CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF1ab/nsp15A1-B : Mut = F263L
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/nsp15A1-B | 263 | F263L | F6715L | nonsyn | Ttt | Ctt | 1146 | 601 | 0.524433 | 20407-20409 |
| ORF1ab/nsp15A1-B | 263 | F263L | F6715L | nonsyn | ttT | ttA | 1146 | 520 | 0.453752 | 20407-20409 |
| ORF1ab/nsp15A1-B | 263 | F263L | F6715L | nonsyn | ttT | ttG | 1146 | 25 | 0.021815 | 20407-20409 |
Details of the mutation F263L 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/nsp15A1-B | 263 | F263L | Ttt | Ctt | 601 | 1146 | All | 0.000115 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 520 | 1146 | All | 0.000099 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 25 | 1146 | All | 0.000005 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 336 | 336 | B.1.526 | 0.007898 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 131 | 131 | B.1.632 | 0.879195 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 125 | 125 | AY.5 | 0.002581 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 84 | 108 | B.1.1.7 | 0.000075 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 20 | 108 | B.1.1.7 | 0.000018 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 4 | 108 | B.1.1.7 | 0.000004 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 78 | 85 | AY.4 | 0.000121 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 5 | 85 | AY.4 | 0.000008 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 2 | 85 | AY.4 | 0.000003 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 52 | 52 | B.1.1.37 | 0.010029 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 31 | 32 | AY.103 | 0.000192 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 32 | AY.103 | 0.000006 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 24 | 31 | B.1.2 | 0.000211 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 7 | 31 | B.1.2 | 0.000062 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 23 | 23 | B.1.36.36 | 0.013847 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 15 | 17 | B.1 | 0.000137 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 2 | 17 | B.1 | 0.000018 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 12 | 13 | B.1.221 | 0.000852 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 13 | B.1.221 | 0.000071 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 12 | 12 | AY.3 | 0.000119 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 12 | 12 | B.1.1.269 | 0.016238 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 10 | 12 | B.1.177 | 0.000132 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 2 | 12 | B.1.177 | 0.000026 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 5 | 11 | AY.43 | 0.000022 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 3 | 11 | AY.43 | 0.000013 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 3 | 11 | AY.43 | 0.000013 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 10 | 11 | B.1.351 | 0.000297 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 11 | B.1.351 | 0.00003 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 5 | 10 | B.1.1 | 0.000091 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 4 | 10 | B.1.1 | 0.000073 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 10 | B.1.1 | 0.000018 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 5 | 10 | B.1.617.2 | 0.000019 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 4 | 10 | B.1.617.2 | 0.000015 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 10 | B.1.617.2 | 0.000004 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 10 | 10 | C.37 | 0.001161 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 7 | 7 | AY.111 | 0.001282 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 6 | 7 | P.1 | 0.000095 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 7 | P.1 | 0.000016 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 7 | 7 | Q.4 | 0.003183 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 4 | 6 | AY.44 | 0.000024 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 6 | AY.44 | 0.000006 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 6 | AY.44 | 0.000006 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 3 | 5 | B.1.429 | 0.000071 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 2 | 5 | B.1.429 | 0.000047 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 2 | 4 | AY.25 | 0.000012 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 4 | AY.25 | 0.000006 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 4 | AY.25 | 0.000006 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 4 | 4 | AY.27 | 0.000259 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 3 | 4 | B.1.1.25 | 0.001706 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 4 | B.1.1.25 | 0.000569 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 4 | 4 | B.1.1.519 | 0.000159 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 3 | 3 | AY.42 | 0.000121 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 3 | 3 | B.1.1.284 | 0.000322 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 3 | 3 | B.1.1.303 | 0.008287 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 2 | 3 | B.1.160 | 0.000062 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 3 | B.1.160 | 0.000031 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 3 | 3 | B.1.623 | 0.001609 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 3 | 3 | B.1.628 | 0.001057 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 2 | AY.35 | 0.000233 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 2 | AY.35 | 0.000233 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 2 | 2 | AY.39 | 0.000049 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 2 | 2 | AY.6 | 0.000082 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 2 | 2 | P.1.14 | 0.000096 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | A.2.5 | 0.000499 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | AY.29 | 0.000016 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | AY.3.1 | 0.000085 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | AY.39.1 | 0.00004 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | AY.46.1 | 0.001027 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | AY.59 | 0.00053 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | AY.75 | 0.000056 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 1 | AY.97 | 0.001701 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.1.1 | 0.000327 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | B.1.1.372 | 0.000689 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | B.1.1.507 | 0.008696 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 1 | B.1.111 | 0.001175 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | B.1.147 | 0.000756 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | B.1.177.21 | 0.000076 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.177.31 | 0.011494 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.258.17 | 0.000104 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.36 | 0.000146 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.367 | 0.000792 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.427 | 0.00005 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttG | 1 | 1 | B.1.428 | 0.00102 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.466 | 0.023256 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | B.1.575.1 | 0.002439 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | B.1.595 | 0.000261 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | B.1.596 | 0.000087 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.619 | 0.000871 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.621 | 0.000089 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | B.1.625 | 0.002353 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | B.1.637 | 0.000073 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | C.16 | 0.00106 |
| ORF1ab/nsp15A1-B | 263 | F263L | ttT | ttA | 1 | 1 | P.1.12 | 0.000484 |
| ORF1ab/nsp15A1-B | 263 | F263L | Ttt | Ctt | 1 | 1 | R.1 | 0.00009 |
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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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