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 | 68 | P68P | syn | ccT | ccC | 1503 | 988 | 0.657352 | 27595-27597 | |
ORF7a | 68 | P68P | syn | ccT | ccA | 1503 | 422 | 0.280772 | 27595-27597 | |
ORF7a | 68 | P68P | syn | ccT | ccG | 1503 | 93 | 0.0618762 | 27595-27597 |
Details of the mutation P68P 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 | 68 | P68P | ccT | ccC | 988 | 1503 | All | 0.000189 |
ORF7a | 68 | P68P | ccT | ccA | 422 | 1503 | All | 0.000081 |
ORF7a | 68 | P68P | ccT | ccG | 93 | 1503 | All | 0.000018 |
ORF7a | 68 | P68P | ccT | ccC | 405 | 424 | B.1.1.7 | 0.000363 |
ORF7a | 68 | P68P | ccT | ccA | 13 | 424 | B.1.1.7 | 0.000012 |
ORF7a | 68 | P68P | ccT | ccG | 6 | 424 | B.1.1.7 | 0.000005 |
ORF7a | 68 | P68P | ccT | ccA | 216 | 216 | B.1.1.318 | 0.065178 |
ORF7a | 68 | P68P | ccT | ccC | 163 | 164 | AY.44 | 0.000992 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 164 | AY.44 | 0.000006 |
ORF7a | 68 | P68P | ccT | ccA | 153 | 158 | AY.25 | 0.00092 |
ORF7a | 68 | P68P | ccT | ccC | 5 | 158 | AY.25 | 0.00003 |
ORF7a | 68 | P68P | ccT | ccC | 104 | 110 | B.1.1 | 0.001887 |
ORF7a | 68 | P68P | ccT | ccG | 4 | 110 | B.1.1 | 0.000073 |
ORF7a | 68 | P68P | ccT | ccA | 2 | 110 | B.1.1 | 0.000036 |
ORF7a | 68 | P68P | ccT | ccC | 70 | 70 | B.1.1.251 | 0.555556 |
ORF7a | 68 | P68P | ccT | ccC | 42 | 52 | AY.4 | 0.000065 |
ORF7a | 68 | P68P | ccT | ccG | 6 | 52 | AY.4 | 0.000009 |
ORF7a | 68 | P68P | ccT | ccA | 4 | 52 | AY.4 | 0.000006 |
ORF7a | 68 | P68P | ccT | ccC | 40 | 48 | B.1.617.2 | 0.000151 |
ORF7a | 68 | P68P | ccT | ccA | 6 | 48 | B.1.617.2 | 0.000023 |
ORF7a | 68 | P68P | ccT | ccG | 2 | 48 | B.1.617.2 | 0.000008 |
ORF7a | 68 | P68P | ccT | ccG | 31 | 39 | AY.43 | 0.000137 |
ORF7a | 68 | P68P | ccT | ccA | 5 | 39 | AY.43 | 0.000022 |
ORF7a | 68 | P68P | ccT | ccC | 3 | 39 | AY.43 | 0.000013 |
ORF7a | 68 | P68P | ccT | ccG | 11 | 19 | AY.5 | 0.000227 |
ORF7a | 68 | P68P | ccT | ccC | 8 | 19 | AY.5 | 0.000165 |
ORF7a | 68 | P68P | ccT | ccG | 19 | 19 | AY.9.2 | 0.000698 |
ORF7a | 68 | P68P | ccT | ccC | 18 | 18 | AY.119 | 0.000636 |
ORF7a | 68 | P68P | ccT | ccC | 15 | 16 | B.1.1.222 | 0.00306 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 16 | B.1.1.222 | 0.000204 |
ORF7a | 68 | P68P | ccT | ccC | 16 | 16 | B.1.1.261 | 0.137931 |
ORF7a | 68 | P68P | ccT | ccC | 11 | 14 | B.1 | 0.000101 |
ORF7a | 68 | P68P | ccT | ccA | 3 | 14 | B.1 | 0.000027 |
ORF7a | 68 | P68P | ccT | ccC | 9 | 9 | AY.115 | 0.046875 |
ORF7a | 68 | P68P | ccT | ccG | 6 | 9 | B.1.2 | 0.000053 |
ORF7a | 68 | P68P | ccT | ccA | 2 | 9 | B.1.2 | 0.000018 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 9 | B.1.2 | 0.000009 |
ORF7a | 68 | P68P | ccT | ccC | 7 | 7 | AY.3 | 0.00007 |
ORF7a | 68 | P68P | ccT | ccC | 6 | 6 | AY.100 | 0.000276 |
ORF7a | 68 | P68P | ccT | ccC | 4 | 6 | AY.120 | 0.000149 |
ORF7a | 68 | P68P | ccT | ccG | 2 | 6 | AY.120 | 0.000074 |
ORF7a | 68 | P68P | ccT | ccC | 5 | 5 | B.1.177 | 0.000066 |
ORF7a | 68 | P68P | ccT | ccG | 3 | 5 | P.1 | 0.000047 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 5 | P.1 | 0.000016 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 5 | P.1 | 0.000016 |
ORF7a | 68 | P68P | ccT | ccC | 4 | 4 | AY.116 | 0.001147 |
ORF7a | 68 | P68P | ccT | ccC | 4 | 4 | B.1.240 | 0.000862 |
ORF7a | 68 | P68P | ccT | ccC | 3 | 3 | AY.20 | 0.000117 |
ORF7a | 68 | P68P | ccT | ccC | 3 | 3 | B.1.466.2 | 0.001174 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 2 | AY.102 | 0.000027 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 2 | AY.102 | 0.000027 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 2 | AY.103 | 0.000006 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 2 | AY.103 | 0.000006 |
