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 |
S | 658 | N658N | syn | aaC | aaT | 1430 | 1430 | 1 | 23534-23536 |
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 |
S | 658 | N658N | aaC | aaT | 1430 | 1430 | All | 0.000274 |
S | 658 | N658N | aaC | aaT | 311 | 311 | P.1.14 | 0.014866 |
S | 658 | N658N | aaC | aaT | 174 | 174 | B.1.2 | 0.001532 |
S | 658 | N658N | aaC | aaT | 74 | 74 | AY.103 | 0.000459 |
S | 658 | N658N | aaC | aaT | 65 | 65 | AY.4 | 0.000101 |
S | 658 | N658N | aaC | aaT | 50 | 50 | B.1.591 | 0.531915 |
S | 658 | N658N | aaC | aaT | 48 | 48 | B.1.1.7 | 0.000043 |
S | 658 | N658N | aaC | aaT | 47 | 47 | AY.25 | 0.000283 |
S | 658 | N658N | aaC | aaT | 47 | 47 | B.1 | 0.00043 |
S | 658 | N658N | aaC | aaT | 46 | 46 | B.1.1 | 0.000834 |
S | 658 | N658N | aaC | aaT | 40 | 40 | B.1.429 | 0.000941 |
S | 658 | N658N | aaC | aaT | 36 | 36 | AY.20 | 0.001399 |
S | 658 | N658N | aaC | aaT | 29 | 29 | P.1 | 0.000457 |
S | 658 | N658N | aaC | aaT | 25 | 25 | B.1.427 | 0.001262 |
S | 658 | N658N | aaC | aaT | 23 | 23 | B.1.617.2 | 0.000087 |
S | 658 | N658N | aaC | aaT | 19 | 19 | AY.113 | 0.002705 |
S | 658 | N658N | aaC | aaT | 18 | 18 | B.1.523 | 0.044118 |
S | 658 | N658N | aaC | aaT | 17 | 17 | B.1.438.1 | 0.001823 |
S | 658 | N658N | aaC | aaT | 16 | 16 | B.1.177 | 0.000211 |
S | 658 | N658N | aaC | aaT | 15 | 15 | AY.45 | 0.001825 |
S | 658 | N658N | aaC | aaT | 13 | 13 | AY.120 | 0.000483 |
S | 658 | N658N | aaC | aaT | 13 | 13 | B.1.234 | 0.001715 |
S | 658 | N658N | aaC | aaT | 13 | 13 | B.1.243 | 0.000905 |
S | 658 | N658N | aaC | aaT | 13 | 13 | B.1.593 | 0.141304 |
S | 658 | N658N | aaC | aaT | 12 | 12 | A.26 | 0.923077 |
S | 658 | N658N | aaC | aaT | 12 | 12 | B.1.177.87 | 0.008734 |
S | 658 | N658N | aaC | aaT | 10 | 10 | AY.43 | 0.000044 |
S | 658 | N658N | aaC | aaT | 10 | 10 | AY.44 | 0.000061 |
S | 658 | N658N | aaC | aaT | 9 | 9 | AY.3 | 0.00009 |
S | 658 | N658N | aaC | aaT | 8 | 8 | B.1.1.432 | 0.010127 |
S | 658 | N658N | aaC | aaT | 8 | 8 | B.1.1.519 | 0.000318 |
S | 658 | N658N | aaC | aaT | 8 | 8 | B.1.177.44 | 0.004152 |
S | 658 | N658N | aaC | aaT | 8 | 8 | B.1.221 | 0.000568 |
S | 658 | N658N | aaC | aaT | 8 | 8 | B.1.241 | 0.006494 |
S | 658 | N658N | aaC | aaT | 8 | 8 | R.1 | 0.00072 |
S | 658 | N658N | aaC | aaT | 7 | 7 | AY.33 | 0.000467 |
S | 658 | N658N | aaC | aaT | 7 | 7 | B.1.596 | 0.00061 |
S | 658 | N658N | aaC | aaT | 6 | 6 | B.1.177.81 | 0.001136 |
S | 658 | N658N | aaC | aaT | 6 | 6 | B.1.404 | 0.007812 |
S | 658 | N658N | aaC | aaT | 5 | 5 | AY.47 | 0.000156 |
S | 658 | N658N | aaC | aaT | 5 | 5 | B.1.1.171 | 0.018382 |
S | 658 | N658N | aaC | aaT | 5 | 5 | B.1.258.14 | 0.004902 |
S | 658 | N658N | aaC | aaT | 5 | 5 | B.6 | 0.00455 |
S | 658 | N658N | aaC | aaT | 5 | 5 | P.2 | 0.000933 |
S | 658 | N658N | aaC | aaT | 4 | 4 | AY.29 | 0.000063 |
S | 658 | N658N | aaC | aaT | 4 | 4 | B.1.1.25 | 0.002274 |
S | 658 | N658N | aaC | aaT | 3 | 3 | AY.10 | 0.00159 |
S | 658 | N658N | aaC | aaT | 3 | 3 | AY.100 | 0.000138 |
S | 658 | N658N | aaC | aaT | 3 | 3 | AY.116 | 0.00086 |
S | 658 | N658N | aaC | aaT | 3 | 3 | AY.119 | 0.000106 |
S | 658 | N658N | aaC | aaT | 3 | 3 | AY.26 | 0.000085 |
S | 658 | N658N | aaC | aaT | 3 | 3 | B.1.1.39 | 0.001529 |
S | 658 | N658N | aaC | aaT | 3 | 3 | B.1.160 | 0.000094 |
S | 658 | N658N | aaC | aaT | 3 | 3 | B.1.526 | 0.000071 |
S | 658 | N658N | aaC | aaT | 3 | 3 | B.1.541 | 0.013274 |
S | 658 | N658N | aaC | aaT | 3 | 3 | B.1.561 | 0.001191 |
S | 658 | N658N | aaC | aaT | 3 | 3 | B.1.9.5 | 0.017045 |
S | 658 | N658N | aaC | aaT | 2 | 2 | A | 0.000774 |
S | 658 | N658N | aaC | aaT | 2 | 2 | AY.39 | 0.000049 |
S | 658 | N658N | aaC | aaT | 2 | 2 | AY.46.4 | 0.000329 |
S | 658 | N658N | aaC | aaT | 2 | 2 | AY.75 | 0.000112 |
S | 658 | N658N | aaC | aaT | 2 | 2 | AY.9 | 0.000135 |
S | 658 | N658N | aaC | aaT | 2 | 2 | B | 0.000256 |
S | 658 | N658N | aaC | aaT | 2 | 2 | B.1.1.214 | 0.000111 |
S | 658 | N658N | aaC | aaT | 2 | 2 | B.1.1.448 | 0.004065 |
