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 | 177 | C177S | C357S | nonsyn | tGt | tCt | 706 | 491 | 0.695467 | 1334-1336 |
ORF1ab/nsp2 | 177 | C177S | C357S | nonsyn | Tgt | Agt | 706 | 213 | 0.3017 | 1334-1336 |
ORF1ab/nsp2 | 177 | C177S | C357S | nonsyn | tGT | tCA | 706 | 2 | 0.00283286 | 1334-1336 |
Details of the mutation C177S 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 | 177 | C177S | tGt | tCt | 491 | 706 | All | 0.000094 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 213 | 706 | All | 0.000041 |
ORF1ab/nsp2 | 177 | C177S | tGT | tCA | 2 | 706 | All | 0 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 424 | 429 | AY.103 | 0.002633 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 4 | 429 | AY.103 | 0.000025 |
ORF1ab/nsp2 | 177 | C177S | tGT | tCA | 1 | 429 | AY.103 | 0.000006 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 29 | 35 | AY.4 | 0.000045 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 6 | 35 | AY.4 | 0.000009 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 17 | 34 | B.1.617.2 | 0.000064 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 17 | 34 | B.1.617.2 | 0.000064 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 20 | 22 | B.1.1.7 | 0.000018 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 2 | 22 | B.1.1.7 | 0.000002 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 16 | 16 | B.1 | 0.000147 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 15 | 15 | AY.44 | 0.000091 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 8 | 9 | B.1.2 | 0.00007 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 9 | B.1.2 | 0.000009 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 8 | 9 | B.1.497 | 0.002518 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 9 | B.1.497 | 0.000315 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 8 | 8 | B.1.1 | 0.000145 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 7 | 7 | AY.100 | 0.000322 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 5 | 6 | AY.25 | 0.00003 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 6 | AY.25 | 0.000006 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 6 | 6 | AY.69 | 0.00112 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 5 | 5 | AY.102 | 0.000133 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 5 | 5 | B.1.281 | 0.108696 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 5 | 5 | B.1.416 | 0.006345 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 4 | 4 | AY.26 | 0.000113 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 4 | 4 | AY.3 | 0.00004 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 4 | 4 | B.1.576 | 0.003626 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 2 | 3 | AY.119 | 0.000071 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 3 | AY.119 | 0.000035 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 3 | 3 | B.1.36 | 0.000438 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 3 | 3 | B.1.526 | 0.000071 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 3 | 3 | B.1.619.1 | 0.001924 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 2 | AY.4.2 | 0.000022 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 2 | AY.4.2 | 0.000022 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | AY.43 | 0.000009 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | AY.45 | 0.000243 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 2 | AY.5 | 0.000021 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 2 | AY.5 | 0.000021 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | AY.59 | 0.001059 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.1.220 | 0.003717 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.160 | 0.000062 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 2 | B.1.177 | 0.000013 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 2 | B.1.177 | 0.000013 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 2 | 2 | B.1.177.73 | 0.001133 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 2 | 2 | B.1.235 | 0.005038 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.240 | 0.000431 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.369 | 0.00057 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.429 | 0.000047 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.480 | 0.004975 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.525 | 0.000226 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 2 | 2 | Q.3 | 0.00029 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | A.2.5 | 0.000499 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | A.21 | 0.00277 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp2 | 177 | C177S | tGT | tCA | 1 | 1 | AY.2 | 0.000356 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | AY.78 | 0.001541 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | AY.84 | 0.000437 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.1.486 | 0.001577 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.239 | 0.001221 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.396 | 0.000706 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.446 | 0.02 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.459 | 0.004082 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.468 | 0.005714 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.530 | 0.007143 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.595.1 | 0.005848 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.621.1 | 0.000506 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | B.1.630 | 0.005236 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | P.1 | 0.000016 |
ORF1ab/nsp2 | 177 | C177S | tGt | tCt | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | P.1.16 | 0.000374 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp2 | 177 | C177S | Tgt | Agt | 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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