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 |
ORF7a | 41 | E41X | nonsyn | Gag | Tag | 1685 | 1673 | 0.992878 | 27514-27516 | |
ORF7a | 41 | E41X | nonsyn | GaG | TaA | 1685 | 12 | 0.00712166 | 27514-27516 |
Details of the mutation E41X 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 | 41 | E41X | Gag | Tag | 1673 | 1685 | All | 0.00032 |
ORF7a | 41 | E41X | GaG | TaA | 12 | 1685 | All | 0.000002 |
ORF7a | 41 | E41X | Gag | Tag | 437 | 437 | AY.113 | 0.062224 |
ORF7a | 41 | E41X | Gag | Tag | 325 | 332 | B.1.1.7 | 0.000291 |
ORF7a | 41 | E41X | GaG | TaA | 7 | 332 | B.1.1.7 | 0.000006 |
ORF7a | 41 | E41X | Gag | Tag | 220 | 221 | AY.25 | 0.001323 |
ORF7a | 41 | E41X | GaG | TaA | 1 | 221 | AY.25 | 0.000006 |
ORF7a | 41 | E41X | Gag | Tag | 102 | 102 | AY.4 | 0.000159 |
ORF7a | 41 | E41X | Gag | Tag | 77 | 77 | AY.21 | 0.14611 |
ORF7a | 41 | E41X | Gag | Tag | 55 | 55 | B.1.617.2 | 0.000207 |
ORF7a | 41 | E41X | Gag | Tag | 38 | 38 | AY.29.1 | 0.008379 |
ORF7a | 41 | E41X | Gag | Tag | 37 | 37 | AY.43 | 0.000164 |
ORF7a | 41 | E41X | Gag | Tag | 36 | 36 | AY.103 | 0.000224 |
ORF7a | 41 | E41X | Gag | Tag | 34 | 34 | AY.44 | 0.000207 |
ORF7a | 41 | E41X | Gag | Tag | 18 | 18 | AY.3 | 0.000179 |
ORF7a | 41 | E41X | Gag | Tag | 16 | 16 | P.1 | 0.000252 |
ORF7a | 41 | E41X | Gag | Tag | 15 | 15 | AY.102 | 0.000398 |
ORF7a | 41 | E41X | Gag | Tag | 15 | 15 | AY.4.2 | 0.000325 |
ORF7a | 41 | E41X | Gag | Tag | 14 | 14 | AY.6 | 0.000576 |
ORF7a | 41 | E41X | Gag | Tag | 12 | 12 | AY.60 | 0.011257 |
ORF7a | 41 | E41X | Gag | Tag | 11 | 12 | B.1 | 0.000101 |
ORF7a | 41 | E41X | GaG | TaA | 1 | 12 | B.1 | 0.000009 |
ORF7a | 41 | E41X | Gag | Tag | 10 | 10 | AY.121 | 0.001353 |
ORF7a | 41 | E41X | Gag | Tag | 9 | 9 | B.1.2 | 0.000079 |
ORF7a | 41 | E41X | Gag | Tag | 9 | 9 | P.1.7 | 0.002874 |
ORF7a | 41 | E41X | Gag | Tag | 8 | 8 | AY.33 | 0.000534 |
ORF7a | 41 | E41X | Gag | Tag | 8 | 8 | AY.34 | 0.000776 |
ORF7a | 41 | E41X | Gag | Tag | 7 | 7 | AY.117 | 0.000592 |
ORF7a | 41 | E41X | Gag | Tag | 7 | 7 | AY.26 | 0.000198 |
ORF7a | 41 | E41X | Gag | Tag | 6 | 6 | AY.47 | 0.000187 |
ORF7a | 41 | E41X | Gag | Tag | 6 | 6 | AY.79 | 0.007264 |
ORF7a | 41 | E41X | Gag | Tag | 6 | 6 | B.1.1.519 | 0.000238 |
ORF7a | 41 | E41X | Gag | Tag | 6 | 6 | B.1.163 | 0.146341 |
ORF7a | 41 | E41X | Gag | Tag | 6 | 6 | B.1.351 | 0.000178 |
ORF7a | 41 | E41X | Gag | Tag | 5 | 5 | AY.39 | 0.000124 |
ORF7a | 41 | E41X | Gag | Tag | 4 | 5 | B.1.160 | 0.000125 |
ORF7a | 41 | E41X | GaG | TaA | 1 | 5 | B.1.160 | 0.000031 |
ORF7a | 41 | E41X | Gag | Tag | 5 | 5 | B.1.429 | 0.000118 |
ORF7a | 41 | E41X | Gag | Tag | 4 | 4 | AY.100 | 0.000184 |
ORF7a | 41 | E41X | Gag | Tag | 3 | 4 | B.1.1 | 0.000054 |
ORF7a | 41 | E41X | GaG | TaA | 1 | 4 | B.1.1 | 0.000018 |
ORF7a | 41 | E41X | Gag | Tag | 3 | 3 | AY.119 | 0.000106 |
ORF7a | 41 | E41X | Gag | Tag | 3 | 3 | AY.61 | 0.000314 |
ORF7a | 41 | E41X | Gag | Tag | 3 | 3 | B.1.177 | 0.00004 |
ORF7a | 41 | E41X | Gag | Tag | 3 | 3 | B.1.526 | 0.000071 |
ORF7a | 41 | E41X | Gag | Tag | 3 | 3 | D.2 | 0.000225 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.116 | 0.000574 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.12 | 0.000632 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.16 | 0.000759 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.20 | 0.000078 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.29 | 0.000032 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.46 | 0.000208 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.46.2 | 0.001271 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.5 | 0.000041 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.54 | 0.000191 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | AY.9.2 | 0.000073 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | B.1.1.220 | 0.003717 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | B.1.234 | 0.000264 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | B.1.36.17 | 0.000988 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | B.1.617.1 | 0.000258 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | B.1.619.1 | 0.001283 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | P.1.14 | 0.000096 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | P.1.17 | 0.000324 |
