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 | 532 | H532H | H712H | syn | caC | caT | 1507 | 1507 | 1 | 2399-2401 |
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 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1507 | 1507 | All | 0.000288 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 323 | 323 | AY.4.2 | 0.007005 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 195 | 195 | B.1.177 | 0.002568 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 188 | 188 | B.1.1.7 | 0.000168 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 93 | 93 | B.1.1.70 | 0.031719 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 75 | 75 | AY.43 | 0.000332 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 61 | 61 | AY.4 | 0.000095 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 56 | 56 | P.1.17.1 | 0.048994 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 39 | 39 | B.1.617.2 | 0.000147 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 37 | 37 | AY.44 | 0.000225 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 31 | 31 | B.1.3 | 0.081152 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 30 | 30 | Q.3 | 0.004351 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 28 | 28 | B.1 | 0.000256 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 23 | 23 | AY.3 | 0.000229 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 22 | 22 | AY.16 | 0.008352 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 19 | 19 | AY.25 | 0.000114 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 16 | 16 | AY.103 | 0.000099 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 16 | 16 | AY.120 | 0.000595 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 15 | 15 | B.1.2 | 0.000132 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 14 | 14 | B.1.429 | 0.000329 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 14 | 14 | P.1 | 0.000221 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 13 | 13 | B.1.351 | 0.000386 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 10 | 10 | C.36.3 | 0.005672 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 9 | 9 | B.1.240 | 0.00194 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 7 | 7 | B.1.1 | 0.000127 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 7 | 7 | R.1 | 0.00063 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 6 | 6 | B.1.243 | 0.000418 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 5 | 5 | AY.22 | 0.01046 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 5 | 5 | B.1.1.54 | 0.015106 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 5 | 5 | B.1.526 | 0.000118 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 4 | 4 | AY.26 | 0.000113 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 4 | 4 | AY.38 | 0.001997 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 4 | 4 | AY.39 | 0.000099 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 4 | 4 | AY.54 | 0.000381 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 4 | 4 | AY.99.2 | 0.000369 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 4 | 4 | B.1.160 | 0.000125 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 4 | 4 | C.35 | 0.003096 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | AD.2 | 0.000657 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | AY.20 | 0.000117 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | AY.27 | 0.000194 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | AY.45 | 0.000365 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | AY.5 | 0.000062 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | B.1.1.1 | 0.00098 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | B.1.1.306 | 0.001315 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | B.1.1.519 | 0.000119 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | B.1.258 | 0.0002 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | B.1.621 | 0.000266 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 3 | 3 | P.1.16 | 0.001122 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.102 | 0.000053 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.121 | 0.000271 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.14 | 0.000176 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.29 | 0.000032 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.3.1 | 0.000171 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.36 | 0.000296 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.37 | 0.000632 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.40 | 0.001929 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.89 | 0.009804 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | B | 0.000256 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | B.1.104 | 0.00738 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | B.1.177.21 | 0.000153 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | B.1.351.1 | 0.076923 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | B.1.627 | 0.00404 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | C.37 | 0.000232 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 2 | 2 | P.1.15 | 0.000465 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | A.23.1 | 0.000704 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.23.1 | 0.000417 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.48 | 0.000465 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.71 | 0.000475 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.72 | 0.001361 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.1.448 | 0.002033 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.1.466 | 0.008696 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.1.63 | 0.000386 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.258.11 | 0.000396 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.265 | 0.001271 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.356 | 0.001727 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.36.18 | 0.00042 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.466.1 | 0.007194 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.554 | 0.004405 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.558 | 0.004566 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.561 | 0.000397 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.567 | 0.003333 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.1.619 | 0.000871 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | B.6.8 | 0.008264 |
ORF1ab/nsp2 | 532 | H532H | caC | caT | 1 | 1 | C.1.2 | 0.004255 |
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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