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/nsp1 | 75 | D75N | D75N | nonsyn | Gat | Aat | 739 | 735 | 0.994587 | 488-490 |
Details of the mutation no 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/nsp1 | 75 | D75N | Gat | Aat | 735 | 739 | All | 0.000141 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 215 | 215 | B.1.1.7 | 0.000192 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 83 | 83 | AY.4 | 0.000129 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 47 | 47 | B.1.626 | 0.268571 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 46 | 46 | B.1.258.17 | 0.004783 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 43 | 43 | B.1.617.2 | 0.000162 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 23 | 23 | B.1.305 | 0.049462 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 17 | 17 | AY.44 | 0.000103 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 16 | 16 | AY.46.4 | 0.002632 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 14 | 14 | AY.25 | 0.000084 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 14 | 14 | AY.71 | 0.006651 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 13 | 13 | AY.103 | 0.000081 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 12 | 12 | AY.3 | 0.000119 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 10 | 10 | AY.43 | 0.000044 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 8 | 9 | B.1.1 | 0.000145 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 6 | 8 | B.1 | 0.000055 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 8 | 8 | B.1.621.1 | 0.004047 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 8 | 8 | P.1 | 0.000126 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 7 | 7 | B.1.526 | 0.000165 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 7 | 7 | P.2 | 0.001306 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 6 | 6 | AY.36 | 0.000889 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 5 | 5 | AY.14 | 0.00044 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 5 | 5 | B.1.177 | 0.000066 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 5 | 5 | B.1.427 | 0.000252 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 5 | 5 | P.1.1 | 0.001588 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 4 | 4 | AY.120 | 0.000149 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 4 | 4 | AY.26 | 0.000113 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 4 | 4 | AY.4.2 | 0.000087 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 4 | 4 | B.1.2 | 0.000035 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 4 | 4 | B.1.619 | 0.003484 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 4 | 4 | W.3 | 0.021053 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | AY.3.1 | 0.000256 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | AY.84 | 0.001312 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | B.1.1.266 | 0.036585 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | B.1.1.277 | 0.002276 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | B.1.1.519 | 0.000119 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | B.1.177.4 | 0.000633 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | B.1.258 | 0.0002 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | B.1.621 | 0.000266 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 3 | 3 | Q.8 | 0.000495 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | AY.23 | 0.000139 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | AY.75 | 0.000112 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | B.1.1.222 | 0.000408 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | B.1.1.63 | 0.000772 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | B.1.429 | 0.000047 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | B.1.438.1 | 0.000215 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | B.40 | 0.000729 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | C.23 | 0.011628 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 2 | 2 | C.37 | 0.000232 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.4.4 | 0.000409 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.46.2 | 0.000635 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.1.121 | 0.002427 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.1.298 | 0.000862 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.1.420 | 0.001006 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.177.18 | 0.00116 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.177.60 | 0.000218 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.177.7 | 0.000165 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.177.9 | 0.001332 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.212 | 0.016667 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.397 | 0.004854 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.426 | 0.001009 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | C.36.3 | 0.000567 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp1 | 75 | D75N | Gat | Aat | 1 | 1 | P.3 | 0.001595 |
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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