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 | 1297 | R1297I | R2115I | nonsyn | aGa | aTa | 1308 | 1308 | 1 | 6608-6610 |
Details of the mutation R1297I 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 | 1297 | R1297I | aGa | aTa | 1308 | 1308 | All | 0.00025 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 620 | 620 | B.1.1.523 | 0.96875 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 131 | 131 | B.1.1.7 | 0.000117 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 117 | 117 | C.38 | 0.943548 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 59 | 59 | B.1.617.2 | 0.000222 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 48 | 48 | B.1.604 | 0.827586 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 37 | 37 | AY.4 | 0.000058 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 31 | 31 | A.23.1 | 0.021831 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 23 | 23 | AY.4.5 | 0.002472 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 22 | 22 | B.1.2 | 0.000194 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 19 | 19 | B.1.1 | 0.000345 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 17 | 17 | B.1 | 0.000156 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 16 | 16 | AY.106 | 0.005358 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 9 | 9 | B.1.160 | 0.000281 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 8 | 8 | B.1.525 | 0.000905 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 7 | 7 | AY.3 | 0.00007 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 7 | 7 | AY.43 | 0.000031 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 7 | 7 | B.1.131 | 0.061404 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 6 | 6 | AY.102 | 0.000159 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 6 | 6 | AY.9.2 | 0.00022 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 6 | 6 | B.1.177 | 0.000079 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 5 | 5 | AY.103 | 0.000031 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 5 | 5 | AY.9 | 0.000338 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 5 | 5 | B.1.1.519 | 0.000199 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 4 | 4 | AY.8 | 0.002424 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 4 | 4 | AY.99.2 | 0.000369 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 4 | 4 | C.14 | 0.017316 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | AU.2 | 0.004843 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | AY.1 | 0.000791 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | AY.120 | 0.000074 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | AY.29 | 0.000032 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | AY.44 | 0.000012 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | AY.58 | 0.001815 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.1.294 | 0.002532 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.1.39 | 0.001019 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.160.16 | 0.001859 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.160.20 | 0.017857 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.177.23 | 0.006472 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.177.44 | 0.001038 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.236 | 0.004107 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | C.36.3.1 | 0.005435 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 2 | 2 | P.1.7 | 0.000639 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | A | 0.000387 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | A.2.5.3 | 0.010309 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.110 | 0.000113 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.17 | 0.008197 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.19 | 0.00114 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | AY.87 | 0.000833 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.1.161 | 0.003534 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.1.176 | 0.000439 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.1.398 | 0.003226 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.111 | 0.001175 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.146 | 0.004237 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.160.29 | 0.004219 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.160.31 | 0.008065 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.177.28 | 0.007407 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.177.31 | 0.011494 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.177.43 | 0.001477 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.177.7 | 0.000165 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.36.1 | 0.00114 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.36.35 | 0.002604 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.456 | 0.003268 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.459 | 0.004082 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.568 | 0.001111 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.577 | 0.000687 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.599 | 0.00365 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.636 | 0.006711 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp3 | 1297 | R1297I | aGa | aTa | 1 | 1 | P.2 | 0.000187 |
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
|