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/nsp2 | 1 | A1T | A181T | nonsyn | Gca | Aca | 2749 | 2748 | 0.999636 | 806-808 |
ORF1ab/nsp2 | 1 | A1T | A181T | nonsyn | GcA | AcC | 2749 | 1 | 0.000363769 | 806-808 |
Details of the mutation A1T 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/nsp2 | 1 | A1T | Gca | Aca | 2748 | 2749 | All | 0.000526 |
ORF1ab/nsp2 | 1 | A1T | GcA | AcC | 1 | 2749 | All | 0 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1737 | 1737 | B.1.243 | 0.120868 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 174 | 174 | B.1.1.7 | 0.000156 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 118 | 118 | B.1.564 | 0.050256 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 115 | 115 | AY.4 | 0.000179 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 90 | 90 | AY.90 | 0.061602 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 89 | 89 | B.1 | 0.000815 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 69 | 69 | B.1.243.2 | 1 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 42 | 42 | B.1.526 | 0.000987 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 32 | 32 | AY.3 | 0.000318 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 30 | 30 | B.1.199 | 0.123967 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 21 | 21 | B.1.617.2 | 0.000079 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 19 | 19 | AY.25 | 0.000114 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 15 | 15 | B.1.2 | 0.000132 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 11 | 11 | AY.103 | 0.000068 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 10 | 10 | AY.34.1 | 0.005099 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 10 | 10 | AY.43 | 0.000044 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 10 | 10 | P.1 | 0.000158 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 9 | 9 | B.1.177.40 | 0.046392 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 7 | 7 | AY.44 | 0.000043 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 7 | 7 | B.1.177 | 0.000092 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 6 | 6 | B.1.1 | 0.000109 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 5 | 5 | AY.39 | 0.000124 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 5 | 5 | AY.71 | 0.002375 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 4 | 4 | AY.9.2 | 0.000147 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 4 | 4 | B.1.240 | 0.000862 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | AV.1 | 0.015152 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | AY.102 | 0.00008 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | AY.113 | 0.000427 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | B.1.258 | 0.0002 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | B.1.349 | 0.002144 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | B.1.427 | 0.000151 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | B.1.621 | 0.000266 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | B.1.637 | 0.000219 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | P.1.7 | 0.000958 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 3 | 3 | P.7 | 0.0131 |
ORF1ab/nsp2 | 1 | A1T | GcA | AcC | 1 | 2 | 0.055556 | |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 2 | 0.055556 | |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | AY.106 | 0.00067 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | AY.23 | 0.000139 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | AY.29 | 0.000032 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | AY.32 | 0.001065 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | AY.4.2 | 0.000043 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | AY.9 | 0.000135 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | B.1.1.157 | 0.001826 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | B.1.1.348 | 0.001592 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | B.1.399 | 0.003868 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | B.1.576 | 0.001813 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 2 | 2 | Q.1 | 0.000253 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AM.2 | 0.111111 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AU.2 | 0.002421 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.10 | 0.00053 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.109 | 0.00074 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.1.220 | 0.001859 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.105 | 0.009615 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.110 | 0.004525 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.221.3 | 0.000833 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.232 | 0.000537 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.243.1 | 0.022222 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.247 | 0.014925 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.258.2 | 0.004505 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.289 | 0.00266 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.397 | 0.004854 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.429 | 0.000024 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.609 | 0.000479 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.616 | 0.02439 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | B.1.78 | 0.008547 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | C.1.2 | 0.004255 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | C.17 | 0.055556 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp2 | 1 | A1T | Gca | Aca | 1 | 1 | P.2 | 0.000187 |
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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