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/nsp10 | 134 | R134S | R4387S | nonsyn | Cgc | Agc | 1761 | 1760 | 0.999432 | 13424-13426 |
ORF1ab/nsp10 | 134 | R134S | R4387S | nonsyn | CgC | AgT | 1761 | 1 | 0.000567859 | 13424-13426 |
Details of the mutation R134S 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/nsp10 | 134 | R134S | Cgc | Agc | 1760 | 1761 | All | 0.000337 |
ORF1ab/nsp10 | 134 | R134S | CgC | AgT | 1 | 1761 | All | 0 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 639 | 639 | B.1.1.7 | 0.000572 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 178 | 178 | AY.4 | 0.000277 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 104 | 104 | AY.3 | 0.001034 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 77 | 77 | AY.103 | 0.000478 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 52 | 52 | AY.25 | 0.000313 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 52 | 52 | B.1.617.2 | 0.000196 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 43 | 43 | B.1.526 | 0.001011 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 41 | 41 | AY.44 | 0.00025 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 34 | 34 | AY.117 | 0.002874 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 32 | 32 | AY.39 | 0.000791 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 30 | 30 | B.1.517 | 0.01281 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 27 | 27 | AY.42 | 0.001086 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 27 | 27 | AY.43 | 0.00012 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 26 | 26 | P.1 | 0.00041 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 20 | 20 | AY.74 | 0.002313 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 20 | 20 | AY.98.1 | 0.000969 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 19 | 19 | AY.20 | 0.000738 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 18 | 18 | AY.46.4 | 0.002961 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 15 | 15 | B.1.1.519 | 0.000596 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 11 | 11 | AY.119 | 0.000388 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 11 | 11 | AY.29.1 | 0.002426 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 10 | 10 | AY.4.2 | 0.000217 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 10 | 10 | B.1.628 | 0.003524 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 9 | 9 | AY.102 | 0.000239 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 9 | 9 | B.1.177.21 | 0.000688 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 9 | 9 | B.1.429 | 0.000212 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 7 | 7 | AY.100 | 0.000322 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 7 | 7 | B.1 | 0.000064 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 7 | 7 | B.1.177 | 0.000092 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 7 | 7 | B.1.351 | 0.000208 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 6 | 6 | AY.29 | 0.000095 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 6 | 6 | AY.6 | 0.000247 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 6 | 6 | B.1.1 | 0.000109 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 6 | 6 | B.1.2 | 0.000053 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 6 | 6 | B.1.258 | 0.000399 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 6 | 6 | P.1.1 | 0.001906 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 5 | 5 | AY.33 | 0.000334 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 5 | 5 | AY.61 | 0.000524 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 5 | 5 | B.1.427 | 0.000252 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 5 | 5 | B.1.637 | 0.000365 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | AY.5 | 0.000083 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | AY.88 | 0.003537 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | AY.9 | 0.00027 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | AY.9.2 | 0.000147 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | AY.98 | 0.000316 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | AY.99.2 | 0.000369 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | B.1.177.65 | 0.002661 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | B.1.258.17 | 0.000416 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | B.1.596 | 0.000349 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 4 | 4 | P.1.17 | 0.000647 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | AY.106 | 0.001005 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | AY.13 | 0.000483 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | AY.23 | 0.000209 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | AY.23.1 | 0.001252 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | AY.4.5 | 0.000322 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | AY.46.6 | 0.000217 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | AY.54 | 0.000286 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | B.1.240 | 0.000647 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | P.1.12 | 0.001452 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 3 | 3 | P.1.14 | 0.000143 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | AY.120 | 0.000074 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | AY.16 | 0.000759 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | AY.34 | 0.000194 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | AY.39.1 | 0.000079 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | AY.75 | 0.000112 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | AY.99.1 | 0.003106 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | B.1.1.318 | 0.000604 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | B.1.1.347 | 0.036364 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | B.1.177.81 | 0.000379 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | B.1.311 | 0.000549 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | B.1.575 | 0.000607 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | B.1.619.1 | 0.001283 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | C.37 | 0.000232 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 2 | 2 | P.3 | 0.00319 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | A | 0.000387 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.15 | 0.002222 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.46.5 | 0.000198 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.49 | 0.003195 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.57 | 0.000656 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.71 | 0.000475 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.79 | 0.001211 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.8 | 0.000606 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | AY.99 | 0.001049 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.1.153 | 0.001095 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.1.169 | 0.018182 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.110.3 | 0.000718 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.153 | 0.018868 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.177.17 | 0.000821 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.177.60 | 0.000218 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.177.72 | 0.00339 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.206 | 0.000816 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.235 | 0.002519 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.258.21 | 0.007752 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.326 | 0.007576 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.36.18 | 0.00042 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.36.8 | 0.001 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.401 | 0.008197 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.416 | 0.001269 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.490 | 0.1 |
ORF1ab/nsp10 | 134 | R134S | CgC | AgT | 1 | 1 | B.1.524 | 0.001406 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.546 | 0.003704 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.582 | 0.000491 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.596.1 | 0.009346 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | B.1.634 | 0.003425 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | C.8 | 0.004464 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp10 | 134 | R134S | Cgc | Agc | 1 | 1 | Q.8 | 0.000165 |
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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