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 |
S | 1147 | S1147S | syn | tcA | tcG | 31143 | 30795 | 0.988826 | 25001-25003 | |
S | 1147 | S1147S | syn | tcA | tcT | 31143 | 304 | 0.00976142 | 25001-25003 | |
S | 1147 | S1147S | syn | tcA | tcC | 31143 | 44 | 0.00141284 | 25001-25003 |
Details of the mutation S1147S 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 |
S | 1147 | S1147S | tcA | tcG | 30795 | 31143 | All | 0.00589 |
S | 1147 | S1147S | tcA | tcT | 304 | 31143 | All | 0.000058 |
S | 1147 | S1147S | tcA | tcC | 44 | 31143 | All | 0.000008 |
S | 1147 | S1147S | tcA | tcG | 24054 | 24083 | AY.120 | 0.8943 |
S | 1147 | S1147S | tcA | tcT | 16 | 24083 | AY.120 | 0.000595 |
S | 1147 | S1147S | tcA | tcC | 13 | 24083 | AY.120 | 0.000483 |
S | 1147 | S1147S | tcA | tcG | 3016 | 3016 | AY.120.1 | 0.968218 |
S | 1147 | S1147S | tcA | tcG | 1995 | 2005 | AY.120.2.1 | 0.994021 |
S | 1147 | S1147S | tcA | tcT | 10 | 2005 | AY.120.2.1 | 0.004983 |
S | 1147 | S1147S | tcA | tcG | 774 | 774 | AY.120.2 | 0.994859 |
S | 1147 | S1147S | tcA | tcG | 387 | 414 | B.1.617.2 | 0.001457 |
S | 1147 | S1147S | tcA | tcT | 19 | 414 | B.1.617.2 | 0.000072 |
S | 1147 | S1147S | tcA | tcC | 8 | 414 | B.1.617.2 | 0.00003 |
S | 1147 | S1147S | tcA | tcG | 174 | 180 | AY.4 | 0.000271 |
S | 1147 | S1147S | tcA | tcT | 6 | 180 | AY.4 | 0.000009 |
S | 1147 | S1147S | tcA | tcT | 134 | 134 | B.1.258.17 | 0.013932 |
S | 1147 | S1147S | tcA | tcG | 113 | 130 | B.1.1.7 | 0.000101 |
S | 1147 | S1147S | tcA | tcT | 16 | 130 | B.1.1.7 | 0.000014 |
S | 1147 | S1147S | tcA | tcC | 1 | 130 | B.1.1.7 | 0.000001 |
S | 1147 | S1147S | tcA | tcG | 53 | 55 | B.1.1 | 0.000961 |
S | 1147 | S1147S | tcA | tcT | 1 | 55 | B.1.1 | 0.000018 |
S | 1147 | S1147S | tcA | tcC | 1 | 55 | B.1.1 | 0.000018 |
S | 1147 | S1147S | tcA | tcG | 52 | 52 | B.1.1.467 | 1 |
S | 1147 | S1147S | tcA | tcG | 18 | 29 | AY.103 | 0.000112 |
S | 1147 | S1147S | tcA | tcT | 11 | 29 | AY.103 | 0.000068 |
S | 1147 | S1147S | tcA | tcG | 17 | 25 | AY.44 | 0.000103 |
S | 1147 | S1147S | tcA | tcT | 8 | 25 | AY.44 | 0.000049 |
S | 1147 | S1147S | tcA | tcT | 11 | 22 | AY.43 | 0.000049 |
S | 1147 | S1147S | tcA | tcG | 10 | 22 | AY.43 | 0.000044 |
S | 1147 | S1147S | tcA | tcC | 1 | 22 | AY.43 | 0.000004 |
S | 1147 | S1147S | tcA | tcG | 18 | 18 | AY.102 | 0.000477 |
S | 1147 | S1147S | tcA | tcG | 17 | 17 | B.1.1.51 | 0.02921 |
S | 1147 | S1147S | tcA | tcT | 12 | 13 | AY.25 | 0.000072 |
S | 1147 | S1147S | tcA | tcG | 1 | 13 | AY.25 | 0.000006 |
S | 1147 | S1147S | tcA | tcG | 13 | 13 | AY.4.5 | 0.001397 |
S | 1147 | S1147S | tcA | tcT | 10 | 10 | AY.10 | 0.005299 |
S | 1147 | S1147S | tcA | tcG | 6 | 9 | AY.39 | 0.000148 |
S | 1147 | S1147S | tcA | tcT | 3 | 9 | AY.39 | 0.000074 |
S | 1147 | S1147S | tcA | tcG | 9 | 9 | AY.46 | 0.000937 |
S | 1147 | S1147S | tcA | tcG | 8 | 8 | B.1.160 | 0.00025 |
S | 1147 | S1147S | tcA | tcG | 7 | 7 | AY.106 | 0.002344 |
S | 1147 | S1147S | tcA | tcC | 7 | 7 | AY.69 | 0.001307 |
S | 1147 | S1147S | tcA | tcT | 3 | 7 | B.1 | 0.000027 |
S | 1147 | S1147S | tcA | tcG | 2 | 7 | B.1 | 0.000018 |
S | 1147 | S1147S | tcA | tcC | 2 | 7 | B.1 | 0.000018 |
S | 1147 | S1147S | tcA | tcT | 4 | 6 | AY.4.2 | 0.000087 |
S | 1147 | S1147S | tcA | tcG | 2 | 6 | AY.4.2 | 0.000043 |
S | 1147 | S1147S | tcA | tcG | 6 | 6 | AY.99.2 | 0.000553 |
S | 1147 | S1147S | tcA | tcT | 3 | 5 | 0.166667 | |
S | 1147 | S1147S | tcA | tcG | 1 | 5 | 0.055556 | |
S | 1147 | S1147S | tcA | tcC | 1 | 5 | 0.055556 | |
S | 1147 | S1147S | tcA | tcT | 4 | 5 | AY.118 | 0.000251 |
S | 1147 | S1147S | tcA | tcG | 1 | 5 | AY.118 | 0.000063 |
S | 1147 | S1147S | tcA | tcC | 3 | 5 | AY.3 | 0.00003 |
S | 1147 | S1147S | tcA | tcT | 2 | 5 | AY.3 | 0.00002 |
S | 1147 | S1147S | tcA | tcG | 5 | 5 | AY.46.1 | 0.005133 |
