M | 134 | L134L | Cta | Tta | 4 | 4 | AY.42 | 0.000161 |
M | 134 | L134L | Cta | Tta | 4 | 4 | AY.46 | 0.000416 |
M | 134 | L134L | Cta | Tta | 4 | 4 | B.1.232 | 0.002149 |
M | 134 | L134L | ctA | ctG | 4 | 4 | B.1.538 | 0.032258 |
M | 134 | L134L | Cta | Tta | 4 | 4 | B.1.637 | 0.000292 |
M | 134 | L134L | Cta | Tta | 3 | 3 | AY.100 | 0.000138 |
M | 134 | L134L | ctA | ctG | 2 | 3 | AY.119 | 0.000071 |
M | 134 | L134L | Cta | Tta | 1 | 3 | AY.119 | 0.000035 |
M | 134 | L134L | ctA | ctG | 2 | 3 | AY.4.2 | 0.000043 |
M | 134 | L134L | Cta | Tta | 1 | 3 | AY.4.2 | 0.000022 |
M | 134 | L134L | Cta | Tta | 3 | 3 | AY.45 | 0.000365 |
M | 134 | L134L | ctA | ctG | 2 | 3 | AY.6 | 0.000082 |
M | 134 | L134L | ctA | ctT | 1 | 3 | AY.6 | 0.000041 |
M | 134 | L134L | ctA | ctG | 3 | 3 | AY.61 | 0.000314 |
M | 134 | L134L | ctA | ctG | 3 | 3 | B | 0.000383 |
M | 134 | L134L | Cta | Tta | 2 | 3 | B.1.1.222 | 0.000408 |
M | 134 | L134L | ctA | ctG | 1 | 3 | B.1.1.222 | 0.000204 |
M | 134 | L134L | ctA | ctG | 3 | 3 | B.1.36.18 | 0.001261 |
M | 134 | L134L | ctA | ctG | 2 | 3 | B.1.427 | 0.000101 |
M | 134 | L134L | Cta | Tta | 1 | 3 | B.1.427 | 0.00005 |
M | 134 | L134L | ctA | ctG | 3 | 3 | B.55 | 0.00885 |
M | 134 | L134L | Cta | Tta | 3 | 3 | P.3 | 0.004785 |
M | 134 | L134L | ctA | ctG | 3 | 3 | R.1 | 0.00027 |
M | 134 | L134L | Cta | Tta | 2 | 2 | A.23.1 | 0.001408 |
M | 134 | L134L | ctA | ctG | 2 | 2 | AY.120.2 | 0.002571 |
M | 134 | L134L | ctA | ctT | 1 | 2 | AY.23 | 0.00007 |
M | 134 | L134L | ctA | ctG | 1 | 2 | AY.23 | 0.00007 |
M | 134 | L134L | ctA | ctG | 2 | 2 | AY.26 | 0.000057 |
M | 134 | L134L | Cta | Tta | 2 | 2 | AY.46.6 | 0.000144 |
M | 134 | L134L | ctA | ctG | 1 | 2 | AY.5 | 0.000021 |
M | 134 | L134L | ctA | ctT | 1 | 2 | AY.5 | 0.000021 |
M | 134 | L134L | ctA | ctG | 2 | 2 | AY.59 | 0.001059 |
M | 134 | L134L | ctA | ctG | 2 | 2 | AY.84 | 0.000875 |
M | 134 | L134L | ctA | ctG | 2 | 2 | B.1.1.284 | 0.000215 |
M | 134 | L134L | ctA | ctG | 2 | 2 | B.1.241 | 0.001623 |
M | 134 | L134L | ctA | ctG | 1 | 2 | B.1.243 | 0.00007 |
M | 134 | L134L | Cta | Tta | 1 | 2 | B.1.243 | 0.00007 |
M | 134 | L134L | ctA | ctG | 2 | 2 | B.1.258 | 0.000133 |
M | 134 | L134L | ctA | ctG | 2 | 2 | B.1.311 | 0.000549 |
M | 134 | L134L | Cta | Tta | 2 | 2 | B.1.369 | 0.00057 |
M | 134 | L134L | Cta | Tta | 2 | 2 | B.1.429 | 0.000047 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AE.2 | 0.058824 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.10 | 0.00053 |
M | 134 | L134L | Cta | Tta | 1 | 1 | AY.106 | 0.000335 |
M | 134 | L134L | Cta | Tta | 1 | 1 | AY.108 | 0.001103 |
M | 134 | L134L | Cta | Tta | 1 | 1 | AY.110 | 0.000113 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.113 | 0.000142 |
M | 134 | L134L | Cta | Tta | 1 | 1 | AY.116 | 0.000287 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.118 | 0.000063 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.120 | 0.000037 |
M | 134 | L134L | ctA | ctC | 1 | 1 | AY.120.1 | 0.000321 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.14 | 0.000088 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.16 | 0.00038 |
M | 134 | L134L | ctA | ctT | 1 | 1 | AY.24 | 0.000431 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.4.5 | 0.000107 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.55 | 0.000917 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.69 | 0.000187 |
M | 134 | L134L | ctA | ctG | 1 | 1 | AY.74 | 0.000116 |
M | 134 | L134L | Cta | Tta | 1 | 1 | AY.9 | 0.000068 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.1.121 | 0.002427 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.1.214 | 0.000055 |
M | 134 | L134L | ctA | ctC | 1 | 1 | B.1.1.277 | 0.000759 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.1.298 | 0.000862 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.1.311 | 0.000358 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.1.393 | 0.111111 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.1.526 | 0.003546 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.1.70 | 0.000341 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.160.30 | 0.002976 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.177.52 | 0.001757 |
M | 134 | L134L | ctA | ctT | 1 | 1 | B.1.177.56 | 0.000668 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.177.7 | 0.000165 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.234 | 0.000132 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.325 | 0.006897 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.36.17 | 0.000494 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.36.29 | 0.000517 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.362 | 0.001541 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.396 | 0.000706 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.428 | 0.00102 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.438.1 | 0.000107 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.561 | 0.000397 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.580 | 0.004065 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.1.617.1 | 0.000129 |
M | 134 | L134L | Cta | Tta | 1 | 1 | B.1.91 | 0.002075 |
M | 134 | L134L | ctA | ctG | 1 | 1 | B.3.1 | 0.001658 |
M | 134 | L134L | Cta | Tta | 1 | 1 | C.16 | 0.00106 |
M | 134 | L134L | Cta | Tta | 1 | 1 | C.37 | 0.000116 |
M | 134 | L134L | ctA | ctG | 1 | 1 | P.1.15 | 0.000232 |
M | 134 | L134L | ctA | ctT | 1 | 1 | Q.1 | 0.000126 |
M | 134 | L134L | ctA | ctC | 1 | 1 | Q.3 | 0.000145 |
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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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