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 | 663 | D663D | syn | gaC | gaT | 1506 | 1506 | 1 | 23549-23551 |
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 | 663 | D663D | gaC | gaT | 1506 | 1506 | All | 0.000288 |
S | 663 | D663D | gaC | gaT | 379 | 379 | B.1.448 | 0.994751 |
S | 663 | D663D | gaC | gaT | 270 | 270 | AY.44 | 0.001643 |
S | 663 | D663D | gaC | gaT | 67 | 67 | B.1.2 | 0.00059 |
S | 663 | D663D | gaC | gaT | 62 | 62 | B.1 | 0.000568 |
S | 663 | D663D | gaC | gaT | 59 | 59 | B.1.408 | 0.217712 |
S | 663 | D663D | gaC | gaT | 55 | 55 | B.1.177.87 | 0.040029 |
S | 663 | D663D | gaC | gaT | 54 | 54 | B.1.177 | 0.000711 |
S | 663 | D663D | gaC | gaT | 51 | 51 | B.1.637 | 0.003727 |
S | 663 | D663D | gaC | gaT | 47 | 47 | B.1.617.2 | 0.000177 |
S | 663 | D663D | gaC | gaT | 40 | 40 | C.36.3 | 0.022689 |
S | 663 | D663D | gaC | gaT | 37 | 37 | B.1.221 | 0.002628 |
S | 663 | D663D | gaC | gaT | 33 | 33 | AY.103 | 0.000205 |
S | 663 | D663D | gaC | gaT | 30 | 30 | B.1.1.7 | 0.000027 |
S | 663 | D663D | gaC | gaT | 24 | 24 | B.1.429 | 0.000565 |
S | 663 | D663D | gaC | gaT | 23 | 23 | AY.4 | 0.000036 |
S | 663 | D663D | gaC | gaT | 20 | 20 | P.1 | 0.000315 |
S | 663 | D663D | gaC | gaT | 17 | 17 | AY.25 | 0.000102 |
S | 663 | D663D | gaC | gaT | 16 | 16 | B.1.351 | 0.000476 |
S | 663 | D663D | gaC | gaT | 12 | 12 | P.1.16 | 0.004489 |
S | 663 | D663D | gaC | gaT | 11 | 11 | AY.119 | 0.000388 |
S | 663 | D663D | gaC | gaT | 11 | 11 | B.1.1 | 0.0002 |
S | 663 | D663D | gaC | gaT | 10 | 10 | B.1.36 | 0.001459 |
S | 663 | D663D | gaC | gaT | 9 | 9 | AY.20 | 0.00035 |
S | 663 | D663D | gaC | gaT | 9 | 9 | B.1.160 | 0.000281 |
S | 663 | D663D | gaC | gaT | 9 | 9 | B.1.160.14 | 0.019068 |
S | 663 | D663D | gaC | gaT | 8 | 8 | B.1.258 | 0.000532 |
S | 663 | D663D | gaC | gaT | 8 | 8 | B.1.576 | 0.007253 |
S | 663 | D663D | gaC | gaT | 6 | 6 | B.1.1.241 | 0.012422 |
S | 663 | D663D | gaC | gaT | 5 | 5 | B.1.1.432 | 0.006329 |
S | 663 | D663D | gaC | gaT | 4 | 4 | AY.43 | 0.000018 |
S | 663 | D663D | gaC | gaT | 4 | 4 | B.1.1.362 | 0.022472 |
S | 663 | D663D | gaC | gaT | 4 | 4 | P.1.15 | 0.000929 |
S | 663 | D663D | gaC | gaT | 4 | 4 | P.2 | 0.000747 |
S | 663 | D663D | gaC | gaT | 3 | 3 | AY.9.2 | 0.00011 |
S | 663 | D663D | gaC | gaT | 3 | 3 | B.1.1.326 | 0.005282 |
S | 663 | D663D | gaC | gaT | 3 | 3 | B.1.177.7 | 0.000495 |
S | 663 | D663D | gaC | gaT | 3 | 3 | B.1.596 | 0.000261 |
S | 663 | D663D | gaC | gaT | 3 | 3 | C.37 | 0.000348 |
S | 663 | D663D | gaC | gaT | 2 | 2 | AY.100 | 0.000092 |
S | 663 | D663D | gaC | gaT | 2 | 2 | AY.102 | 0.000053 |
S | 663 | D663D | gaC | gaT | 2 | 2 | AY.118 | 0.000125 |
S | 663 | D663D | gaC | gaT | 2 | 2 | AY.120 | 0.000074 |
S | 663 | D663D | gaC | gaT | 2 | 2 | AY.121 | 0.000271 |
S | 663 | D663D | gaC | gaT | 2 | 2 | AY.39 | 0.000049 |
S | 663 | D663D | gaC | gaT | 2 | 2 | AY.47 | 0.000062 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B | 0.000256 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.1.297 | 0.004474 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.1.306 | 0.000877 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.1.311 | 0.000716 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.1.39 | 0.001019 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.110 | 0.00905 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.177.12 | 0.000303 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.177.46 | 0.001837 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.177.73 | 0.001133 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.177.86 | 0.000367 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.232 | 0.001075 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.265 | 0.002541 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.311 | 0.000549 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.369 | 0.00057 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.427 | 0.000101 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.478 | 0.023529 |
S | 663 | D663D | gaC | gaT | 2 | 2 | B.1.609 | 0.000959 |
S | 663 | D663D | gaC | gaT | 1 | 1 | AD.2 | 0.000219 |
S | 663 | D663D | gaC | gaT | 1 | 1 | AY.113 | 0.000142 |
S | 663 | D663D | gaC | gaT | 1 | 1 | AY.23 | 0.00007 |
S | 663 | D663D | gaC | gaT | 1 | 1 | AY.29 | 0.000016 |
S | 663 | D663D | gaC | gaT | 1 | 1 | AY.55 | 0.000917 |
S | 663 | D663D | gaC | gaT | 1 | 1 | AY.64 | 0.000595 |
S | 663 | D663D | gaC | gaT | 1 | 1 | AY.85 | 0.000427 |
S | 663 | D663D | gaC | gaT | 1 | 1 | AY.87 | 0.000833 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.214 | 0.000055 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.216 | 0.00089 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.222 | 0.000204 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.25 | 0.000569 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.263 | 0.001558 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.28 | 0.000311 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.317 | 0.000412 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.37 | 0.000193 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.425 | 0.045455 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.1.71 | 0.006061 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.140 | 0.018868 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.160.31 | 0.008065 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.177.17 | 0.000821 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.177.21 | 0.000076 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.177.35 | 0.000691 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.177.44 | 0.000519 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.177.54 | 0.000606 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.177.60 | 0.000218 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.177.81 | 0.000189 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.177.82 | 0.000477 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.258.14 | 0.00098 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.258.2 | 0.004505 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.313 | 0.006579 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.325 | 0.006897 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.367 | 0.000792 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.371 | 0.001122 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.438.1 | 0.000107 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.497 | 0.000315 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.595 | 0.000261 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.602 | 0.006536 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.1.617.1 | 0.000129 |
S | 663 | D663D | gaC | gaT | 1 | 1 | B.6 | 0.00091 |
S | 663 | D663D | gaC | gaT | 1 | 1 | D.2 | 0.000075 |
S | 663 | D663D | gaC | gaT | 1 | 1 | P.1.12 | 0.000484 |
S | 663 | D663D | gaC | gaT | 1 | 1 | P.1.14 | 0.000048 |
S | 663 | D663D | gaC | gaT | 1 | 1 | P.1.2 | 0.001156 |
S | 663 | D663D | gaC | gaT | 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
|