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/nsp3 | 1878 | A1878V | A2696V | nonsyn | gCg | gTg | 1029 | 1029 | 1 | 8351-8353 |
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/nsp3 | 1878 | A1878V | gCg | gTg | 1029 | 1029 | All | 0.000197 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 598 | 598 | B.1.1.7 | 0.000535 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 92 | 92 | AY.103 | 0.000571 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 71 | 71 | AY.4 | 0.000111 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 31 | 31 | C.37 | 0.003598 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 21 | 21 | B.1 | 0.000192 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 18 | 18 | AY.43 | 0.00008 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 14 | 14 | B.1.2 | 0.000123 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 13 | 13 | B.1.617.2 | 0.000049 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 12 | 12 | AY.25 | 0.000072 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 8 | 8 | B.1.13 | 0.019002 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 7 | 7 | B.1.1.464 | 0.010309 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 7 | 7 | B.1.177 | 0.000092 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 7 | 7 | P.1 | 0.00011 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 6 | 6 | AY.3 | 0.00006 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 6 | 6 | B.1.1.187 | 0.053097 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 6 | 6 | B.1.429 | 0.000141 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 5 | 5 | AY.46.5 | 0.000992 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 5 | 5 | B.1.1 | 0.000091 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 4 | 4 | AY.113 | 0.00057 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 4 | 4 | AY.20 | 0.000155 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 4 | 4 | AY.23 | 0.000279 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 4 | 4 | B.1.160 | 0.000125 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 4 | 4 | B.1.243 | 0.000278 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 3 | 3 | AY.102 | 0.00008 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 3 | 3 | AY.39 | 0.000074 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 3 | 3 | AY.44 | 0.000018 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 3 | 3 | B.1.179 | 0.011278 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 3 | 3 | B.1.605 | 0.017857 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 3 | 3 | B.1.617.1 | 0.000387 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 3 | 3 | D.2 | 0.000225 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | AY.14 | 0.000176 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | B.1.1.222 | 0.000408 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | B.1.1.50 | 0.001358 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | B.1.177.46 | 0.001837 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | B.1.177.72 | 0.00678 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | B.1.239 | 0.002442 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | B.1.427 | 0.000101 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 2 | 2 | B.1.466 | 0.046512 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | A.1 | 0.000282 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | A.4 | 0.012821 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AM.4 | 0.003571 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AP.1 | 0.001502 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.109 | 0.00074 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.40 | 0.000964 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.48 | 0.000465 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.57 | 0.000656 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | AY.79 | 0.001211 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.177.18 | 0.00116 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.177.86 | 0.000183 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.177.9 | 0.001332 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.305 | 0.002151 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.313 | 0.006579 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.473 | 0.019231 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.1.582 | 0.000491 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | N.4 | 0.004255 |
ORF1ab/nsp3 | 1878 | A1878V | gCg | gTg | 1 | 1 | Q.1 | 0.000126 |
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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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