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 | 300 | N300N | N4692N | syn | aaC | aaT | 12021 | 12021 | 1 | 14338-14340 |
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/nsp12 | 300 | N300N | aaC | aaT | 12021 | 12021 | All | 0.002299 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 11075 | 11075 | R.1 | 0.99685 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 262 | 262 | B.1.1 | 0.004753 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 100 | 100 | B.1.1.220 | 0.185874 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 81 | 81 | B.1 | 0.000742 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 61 | 61 | B.1.1.7 | 0.000055 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 57 | 57 | B.1.617.2 | 0.000215 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 55 | 55 | AY.3 | 0.000547 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 39 | 39 | B.1.2 | 0.000343 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 34 | 34 | B.1.1.525 | 0.185792 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 24 | 24 | AY.4 | 0.000037 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 17 | 17 | B.1.1.317 | 0.006999 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 16 | 16 | B.1.177 | 0.000211 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 14 | 14 | AY.103 | 0.000087 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 14 | 14 | B.1.416 | 0.017766 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 13 | 13 | AY.35 | 0.00303 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 12 | 12 | B.1.1.10 | 0.013378 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 11 | 11 | AY.39 | 0.000272 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 10 | 10 | AY.25 | 0.00006 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 8 | 8 | AY.117 | 0.000676 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 6 | 6 | B.1.1.222 | 0.001224 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 6 | 6 | D.2 | 0.00045 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 5 | 5 | AY.16.1 | 0.00235 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 4 | 4 | AY.43 | 0.000018 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 4 | 4 | AY.44 | 0.000024 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 4 | 4 | AY.9.1 | 0.000335 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 3 | 3 | AY.120 | 0.000112 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 3 | 3 | B.1.1.39 | 0.001529 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 3 | 3 | B.1.1.521 | 0.016043 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 3 | 3 | B.1.108 | 0.017442 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 3 | 3 | B.1.524 | 0.004219 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | AY.107 | 0.000932 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | AY.48 | 0.00093 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | AY.99.2 | 0.000184 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.1.25 | 0.001137 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.1.263 | 0.003115 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.1.291 | 0.001485 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.1.51 | 0.003436 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.1.83 | 0.00542 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.258 | 0.000133 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.349 | 0.00143 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | B.1.568 | 0.002222 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 2 | 2 | Q.7 | 0.002222 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | AY.96 | 0.002075 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.1 | 0.000327 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.196 | 0.005714 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.198 | 0.001468 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.236 | 0.006897 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.258 | 0.003257 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.305 | 0.003861 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.464 | 0.001473 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.522 | 0.017241 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.528 | 0.004808 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.56 | 0.017857 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.1.8 | 0.003584 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.161 | 0.017241 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.177.23 | 0.003236 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.177.84 | 0.006667 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.214.2 | 0.0006 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.265 | 0.001271 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.36.19 | 0.009259 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.429 | 0.000024 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.436 | 0.001029 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.468 | 0.005714 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.517 | 0.000427 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.533 | 0.009615 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.604 | 0.017241 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | B.23 | 0.002924 |
ORF1ab/nsp12 | 300 | N300N | aaC | aaT | 1 | 1 | P.1.14 | 0.000048 |
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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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