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 | 1084 | D1084Y | nonsyn | Gat | Tat | 2254 | 2250 | 0.998225 | 24812-24814 |
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 | 1084 | D1084Y | Gat | Tat | 2250 | 2254 | All | 0.00043 |
S | 1084 | D1084Y | Gat | Tat | 694 | 694 | B.1.1.269 | 0.939107 |
S | 1084 | D1084Y | Gat | Tat | 384 | 384 | B.1.1.7 | 0.000344 |
S | 1084 | D1084Y | Gat | Tat | 78 | 78 | B.1.617.2 | 0.000294 |
S | 1084 | D1084Y | Gat | Tat | 76 | 76 | AY.26 | 0.002152 |
S | 1084 | D1084Y | Gat | Tat | 73 | 73 | AY.4 | 0.000114 |
S | 1084 | D1084Y | Gat | Tat | 69 | 69 | AY.43 | 0.000306 |
S | 1084 | D1084Y | Gat | Tat | 65 | 65 | P.1 | 0.001024 |
S | 1084 | D1084Y | Gat | Tat | 53 | 53 | A.15 | 0.84127 |
S | 1084 | D1084Y | Gat | Tat | 48 | 52 | B.1.1 | 0.000871 |
S | 1084 | D1084Y | Gat | Tat | 46 | 46 | B.1.326 | 0.348485 |
S | 1084 | D1084Y | Gat | Tat | 45 | 45 | B.1 | 0.000412 |
S | 1084 | D1084Y | Gat | Tat | 41 | 41 | AY.44 | 0.00025 |
S | 1084 | D1084Y | Gat | Tat | 40 | 40 | B.1.595 | 0.010438 |
S | 1084 | D1084Y | Gat | Tat | 35 | 35 | B.1.160 | 0.001092 |
S | 1084 | D1084Y | Gat | Tat | 34 | 34 | AY.3 | 0.000338 |
S | 1084 | D1084Y | Gat | Tat | 32 | 32 | B.1.177 | 0.000421 |
S | 1084 | D1084Y | Gat | Tat | 24 | 24 | AY.103 | 0.000149 |
S | 1084 | D1084Y | Gat | Tat | 22 | 22 | B.1.526 | 0.000517 |
S | 1084 | D1084Y | Gat | Tat | 20 | 20 | AY.25 | 0.00012 |
S | 1084 | D1084Y | Gat | Tat | 19 | 19 | AY.102 | 0.000504 |
S | 1084 | D1084Y | Gat | Tat | 19 | 19 | AY.47 | 0.000591 |
S | 1084 | D1084Y | Gat | Tat | 18 | 18 | AY.37 | 0.005689 |
S | 1084 | D1084Y | Gat | Tat | 17 | 17 | B.1.234 | 0.002243 |
S | 1084 | D1084Y | Gat | Tat | 15 | 15 | AY.20 | 0.000583 |
S | 1084 | D1084Y | Gat | Tat | 15 | 15 | B.1.2 | 0.000132 |
S | 1084 | D1084Y | Gat | Tat | 12 | 12 | B.1.623 | 0.006438 |
S | 1084 | D1084Y | Gat | Tat | 11 | 11 | AY.42 | 0.000443 |
S | 1084 | D1084Y | Gat | Tat | 11 | 11 | AY.98.1 | 0.000533 |
S | 1084 | D1084Y | Gat | Tat | 10 | 10 | AY.39 | 0.000247 |
S | 1084 | D1084Y | Gat | Tat | 10 | 10 | B.1.1.319 | 0.175439 |
S | 1084 | D1084Y | Gat | Tat | 9 | 9 | B.1.1.416 | 0.008145 |
S | 1084 | D1084Y | Gat | Tat | 8 | 8 | AY.33 | 0.000534 |
S | 1084 | D1084Y | Gat | Tat | 7 | 7 | AY.13 | 0.001127 |
S | 1084 | D1084Y | Gat | Tat | 7 | 7 | B.1.351 | 0.000208 |
S | 1084 | D1084Y | Gat | Tat | 7 | 7 | B.1.625 | 0.016471 |
S | 1084 | D1084Y | Gat | Tat | 7 | 7 | B.4 | 0.015453 |
S | 1084 | D1084Y | Gat | Tat | 6 | 6 | AY.113 | 0.000854 |
S | 1084 | D1084Y | Gat | Tat | 6 | 6 | AY.9 | 0.000406 |
S | 1084 | D1084Y | Gat | Tat | 6 | 6 | C.9 | 0.181818 |
S | 1084 | D1084Y | Gat | Tat | 5 | 5 | AY.61 | 0.000524 |
S | 1084 | D1084Y | Gat | Tat | 5 | 5 | AY.9.1 | 0.000419 |
S | 1084 | D1084Y | Gat | Tat | 5 | 5 | B.1.1.519 | 0.000199 |
S | 1084 | D1084Y | Gat | Tat | 5 | 5 | B.1.36 | 0.00073 |
S | 1084 | D1084Y | Gat | Tat | 5 | 5 | B.6 | 0.00455 |
S | 1084 | D1084Y | Gat | Tat | 4 | 4 | B.1.617.1 | 0.000516 |
S | 1084 | D1084Y | Gat | Tat | 4 | 4 | Q.1 | 0.000505 |
S | 1084 | D1084Y | Gat | Tat | 4 | 4 | Q.8 | 0.00066 |
S | 1084 | D1084Y | Gat | Tat | 3 | 3 | A.2.5 | 0.001497 |
S | 1084 | D1084Y | Gat | Tat | 3 | 3 | A.23.1 | 0.002113 |
S | 1084 | D1084Y | Gat | Tat | 3 | 3 | AY.119 | 0.000106 |
S | 1084 | D1084Y | Gat | Tat | 3 | 3 | AY.34 | 0.000291 |
S | 1084 | D1084Y | Gat | Tat | 3 | 3 | AY.46.5 | 0.000595 |
S | 1084 | D1084Y | Gat | Tat | 3 | 3 | B.1.232 | 0.001612 |
S | 1084 | D1084Y | Gat | Tat | 3 | 3 | B.1.243 | 0.000209 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | A.5 | 0.003846 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.121 | 0.000271 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.35 | 0.000466 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.4.2 | 0.000043 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.5 | 0.000041 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.5.4 | 0.000553 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.75.1 | 0.000361 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.84 | 0.000875 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.85 | 0.000854 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.88 | 0.001768 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | AY.94 | 0.000885 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | B.1.1.25 | 0.001137 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | B.1.561 | 0.000794 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | B.1.621.1 | 0.001012 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | C.1 | 0.004785 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | C.29 | 0.125 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | C.37 | 0.000232 |
