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 | 1287 | L1287F | L2105F | nonsyn | Ctt | Ttt | 3267 | 3267 | 1 | 6578-6580 |
Details of the mutation L1287F 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 | 1287 | L1287F | Ctt | Ttt | 3267 | 3267 | All | 0.000625 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1114 | 1114 | B.1.1.7 | 0.000997 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 470 | 470 | AY.41 | 0.138154 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 231 | 231 | AY.43 | 0.001023 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 190 | 190 | B.1.617.2 | 0.000715 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 174 | 174 | B.1.1.205 | 0.64684 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 164 | 164 | AY.4 | 0.000255 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 81 | 81 | AY.44 | 0.000493 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 79 | 79 | B.1.422 | 0.064175 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 69 | 69 | B.1 | 0.000632 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 66 | 66 | AY.4.2 | 0.001431 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 43 | 43 | AY.3 | 0.000428 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 33 | 33 | AY.52 | 0.026873 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 32 | 32 | AY.99.2 | 0.002949 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 31 | 31 | AY.61 | 0.003248 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 28 | 28 | B.1.2 | 0.000247 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 25 | 25 | AY.102 | 0.000663 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 25 | 25 | AY.103 | 0.000155 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 24 | 24 | B.1.596 | 0.002091 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 19 | 19 | AY.23 | 0.001325 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 16 | 16 | AY.110 | 0.001803 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 16 | 16 | P.1 | 0.000252 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 15 | 15 | AY.92 | 0.004309 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 14 | 14 | B.1.1 | 0.000254 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 12 | 12 | B.1.429 | 0.000282 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 11 | 11 | B.1.1.519 | 0.000437 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 11 | 11 | B.1.177 | 0.000145 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 10 | 10 | B.1.1.312 | 0.01912 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 9 | 9 | AY.25 | 0.000054 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 8 | 8 | AY.33 | 0.000534 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 8 | 8 | B.1.160 | 0.00025 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 8 | 8 | B.1.36.22 | 0.009662 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 8 | 8 | B.1.462 | 0.057971 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 7 | 7 | C.37 | 0.000812 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 6 | 6 | AY.117 | 0.000507 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 6 | 6 | AY.39 | 0.000148 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 6 | 6 | B.1.565 | 0.004862 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 5 | 5 | AY.120 | 0.000186 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 5 | 5 | AY.39.1 | 0.000198 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 5 | 5 | AY.47 | 0.000156 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 5 | 5 | AY.62 | 0.002179 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 5 | 5 | B.1.258 | 0.000333 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 5 | 5 | B.1.258.17 | 0.00052 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 5 | 5 | B.1.351 | 0.000149 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 5 | 5 | B.1.526 | 0.000118 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | AY.29 | 0.000063 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | AY.5 | 0.000083 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | AY.68 | 0.001095 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | AY.98.1 | 0.000194 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | B.1.1.220 | 0.007435 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | B.1.36.17 | 0.001976 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | P.1.14 | 0.000191 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | P.2 | 0.000747 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 4 | 4 | Q.4 | 0.001819 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | AY.116 | 0.00086 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | AY.16 | 0.001139 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | AY.6 | 0.000123 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | AY.84 | 0.001312 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | B.1.1.216 | 0.002671 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | B.1.1.380 | 0.029412 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | B.1.243 | 0.000209 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | B.1.617.1 | 0.000387 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | C.36 | 0.002732 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 3 | 3 | P.1.15 | 0.000697 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.101 | 0.000981 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.45 | 0.000243 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.46 | 0.000208 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.46.2 | 0.001271 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.46.6 | 0.000144 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.5.3 | 0.000675 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.7 | 0.000392 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | AY.9.2 | 0.000073 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | B.1.1.284 | 0.000215 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | B.1.1.70 | 0.000682 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | B.1.177.52 | 0.003515 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | B.1.177.60 | 0.000437 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | B.1.466.2 | 0.000782 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | B.1.609 | 0.000959 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | A.23.1 | 0.000704 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.21 | 0.001898 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.46.1 | 0.001027 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.59 | 0.00053 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.7.2 | 0.000559 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.87 | 0.000833 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.89 | 0.004902 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.93 | 0.000273 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.95 | 0.000761 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | AY.99.1 | 0.001553 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.302 | 0.002075 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.305 | 0.003861 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.398 | 0.003226 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.432 | 0.001266 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.1.523 | 0.001563 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.139 | 0.000733 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.177.33 | 0.001645 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.279 | 0.000514 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.298 | 0.002114 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.416.1 | 0.001563 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.499 | 0.00105 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | B.1.581 | 0.009434 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | N.5 | 0.001767 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | P.1.12 | 0.000484 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | P.1.2 | 0.001156 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | P.1.8 | 0.004785 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 1 | 1 | P.3 | 0.001595 |
ORF1ab/nsp3 | 1287 | L1287F | Ctt | Ttt | 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
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