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 |
ORF1ab/nsp5A-B | 266 | A266A | A3529A | syn | gcT | gcG | 863 | 457 | 0.529548 | 10850-10852 |
ORF1ab/nsp5A-B | 266 | A266A | A3529A | syn | gcT | gcC | 863 | 342 | 0.396292 | 10850-10852 |
ORF1ab/nsp5A-B | 266 | A266A | A3529A | syn | gcT | gcA | 863 | 64 | 0.0741599 | 10850-10852 |
Details of the mutation A266A 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 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 457 | 863 | All | 0.000087 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 342 | 863 | All | 0.000065 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcA | 64 | 863 | All | 0.000012 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 338 | 338 | AY.3 | 0.003362 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 100 | 100 | B.1.429 | 0.002353 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 62 | 66 | AY.43 | 0.000275 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 4 | 66 | AY.43 | 0.000018 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcA | 59 | 59 | B.1.258.9 | 0.295 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 54 | 55 | AY.4 | 0.000084 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 55 | AY.4 | 0.000002 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 46 | 47 | B.1.617.2 | 0.000173 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 47 | B.1.617.2 | 0.000004 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 37 | 42 | AY.39 | 0.000914 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 5 | 42 | AY.39 | 0.000124 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 21 | 21 | B.1.177.46 | 0.019284 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 10 | 18 | B.1.1.7 | 0.000009 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 5 | 18 | B.1.1.7 | 0.000004 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcA | 3 | 18 | B.1.1.7 | 0.000003 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 8 | 14 | B.1.2 | 0.00007 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 6 | 14 | B.1.2 | 0.000053 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 10 | 10 | C.16 | 0.010604 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 9 | 9 | AY.99 | 0.009444 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 8 | 8 | AY.4.2 | 0.000174 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 6 | 7 | B.1 | 0.000055 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcA | 1 | 7 | B.1 | 0.000009 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 5 | 5 | AY.117 | 0.000423 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 4 | 4 | AY.27 | 0.000259 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 4 | 4 | AY.44 | 0.000024 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 2 | 3 | AY.25 | 0.000012 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 3 | AY.25 | 0.000006 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 3 | 3 | B.1.351 | 0.000089 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 2 | AY.103 | 0.000006 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 2 | AY.103 | 0.000006 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 2 | 2 | AY.116 | 0.000574 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 2 | 2 | B.1.160.16 | 0.001859 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 2 | 2 | B.1.177 | 0.000026 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 2 | 2 | B.1.509 | 0.001732 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | 0.055556 | |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | B | 0.000128 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.1.135 | 0.004695 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.1.176 | 0.000439 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.1.25 | 0.000569 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.1.411 | 0.014706 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.1.61 | 0.008772 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.124 | 0.007812 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcA | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.177.43 | 0.001477 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.236 | 0.002053 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.367 | 0.000792 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | C.39 | 0.018868 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcC | 1 | 1 | P.1 | 0.000016 |
ORF1ab/nsp5A-B | 266 | A266A | gcT | gcG | 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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