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 |
N | 412 | S412I | nonsyn | aGc | aTc | 1118 | 1107 | 0.990161 | 29507-29509 | |
N | 412 | S412I | nonsyn | aGC | aTT | 1118 | 11 | 0.009839 | 29507-29509 |
Details of the mutation S412I 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 |
N | 412 | S412I | aGc | aTc | 1107 | 1118 | All | 0.000212 |
N | 412 | S412I | aGC | aTT | 11 | 1118 | All | 0.000002 |
N | 412 | S412I | aGc | aTc | 249 | 249 | B.1.177 | 0.003279 |
N | 412 | S412I | aGc | aTc | 134 | 134 | B.1.1.7 | 0.00012 |
N | 412 | S412I | aGc | aTc | 94 | 94 | AY.44 | 0.000572 |
N | 412 | S412I | aGc | aTc | 89 | 89 | AZ.4 | 0.298658 |
N | 412 | S412I | aGc | aTc | 65 | 65 | AY.102 | 0.001723 |
N | 412 | S412I | aGc | aTc | 52 | 52 | B.1.617.2 | 0.000196 |
N | 412 | S412I | aGc | aTc | 50 | 50 | AY.4 | 0.000078 |
N | 412 | S412I | aGc | aTc | 48 | 49 | AY.25 | 0.000289 |
N | 412 | S412I | aGC | aTT | 1 | 49 | AY.25 | 0.000006 |
N | 412 | S412I | aGc | aTc | 38 | 38 | AY.34 | 0.003685 |
N | 412 | S412I | aGc | aTc | 27 | 27 | B.1.369 | 0.007701 |
N | 412 | S412I | aGc | aTc | 24 | 24 | AY.116 | 0.006883 |
N | 412 | S412I | aGc | aTc | 19 | 19 | AY.85 | 0.008116 |
N | 412 | S412I | aGc | aTc | 14 | 14 | AY.43 | 0.000062 |
N | 412 | S412I | aGc | aTc | 10 | 12 | AY.20 | 0.000389 |
N | 412 | S412I | aGC | aTT | 2 | 12 | AY.20 | 0.000078 |
N | 412 | S412I | aGc | aTc | 12 | 12 | B.1.2 | 0.000106 |
N | 412 | S412I | aGc | aTc | 9 | 9 | B.1.351 | 0.000268 |
N | 412 | S412I | aGc | aTc | 8 | 8 | B.1 | 0.000073 |
N | 412 | S412I | aGC | aTT | 7 | 7 | AY.3 | 0.00007 |
N | 412 | S412I | aGc | aTc | 7 | 7 | C.37 | 0.000812 |
N | 412 | S412I | aGc | aTc | 6 | 6 | AY.109 | 0.004438 |
N | 412 | S412I | aGc | aTc | 6 | 6 | AY.4.2.1 | 0.000894 |
N | 412 | S412I | aGc | aTc | 6 | 6 | B.1.1.176 | 0.002636 |
N | 412 | S412I | aGc | aTc | 6 | 6 | B.1.526 | 0.000141 |
N | 412 | S412I | aGc | aTc | 5 | 5 | AY.39 | 0.000124 |
N | 412 | S412I | aGc | aTc | 5 | 5 | AY.46.6 | 0.000361 |
N | 412 | S412I | aGc | aTc | 5 | 5 | AY.98 | 0.000395 |
N | 412 | S412I | aGc | aTc | 4 | 4 | AY.103 | 0.000025 |
N | 412 | S412I | aGc | aTc | 4 | 4 | AY.119 | 0.000141 |
N | 412 | S412I | aGc | aTc | 4 | 4 | AY.81 | 0.007968 |
N | 412 | S412I | aGc | aTc | 4 | 4 | B.1.1 | 0.000073 |
N | 412 | S412I | aGc | aTc | 4 | 4 | B.1.1.174 | 0.013514 |
N | 412 | S412I | aGc | aTc | 4 | 4 | B.1.221 | 0.000284 |
N | 412 | S412I | aGc | aTc | 4 | 4 | P.1 | 0.000063 |
N | 412 | S412I | aGc | aTc | 3 | 3 | AY.117 | 0.000254 |
N | 412 | S412I | aGc | aTc | 3 | 3 | AY.26 | 0.000085 |
N | 412 | S412I | aGc | aTc | 3 | 3 | B.1.243 | 0.000209 |
N | 412 | S412I | aGc | aTc | 3 | 3 | B.1.427 | 0.000151 |
N | 412 | S412I | aGc | aTc | 3 | 3 | B.1.621.1 | 0.001517 |
N | 412 | S412I | aGc | aTc | 3 | 3 | P.1.14 | 0.000143 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AH.3 | 0.007605 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AY.110 | 0.000225 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AY.121 | 0.000271 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AY.45 | 0.000243 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AY.47 | 0.000062 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AY.64 | 0.00119 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AY.79 | 0.002421 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AY.9.2 | 0.000073 |
N | 412 | S412I | aGc | aTc | 2 | 2 | AY.99.2 | 0.000184 |
N | 412 | S412I | aGc | aTc | 2 | 2 | B.1.1.216 | 0.001781 |
N | 412 | S412I | aGc | aTc | 2 | 2 | B.1.1.231 | 0.006192 |
N | 412 | S412I | aGc | aTc | 2 | 2 | B.1.1.420 | 0.002012 |
N | 412 | S412I | aGc | aTc | 2 | 2 | B.1.201 | 0.011364 |
N | 412 | S412I | aGc | aTc | 2 | 2 | B.1.577 | 0.001375 |
N | 412 | S412I | aGc | aTc | 2 | 2 | B.1.596 | 0.000174 |
N | 412 | S412I | aGc | aTc | 2 | 2 | B.1.617.3 | 0.00597 |
N | 412 | S412I | aGc | aTc | 2 | 2 | N.4 | 0.008511 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.111 | 0.000183 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.114 | 0.000231 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.118 | 0.000063 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.120 | 0.000037 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.16 | 0.00038 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.29 | 0.000016 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.33 | 0.000067 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.37 | 0.000316 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.4.4 | 0.000409 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.40 | 0.000964 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.42 | 0.00004 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.48 | 0.000465 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.5 | 0.000021 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.50 | 0.000799 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.55 | 0.000917 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.56 | 0.001605 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.6 | 0.000041 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.71 | 0.000475 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.84 | 0.000437 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.86 | 0.00083 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.9 | 0.000068 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.90 | 0.000684 |
N | 412 | S412I | aGc | aTc | 1 | 1 | AY.98.1 | 0.000048 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B | 0.000128 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.1.1 | 0.000327 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.1.214 | 0.000055 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.1.232 | 0.001815 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.1.25 | 0.000569 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.1.519 | 0.00004 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.128 | 0.000635 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.179 | 0.003759 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.234 | 0.000132 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.346 | 0.001311 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.36.17 | 0.000494 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.362 | 0.001541 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.621 | 0.000089 |
N | 412 | S412I | aGc | aTc | 1 | 1 | B.1.637 | 0.000073 |
N | 412 | S412I | aGC | aTT | 1 | 1 | C.1 | 0.002392 |
N | 412 | S412I | aGc | aTc | 1 | 1 | P.1.11 | 0.010204 |
N | 412 | S412I | aGc | aTc | 1 | 1 | Q.3 | 0.000145 |
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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