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 | 494 | S494L | nonsyn | tCa | tTa | 1533 | 1523 | 0.993477 | 23042-23044 |
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 | 494 | S494L | tCa | tTa | 1523 | 1533 | All | 0.000291 |
S | 494 | S494L | tCa | tTa | 349 | 351 | AY.4 | 0.000543 |
S | 494 | S494L | tCa | tTa | 175 | 175 | AY.27 | 0.011326 |
S | 494 | S494L | tCa | tTa | 149 | 150 | B.1.617.2 | 0.000561 |
S | 494 | S494L | tCa | tTa | 118 | 118 | AY.103 | 0.000733 |
S | 494 | S494L | tCa | tTa | 64 | 64 | AY.43 | 0.000284 |
S | 494 | S494L | tCa | tTa | 54 | 55 | AY.44 | 0.000329 |
S | 494 | S494L | tCa | tTa | 44 | 44 | AY.25 | 0.000265 |
S | 494 | S494L | tCa | tTa | 41 | 41 | AY.120 | 0.001524 |
S | 494 | S494L | tCa | tTa | 41 | 41 | AY.3 | 0.000408 |
S | 494 | S494L | tCa | tTa | 24 | 24 | AY.29 | 0.000379 |
S | 494 | S494L | tCa | tTa | 24 | 24 | AY.6 | 0.000987 |
S | 494 | S494L | tCa | tTa | 17 | 17 | AY.5 | 0.000351 |
S | 494 | S494L | tCa | tTa | 15 | 16 | B.1.1.7 | 0.000013 |
S | 494 | S494L | tCa | tTa | 15 | 15 | AY.20 | 0.000583 |
S | 494 | S494L | tCa | tTa | 15 | 15 | AY.33 | 0.001002 |
S | 494 | S494L | tCa | tTa | 13 | 14 | AY.4.2 | 0.000282 |
S | 494 | S494L | tCa | tTa | 13 | 14 | B.1.2 | 0.000114 |
S | 494 | S494L | tCa | tTa | 12 | 12 | AY.92 | 0.003447 |
S | 494 | S494L | tCa | tTa | 12 | 12 | B.1.429 | 0.000282 |
S | 494 | S494L | tCa | tTa | 11 | 11 | AY.102 | 0.000292 |
S | 494 | S494L | tCa | tTa | 11 | 11 | AY.118 | 0.000689 |
S | 494 | S494L | tCa | tTa | 11 | 11 | B.1.177 | 0.000145 |
S | 494 | S494L | tCa | tTa | 10 | 10 | AY.119 | 0.000353 |
S | 494 | S494L | tCa | tTa | 10 | 10 | AY.26 | 0.000283 |
S | 494 | S494L | tCa | tTa | 9 | 9 | AY.75 | 0.000504 |
S | 494 | S494L | tCa | tTa | 9 | 9 | AY.98 | 0.000711 |
S | 494 | S494L | tCa | tTa | 8 | 8 | AY.39 | 0.000198 |
S | 494 | S494L | tCa | tTa | 8 | 8 | AY.39.1 | 0.000317 |
S | 494 | S494L | tCa | tTa | 7 | 7 | AY.34 | 0.000679 |
S | 494 | S494L | tCa | tTa | 7 | 7 | AY.47 | 0.000218 |
S | 494 | S494L | tCa | tTa | 7 | 7 | B.1.1 | 0.000127 |
S | 494 | S494L | tCa | tTa | 6 | 6 | AY.23 | 0.000418 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.100 | 0.00023 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.45 | 0.000608 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.46 | 0.00052 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.46.6 | 0.000361 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.48 | 0.002326 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.62 | 0.002179 |
S | 494 | S494L | tCa | tTa | 4 | 5 | AY.9 | 0.00027 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.9.2 | 0.000184 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.98.1 | 0.000242 |
S | 494 | S494L | tCa | tTa | 5 | 5 | AY.99.2 | 0.000461 |
S | 494 | S494L | tCa | tTa | 5 | 5 | B.1.160 | 0.000156 |
S | 494 | S494L | tCa | tTa | 5 | 5 | B.1.258 | 0.000333 |
S | 494 | S494L | tCa | tTa | 4 | 4 | AY.117 | 0.000338 |
S | 494 | S494L | tCa | tTa | 4 | 4 | AY.121 | 0.000541 |
S | 494 | S494L | tCa | tTa | 4 | 4 | AY.14 | 0.000352 |
S | 494 | S494L | tCa | tTa | 4 | 4 | AY.3.1 | 0.000341 |
S | 494 | S494L | tCa | tTa | 4 | 4 | AY.53 | 0.00115 |
S | 494 | S494L | tCa | tTa | 4 | 4 | AY.74 | 0.000463 |
S | 494 | S494L | tCa | tTa | 4 | 4 | B.1 | 0.000037 |
S | 494 | S494L | tCa | tTa | 4 | 4 | B.1.637 | 0.000292 |
S | 494 | S494L | tCa | tTa | 3 | 3 | AY.109 | 0.002219 |
S | 494 | S494L | tCa | tTa | 3 | 3 | AY.4.5 | 0.000322 |
S | 494 | S494L | tCa | tTa | 3 | 3 | AY.54 | 0.000286 |
S | 494 | S494L | tCa | tTa | 3 | 3 | AY.61 | 0.000314 |
S | 494 | S494L | tCa | tTa | 3 | 3 | AY.75.1 | 0.000541 |
S | 494 | S494L | tCa | tTa | 3 | 3 | AY.77 | 0.003382 |
S | 494 | S494L | tCa | tTa | 3 | 3 | B.1.1.369 | 0.001339 |
S | 494 | S494L | tCa | tTa | 3 | 3 | B.1.258.17 | 0.000312 |
S | 494 | S494L | tCa | tTa | 2 | 2 | A.2.5 | 0.000998 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.10 | 0.00106 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.106 | 0.00067 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.110 | 0.000225 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.36 | 0.000296 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.42 | 0.00008 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.46.3 | 0.001867 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.46.4 | 0.000329 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.46.5 | 0.000397 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.50 | 0.001599 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.52 | 0.001629 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.55 | 0.001835 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.7 | 0.000392 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.7.1 | 0.000225 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.82 | 0.002714 |
