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/nsp3 | 287 | L287L | L1105L | syn | ttA | ttG | 395 | 249 | 0.63038 | 3578-3580 |
ORF1ab/nsp3 | 287 | L287L | L1105L | syn | Tta | Cta | 395 | 144 | 0.364557 | 3578-3580 |
ORF1ab/nsp3 | 287 | L287L | L1105L | syn | TtA | CtT | 395 | 1 | 0.00253165 | 3578-3580 |
ORF1ab/nsp3 | 287 | L287L | L1105L | syn | TtA | CtC | 395 | 1 | 0.00253165 | 3578-3580 |
Details of the mutation L287L 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/nsp3 | 287 | L287L | ttA | ttG | 249 | 395 | All | 0.000048 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 144 | 395 | All | 0.000028 |
ORF1ab/nsp3 | 287 | L287L | TtA | CtT | 1 | 395 | All | 0 |
ORF1ab/nsp3 | 287 | L287L | TtA | CtC | 1 | 395 | All | 0 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 92 | 92 | B.1.571 | 0.893204 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 44 | 47 | AY.103 | 0.000273 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 3 | 47 | AY.103 | 0.000019 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 41 | 46 | B.1 | 0.000376 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 5 | 46 | B.1 | 0.000046 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 22 | 31 | B.1.1.7 | 0.00002 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 9 | 31 | B.1.1.7 | 0.000008 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 30 | 30 | AY.47 | 0.000933 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 17 | 20 | AY.4 | 0.000026 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 3 | 20 | AY.4 | 0.000005 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 12 | 13 | B.1.243 | 0.000835 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 13 | B.1.243 | 0.00007 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 9 | 11 | B.1.617.2 | 0.000034 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 2 | 11 | B.1.617.2 | 0.000008 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 9 | 10 | P.1 | 0.000142 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 10 | P.1 | 0.000016 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 7 | 7 | B.1.240 | 0.001509 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 3 | 5 | AY.102 | 0.00008 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 2 | 5 | AY.102 | 0.000053 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 5 | 5 | AY.43 | 0.000022 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 2 | 4 | AY.42 | 0.00008 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 2 | 4 | AY.42 | 0.00008 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 3 | 4 | AY.44 | 0.000018 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 4 | AY.44 | 0.000006 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 4 | 4 | B.1.177.6 | 0.003906 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 4 | 4 | B.1.2 | 0.000035 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 4 | 4 | C.37 | 0.000464 |
ORF1ab/nsp3 | 287 | L287L | TtA | CtC | 1 | 3 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 3 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 3 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 3 | 3 | AY.99.2 | 0.000276 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 3 | 3 | B.1.427 | 0.000151 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 2 | 2 | AY.29 | 0.000032 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 2 | AY.39 | 0.000025 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 2 | AY.39 | 0.000025 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 2 | 2 | AY.61 | 0.00021 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 2 | 2 | AY.86 | 0.00166 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 2 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 2 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 2 | 2 | B.1.1.37 | 0.000386 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 2 | 2 | B.1.399 | 0.003868 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 2 | 2 | B.1.416 | 0.002538 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 2 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 287 | L287L | TtA | CtT | 1 | 2 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 2 | 2 | P.1.14 | 0.000096 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | AY.3 | 0.00001 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | AY.59 | 0.00053 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | AY.94 | 0.000443 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.1.333 | 0.001076 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.1.411 | 0.014706 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | B.1.177.75 | 0.001041 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.214.2 | 0.0006 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.409 | 0.000781 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 287 | L287L | ttA | ttG | 1 | 1 | B.1.558 | 0.004566 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | B.4.1 | 0.018868 |
ORF1ab/nsp3 | 287 | L287L | Tta | Cta | 1 | 1 | P.1.16 | 0.000374 |
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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