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/nsp12 | 250 | A250V | A4642V | nonsyn | gCt | gTt | 1146 | 1145 | 0.999127 | 14188-14190 |
ORF1ab/nsp12 | 250 | A250V | A4642V | nonsyn | gCT | gTC | 1146 | 1 | 0.0008726 | 14188-14190 |
Details of the mutation A250V 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/nsp12 | 250 | A250V | gCt | gTt | 1145 | 1146 | All | 0.000219 |
ORF1ab/nsp12 | 250 | A250V | gCT | gTC | 1 | 1146 | All | 0 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 366 | 366 | B.1.1.7 | 0.000328 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 272 | 272 | AY.4 | 0.000423 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 52 | 52 | B.1.617.2 | 0.000196 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 36 | 36 | B.1.575 | 0.010922 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 31 | 31 | AY.25 | 0.000186 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 29 | 29 | B.1.9.1 | 0.935484 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 27 | 27 | B.1 | 0.000247 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 24 | 24 | AY.43 | 0.000106 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 18 | 18 | B.1.409 | 0.014063 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 17 | 17 | AY.103 | 0.000106 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 17 | 17 | P.1 | 0.000268 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 15 | 15 | AY.39 | 0.000371 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 11 | 11 | B.1.1 | 0.0002 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 10 | 10 | AY.102 | 0.000265 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 10 | 10 | B.1.2 | 0.000088 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 9 | 9 | B.1.621 | 0.000797 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 8 | 8 | B.1.1.362 | 0.044944 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 7 | 7 | AY.116 | 0.002007 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 7 | 7 | B.1.1.316 | 0.006475 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 6 | 6 | AY.3 | 0.00006 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 6 | 6 | AY.44 | 0.000037 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 6 | 6 | AY.8 | 0.003636 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 6 | 6 | B.1.344 | 0.04918 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 6 | 6 | B.1.351 | 0.000178 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 6 | 6 | B.40 | 0.002186 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 5 | 5 | AY.3.1 | 0.000426 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 5 | 5 | AY.47 | 0.000156 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 5 | 5 | AY.9.2 | 0.000184 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 5 | 5 | B.1.1.222 | 0.00102 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 5 | 5 | B.1.628 | 0.001762 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 4 | 4 | AY.20 | 0.000155 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 4 | 4 | AY.29 | 0.000063 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 4 | 4 | AY.94 | 0.001771 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 4 | 4 | B.1.526 | 0.000094 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 3 | 3 | AY.119 | 0.000106 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 3 | 3 | AY.98 | 0.000237 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 3 | 3 | B.1.1.189 | 0.004539 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 3 | 3 | B.1.1.519 | 0.000119 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 3 | 3 | B.1.36 | 0.000438 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 3 | 3 | C.36 | 0.002732 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 3 | 3 | D.2 | 0.000225 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 2 | 0.055556 | |
ORF1ab/nsp12 | 250 | A250V | gCT | gTC | 1 | 2 | 0.055556 | |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | A | 0.000774 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | AY.121 | 0.000271 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | AY.26 | 0.000057 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | AY.34 | 0.000194 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | B.1.1.153 | 0.002191 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | B.1.177.57 | 0.000562 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | B.1.234 | 0.000264 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | B.1.258.17 | 0.000208 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | B.1.385 | 0.021277 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | B.1.525 | 0.000226 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | B.1.623 | 0.001073 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | P.1.14 | 0.000096 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | P.1.17 | 0.000324 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 2 | 2 | Q.1 | 0.000253 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | A.5 | 0.001923 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.1 | 0.000396 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.19 | 0.00114 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.46.2 | 0.000635 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.74 | 0.000116 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.86 | 0.00083 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.88 | 0.000884 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.1.216 | 0.00089 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.1.416 | 0.000905 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.1.448 | 0.002033 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.1.487 | 0.005587 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.260 | 0.003344 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.36.31 | 0.001751 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.438.1 | 0.000107 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.612 | 0.002653 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | B.60 | 0.015873 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | P.1.10 | 0.000269 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 1 | 1 | P.2 | 0.000187 |
ORF1ab/nsp12 | 250 | A250V | gCt | gTt | 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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