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 | 68 | I68T | nonsyn | aTa | aCa | 1080 | 997 | 0.923148 | 21764-21766 | |
S | 68 | I68T | nonsyn | aTA | aCC | 1080 | 79 | 0.0731481 | 21764-21766 | |
S | 68 | I68T | nonsyn | aTA | aCG | 1080 | 3 | 0.00277778 | 21764-21766 | |
S | 68 | I68T | nonsyn | aTA | aCT | 1080 | 1 | 0.000925926 | 21764-21766 |
Details of the mutation I68T 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 | 68 | I68T | aTa | aCa | 997 | 1080 | All | 0.000191 |
S | 68 | I68T | aTA | aCC | 79 | 1080 | All | 0.000015 |
S | 68 | I68T | aTA | aCG | 3 | 1080 | All | 0.000001 |
S | 68 | I68T | aTA | aCT | 1 | 1080 | All | 0 |
S | 68 | I68T | aTa | aCa | 411 | 411 | AY.25 | 0.002472 |
S | 68 | I68T | aTa | aCa | 134 | 134 | AY.4 | 0.000209 |
S | 68 | I68T | aTA | aCC | 70 | 72 | B.1.1.7 | 0.000063 |
S | 68 | I68T | aTa | aCa | 1 | 72 | B.1.1.7 | 0.000001 |
S | 68 | I68T | aTA | aCT | 1 | 72 | B.1.1.7 | 0.000001 |
S | 68 | I68T | aTa | aCa | 42 | 43 | AY.44 | 0.000256 |
S | 68 | I68T | aTA | aCG | 1 | 43 | AY.44 | 0.000006 |
S | 68 | I68T | aTa | aCa | 36 | 36 | P.1 | 0.000567 |
S | 68 | I68T | aTa | aCa | 35 | 35 | AY.103 | 0.000217 |
S | 68 | I68T | aTa | aCa | 24 | 24 | B.1.2 | 0.000211 |
S | 68 | I68T | aTa | aCa | 21 | 21 | AY.46.6 | 0.001516 |
S | 68 | I68T | aTa | aCa | 21 | 21 | B.1.617.2 | 0.000079 |
S | 68 | I68T | aTa | aCa | 18 | 18 | B.1.631 | 0.060606 |
S | 68 | I68T | aTa | aCa | 15 | 15 | B.1.1.301 | 0.017689 |
S | 68 | I68T | aTa | aCa | 14 | 14 | B.1 | 0.000128 |
S | 68 | I68T | aTa | aCa | 13 | 13 | B.1.621 | 0.001151 |
S | 68 | I68T | aTa | aCa | 9 | 10 | AY.43 | 0.00004 |
S | 68 | I68T | aTA | aCG | 1 | 10 | AY.43 | 0.000004 |
S | 68 | I68T | aTa | aCa | 8 | 8 | AY.4.2 | 0.000174 |
S | 68 | I68T | aTa | aCa | 8 | 8 | B.1.429 | 0.000188 |
S | 68 | I68T | aTa | aCa | 7 | 7 | AY.102 | 0.000186 |
S | 68 | I68T | aTa | aCa | 7 | 7 | AY.26 | 0.000198 |
S | 68 | I68T | aTa | aCa | 7 | 7 | AY.3 | 0.00007 |
S | 68 | I68T | aTa | aCa | 7 | 7 | AY.47 | 0.000218 |
S | 68 | I68T | aTA | aCC | 4 | 6 | AY.23 | 0.000279 |
S | 68 | I68T | aTa | aCa | 2 | 6 | AY.23 | 0.000139 |
S | 68 | I68T | aTa | aCa | 6 | 6 | B.1.177 | 0.000079 |
S | 68 | I68T | aTa | aCa | 5 | 5 | AY.20 | 0.000194 |
S | 68 | I68T | aTa | aCa | 5 | 5 | AY.5 | 0.000103 |
S | 68 | I68T | aTa | aCa | 5 | 5 | AY.5.4 | 0.001384 |
S | 68 | I68T | aTa | aCa | 5 | 5 | B.1.1.50 | 0.003394 |
S | 68 | I68T | aTa | aCa | 5 | 5 | B.1.499 | 0.005252 |
S | 68 | I68T | aTa | aCa | 4 | 4 | AY.120.2.1 | 0.001993 |
S | 68 | I68T | aTa | aCa | 4 | 4 | AY.61 | 0.000419 |
S | 68 | I68T | aTa | aCa | 4 | 4 | B.1.1 | 0.000073 |
S | 68 | I68T | aTa | aCa | 4 | 4 | B.1.1.39 | 0.002039 |
S | 68 | I68T | aTa | aCa | 4 | 4 | B.1.177.86 | 0.000734 |
S | 68 | I68T | aTa | aCa | 3 | 3 | AY.3.1 | 0.000256 |
S | 68 | I68T | aTa | aCa | 3 | 3 | AY.39 | 0.000074 |
S | 68 | I68T | aTa | aCa | 3 | 3 | AY.93 | 0.000819 |
S | 68 | I68T | aTa | aCa | 3 | 3 | B.1.1.25 | 0.001706 |
S | 68 | I68T | aTa | aCa | 3 | 3 | B.1.177.79 | 0.007026 |
S | 68 | I68T | aTa | aCa | 3 | 3 | B.1.240 | 0.000647 |
S | 68 | I68T | aTa | aCa | 3 | 3 | B.1.36.29 | 0.001552 |
S | 68 | I68T | aTA | aCC | 3 | 3 | B.1.525 | 0.000339 |
S | 68 | I68T | aTa | aCa | 3 | 3 | B.1.526 | 0.000071 |
S | 68 | I68T | aTa | aCa | 3 | 3 | B.1.610 | 0.010638 |
S | 68 | I68T | aTa | aCa | 3 | 3 | P.1.15 | 0.000697 |
S | 68 | I68T | aTa | aCa | 2 | 2 | AY.100 | 0.000092 |
S | 68 | I68T | aTa | aCa | 2 | 2 | AY.119 | 0.000071 |
S | 68 | I68T | aTa | aCa | 2 | 2 | AY.120 | 0.000074 |
S | 68 | I68T | aTa | aCa | 2 | 2 | AY.23.1 | 0.000835 |
S | 68 | I68T | aTa | aCa | 2 | 2 | AY.4.2.1 | 0.000298 |
S | 68 | I68T | aTa | aCa | 2 | 2 | AY.42 | 0.00008 |
S | 68 | I68T | aTa | aCa | 2 | 2 | AY.98 | 0.000158 |
S | 68 | I68T | aTa | aCa | 2 | 2 | B.1.1.316 | 0.00185 |
