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/nsp2 | 106 | P106L | P286L | nonsyn | cCa | cTa | 1591 | 1586 | 0.996857 | 1121-1123 |
ORF1ab/nsp2 | 106 | P106L | P286L | nonsyn | CCa | TTa | 1591 | 3 | 0.00188561 | 1121-1123 |
ORF1ab/nsp2 | 106 | P106L | P286L | nonsyn | cCA | cTT | 1591 | 2 | 0.00125707 | 1121-1123 |
Details of the mutation P106L 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/nsp2 | 106 | P106L | cCa | cTa | 1586 | 1591 | All | 0.000303 |
ORF1ab/nsp2 | 106 | P106L | CCa | TTa | 3 | 1591 | All | 0.000001 |
ORF1ab/nsp2 | 106 | P106L | cCA | cTT | 2 | 1591 | All | 0 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 599 | 599 | A.27 | 0.991722 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 463 | 463 | B.1.36.21 | 1 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 72 | 72 | AY.4 | 0.000112 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 58 | 58 | B.1.1.7 | 0.000052 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 32 | 32 | AY.99.2 | 0.002949 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 28 | 28 | AY.25 | 0.000168 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 27 | 28 | B.1.617.2 | 0.000102 |
ORF1ab/nsp2 | 106 | P106L | CCa | TTa | 1 | 28 | B.1.617.2 | 0.000004 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 23 | 23 | AY.98.1 | 0.001114 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 22 | 22 | B.1.429 | 0.000518 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 21 | 21 | B.1 | 0.000192 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 14 | 14 | AY.20 | 0.000544 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 13 | 14 | AY.44 | 0.000079 |
ORF1ab/nsp2 | 106 | P106L | cCA | cTT | 1 | 14 | AY.44 | 0.000006 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 14 | 14 | B.1.177 | 0.000184 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 13 | 13 | A | 0.005031 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 12 | 12 | AY.43 | 0.000053 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 10 | 10 | B.1.1.517 | 0.068027 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 10 | 10 | B.1.1.519 | 0.000397 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 9 | 9 | AZ.1 | 0.007806 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 8 | 8 | B | 0.001022 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 8 | 8 | C.1.2 | 0.034043 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 8 | 8 | P.1 | 0.000126 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 7 | 7 | AY.39 | 0.000173 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 7 | 7 | AY.64 | 0.004167 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 7 | 7 | B.1.2 | 0.000062 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 7 | 7 | B.1.621 | 0.00062 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 5 | 5 | AY.3 | 0.00005 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 5 | 5 | B.1.558 | 0.022831 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 4 | 4 | AY.103 | 0.000025 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 4 | 4 | B.1.160 | 0.000125 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 3 | 3 | A.29 | 0.015957 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 3 | 3 | AY.119 | 0.000106 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 3 | 3 | AY.30 | 0.001187 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 3 | 3 | B.1.1 | 0.000054 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 3 | 3 | B.1.221 | 0.000213 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 3 | 3 | B.1.396 | 0.002117 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 3 | 3 | B.1.420 | 0.03125 |
ORF1ab/nsp2 | 106 | P106L | CCa | TTa | 2 | 2 | 0.111111 | |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | AY.102 | 0.000053 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | AY.26 | 0.000057 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | AY.39.1 | 0.000079 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | AY.4.5 | 0.000215 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | AY.5.3 | 0.000675 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | B.1.1.141 | 0.004024 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | B.1.1.214 | 0.000111 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | B.1.232 | 0.001075 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | B.1.258 | 0.000133 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | B.1.367 | 0.001585 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | B.1.526 | 0.000047 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | C.36 | 0.001821 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 2 | 2 | C.36.3.1 | 0.005435 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | A.1 | 0.000282 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | AY.1 | 0.000396 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp2 | 106 | P106L | cCA | cTT | 1 | 1 | AY.99 | 0.001049 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.1.161 | 0.003534 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.1.25 | 0.000569 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.1.286 | 0.002899 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.1.301 | 0.001179 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.1.317 | 0.000412 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.160.33 | 0.004425 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.265 | 0.001271 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.280 | 0.007143 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.55 | 0.00295 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | C.1 | 0.002392 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | C.14 | 0.004329 |
ORF1ab/nsp2 | 106 | P106L | cCa | cTa | 1 | 1 | C.6 | 0.037037 |
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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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