CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF7a : Mut = A79S
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 |
| ORF7a | 79 | A79S | nonsyn | Gcc | Tcc | 1391 | 1390 | 0.999281 | 27628-27630 | |
| ORF7a | 79 | A79S | nonsyn | GcC | TcA | 1391 | 1 | 0.000718907 | 27628-27630 |
Details of the mutation A79S 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 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1390 | 1391 | All | 0.000266 |
| ORF7a | 79 | A79S | GcC | TcA | 1 | 1391 | All | 0 |
| ORF7a | 79 | A79S | Gcc | Tcc | 731 | 731 | B.1.617.2 | 0.002753 |
| ORF7a | 79 | A79S | Gcc | Tcc | 151 | 151 | AY.43 | 0.000669 |
| ORF7a | 79 | A79S | Gcc | Tcc | 71 | 72 | B.1.1.7 | 0.000064 |
| ORF7a | 79 | A79S | GcC | TcA | 1 | 72 | B.1.1.7 | 0.000001 |
| ORF7a | 79 | A79S | Gcc | Tcc | 67 | 67 | AY.102 | 0.001776 |
| ORF7a | 79 | A79S | Gcc | Tcc | 59 | 59 | AY.4 | 0.000092 |
| ORF7a | 79 | A79S | Gcc | Tcc | 47 | 47 | AY.120 | 0.001747 |
| ORF7a | 79 | A79S | Gcc | Tcc | 33 | 33 | AY.46 | 0.003435 |
| ORF7a | 79 | A79S | Gcc | Tcc | 26 | 26 | AY.39 | 0.000642 |
| ORF7a | 79 | A79S | Gcc | Tcc | 18 | 18 | B.1.177 | 0.000237 |
| ORF7a | 79 | A79S | Gcc | Tcc | 10 | 10 | AY.20 | 0.000389 |
| ORF7a | 79 | A79S | Gcc | Tcc | 10 | 10 | AY.37 | 0.003161 |
| ORF7a | 79 | A79S | Gcc | Tcc | 10 | 10 | AY.47 | 0.000311 |
| ORF7a | 79 | A79S | Gcc | Tcc | 9 | 9 | AY.117 | 0.000761 |
| ORF7a | 79 | A79S | Gcc | Tcc | 9 | 9 | AY.44 | 0.000055 |
| ORF7a | 79 | A79S | Gcc | Tcc | 9 | 9 | B.1 | 0.000082 |
| ORF7a | 79 | A79S | Gcc | Tcc | 8 | 8 | AY.103 | 0.00005 |
| ORF7a | 79 | A79S | Gcc | Tcc | 7 | 7 | B.1.2 | 0.000062 |
| ORF7a | 79 | A79S | Gcc | Tcc | 6 | 6 | AY.45 | 0.00073 |
| ORF7a | 79 | A79S | Gcc | Tcc | 6 | 6 | B.1.351 | 0.000178 |
| ORF7a | 79 | A79S | Gcc | Tcc | 5 | 5 | AY.113 | 0.000712 |
| ORF7a | 79 | A79S | Gcc | Tcc | 5 | 5 | AY.118 | 0.000313 |
| ORF7a | 79 | A79S | Gcc | Tcc | 5 | 5 | AY.99.2 | 0.000461 |
| ORF7a | 79 | A79S | Gcc | Tcc | 4 | 4 | AY.5 | 0.000083 |
| ORF7a | 79 | A79S | Gcc | Tcc | 4 | 4 | B.1.526 | 0.000094 |
| ORF7a | 79 | A79S | Gcc | Tcc | 3 | 3 | AY.3 | 0.00003 |
| ORF7a | 79 | A79S | Gcc | Tcc | 3 | 3 | AY.32 | 0.001597 |
| ORF7a | 79 | A79S | Gcc | Tcc | 3 | 3 | AY.54 | 0.000286 |
| ORF7a | 79 | A79S | Gcc | Tcc | 3 | 3 | AY.6 | 0.000123 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | AY.100 | 0.000092 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | AY.33 | 0.000134 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | AY.4.2 | 0.000043 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | AY.46.4 | 0.000329 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | AY.86 | 0.00166 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | B.1.1.39 | 0.001019 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | B.1.177.77 | 0.001452 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | B.1.243 | 0.000139 |
| ORF7a | 79 | A79S | Gcc | Tcc | 2 | 2 | B.1.429 | 0.000047 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | A.1 | 0.000282 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | A.2.5 | 0.000499 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.10 | 0.00053 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.106 | 0.000335 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.108 | 0.001103 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.11 | 0.001339 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.111 | 0.000183 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.114 | 0.000231 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.116 | 0.000287 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.120.1 | 0.000321 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.22 | 0.002092 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.25 | 0.000006 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.26 | 0.000028 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.27 | 0.000065 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.29 | 0.000016 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.41 | 0.000294 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.42 | 0.00004 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.46.2 | 0.000635 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.46.3 | 0.000934 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.48 | 0.000465 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.58 | 0.000907 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.63 | 0.000387 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.68 | 0.000274 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.71 | 0.000475 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.82 | 0.001357 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.84 | 0.000437 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.87 | 0.000833 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.88 | 0.000884 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.9.1 | 0.000084 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | AY.9.2 | 0.000037 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.1.27 | 0.00565 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.1.284 | 0.000107 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.1.37 | 0.000193 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.1.375 | 0.011905 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.1.398 | 0.003226 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.1.432 | 0.001266 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.1.519 | 0.00004 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.160 | 0.000031 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.177.4 | 0.000211 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.177.86 | 0.000183 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.305 | 0.002151 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.497 | 0.000315 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.509 | 0.000866 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.596 | 0.000087 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.628 | 0.000352 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | B.1.630 | 0.005236 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | C.36 | 0.000911 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | P.1.12 | 0.000484 |
| ORF7a | 79 | A79S | Gcc | Tcc | 1 | 1 | P.1.4 | 0.000977 |
| ORF7a | 79 | A79S | Gcc | Tcc | 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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