CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF7a : Mut = L5P
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 | 5 | L5P | nonsyn | cTt | cCt | 2974 | 2871 | 0.965366 | 27406-27408 | |
| ORF7a | 5 | L5P | nonsyn | cTT | cCG | 2974 | 101 | 0.033961 | 27406-27408 | |
| ORF7a | 5 | L5P | nonsyn | cTT | cCC | 2974 | 2 | 0.000672495 | 27406-27408 |
Details of the mutation L5P 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 | 5 | L5P | cTt | cCt | 2871 | 2974 | All | 0.000549 |
| ORF7a | 5 | L5P | cTT | cCG | 101 | 2974 | All | 0.000019 |
| ORF7a | 5 | L5P | cTT | cCC | 2 | 2974 | All | 0 |
| ORF7a | 5 | L5P | cTt | cCt | 2536 | 2536 | AY.4 | 0.003947 |
| ORF7a | 5 | L5P | cTT | cCG | 36 | 63 | AY.85 | 0.015378 |
| ORF7a | 5 | L5P | cTt | cCt | 27 | 63 | AY.85 | 0.011534 |
| ORF7a | 5 | L5P | cTt | cCt | 50 | 55 | B.1.617.2 | 0.000188 |
| ORF7a | 5 | L5P | cTT | cCG | 5 | 55 | B.1.617.2 | 0.000019 |
| ORF7a | 5 | L5P | cTt | cCt | 35 | 40 | B.1.1.7 | 0.000031 |
| ORF7a | 5 | L5P | cTT | cCG | 5 | 40 | B.1.1.7 | 0.000004 |
| ORF7a | 5 | L5P | cTt | cCt | 34 | 34 | R.1 | 0.00306 |
| ORF7a | 5 | L5P | cTt | cCt | 15 | 27 | P.1 | 0.000236 |
| ORF7a | 5 | L5P | cTT | cCG | 11 | 27 | P.1 | 0.000173 |
| ORF7a | 5 | L5P | cTT | cCC | 1 | 27 | P.1 | 0.000016 |
| ORF7a | 5 | L5P | cTT | cCG | 12 | 16 | AY.30 | 0.004749 |
| ORF7a | 5 | L5P | cTt | cCt | 4 | 16 | AY.30 | 0.001583 |
| ORF7a | 5 | L5P | cTt | cCt | 16 | 16 | B.1.1.332 | 0.5 |
| ORF7a | 5 | L5P | cTt | cCt | 11 | 13 | AY.43 | 0.000049 |
| ORF7a | 5 | L5P | cTT | cCG | 2 | 13 | AY.43 | 0.000009 |
| ORF7a | 5 | L5P | cTt | cCt | 11 | 11 | B.1 | 0.000101 |
| ORF7a | 5 | L5P | cTT | cCG | 6 | 10 | AY.39 | 0.000148 |
| ORF7a | 5 | L5P | cTt | cCt | 4 | 10 | AY.39 | 0.000099 |
| ORF7a | 5 | L5P | cTt | cCt | 10 | 10 | B.1.177 | 0.000132 |
| ORF7a | 5 | L5P | cTt | cCt | 8 | 8 | AY.25 | 0.000048 |
| ORF7a | 5 | L5P | cTt | cCt | 6 | 7 | AY.102 | 0.000159 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 7 | AY.102 | 0.000027 |
| ORF7a | 5 | L5P | cTT | cCG | 4 | 7 | AY.39.1 | 0.000158 |
| ORF7a | 5 | L5P | cTt | cCt | 3 | 7 | AY.39.1 | 0.000119 |
| ORF7a | 5 | L5P | cTt | cCt | 7 | 7 | B.1.2 | 0.000062 |
| ORF7a | 5 | L5P | cTt | cCt | 7 | 7 | B.1.409 | 0.005469 |
| ORF7a | 5 | L5P | cTt | cCt | 6 | 6 | AY.3 | 0.00006 |
| ORF7a | 5 | L5P | cTT | cCG | 3 | 5 | AY.101 | 0.001471 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 5 | AY.101 | 0.000981 |
| ORF7a | 5 | L5P | cTt | cCt | 5 | 5 | AY.116 | 0.001434 |
| ORF7a | 5 | L5P | cTt | cCt | 5 | 5 | B.1.526 | 0.000118 |
| ORF7a | 5 | L5P | cTT | cCG | 3 | 5 | P.2 | 0.00056 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 5 | P.2 | 0.000373 |
| ORF7a | 5 | L5P | cTt | cCt | 4 | 4 | AY.42 | 0.000161 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 4 | AY.62 | 0.000871 |
| ORF7a | 5 | L5P | cTT | cCG | 2 | 4 | AY.62 | 0.000871 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 4 | AY.67 | 0.000929 |
| ORF7a | 5 | L5P | cTT | cCG | 2 | 4 | AY.67 | 0.000929 |
| ORF7a | 5 | L5P | cTt | cCt | 4 | 4 | B.1.1 | 0.000073 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 3 | AY.47 | 0.000062 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 3 | AY.47 | 0.000031 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 3 | AY.99.2 | 0.000184 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 3 | AY.99.2 | 0.000092 |
| ORF7a | 5 | L5P | cTt | cCt | 3 | 3 | B.1.621 | 0.000266 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 2 | AY.103 | 0.000006 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 2 | AY.103 | 0.000006 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 2 | AY.117 | 0.000169 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 2 | AY.44 | 0.000012 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 2 | AY.46 | 0.000104 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 2 | AY.46 | 0.000104 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 2 | AY.9.2 | 0.000073 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 2 | B.1.221 | 0.000142 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 2 | B.1.243 | 0.000139 |
| ORF7a | 5 | L5P | cTt | cCt | 2 | 2 | B.1.617.1 | 0.000258 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 2 | P.1.12 | 0.000484 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 2 | P.1.12 | 0.000484 |
| ORF7a | 5 | L5P | cTT | cCC | 1 | 2 | P.1.2 | 0.001156 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 2 | P.1.2 | 0.001156 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 2 | P.7 | 0.004367 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 2 | P.7 | 0.004367 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AD.2 | 0.000219 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.105 | 0.000643 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.111 | 0.000183 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.119 | 0.000035 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.23.1 | 0.000417 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.27 | 0.000065 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.29 | 0.000016 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.33 | 0.000067 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.4.5 | 0.000107 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 1 | AY.46.1 | 0.001027 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.73 | 0.000665 |
| ORF7a | 5 | L5P | cTT | cCG | 1 | 1 | AY.79 | 0.001211 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.9 | 0.000068 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | AY.9.1 | 0.000084 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B | 0.000128 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.1.222 | 0.000204 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.1.28 | 0.000311 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.1.284 | 0.000107 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.1.37 | 0.000193 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.1.519 | 0.00004 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.177.42 | 0.000894 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.177.60 | 0.000218 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.223 | 0.002778 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.349 | 0.000715 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.351 | 0.00003 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.427 | 0.00005 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.429 | 0.000024 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.438.1 | 0.000107 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.469 | 0.00361 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.568 | 0.001111 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | B.1.596 | 0.000087 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | D.2 | 0.000075 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | P.1.8 | 0.004785 |
| ORF7a | 5 | L5P | cTt | cCt | 1 | 1 | U.3 | 0.003861 |
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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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