S | 494 | S494L | tCa | tTa | 2 | 2 | AY.84 | 0.000875 |
S | 494 | S494L | tCa | tTa | 2 | 2 | B.1.1.28 | 0.000622 |
S | 494 | S494L | tCa | tTa | 2 | 2 | B.1.160.17 | 0.003401 |
S | 494 | S494L | tCa | tTa | 2 | 2 | B.1.258.24 | 0.021505 |
S | 494 | S494L | tCa | tTa | 1 | 2 | B.1.349 | 0.000715 |
S | 494 | S494L | tCa | tTa | 2 | 2 | B.1.438.1 | 0.000215 |
S | 494 | S494L | tCa | tTa | 2 | 2 | B.1.596 | 0.000174 |
S | 494 | S494L | tCa | tTa | 2 | 2 | D.2 | 0.00015 |
S | 494 | S494L | tCa | tTa | 1 | 1 | 0.055556 | |
S | 494 | S494L | tCa | tTa | 1 | 1 | A.27 | 0.001656 |
S | 494 | S494L | tCa | tTa | 1 | 1 | A.3 | 0.002096 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.111 | 0.000183 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.113 | 0.000142 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.12 | 0.000316 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.13 | 0.000161 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.16.1 | 0.00047 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.29.1 | 0.000221 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.34.1 | 0.00051 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.38 | 0.000499 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.4.2.1 | 0.000149 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.4.3 | 0.000842 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.41 | 0.000294 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.56 | 0.001605 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.58 | 0.000907 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.64 | 0.000595 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.68 | 0.000274 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.83 | 0.001724 |
S | 494 | S494L | tCa | tTa | 1 | 1 | AY.99 | 0.001049 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.15 | 0.013514 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.161 | 0.003534 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.214 | 0.000055 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.222 | 0.000204 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.284 | 0.000107 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.311 | 0.000358 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.33 | 0.000421 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.37 | 0.000193 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.372 | 0.000689 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.1.402 | 0.011111 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.124 | 0.007812 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.160.10 | 0.008065 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.160.24 | 0.004425 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.177.16 | 0.000664 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.177.32 | 0.00135 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.177.57 | 0.000281 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.177.77 | 0.000726 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.177.86 | 0.000183 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.206 | 0.000816 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.23 | 0.006061 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.232 | 0.000537 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.258.3 | 0.001675 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.351 | 0.00003 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.36.29 | 0.000517 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.36.8 | 0.001 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.436 | 0.001029 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.525 | 0.000113 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.565 | 0.00081 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.577 | 0.000687 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.612 | 0.002653 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.619.1 | 0.000641 |
S | 494 | S494L | tCa | tTa | 1 | 1 | B.1.628 | 0.000352 |
S | 494 | S494L | tCa | tTa | 1 | 1 | C.23 | 0.005814 |
S | 494 | S494L | tCa | tTa | 1 | 1 | R.1 | 0.00009 |
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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