S | 658 | N658N | aaC | aaT | 2 | 2 | B.1.157 | 0.00597 |
S | 658 | N658N | aaC | aaT | 2 | 2 | B.1.177.86 | 0.000367 |
S | 658 | N658N | aaC | aaT | 2 | 2 | B.1.311 | 0.000549 |
S | 658 | N658N | aaC | aaT | 2 | 2 | B.1.595 | 0.000522 |
S | 658 | N658N | aaC | aaT | 2 | 2 | C.26 | 0.014706 |
S | 658 | N658N | aaC | aaT | 2 | 2 | C.37 | 0.000232 |
S | 658 | N658N | aaC | aaT | 2 | 2 | P.1.15 | 0.000465 |
S | 658 | N658N | aaC | aaT | 2 | 2 | Q.8 | 0.00033 |
S | 658 | N658N | aaC | aaT | 1 | 1 | AY.108 | 0.001103 |
S | 658 | N658N | aaC | aaT | 1 | 1 | AY.118 | 0.000063 |
S | 658 | N658N | aaC | aaT | 1 | 1 | AY.121 | 0.000135 |
S | 658 | N658N | aaC | aaT | 1 | 1 | AY.38 | 0.000499 |
S | 658 | N658N | aaC | aaT | 1 | 1 | AY.39.1 | 0.00004 |
S | 658 | N658N | aaC | aaT | 1 | 1 | AY.5.3 | 0.000337 |
S | 658 | N658N | aaC | aaT | 1 | 1 | AY.54 | 0.000095 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.187 | 0.00885 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.232 | 0.001815 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.298 | 0.000862 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.3 | 0.008696 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.310 | 0.015152 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.33 | 0.000421 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.372 | 0.000689 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.410 | 0.037037 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.420 | 0.001006 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.1.61 | 0.008772 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.128 | 0.000635 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.13 | 0.002375 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.177.24 | 0.001295 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.177.54 | 0.000606 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.177.60 | 0.000218 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.177.77 | 0.000726 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.240 | 0.000216 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.258 | 0.000067 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.258.7 | 0.001912 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.260 | 0.003344 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.340 | 0.004292 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.351 | 0.00003 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.351.2 | 0.000303 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.359 | 0.022727 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.36 | 0.000146 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.36.28 | 0.005747 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.380 | 0.006623 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.408 | 0.00369 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.466.2 | 0.000391 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.470 | 0.001404 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.502 | 0.052632 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.525 | 0.000113 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.527 | 0.003704 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.533 | 0.009615 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.564 | 0.000426 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.609 | 0.000479 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.617.1 | 0.000129 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.1.623 | 0.000536 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.40 | 0.000364 |
S | 658 | N658N | aaC | aaT | 1 | 1 | B.58 | 0.010204 |
S | 658 | N658N | aaC | aaT | 1 | 1 | D.2 | 0.000075 |
S | 658 | N658N | aaC | aaT | 1 | 1 | N.5 | 0.001767 |
S | 658 | N658N | aaC | aaT | 1 | 1 | P.1.10 | 0.000269 |
S | 658 | N658N | aaC | aaT | 1 | 1 | P.1.12 | 0.000484 |
S | 658 | N658N | aaC | aaT | 1 | 1 | P.1.2 | 0.001156 |
S | 658 | N658N | aaC | aaT | 1 | 1 | Q.4 | 0.000455 |
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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