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/nsp16 | 22 | L22L | L6820L | syn | ttA | ttG | 9410 | 9285 | 0.986716 | 20722-20724 |
ORF1ab/nsp16 | 22 | L22L | L6820L | syn | Tta | Cta | 9410 | 124 | 0.0131775 | 20722-20724 |
ORF1ab/nsp16 | 22 | L22L | L6820L | syn | TtA | CtG | 9410 | 1 | 0.00010627 | 20722-20724 |
Details of the mutation L22L 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/nsp16 | 22 | L22L | ttA | ttG | 9285 | 9410 | All | 0.001776 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 124 | 9410 | All | 0.000024 |
ORF1ab/nsp16 | 22 | L22L | TtA | CtG | 1 | 9410 | All | 0 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 8693 | 8693 | B.1.525 | 0.983705 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 200 | 201 | B.1 | 0.001832 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 201 | B.1 | 0.000009 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 151 | 162 | B.1.1.7 | 0.000135 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 11 | 162 | B.1.1.7 | 0.00001 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 136 | 137 | B.1.1 | 0.002467 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 137 | B.1.1 | 0.000018 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 26 | 49 | B.1.617.2 | 0.000098 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 23 | 49 | B.1.617.2 | 0.000087 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 26 | 26 | AY.105 | 0.01672 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 10 | 19 | AY.103 | 0.000062 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 9 | 19 | AY.103 | 0.000056 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 14 | 14 | AY.44 | 0.000085 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 13 | 13 | B.1.427 | 0.000656 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 7 | 7 | AY.25 | 0.000042 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 6 | 6 | B.1.2 | 0.000053 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 3 | 5 | AY.4 | 0.000005 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 2 | 5 | AY.4 | 0.000003 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 3 | 4 | AY.3 | 0.00003 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 4 | AY.3 | 0.00001 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 3 | 3 | AY.102 | 0.00008 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 3 | 3 | AY.20 | 0.000117 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 2 | 3 | AY.43 | 0.000009 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 3 | AY.43 | 0.000004 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 3 | 3 | B | 0.000383 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 3 | 3 | B.1.1.318 | 0.000905 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 2 | 3 | B.1.177 | 0.000026 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 3 | B.1.177 | 0.000013 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 2 | 3 | B.1.351 | 0.000059 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 3 | B.1.351 | 0.00003 |
ORF1ab/nsp16 | 22 | L22L | TtA | CtG | 1 | 3 | B.1.416 | 0.001269 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 3 | B.1.416 | 0.001269 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 3 | B.1.416 | 0.001269 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 3 | 3 | B.1.459 | 0.012245 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 2 | AY.75.1 | 0.00018 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 2 | AY.75.1 | 0.00018 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 2 | 2 | AY.9 | 0.000135 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 2 | AY.98 | 0.000079 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 2 | AY.98 | 0.000079 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 2 | 2 | B.1.177.55 | 0.004662 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 2 | B.1.258 | 0.000067 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 2 | B.1.258 | 0.000067 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 2 | B.1.311 | 0.000275 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 2 | B.1.311 | 0.000275 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 2 | 2 | B.1.567 | 0.006667 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 2 | P.1 | 0.000016 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 2 | P.1 | 0.000016 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | 0.055556 | |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | AY.4.4 | 0.000409 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | AY.84 | 0.000437 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | B.1.1.25 | 0.000569 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | B.1.1.54 | 0.003021 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | B.1.258.7 | 0.001912 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | B.1.268 | 0.010417 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | B.1.36.17 | 0.000494 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | B.1.533 | 0.009615 |
ORF1ab/nsp16 | 22 | L22L | ttA | ttG | 1 | 1 | B.1.619 | 0.000871 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | B.1.9.5 | 0.005682 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp16 | 22 | L22L | Tta | Cta | 1 | 1 | Q.8 | 0.000165 |
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
|