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/nsp4 | 186 | R186R | R2949R | syn | cgC | cgT | 4540 | 4460 | 0.982379 | 9110-9112 |
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/nsp4 | 186 | R186R | cgC | cgT | 4460 | 4540 | All | 0.000853 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2643 | 2643 | AY.4 | 0.004114 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 265 | 282 | B.1.1.7 | 0.000237 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 179 | 179 | P.1.14 | 0.008556 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 174 | 174 | AY.9.1 | 0.014568 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 168 | 172 | AY.25 | 0.00101 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 145 | 146 | AY.103 | 0.0009 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 106 | 108 | AY.44 | 0.000645 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 73 | 76 | B.1.2 | 0.000643 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 71 | 72 | B.1.617.2 | 0.000267 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 62 | 62 | AY.84 | 0.027122 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 51 | 51 | B.1.258.24 | 0.548387 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 25 | 36 | AY.43 | 0.000111 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 36 | 36 | P.1 | 0.000567 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 32 | 33 | B.1.351 | 0.000951 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 28 | 28 | AY.39 | 0.000692 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 26 | 26 | B.1.1.519 | 0.001032 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 24 | 24 | AY.120 | 0.000892 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 22 | 24 | B.1.1 | 0.000399 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 18 | 22 | B.1 | 0.000165 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 19 | 19 | B.1.525 | 0.00215 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 18 | 18 | B.1.1.432 | 0.022785 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 17 | 18 | C.37 | 0.001973 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 16 | 16 | AY.3 | 0.000159 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 11 | 11 | AY.111 | 0.002015 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 11 | AY.119 | 0.000071 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 11 | 11 | B.1.1.317 | 0.004529 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 11 | 11 | Q.1 | 0.00139 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 9 | 9 | AY.74 | 0.001041 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 9 | 9 | B.1.177.82 | 0.004296 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 8 | 8 | AY.102 | 0.000212 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 8 | 8 | B.1.1.135 | 0.037559 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 8 | 8 | B.1.1.486 | 0.012618 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 7 | 7 | AY.20 | 0.000272 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 7 | 7 | AY.4.5 | 0.000752 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 6 | 6 | AY.48 | 0.002791 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 5 | AY.29 | 0.000047 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 5 | 5 | B.1.1.214 | 0.000277 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 5 | 5 | B.1.526 | 0.000118 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 4 | AY.100 | 0.000138 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 4 | 4 | AY.39.1 | 0.000158 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 4 | 4 | B.1.258 | 0.000266 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 4 | 4 | B.1.628 | 0.001409 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 3 | AY.117 | 0.000085 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | AY.118 | 0.000188 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | AY.29.1 | 0.000662 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | AY.33 | 0.0002 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | AY.5.3 | 0.001012 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | AY.6 | 0.000123 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | B.1.1.133 | 0.025424 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | B.1.1.284 | 0.000322 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | B.1.1.318 | 0.000905 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | B.1.36.29 | 0.001552 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | B.1.427 | 0.000151 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | B.1.595 | 0.000783 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 3 | 3 | Q.6 | 0.019868 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.37 | 0.000632 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.39.2 | 0.003082 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.4.2 | 0.000043 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.46 | 0.000208 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 2 | AY.75 | 0.000056 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.78 | 0.003082 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.92 | 0.000575 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | AY.98 | 0.000158 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | B.1.1.1 | 0.000653 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | B.1.177.81 | 0.000379 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | B.1.234 | 0.000264 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | B.1.438.1 | 0.000215 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 2 | B.1.499 | 0.00105 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | B.1.8 | 0.003945 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AD.2 | 0.000219 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.1 | 0.000396 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.46.3 | 0.000934 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.59 | 0.00053 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | AY.88 | 0.000884 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B | 0.000128 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.1.113 | 0.006993 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.1.198 | 0.001468 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.1.54 | 0.003021 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.139 | 0.000733 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.160.32 | 0.004292 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.164 | 0.014925 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.237 | 0.004975 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.239 | 0.001221 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.279 | 0.000514 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.36.7 | 0.004 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.470 | 0.001404 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | L.1 | 0.001905 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp4 | 186 | R186R | cgC | cgT | 1 | 1 | P.1.7 | 0.000319 |
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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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