S | 68 | I68T | aTa | aCa | 2 | 2 | B.1.1.336 | 0.033333 |
S | 68 | I68T | aTa | aCa | 2 | 2 | B.1.1.513 | 0.024691 |
S | 68 | I68T | aTa | aCa | 2 | 2 | B.1.160 | 0.000062 |
S | 68 | I68T | aTA | aCC | 2 | 2 | B.1.258 | 0.000133 |
S | 68 | I68T | aTa | aCa | 2 | 2 | B.1.351 | 0.000059 |
S | 68 | I68T | aTa | aCa | 2 | 2 | B.1.637 | 0.000146 |
S | 68 | I68T | aTa | aCa | 1 | 1 | A.2.5.1 | 0.004808 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AH.2 | 0.012048 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.10 | 0.00053 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.101 | 0.00049 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.11 | 0.001339 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.111 | 0.000183 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.13 | 0.000161 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.14 | 0.000088 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.16 | 0.00038 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.24 | 0.000431 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.29 | 0.000016 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.34 | 0.000097 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.4.4 | 0.000409 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.46 | 0.000104 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.6 | 0.000041 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.63 | 0.000387 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.65 | 0.000533 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.67 | 0.000464 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.7 | 0.000196 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.7.2 | 0.000559 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.85 | 0.000427 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.9.1 | 0.000084 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.9.2 | 0.000037 |
S | 68 | I68T | aTa | aCa | 1 | 1 | AY.92 | 0.000287 |
S | 68 | I68T | aTA | aCG | 1 | 1 | AY.95 | 0.000761 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.1.282 | 0.011628 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.1.311 | 0.000358 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.1.318 | 0.000302 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.1.37 | 0.000193 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.1.434 | 0.000349 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.1.519 | 0.00004 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.177.18 | 0.00116 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.177.7 | 0.000165 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.243 | 0.00007 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.258.2 | 0.004505 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.279 | 0.000514 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.311 | 0.000275 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.324 | 0.001605 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.349 | 0.000715 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.36 | 0.000146 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.380 | 0.006623 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.400 | 0.000429 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.509 | 0.000866 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.558 | 0.004566 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.609 | 0.000479 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.619 | 0.000871 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.627 | 0.00202 |
S | 68 | I68T | aTa | aCa | 1 | 1 | B.1.91 | 0.002075 |
S | 68 | I68T | aTa | aCa | 1 | 1 | P.1.2 | 0.001156 |
S | 68 | I68T | aTa | aCa | 1 | 1 | P.1.7 | 0.000319 |
S | 68 | I68T | aTa | aCa | 1 | 1 | P.6 | 0.003145 |
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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