CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF1ab/nsp5A-B : CodonNum = 196 & Codon = acA
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/nsp5A-B | 196 | T196T | T3459T | syn | acG | acA | 13418 | 1003 | 0.0747503 | 10640-10642 |
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/nsp5A-B | 196 | T196T | acG | acA | 1003 | 13418 | All | 0.000192 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 12 | 8004 | AY.20 | 0.000466 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 133 | 865 | B.1.1.7 | 0.000119 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 180 | 522 | B.1.617.2 | 0.000678 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 33 | 331 | AY.4 | 0.000051 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 113 | 325 | AY.103 | 0.000702 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 7 | 293 | B.1.2 | 0.000062 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 173 | AY.44 | 0.000006 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 9 | 166 | B.1.1 | 0.000163 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 4 | 99 | P.1 | 0.000063 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 7 | 98 | AY.26 | 0.000198 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 29 | 98 | B.1 | 0.000266 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 14 | 92 | AY.43 | 0.000062 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 52 | 90 | AY.25 | 0.000313 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 7 | 79 | B.1.177 | 0.000092 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 75 | AY.114 | 0.000462 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 6 | 74 | AY.4.2 | 0.00013 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 6 | 63 | AY.5 | 0.000124 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 44 | 61 | AY.29 | 0.000694 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 35 | 59 | AY.100 | 0.00161 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 7 | 57 | AY.102 | 0.000186 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 46 | 53 | P.1.15 | 0.010688 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 3 | 52 | B.1.427 | 0.000151 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 7 | 50 | B.1.526 | 0.000165 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 47 | AY.120 | 0.000037 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 44 | 45 | AY.118 | 0.002757 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 38 | AY.6 | 0.000041 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 6 | 33 | AY.3 | 0.00006 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 29 | 33 | P.1.7 | 0.009259 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 32 | 32 | B.1.1.54 | 0.096677 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 25 | P.1.14 | 0.000048 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 14 | 24 | AY.117 | 0.001183 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 22 | AY.33 | 0.000067 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 5 | 21 | B.1.351 | 0.000149 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 21 | B.1.36 | 0.000292 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 21 | B.1.429 | 0.000047 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 6 | 19 | B.1.1.519 | 0.000238 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 18 | B.1.177.73 | 0.001133 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 17 | AY.75.1 | 0.00018 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 17 | B.1.111 | 0.001175 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 6 | 15 | AY.61 | 0.000629 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 14 | AY.46 | 0.000208 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 14 | C.37 | 0.000232 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 3 | 12 | AY.39 | 0.000074 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 8 | 8 | AY.14 | 0.000704 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 8 | AY.23 | 0.00007 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 8 | AY.71 | 0.000475 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 6 | 8 | B.1.240 | 0.001293 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 4 | 8 | B.1.621 | 0.000354 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 5 | 7 | AY.98.1 | 0.000242 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 6 | 6 | AY.115 | 0.03125 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 6 | 6 | AY.72 | 0.008163 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 3 | 5 | AY.104 | 0.005952 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 5 | AY.39.1 | 0.00004 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 5 | AY.99.2 | 0.000184 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 5 | B.1.258 | 0.000067 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 4 | 4 | A | 0.001548 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 4 | AY.47 | 0.000062 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 4 | AY.92 | 0.000287 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 4 | B.1.1.216 | 0.00089 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 4 | B.1.1.448 | 0.002033 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 4 | B.1.177.21 | 0.000076 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 4 | B.1.525 | 0.000113 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 3 | 0.055556 | |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 3 | AY.24 | 0.000431 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 3 | 3 | B.1.177.75 | 0.003122 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 3 | B.1.351.2 | 0.000605 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 3 | P.1.8 | 0.009569 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 2 | AY.30 | 0.000791 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 2 | 2 | B.1.1.311 | 0.000716 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 2 | B.1.221 | 0.000071 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 2 | B.1.564 | 0.000426 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 2 | B.1.628 | 0.000352 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | A.2 | 0.000662 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | AY.101 | 0.00049 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | AY.12 | 0.000316 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | AY.4.3 | 0.000842 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.1.12 | 0.007463 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.1.214 | 0.000055 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.1.25 | 0.000569 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.1.307 | 0.002532 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.1.416 | 0.000905 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.1.434 | 0.000349 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.126 | 0.001276 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.459 | 0.004082 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.510 | 0.026316 |
| ORF1ab/nsp5A-B | 196 | T196T | acG | acA | 1 | 1 | B.1.576 | 0.000907 |
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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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