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 | 691 | S691F | nonsyn | tCc | tTc | 1436 | 1436 | 1 | 23633-23635 |
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 | 691 | S691F | tCc | tTc | 1436 | 1436 | All | 0.000275 |
S | 691 | S691F | tCc | tTc | 251 | 251 | AY.44 | 0.001528 |
S | 691 | S691F | tCc | tTc | 200 | 200 | B.1.1.7 | 0.000179 |
S | 691 | S691F | tCc | tTc | 116 | 116 | AY.4 | 0.000181 |
S | 691 | S691F | tCc | tTc | 96 | 96 | B.1.637 | 0.007015 |
S | 691 | S691F | tCc | tTc | 83 | 83 | B.1.617.2 | 0.000313 |
S | 691 | S691F | tCc | tTc | 75 | 75 | AY.5 | 0.001549 |
S | 691 | S691F | tCc | tTc | 59 | 59 | AY.103 | 0.000366 |
S | 691 | S691F | tCc | tTc | 42 | 42 | AY.43 | 0.000186 |
S | 691 | S691F | tCc | tTc | 37 | 37 | AY.3 | 0.000368 |
S | 691 | S691F | tCc | tTc | 31 | 31 | B.1.2 | 0.000273 |
S | 691 | S691F | tCc | tTc | 24 | 24 | B.1.177 | 0.000316 |
S | 691 | S691F | tCc | tTc | 20 | 20 | AY.25 | 0.00012 |
S | 691 | S691F | tCc | tTc | 20 | 20 | B.1 | 0.000183 |
S | 691 | S691F | tCc | tTc | 18 | 18 | AY.68 | 0.004927 |
S | 691 | S691F | tCc | tTc | 17 | 17 | AY.47 | 0.000529 |
S | 691 | S691F | tCc | tTc | 17 | 17 | P.1 | 0.000268 |
S | 691 | S691F | tCc | tTc | 17 | 17 | P.1.17 | 0.00275 |
S | 691 | S691F | tCc | tTc | 16 | 16 | AY.33 | 0.001068 |
S | 691 | S691F | tCc | tTc | 15 | 15 | D.2 | 0.001126 |
S | 691 | S691F | tCc | tTc | 14 | 14 | B.1.1 | 0.000254 |
S | 691 | S691F | tCc | tTc | 13 | 13 | B.1.221 | 0.000923 |
S | 691 | S691F | tCc | tTc | 11 | 11 | AY.75 | 0.000616 |
S | 691 | S691F | tCc | tTc | 10 | 10 | AY.20 | 0.000389 |
S | 691 | S691F | tCc | tTc | 8 | 8 | AY.120 | 0.000297 |
S | 691 | S691F | tCc | tTc | 8 | 8 | P.1.14 | 0.000382 |
S | 691 | S691F | tCc | tTc | 7 | 7 | AY.113 | 0.000997 |
S | 691 | S691F | tCc | tTc | 7 | 7 | AY.29 | 0.00011 |
S | 691 | S691F | tCc | tTc | 7 | 7 | B.1.526 | 0.000165 |
S | 691 | S691F | tCc | tTc | 6 | 6 | AY.26 | 0.00017 |
S | 691 | S691F | tCc | tTc | 6 | 6 | AY.34 | 0.000582 |
S | 691 | S691F | tCc | tTc | 5 | 5 | AY.39 | 0.000124 |
S | 691 | S691F | tCc | tTc | 5 | 5 | AY.4.2 | 0.000108 |
S | 691 | S691F | tCc | tTc | 5 | 5 | AY.54 | 0.000477 |
S | 691 | S691F | tCc | tTc | 5 | 5 | B.1.1.222 | 0.00102 |
S | 691 | S691F | tCc | tTc | 5 | 5 | B.1.1.519 | 0.000199 |
S | 691 | S691F | tCc | tTc | 5 | 5 | B.1.128 | 0.003177 |
S | 691 | S691F | tCc | tTc | 5 | 5 | B.1.351 | 0.000149 |
S | 691 | S691F | tCc | tTc | 5 | 5 | B.1.596 | 0.000436 |
S | 691 | S691F | tCc | tTc | 4 | 4 | AY.100 | 0.000184 |
S | 691 | S691F | tCc | tTc | 4 | 4 | AY.102 | 0.000106 |
S | 691 | S691F | tCc | tTc | 4 | 4 | AY.119 | 0.000141 |
S | 691 | S691F | tCc | tTc | 4 | 4 | AY.9 | 0.00027 |
S | 691 | S691F | tCc | tTc | 4 | 4 | AY.98 | 0.000316 |
S | 691 | S691F | tCc | tTc | 4 | 4 | B.1.429 | 0.000094 |
S | 691 | S691F | tCc | tTc | 4 | 4 | Q.1 | 0.000505 |
S | 691 | S691F | tCc | tTc | 3 | 3 | A.2.5 | 0.001497 |
S | 691 | S691F | tCc | tTc | 3 | 3 | AA.1 | 0.021739 |
S | 691 | S691F | tCc | tTc | 3 | 3 | AY.45 | 0.000365 |
S | 691 | S691F | tCc | tTc | 3 | 3 | AY.46 | 0.000312 |
S | 691 | S691F | tCc | tTc | 3 | 3 | B.1.160 | 0.000094 |
S | 691 | S691F | tCc | tTc | 3 | 3 | B.1.427 | 0.000151 |
S | 691 | S691F | tCc | tTc | 3 | 3 | B.1.525 | 0.000339 |
S | 691 | S691F | tCc | tTc | 3 | 3 | C.37 | 0.000348 |
S | 691 | S691F | tCc | tTc | 2 | 2 | 0.111111 | |
S | 691 | S691F | tCc | tTc | 2 | 2 | A | 0.000774 |
S | 691 | S691F | tCc | tTc | 2 | 2 | AY.35 | 0.000466 |
S | 691 | S691F | tCc | tTc | 2 | 2 | AY.37 | 0.000632 |
S | 691 | S691F | tCc | tTc | 2 | 2 | AY.39.1 | 0.000079 |
S | 691 | S691F | tCc | tTc | 2 | 2 | AY.6 | 0.000082 |
S | 691 | S691F | tCc | tTc | 2 | 2 | AY.88 | 0.001768 |
S | 691 | S691F | tCc | tTc | 2 | 2 | AY.9.2 | 0.000073 |
S | 691 | S691F | tCc | tTc | 2 | 2 | B.1.1.214 | 0.000111 |
S | 691 | S691F | tCc | tTc | 2 | 2 | B.1.1.317 | 0.000823 |
S | 691 | S691F | tCc | tTc | 2 | 2 | B.1.1.63 | 0.000772 |
S | 691 | S691F | tCc | tTc | 2 | 2 | B.1.160.17 | 0.003401 |
S | 691 | S691F | tCc | tTc | 2 | 2 | B.1.177.77 | 0.001452 |
S | 691 | S691F | tCc | tTc | 2 | 2 | B.1.241 | 0.001623 |