S | 1084 | D1084Y | Gat | Tat | 2 | 2 | P.1.12 | 0.000968 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | A.2.2 | 0.001689 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.105 | 0.000643 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.106 | 0.000335 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.108 | 0.001103 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.12 | 0.000316 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.120.1 | 0.000321 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.16.1 | 0.00047 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.32 | 0.000532 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.36 | 0.000148 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.40 | 0.000964 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.46 | 0.000104 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.46.6 | 0.000072 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.5.3 | 0.000337 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.55 | 0.000917 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.7.2 | 0.000559 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | AY.97 | 0.001701 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B | 0.000128 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.1.214 | 0.000055 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.1.273 | 0.006757 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.1.311 | 0.000358 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.1.348 | 0.000796 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.1.354 | 0.004386 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.1.372 | 0.000689 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.1.378 | 0.007299 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.1.411 | 0.014706 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.177.33 | 0.001645 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.177.4 | 0.000211 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.177.51 | 0.004566 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.177.6 | 0.000977 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.177.75 | 0.001041 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.189 | 0.004292 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.258 | 0.000067 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.260 | 0.003344 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.320 | 0.001245 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.351.2 | 0.000303 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.36.18 | 0.00042 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.369 | 0.000285 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.426 | 0.001009 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.429 | 0.000024 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.456 | 0.003268 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.503 | 0.002488 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.544 | 0.006024 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.560 | 0.00463 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.564.1 | 0.001577 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.596 | 0.000087 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.609 | 0.000479 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.621 | 0.000089 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | B.1.9 | 0.006173 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | C.16 | 0.00106 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | D.2 | 0.000075 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | P.1.1 | 0.000318 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | P.1.14 | 0.000048 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | P.1.15 | 0.000232 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | P.2 | 0.000187 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | Q.3 | 0.000145 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | R.1 | 0.00009 |
S | 1084 | D1084Y | Gat | Tat | 1 | 1 | R.2 | 0.014493 |
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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