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/nsp12 | 844 | V844V | V5236V | syn | gtA | gtG | 4563 | 4390 | 0.962086 | 15970-15972 |
ORF1ab/nsp12 | 844 | V844V | V5236V | syn | gtA | gtT | 4563 | 165 | 0.0361604 | 15970-15972 |
ORF1ab/nsp12 | 844 | V844V | V5236V | syn | gtA | gtC | 4563 | 8 | 0.00175323 | 15970-15972 |
Details of the mutation V844V 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/nsp12 | 844 | V844V | gtA | gtG | 4390 | 4563 | All | 0.00084 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtT | 165 | 4563 | All | 0.000032 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtC | 8 | 4563 | All | 0.000002 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2896 | 2898 | B.1.1.70 | 0.987722 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtT | 2 | 2898 | B.1.1.70 | 0.000682 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 666 | 666 | AP.1 | 1 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 315 | 315 | B.1.617.2 | 0.001186 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtT | 156 | 167 | B.1.1.7 | 0.00014 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 9 | 167 | B.1.1.7 | 0.000008 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtC | 2 | 167 | B.1.1.7 | 0.000002 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 102 | 103 | AY.4 | 0.000159 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtC | 1 | 103 | AY.4 | 0.000002 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 86 | 89 | B.1 | 0.000788 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtC | 3 | 89 | B.1 | 0.000027 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 42 | 42 | B.1.177 | 0.000553 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 34 | 37 | AY.43 | 0.000151 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtT | 3 | 37 | AY.43 | 0.000013 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 37 | 37 | B.1.351 | 0.0011 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 26 | 26 | B.1.1 | 0.000472 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 23 | 23 | AY.44 | 0.00014 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 18 | 18 | AY.39 | 0.000445 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 17 | 17 | B.1.221 | 0.001208 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 8 | 8 | AY.103 | 0.00005 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 8 | 8 | B.1.160.32 | 0.034335 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 8 | 8 | B.1.429 | 0.000188 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 6 | 6 | B.1.177.44 | 0.003114 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 6 | 6 | C.37 | 0.000696 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 5 | 5 | AY.119 | 0.000177 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 5 | 5 | AY.45 | 0.000608 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 4 | 4 | AD.2 | 0.000876 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 4 | 4 | AY.110 | 0.000451 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 4 | 4 | B.1.160 | 0.000125 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 3 | 3 | AY.55 | 0.002752 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 3 | 3 | AY.98 | 0.000237 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 3 | 3 | B | 0.000383 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2 | 2 | AY.25 | 0.000012 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2 | 2 | AY.35 | 0.000466 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2 | 2 | AY.86 | 0.00166 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2 | 2 | B.1.177.73 | 0.001133 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtC | 1 | 2 | B.1.2 | 0.000009 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtT | 1 | 2 | B.1.2 | 0.000009 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 2 | 2 | B.1.526 | 0.000047 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | A | 0.000387 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.105 | 0.000643 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtT | 1 | 1 | AY.11 | 0.001339 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.5.2 | 0.002463 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.82 | 0.001357 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtC | 1 | 1 | AY.84 | 0.000437 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.87 | 0.000833 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.1.433 | 0.001425 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.1.56 | 0.017857 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.139 | 0.000733 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.142 | 0.002899 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.160.26 | 0.002421 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtT | 1 | 1 | B.1.177.20 | 0.001517 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.177.31 | 0.011494 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.236 | 0.002053 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.623 | 0.000536 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | B.1.627 | 0.00202 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtG | 1 | 1 | C.35 | 0.000774 |
ORF1ab/nsp12 | 844 | V844V | gtA | gtT | 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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