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 | 146 | H146Q | nonsyn | caC | caA | 1154 | 1101 | 0.954073 | 21998-22000 | |
S | 146 | H146Q | nonsyn | caC | caG | 1154 | 53 | 0.0459272 | 21998-22000 |
Details of the mutation H146Q 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 | 146 | H146Q | caC | caA | 1101 | 1154 | All | 0.000211 |
S | 146 | H146Q | caC | caG | 53 | 1154 | All | 0.00001 |
S | 146 | H146Q | caC | caA | 433 | 444 | B.1.1.7 | 0.000388 |
S | 146 | H146Q | caC | caG | 11 | 444 | B.1.1.7 | 0.00001 |
S | 146 | H146Q | caC | caA | 60 | 65 | AY.4 | 0.000093 |
S | 146 | H146Q | caC | caG | 5 | 65 | AY.4 | 0.000008 |
S | 146 | H146Q | caC | caA | 47 | 47 | B.1.36 | 0.006857 |
S | 146 | H146Q | caC | caA | 34 | 35 | B.1.617.2 | 0.000128 |
S | 146 | H146Q | caC | caG | 1 | 35 | B.1.617.2 | 0.000004 |
S | 146 | H146Q | caC | caA | 34 | 34 | B.1.1.318 | 0.01026 |
S | 146 | H146Q | caC | caA | 30 | 33 | B.1.177.81 | 0.00568 |
S | 146 | H146Q | caC | caG | 3 | 33 | B.1.177.81 | 0.000568 |
S | 146 | H146Q | caC | caA | 30 | 30 | AY.103 | 0.000186 |
S | 146 | H146Q | caC | caA | 28 | 28 | AY.3 | 0.000278 |
S | 146 | H146Q | caC | caA | 21 | 26 | Q.1 | 0.002653 |
S | 146 | H146Q | caC | caG | 5 | 26 | Q.1 | 0.000632 |
S | 146 | H146Q | caC | caA | 24 | 24 | B.1.2 | 0.000211 |
S | 146 | H146Q | caC | caA | 23 | 23 | AY.23 | 0.001604 |
S | 146 | H146Q | caC | caA | 21 | 21 | B.1.621 | 0.001859 |
S | 146 | H146Q | caC | caA | 17 | 20 | B.1 | 0.000156 |
S | 146 | H146Q | caC | caG | 3 | 20 | B.1 | 0.000027 |
S | 146 | H146Q | caC | caA | 18 | 19 | AY.25 | 0.000108 |
S | 146 | H146Q | caC | caG | 1 | 19 | AY.25 | 0.000006 |
S | 146 | H146Q | caC | caA | 19 | 19 | B.1.177.63 | 0.051351 |
S | 146 | H146Q | caC | caA | 16 | 16 | AY.14 | 0.001408 |
S | 146 | H146Q | caC | caA | 14 | 14 | AY.44 | 0.000085 |
S | 146 | H146Q | caC | caA | 7 | 13 | B.1.1 | 0.000127 |
S | 146 | H146Q | caC | caG | 6 | 13 | B.1.1 | 0.000109 |
S | 146 | H146Q | caC | caA | 11 | 12 | P.1 | 0.000173 |
S | 146 | H146Q | caC | caG | 1 | 12 | P.1 | 0.000016 |
S | 146 | H146Q | caC | caA | 10 | 10 | AY.4.2 | 0.000217 |
S | 146 | H146Q | caC | caA | 10 | 10 | AY.4.5 | 0.001075 |
S | 146 | H146Q | caC | caA | 10 | 10 | B.1.526 | 0.000235 |
S | 146 | H146Q | caC | caG | 6 | 8 | AY.9.2 | 0.00022 |
S | 146 | H146Q | caC | caA | 2 | 8 | AY.9.2 | 0.000073 |
S | 146 | H146Q | caC | caA | 8 | 8 | P.1.16 | 0.002993 |
S | 146 | H146Q | caC | caA | 7 | 7 | B.1.177 | 0.000092 |
S | 146 | H146Q | caC | caA | 7 | 7 | B.1.351 | 0.000208 |
S | 146 | H146Q | caC | caA | 5 | 5 | AY.43 | 0.000022 |
S | 146 | H146Q | caC | caA | 5 | 5 | AY.98.1 | 0.000242 |
S | 146 | H146Q | caC | caA | 4 | 5 | B.1.160 | 0.000125 |
S | 146 | H146Q | caC | caG | 1 | 5 | B.1.160 | 0.000031 |
S | 146 | H146Q | caC | caA | 5 | 5 | C.37 | 0.00058 |
S | 146 | H146Q | caC | caA | 4 | 4 | AY.100 | 0.000184 |
S | 146 | H146Q | caC | caA | 4 | 4 | AY.102 | 0.000106 |
S | 146 | H146Q | caC | caA | 4 | 4 | AY.116.1 | 0.001246 |
S | 146 | H146Q | caC | caA | 4 | 4 | AY.5 | 0.000083 |
S | 146 | H146Q | caC | caG | 4 | 4 | B.1.1.416 | 0.00362 |
S | 146 | H146Q | caC | caA | 4 | 4 | B.1.428 | 0.004082 |
S | 146 | H146Q | caC | caA | 3 | 3 | AY.111 | 0.000549 |
S | 146 | H146Q | caC | caG | 2 | 3 | AY.37 | 0.000632 |
S | 146 | H146Q | caC | caA | 1 | 3 | AY.37 | 0.000316 |
S | 146 | H146Q | caC | caA | 3 | 3 | AY.54 | 0.000286 |
S | 146 | H146Q | caC | caA | 3 | 3 | B.1.1.160 | 0.071429 |
S | 146 | H146Q | caC | caA | 3 | 3 | B.1.243 | 0.000209 |
S | 146 | H146Q | caC | caA | 3 | 3 | B.1.258 | 0.0002 |
S | 146 | H146Q | caC | caA | 2 | 2 | AY.2 | 0.000712 |
S | 146 | H146Q | caC | caA | 2 | 2 | AY.26 | 0.000057 |
S | 146 | H146Q | caC | caA | 2 | 2 | AY.39 | 0.000049 |
S | 146 | H146Q | caC | caG | 1 | 2 | AY.42 | 0.00004 |
S | 146 | H146Q | caC | caA | 1 | 2 | AY.42 | 0.00004 |
S | 146 | H146Q | caC | caA | 2 | 2 | AY.45 | 0.000243 |
S | 146 | H146Q | caC | caA | 2 | 2 | AY.58 | 0.001815 |
S | 146 | H146Q | caC | caA | 2 | 2 | AY.6 | 0.000082 |
S | 146 | H146Q | caC | caA | 2 | 2 | AY.68 | 0.000547 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.149 | 0.006849 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.177.82 | 0.000955 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.240 | 0.000431 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.265 | 0.002541 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.344 | 0.016393 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.36.29 | 0.001035 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.427 | 0.000101 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.429 | 0.000047 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.466.2 | 0.000782 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.525 | 0.000226 |
