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 |
N | 364 | P364S | nonsyn | Cca | Tca | 2776 | 2757 | 0.993156 | 29363-29365 | |
N | 364 | P364S | nonsyn | CcA | TcC | 2776 | 8 | 0.00288184 | 29363-29365 | |
N | 364 | P364S | nonsyn | CCA | AGC | 2776 | 5 | 0.00180115 | 29363-29365 | |
N | 364 | P364S | nonsyn | CcA | TcG | 2776 | 3 | 0.00108069 | 29363-29365 | |
N | 364 | P364S | nonsyn | CCA | AGT | 2776 | 3 | 0.00108069 | 29363-29365 |
Details of the mutation P364S 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 |
N | 364 | P364S | Cca | Tca | 2757 | 2776 | All | 0.000527 |
N | 364 | P364S | CcA | TcC | 8 | 2776 | All | 0.000002 |
N | 364 | P364S | CCA | AGC | 5 | 2776 | All | 0.000001 |
N | 364 | P364S | CcA | TcG | 3 | 2776 | All | 0.000001 |
N | 364 | P364S | CCA | AGT | 3 | 2776 | All | 0.000001 |
N | 364 | P364S | Cca | Tca | 1265 | 1265 | B.1.2 | 0.011139 |
N | 364 | P364S | Cca | Tca | 561 | 567 | B.1.1.7 | 0.000502 |
N | 364 | P364S | CCA | AGC | 4 | 567 | B.1.1.7 | 0.000004 |
N | 364 | P364S | CCA | AGT | 2 | 567 | B.1.1.7 | 0.000002 |
N | 364 | P364S | Cca | Tca | 173 | 173 | B.1.617.2 | 0.000651 |
N | 364 | P364S | Cca | Tca | 147 | 147 | AY.4 | 0.000229 |
N | 364 | P364S | Cca | Tca | 75 | 84 | B.1 | 0.000687 |
N | 364 | P364S | CcA | TcC | 6 | 84 | B.1 | 0.000055 |
N | 364 | P364S | CCA | AGC | 1 | 84 | B.1 | 0.000009 |
N | 364 | P364S | CcA | TcG | 1 | 84 | B.1 | 0.000009 |
N | 364 | P364S | CCA | AGT | 1 | 84 | B.1 | 0.000009 |
N | 364 | P364S | Cca | Tca | 38 | 38 | B.1.1.222 | 0.007752 |
N | 364 | P364S | Cca | Tca | 38 | 38 | B.1.429 | 0.000894 |
N | 364 | P364S | Cca | Tca | 28 | 28 | P.1 | 0.000441 |
N | 364 | P364S | Cca | Tca | 25 | 25 | B.1.258 | 0.001664 |
N | 364 | P364S | Cca | Tca | 23 | 23 | AY.103 | 0.000143 |
N | 364 | P364S | Cca | Tca | 20 | 20 | AY.100 | 0.00092 |
N | 364 | P364S | Cca | Tca | 17 | 17 | B.1.318 | 0.653846 |
N | 364 | P364S | Cca | Tca | 16 | 16 | AY.29 | 0.000252 |
N | 364 | P364S | Cca | Tca | 15 | 15 | AY.43 | 0.000066 |
N | 364 | P364S | Cca | Tca | 14 | 14 | AY.102 | 0.000371 |
N | 364 | P364S | Cca | Tca | 13 | 13 | AY.5 | 0.000268 |
N | 364 | P364S | Cca | Tca | 11 | 11 | AY.39 | 0.000272 |
N | 364 | P364S | Cca | Tca | 10 | 11 | B.1.1 | 0.000181 |
N | 364 | P364S | CcA | TcG | 1 | 11 | B.1.1 | 0.000018 |
N | 364 | P364S | Cca | Tca | 11 | 11 | B.1.596 | 0.000959 |
N | 364 | P364S | Cca | Tca | 10 | 10 | B.1.177 | 0.000132 |
N | 364 | P364S | Cca | Tca | 9 | 9 | AY.4.2 | 0.000195 |
N | 364 | P364S | Cca | Tca | 9 | 9 | B.1.214.3 | 0.064286 |
N | 364 | P364S | Cca | Tca | 8 | 8 | B.1.1.39 | 0.004077 |
N | 364 | P364S | Cca | Tca | 7 | 7 | AY.117 | 0.000592 |
N | 364 | P364S | Cca | Tca | 7 | 7 | AY.44 | 0.000043 |
N | 364 | P364S | Cca | Tca | 7 | 7 | AY.57 | 0.004593 |
N | 364 | P364S | Cca | Tca | 7 | 7 | AY.60 | 0.006567 |
N | 364 | P364S | Cca | Tca | 7 | 7 | B.1.243 | 0.000487 |
N | 364 | P364S | Cca | Tca | 7 | 7 | B.1.427 | 0.000353 |
N | 364 | P364S | Cca | Tca | 6 | 6 | AY.25 | 0.000036 |
N | 364 | P364S | Cca | Tca | 6 | 6 | AY.3 | 0.00006 |
N | 364 | P364S | Cca | Tca | 6 | 6 | B.1.234 | 0.000792 |
N | 364 | P364S | Cca | Tca | 5 | 5 | AY.42 | 0.000201 |
N | 364 | P364S | Cca | Tca | 5 | 5 | AY.6 | 0.000206 |
N | 364 | P364S | Cca | Tca | 5 | 5 | B.1.577 | 0.003436 |
N | 364 | P364S | Cca | Tca | 5 | 5 | B.1.595 | 0.001305 |
N | 364 | P364S | Cca | Tca | 4 | 4 | AY.116 | 0.001147 |
N | 364 | P364S | Cca | Tca | 4 | 4 | AY.75 | 0.000224 |
N | 364 | P364S | Cca | Tca | 4 | 4 | B.1.357 | 0.038095 |
N | 364 | P364S | Cca | Tca | 4 | 4 | B.1.525 | 0.000453 |
N | 364 | P364S | Cca | Tca | 4 | 4 | B.1.526 | 0.000094 |
N | 364 | P364S | Cca | Tca | 3 | 3 | AY.47 | 0.000093 |
N | 364 | P364S | Cca | Tca | 3 | 3 | AY.53 | 0.000863 |
N | 364 | P364S | Cca | Tca | 3 | 3 | B.1.1.348 | 0.002389 |
N | 364 | P364S | Cca | Tca | 3 | 3 | B.1.1.397 | 0.006757 |
N | 364 | P364S | Cca | Tca | 3 | 3 | B.1.311 | 0.000824 |
N | 364 | P364S | Cca | Tca | 3 | 3 | B.1.361 | 0.003866 |
N | 364 | P364S | Cca | Tca | 1 | 3 | B.1.437 | 0.020833 |
N | 364 | P364S | CcA | TcG | 1 | 3 | B.1.437 | 0.020833 |
N | 364 | P364S | CcA | TcC | 1 | 3 | B.1.437 | 0.020833 |
N | 364 | P364S | Cca | Tca | 3 | 3 | B.1.470 | 0.004213 |
N | 364 | P364S | Cca | Tca | 3 | 3 | B.1.617.1 | 0.000387 |
N | 364 | P364S | Cca | Tca | 3 | 3 | B.1.9.2 | 0.3 |
