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 | 169 | P169P | P4561P | syn | ccA | ccG | 1645 | 703 | 0.427356 | 13945-13947 |
ORF1ab/nsp12 | 169 | P169P | P4561P | syn | ccA | ccT | 1645 | 687 | 0.417629 | 13945-13947 |
ORF1ab/nsp12 | 169 | P169P | P4561P | syn | ccA | ccC | 1645 | 255 | 0.155015 | 13945-13947 |
Details of the mutation P169P 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 | 169 | P169P | ccA | ccG | 703 | 1645 | All | 0.000134 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 687 | 1645 | All | 0.000131 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 255 | 1645 | All | 0.000049 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 433 | 526 | B.1.1.7 | 0.000388 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 87 | 526 | B.1.1.7 | 0.000078 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 6 | 526 | B.1.1.7 | 0.000005 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 218 | 378 | AY.4 | 0.000339 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 158 | 378 | AY.4 | 0.000246 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 2 | 378 | AY.4 | 0.000003 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 125 | 126 | AY.100 | 0.005751 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 126 | AY.100 | 0.000046 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 107 | 118 | AY.25 | 0.000644 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 8 | 118 | AY.25 | 0.000048 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 3 | 118 | AY.25 | 0.000018 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 87 | 89 | B.1.1 | 0.001578 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 2 | 89 | B.1.1 | 0.000036 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 63 | 78 | B.1.617.2 | 0.000237 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 11 | 78 | B.1.617.2 | 0.000041 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 4 | 78 | B.1.617.2 | 0.000015 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 69 | 74 | B.1.2 | 0.000608 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 3 | 74 | B.1.2 | 0.000026 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 2 | 74 | B.1.2 | 0.000018 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 39 | 57 | AY.3 | 0.000388 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 18 | 57 | AY.3 | 0.000179 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 14 | 24 | AY.44 | 0.000085 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 7 | 24 | AY.44 | 0.000043 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 3 | 24 | AY.44 | 0.000018 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 14 | 14 | B.1.3 | 0.036649 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 14 | 14 | B.1.409 | 0.010937 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 13 | 13 | Q.8 | 0.002144 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 8 | 11 | B.1.160 | 0.00025 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 3 | 11 | B.1.160 | 0.000094 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 8 | 9 | B.1.429 | 0.000188 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 9 | B.1.429 | 0.000024 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 8 | 8 | AY.118 | 0.000501 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 8 | 8 | AY.29 | 0.000126 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 6 | 7 | AY.42 | 0.000241 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 7 | AY.42 | 0.00004 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 6 | 6 | B.1 | 0.000055 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 4 | 5 | AY.43 | 0.000018 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 5 | AY.43 | 0.000004 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 4 | 4 | AY.16 | 0.001519 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 4 | 4 | AY.33 | 0.000267 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 4 | 4 | AY.4.2 | 0.000087 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 4 | 4 | AY.61 | 0.000419 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 4 | 4 | B.1.408 | 0.01476 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 2 | 3 | AY.103 | 0.000012 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 3 | AY.103 | 0.000006 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 2 | 3 | AY.20 | 0.000078 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 3 | AY.20 | 0.000039 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 2 | 3 | AY.39.1 | 0.000079 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 3 | AY.39.1 | 0.00004 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 3 | 3 | AY.99.2 | 0.000276 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 2 | 0.055556 | |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 2 | 0.055556 | |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 2 | AY.23 | 0.00007 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 2 | AY.23 | 0.00007 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 2 | B.1.36 | 0.000146 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 2 | B.1.36 | 0.000146 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | AY.8 | 0.000606 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | B.1.1.433 | 0.001425 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | B.1.210 | 0.002132 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccC | 1 | 1 | B.1.221.3 | 0.000833 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | B.1.340 | 0.004292 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | B.1.351.2 | 0.000303 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | B.1.576 | 0.000907 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | B.1.606 | 0.006024 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccT | 1 | 1 | B.1.620 | 0.000946 |
ORF1ab/nsp12 | 169 | P169P | ccA | ccG | 1 | 1 | B.53 | 0.011765 |
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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