ORF7a | 68 | P68P | ccT | ccC | 2 | 2 | AY.39 | 0.000049 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 2 | AY.4.2.1 | 0.000149 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 2 | AY.4.2.1 | 0.000149 |
ORF7a | 68 | P68P | ccT | ccC | 2 | 2 | AY.45 | 0.000243 |
ORF7a | 68 | P68P | ccT | ccC | 2 | 2 | AY.47 | 0.000062 |
ORF7a | 68 | P68P | ccT | ccC | 2 | 2 | AY.61 | 0.00021 |
ORF7a | 68 | P68P | ccT | ccC | 2 | 2 | AY.75 | 0.000112 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 2 | B.1.1.214 | 0.000055 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 2 | B.1.1.214 | 0.000055 |
ORF7a | 68 | P68P | ccT | ccA | 2 | 2 | B.1.221.1 | 0.005814 |
ORF7a | 68 | P68P | ccT | ccC | 2 | 2 | Q.8 | 0.00033 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | 0.055556 | |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | A.1 | 0.000282 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | A.2.2 | 0.001689 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.23 | 0.00007 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.23.1 | 0.000417 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.26 | 0.000028 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.27 | 0.000065 |
ORF7a | 68 | P68P | ccT | ccG | 1 | 1 | AY.29 | 0.000016 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.33 | 0.000067 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.4.5 | 0.000107 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.42 | 0.00004 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.46.2 | 0.000635 |
ORF7a | 68 | P68P | ccT | ccG | 1 | 1 | AY.67 | 0.000464 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | AY.72 | 0.001361 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | AY.75.1 | 0.00018 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | AY.98 | 0.000079 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.1.135 | 0.004695 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.1.420 | 0.001006 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | B.1.177.21 | 0.000076 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.177.51 | 0.004566 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.177.79 | 0.002342 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | B.1.221 | 0.000071 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.258.14 | 0.00098 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | B.1.258.17 | 0.000104 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.320 | 0.001245 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | B.1.351 | 0.00003 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | B.1.416.1 | 0.001563 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | B.1.427 | 0.00005 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.429 | 0.000024 |
ORF7a | 68 | P68P | ccT | ccG | 1 | 1 | B.1.497 | 0.000315 |
ORF7a | 68 | P68P | ccT | ccA | 1 | 1 | B.1.551 | 0.00129 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.574 | 0.002151 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.582 | 0.000491 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | B.1.595 | 0.000261 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | C.16 | 0.00106 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | C.37 | 0.000116 |
ORF7a | 68 | P68P | ccT | ccC | 1 | 1 | D.2 | 0.000075 |
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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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