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/nsp8 | 51 | R51R | R3993R | syn | cgT | cgC | 340 | 298 | 0.876471 | 12242-12244 |
ORF1ab/nsp8 | 51 | R51R | R3993R | syn | CgT | AgA | 340 | 19 | 0.0558824 | 12242-12244 |
ORF1ab/nsp8 | 51 | R51R | R3993R | syn | cgT | cgA | 340 | 8 | 0.0235294 | 12242-12244 |
ORF1ab/nsp8 | 51 | R51R | R3993R | syn | CgT | AgG | 340 | 8 | 0.0235294 | 12242-12244 |
ORF1ab/nsp8 | 51 | R51R | R3993R | syn | cgT | cgG | 340 | 7 | 0.0205882 | 12242-12244 |
Details of the mutation R51R 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/nsp8 | 51 | R51R | cgT | cgC | 298 | 340 | All | 0.000057 |
ORF1ab/nsp8 | 51 | R51R | CgT | AgA | 19 | 340 | All | 0.000004 |
ORF1ab/nsp8 | 51 | R51R | CgT | AgG | 8 | 340 | All | 0.000002 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgA | 8 | 340 | All | 0.000002 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgG | 7 | 340 | All | 0.000001 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 37 | 67 | B.1.1.7 | 0.000033 |
ORF1ab/nsp8 | 51 | R51R | CgT | AgA | 16 | 67 | B.1.1.7 | 0.000014 |
ORF1ab/nsp8 | 51 | R51R | CgT | AgG | 7 | 67 | B.1.1.7 | 0.000006 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgA | 4 | 67 | B.1.1.7 | 0.000004 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgG | 3 | 67 | B.1.1.7 | 0.000003 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 27 | 27 | AY.44 | 0.000164 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 20 | 21 | B.1.177 | 0.000263 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgA | 1 | 21 | B.1.177 | 0.000013 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 19 | 19 | AY.26 | 0.000538 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 14 | 14 | AY.4 | 0.000022 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 13 | 13 | AY.3 | 0.000129 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 10 | 12 | P.1 | 0.000158 |
ORF1ab/nsp8 | 51 | R51R | CgT | AgA | 1 | 12 | P.1 | 0.000016 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgA | 1 | 12 | P.1 | 0.000016 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 12 | 12 | Q.3 | 0.00174 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 10 | 10 | AY.43 | 0.000044 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 8 | 9 | AY.25 | 0.000048 |
ORF1ab/nsp8 | 51 | R51R | CgT | AgA | 1 | 9 | AY.25 | 0.000006 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 9 | 9 | B.1.177.81 | 0.001704 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 9 | 9 | B.1.221 | 0.000639 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 7 | 8 | B.1 | 0.000064 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgG | 1 | 8 | B.1 | 0.000009 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 6 | 8 | B.1.1 | 0.000109 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgG | 1 | 8 | B.1.1 | 0.000018 |
ORF1ab/nsp8 | 51 | R51R | CgT | AgG | 1 | 8 | B.1.1 | 0.000018 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 7 | 7 | AY.47 | 0.000218 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 7 | 7 | B.1.617.2 | 0.000026 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 6 | 6 | B.1.429 | 0.000141 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 5 | 5 | AY.109 | 0.003698 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 5 | 5 | AY.75 | 0.00028 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 5 | 5 | B.1.1.519 | 0.000199 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 5 | 5 | B.1.2 | 0.000044 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 4 | 4 | AY.103 | 0.000025 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 4 | 4 | AY.9 | 0.00027 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 3 | 3 | B.1.637 | 0.000219 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 2 | 2 | AY.114 | 0.000462 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 2 | 2 | B | 0.000256 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 2 | 2 | B.1.177.17 | 0.001642 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 2 | 2 | B.1.177.4 | 0.000422 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 2 | 2 | B.1.177.60 | 0.000437 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp8 | 51 | R51R | CgT | AgA | 1 | 2 | P.1.1 | 0.000318 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgA | 1 | 2 | P.1.1 | 0.000318 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | A.2.5 | 0.000499 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | A.2.5.2 | 0.001572 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | A.25 | 0.018182 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.108 | 0.001103 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgG | 1 | 1 | AY.2 | 0.000356 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | AY.71 | 0.000475 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.1.453 | 0.008475 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.1.50 | 0.000679 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.177.56 | 0.000668 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgA | 1 | 1 | B.1.258.11 | 0.000396 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.258.14 | 0.00098 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgG | 1 | 1 | B.1.391 | 0.001127 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.398 | 0.002976 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | B.3.1 | 0.001658 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | C.11 | 0.010638 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp8 | 51 | R51R | cgT | cgC | 1 | 1 | P.1.17.1 | 0.000875 |
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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