ORF7a | 41 | E41X | Gag | Tag | 2 | 2 | Q.1 | 0.000253 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | A.2.2 | 0.001689 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.10 | 0.00053 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.107 | 0.000466 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.109 | 0.00074 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.116.1 | 0.000311 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.118 | 0.000063 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.120 | 0.000037 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.14 | 0.000088 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.18 | 0.010101 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.27 | 0.000065 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.28 | 0.00189 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.32 | 0.000532 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.42 | 0.00004 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.46.1 | 0.001027 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.46.4 | 0.000165 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.46.6 | 0.000072 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.52 | 0.000814 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.55 | 0.000917 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.63 | 0.000387 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.65 | 0.000533 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.70 | 0.000209 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.74 | 0.000116 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.75.1 | 0.00018 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.86 | 0.00083 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.91 | 0.00073 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.92 | 0.000287 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.98.1 | 0.000048 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | AY.99.2 | 0.000092 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.1.181 | 0.004545 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.1.222 | 0.000204 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.1.282 | 0.011628 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.1.284 | 0.000107 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.1.365 | 0.005587 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.1.369 | 0.000446 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.1.523 | 0.001563 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.177.21 | 0.000076 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.177.4 | 0.000211 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.240 | 0.000216 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.260 | 0.003344 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.320 | 0.001245 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.356 | 0.001727 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.36.18 | 0.00042 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.367 | 0.000792 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.416.1 | 0.001563 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.428 | 0.00102 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.525 | 0.000113 |
ORF7a | 41 | E41X | GaG | TaA | 1 | 1 | B.1.576 | 0.000907 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.621 | 0.000089 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.1.637 | 0.000073 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | B.4.5 | 0.011905 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | C.37 | 0.000116 |
ORF7a | 41 | E41X | Gag | Tag | 1 | 1 | P.1.1 | 0.000318 |
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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