S | 146 | H146Q | caC | caA | 2 | 2 | B.1.637 | 0.000146 |
S | 146 | H146Q | caC | caA | 2 | 2 | D.2 | 0.00015 |
S | 146 | H146Q | caC | caA | 2 | 2 | L.3 | 0.007092 |
S | 146 | H146Q | caC | caA | 2 | 2 | R.1 | 0.00018 |
S | 146 | H146Q | caC | caA | 1 | 1 | 0.055556 | |
S | 146 | H146Q | caC | caA | 1 | 1 | A.1 | 0.000282 |
S | 146 | H146Q | caC | caA | 1 | 1 | A.2.4 | 0.003367 |
S | 146 | H146Q | caC | caA | 1 | 1 | A.21 | 0.00277 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.105 | 0.000643 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.119 | 0.000035 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.120 | 0.000037 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.20 | 0.000039 |
S | 146 | H146Q | caC | caG | 1 | 1 | AY.29 | 0.000016 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.3.1 | 0.000085 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.33 | 0.000067 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.34 | 0.000097 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.39.1 | 0.00004 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.46 | 0.000104 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.46.3 | 0.000934 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.46.4 | 0.000165 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.47 | 0.000031 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.69 | 0.000187 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.71 | 0.000475 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.75 | 0.000056 |
S | 146 | H146Q | caC | caA | 1 | 1 | AY.98 | 0.000079 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.1 | 0.000327 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.157 | 0.000913 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.176 | 0.000439 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.240 | 0.004695 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.284 | 0.000107 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.306 | 0.000438 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.315 | 0.008475 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.348 | 0.000796 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.359 | 0.027778 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.432 | 0.001266 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.46 | 0.004367 |
S | 146 | H146Q | caC | caG | 1 | 1 | B.1.1.50 | 0.000679 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.1.519 | 0.00004 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.177.4 | 0.000211 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.177.6 | 0.000977 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.177.75 | 0.001041 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.177.86 | 0.000183 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.177.87 | 0.000728 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.189 | 0.004292 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.239 | 0.001221 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.258.6 | 0.019608 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.351.2 | 0.000303 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.36.24 | 0.006173 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.400 | 0.000429 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.443 | 0.004673 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.528 | 0.047619 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.549 | 0.007194 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.564 | 0.000426 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.576 | 0.000907 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.596 | 0.000087 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.617.1 | 0.000129 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.1.625 | 0.002353 |
S | 146 | H146Q | caC | caG | 1 | 1 | B.28 | 0.003279 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.40 | 0.000364 |
S | 146 | H146Q | caC | caA | 1 | 1 | B.55 | 0.00295 |
S | 146 | H146Q | caC | caA | 1 | 1 | C.30.1 | 0.006711 |
S | 146 | H146Q | caC | caA | 1 | 1 | D.5 | 0.004975 |
S | 146 | H146Q | caC | caA | 1 | 1 | N.8 | 0.03125 |
S | 146 | H146Q | caC | caA | 1 | 1 | P.1.12 | 0.000484 |
S | 146 | H146Q | caC | caA | 1 | 1 | P.1.14 | 0.000048 |
S | 146 | H146Q | caC | caA | 1 | 1 | P.1.15 | 0.000232 |
S | 146 | H146Q | caC | caA | 1 | 1 | P.1.17 | 0.000162 |
S | 146 | H146Q | caC | caA | 1 | 1 | P.1.4 | 0.000977 |
S | 146 | H146Q | caC | caA | 1 | 1 | P.2 | 0.000187 |
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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