S | 1147 | S1147S | tcA | tcG | 2 | 4 | P.1 | 0.000032 |
S | 1147 | S1147S | tcA | tcT | 2 | 4 | P.1 | 0.000032 |
S | 1147 | S1147S | tcA | tcG | 3 | 3 | AY.23 | 0.000209 |
S | 1147 | S1147S | tcA | tcG | 3 | 3 | AY.54 | 0.000286 |
S | 1147 | S1147S | tcA | tcT | 2 | 3 | B.1.221 | 0.000142 |
S | 1147 | S1147S | tcA | tcC | 1 | 3 | B.1.221 | 0.000071 |
S | 1147 | S1147S | tcA | tcG | 2 | 3 | B.1.36 | 0.000292 |
S | 1147 | S1147S | tcA | tcT | 1 | 3 | B.1.36 | 0.000146 |
S | 1147 | S1147S | tcA | tcT | 3 | 3 | B.1.525 | 0.000339 |
S | 1147 | S1147S | tcA | tcG | 3 | 3 | B.1.621 | 0.000266 |
S | 1147 | S1147S | tcA | tcG | 2 | 2 | AY.110 | 0.000225 |
S | 1147 | S1147S | tcA | tcG | 1 | 2 | AY.117 | 0.000085 |
S | 1147 | S1147S | tcA | tcT | 1 | 2 | AY.117 | 0.000085 |
S | 1147 | S1147S | tcA | tcC | 2 | 2 | AY.14 | 0.000176 |
S | 1147 | S1147S | tcA | tcG | 1 | 2 | AY.33 | 0.000067 |
S | 1147 | S1147S | tcA | tcT | 1 | 2 | AY.33 | 0.000067 |
S | 1147 | S1147S | tcA | tcT | 1 | 2 | AY.47 | 0.000031 |
S | 1147 | S1147S | tcA | tcG | 1 | 2 | AY.47 | 0.000031 |
S | 1147 | S1147S | tcA | tcG | 2 | 2 | AY.5 | 0.000041 |
S | 1147 | S1147S | tcA | tcT | 2 | 2 | AY.75.1 | 0.000361 |
S | 1147 | S1147S | tcA | tcT | 2 | 2 | AY.9.1 | 0.000167 |
S | 1147 | S1147S | tcA | tcC | 2 | 2 | B.1.177 | 0.000026 |
S | 1147 | S1147S | tcA | tcT | 1 | 2 | B.1.2 | 0.000009 |
S | 1147 | S1147S | tcA | tcG | 1 | 2 | B.1.2 | 0.000009 |
S | 1147 | S1147S | tcA | tcT | 2 | 2 | B.1.258 | 0.000133 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | A.2.5 | 0.000499 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | A.23.1 | 0.000704 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | AY.116 | 0.000287 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | AY.119 | 0.000035 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | AY.20 | 0.000039 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | AY.29 | 0.000016 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | AY.45 | 0.000122 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | AY.5.4 | 0.000277 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | AY.6 | 0.000041 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | AY.61 | 0.000105 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | AY.68 | 0.000274 |
S | 1147 | S1147S | tcA | tcC | 1 | 1 | AY.7 | 0.000196 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | AY.82 | 0.001357 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | AY.92 | 0.000287 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | AY.98 | 0.000079 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | B.1.1.351 | 0.002793 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | B.1.1.4 | 0.002976 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | B.1.1.434 | 0.000349 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | B.1.146 | 0.004237 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | B.1.177.10 | 0.000878 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | B.1.177.16 | 0.000664 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | B.1.177.4 | 0.000211 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | B.1.177.73 | 0.000566 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | B.1.258.11 | 0.000396 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | B.1.351 | 0.00003 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | B.1.367 | 0.000792 |
S | 1147 | S1147S | tcA | tcC | 1 | 1 | B.1.499 | 0.00105 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | B.1.526 | 0.000024 |
S | 1147 | S1147S | tcA | tcG | 1 | 1 | B.1.599 | 0.00365 |
S | 1147 | S1147S | tcA | tcT | 1 | 1 | B.1.637 | 0.000073 |
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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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