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 |
ORF3a | 72 | A72T | nonsyn | Gca | Aca | 1351 | 1346 | 0.996299 | 25606-25608 | |
ORF3a | 72 | A72T | nonsyn | GcA | AcC | 1351 | 5 | 0.00370096 | 25606-25608 |
Details of the mutation A72T 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 |
ORF3a | 72 | A72T | Gca | Aca | 1346 | 1351 | All | 0.000257 |
ORF3a | 72 | A72T | GcA | AcC | 5 | 1351 | All | 0.000001 |
ORF3a | 72 | A72T | Gca | Aca | 441 | 441 | B.1.1.7 | 0.000395 |
ORF3a | 72 | A72T | Gca | Aca | 332 | 332 | AY.44 | 0.002021 |
ORF3a | 72 | A72T | Gca | Aca | 102 | 102 | AY.4 | 0.000159 |
ORF3a | 72 | A72T | Gca | Aca | 68 | 68 | B.1.617.2 | 0.000256 |
ORF3a | 72 | A72T | Gca | Aca | 54 | 54 | B.1.177.86 | 0.009906 |
ORF3a | 72 | A72T | Gca | Aca | 42 | 42 | B.1.429 | 0.000988 |
ORF3a | 72 | A72T | Gca | Aca | 32 | 32 | AY.102 | 0.000848 |
ORF3a | 72 | A72T | Gca | Aca | 27 | 27 | B.1.2 | 0.000238 |
ORF3a | 72 | A72T | Gca | Aca | 21 | 21 | AY.25 | 0.000126 |
ORF3a | 72 | A72T | Gca | Aca | 15 | 15 | AY.43 | 0.000066 |
ORF3a | 72 | A72T | Gca | Aca | 13 | 13 | P.1 | 0.000205 |
ORF3a | 72 | A72T | Gca | Aca | 11 | 11 | AY.6 | 0.000452 |
ORF3a | 72 | A72T | Gca | Aca | 11 | 11 | B.1.1 | 0.0002 |
ORF3a | 72 | A72T | Gca | Aca | 10 | 10 | B.1.1.50 | 0.006789 |
ORF3a | 72 | A72T | Gca | Aca | 9 | 9 | AY.54 | 0.000858 |
ORF3a | 72 | A72T | Gca | Aca | 4 | 7 | 0.222222 | |
ORF3a | 72 | A72T | GcA | AcC | 3 | 7 | 0.166667 | |
ORF3a | 72 | A72T | Gca | Aca | 7 | 7 | AY.103 | 0.000043 |
ORF3a | 72 | A72T | Gca | Aca | 7 | 7 | AY.3 | 0.00007 |
ORF3a | 72 | A72T | Gca | Aca | 6 | 7 | B.1 | 0.000055 |
ORF3a | 72 | A72T | GcA | AcC | 1 | 7 | B.1 | 0.000009 |
ORF3a | 72 | A72T | Gca | Aca | 7 | 7 | B.1.1.218 | 0.053846 |
ORF3a | 72 | A72T | Gca | Aca | 6 | 6 | AY.47 | 0.000187 |
ORF3a | 72 | A72T | Gca | Aca | 6 | 6 | B.1.1.28 | 0.001867 |
ORF3a | 72 | A72T | Gca | Aca | 6 | 6 | B.1.1.306 | 0.00263 |
ORF3a | 72 | A72T | Gca | Aca | 5 | 5 | AY.61 | 0.000524 |
ORF3a | 72 | A72T | Gca | Aca | 4 | 4 | AY.23 | 0.000279 |
ORF3a | 72 | A72T | Gca | Aca | 4 | 4 | AY.29 | 0.000063 |
ORF3a | 72 | A72T | Gca | Aca | 4 | 4 | B.1.160 | 0.000125 |
ORF3a | 72 | A72T | Gca | Aca | 4 | 4 | B.1.427 | 0.000202 |
ORF3a | 72 | A72T | Gca | Aca | 4 | 4 | B.1.596 | 0.000349 |
ORF3a | 72 | A72T | Gca | Aca | 4 | 4 | P.1.6 | 0.007782 |
ORF3a | 72 | A72T | Gca | Aca | 4 | 4 | P.1.7 | 0.001277 |
ORF3a | 72 | A72T | Gca | Aca | 3 | 3 | B.1.160.11 | 0.017143 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 3 | B.1.221 | 0.000142 |
ORF3a | 72 | A72T | GcA | AcC | 1 | 3 | B.1.221 | 0.000071 |
ORF3a | 72 | A72T | Gca | Aca | 3 | 3 | B.1.258 | 0.0002 |
ORF3a | 72 | A72T | Gca | Aca | 3 | 3 | B.1.36.29 | 0.001552 |
ORF3a | 72 | A72T | Gca | Aca | 3 | 3 | B.1.525 | 0.000339 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | AY.116.1 | 0.000623 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | AY.119 | 0.000071 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | AY.35 | 0.000466 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | AY.46 | 0.000208 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | AY.5 | 0.000041 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | AY.71 | 0.00095 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | B.1.1.33 | 0.000842 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | B.1.177 | 0.000026 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | B.1.177.18 | 0.00232 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | B.1.36 | 0.000292 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | B.1.36.1 | 0.002281 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | B.1.438.1 | 0.000215 |
ORF3a | 72 | A72T | Gca | Aca | 2 | 2 | P.1.15 | 0.000465 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.120 | 0.000037 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.14 | 0.000088 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.16.1 | 0.00047 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.20 | 0.000039 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.26 | 0.000028 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.32 | 0.000532 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.36 | 0.000148 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.39 | 0.000025 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.4.2 | 0.000022 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.4.3 | 0.000842 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.45 | 0.000122 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.49 | 0.003195 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.5.4 | 0.000277 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.52 | 0.000814 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.59 | 0.00053 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.64 | 0.000595 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.69 | 0.000187 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.70 | 0.000209 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.92 | 0.000287 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.98 | 0.000079 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | AY.98.1 | 0.000048 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B | 0.000128 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.1.220 | 0.001859 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.1.222 | 0.000204 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.110.3 | 0.000718 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.128 | 0.000635 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.232 | 0.000537 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.240 | 0.000216 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.241 | 0.000812 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.311 | 0.000275 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.599 | 0.00365 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.621 | 0.000089 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | B.1.91 | 0.002075 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | C.37 | 0.000116 |
ORF3a | 72 | A72T | Gca | Aca | 1 | 1 | Q.8 | 0.000165 |
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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