S | 691 | S691F | tCc | tTc | 2 | 2 | P.1.16 | 0.000748 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.109 | 0.00074 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.114 | 0.000231 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.116.1 | 0.000311 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.117 | 0.000085 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.120.1 | 0.000321 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.13 | 0.000161 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.14 | 0.000088 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.23 | 0.00007 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.24 | 0.000431 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.46.3 | 0.000934 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.46.4 | 0.000165 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.46.6 | 0.000072 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.48 | 0.000465 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.5.3 | 0.000337 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.59 | 0.00053 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.65 | 0.000533 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.73 | 0.000665 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.82 | 0.001357 |
S | 691 | S691F | tCc | tTc | 1 | 1 | AY.89 | 0.004902 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.219 | 0.005 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.261 | 0.008621 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.265 | 0.003155 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.269 | 0.001353 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.284 | 0.000107 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.291 | 0.000742 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.294 | 0.001266 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.297 | 0.002237 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.33 | 0.000421 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.343 | 0.020833 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.419 | 0.007407 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.420 | 0.001006 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.434 | 0.000349 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.1.514 | 0.038462 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.147 | 0.000756 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.177.21 | 0.000076 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.177.8 | 0.000752 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.177.87 | 0.000728 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.177.9 | 0.001332 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.243 | 0.00007 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.258 | 0.000067 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.260 | 0.003344 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.320 | 0.001245 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.338 | 0.008621 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.351.5 | 0.0006 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.36.16 | 0.001425 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.36.27 | 0.000763 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.36.29 | 0.000517 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.367 | 0.000792 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.369 | 0.000285 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.422 | 0.000812 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.428 | 0.00102 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.450 | 0.011364 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.497 | 0.000315 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.501 | 0.007353 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.523 | 0.002451 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.571 | 0.009709 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.582 | 0.000491 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.609 | 0.000479 |
S | 691 | S691F | tCc | tTc | 1 | 1 | B.1.610 | 0.003546 |
S | 691 | S691F | tCc | tTc | 1 | 1 | C.16 | 0.00106 |
S | 691 | S691F | tCc | tTc | 1 | 1 | D.5 | 0.004975 |
S | 691 | S691F | tCc | tTc | 1 | 1 | P.1.17.1 | 0.000875 |
S | 691 | S691F | tCc | tTc | 1 | 1 | Y.1 | 0.012821 |
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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