N | 364 | P364S | Cca | Tca | 2 | 2 | A.2.5 | 0.000998 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AU.3 | 0.004219 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.119 | 0.000071 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.120.1 | 0.000642 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.23 | 0.000139 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.28 | 0.003781 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.32 | 0.001065 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.45 | 0.000243 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.61 | 0.00021 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.9 | 0.000135 |
N | 364 | P364S | Cca | Tca | 2 | 2 | AY.98.1 | 0.000097 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B | 0.000256 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B.1.1.25 | 0.001137 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B.1.1.316 | 0.00185 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B.1.1.33 | 0.000842 |
N | 364 | P364S | Cca | Tca | 1 | 2 | B.1.160 | 0.000031 |
N | 364 | P364S | CcA | TcC | 1 | 2 | B.1.160 | 0.000031 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B.1.265 | 0.002541 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B.1.351 | 0.000059 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B.1.36.16 | 0.002849 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B.1.416.1 | 0.003125 |
N | 364 | P364S | Cca | Tca | 2 | 2 | B.40 | 0.000729 |
N | 364 | P364S | Cca | Tca | 2 | 2 | C.1 | 0.004785 |
N | 364 | P364S | Cca | Tca | 2 | 2 | C.36.3 | 0.001134 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.110 | 0.000113 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.113 | 0.000142 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.120 | 0.000037 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.26 | 0.000028 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.29.1 | 0.000221 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.33 | 0.000067 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.34 | 0.000097 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.36 | 0.000148 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.39.1 | 0.00004 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.4.5 | 0.000107 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.41 | 0.000294 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.54 | 0.000095 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.70 | 0.000209 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.77 | 0.001127 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.8 | 0.000606 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.84 | 0.000437 |
N | 364 | P364S | Cca | Tca | 1 | 1 | AY.98 | 0.000079 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.1.153 | 0.001095 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.1.157 | 0.000913 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.1.232 | 0.001815 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.1.291 | 0.000742 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.1.328 | 0.016949 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.1.434 | 0.000349 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.1.44 | 0.00241 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.111 | 0.001175 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.146 | 0.004237 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.177.20 | 0.001517 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.177.62 | 0.001192 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.177.7 | 0.000165 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.214.2 | 0.0006 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.223 | 0.002778 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.240 | 0.000216 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.258.17 | 0.000104 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.279 | 0.000514 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.369 | 0.000285 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.396 | 0.000706 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.524 | 0.001406 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.527 | 0.003704 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.589 | 0.007576 |
N | 364 | P364S | Cca | Tca | 1 | 1 | B.1.609 | 0.000479 |
N | 364 | P364S | Cca | Tca | 1 | 1 | C.18 | 0.002591 |
N | 364 | P364S | Cca | Tca | 1 | 1 | C.37 | 0.000116 |
N | 364 | P364S | Cca | Tca | 1 | 1 | D.2 | 0.000075 |
N | 364 | P364S | Cca | Tca | 1 | 1 | P.1.12 | 0.000484 |
N | 364 | P364S | Cca | Tca | 1 | 1 | P.1.14 | 0.000048 |
N | 364 | P364S | Cca | Tca | 1 | 1 | P.1.15 | 0.000232 |
N | 364 | P364S | Cca | Tca | 1 | 1 | P.2 | 0.000187 |
N | 364 | P364S | Cca | Tca | 1 | 1 | Q.2 | 0.000613 |
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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