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 |
ORF3a | 126 | R126S | nonsyn | agG | agT | 1837 | 1793 | 0.976048 | 25768-25770 | |
ORF3a | 126 | R126S | nonsyn | agG | agC | 1837 | 44 | 0.0239521 | 25768-25770 |
Details of the mutation R126S 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 |
ORF3a | 126 | R126S | agG | agT | 1793 | 1837 | All | 0.000343 |
ORF3a | 126 | R126S | agG | agC | 44 | 1837 | All | 0.000008 |
ORF3a | 126 | R126S | agG | agT | 271 | 271 | B.1.1.54 | 0.818731 |
ORF3a | 126 | R126S | agG | agT | 240 | 240 | B.1.617.2 | 0.000904 |
ORF3a | 126 | R126S | agG | agT | 167 | 167 | B.1.1.448 | 0.339431 |
ORF3a | 126 | R126S | agG | agT | 152 | 158 | B.1.1.7 | 0.000136 |
ORF3a | 126 | R126S | agG | agC | 6 | 158 | B.1.1.7 | 0.000005 |
ORF3a | 126 | R126S | agG | agT | 152 | 152 | AY.43 | 0.000673 |
ORF3a | 126 | R126S | agG | agT | 109 | 109 | AY.98.1 | 0.005279 |
ORF3a | 126 | R126S | agG | agT | 83 | 87 | AY.4 | 0.000129 |
ORF3a | 126 | R126S | agG | agC | 4 | 87 | AY.4 | 0.000006 |
ORF3a | 126 | R126S | agG | agT | 70 | 71 | B.1.1 | 0.00127 |
ORF3a | 126 | R126S | agG | agC | 1 | 71 | B.1.1 | 0.000018 |
ORF3a | 126 | R126S | agG | agT | 63 | 63 | AY.25 | 0.000379 |
ORF3a | 126 | R126S | agG | agT | 58 | 58 | AY.103 | 0.00036 |
ORF3a | 126 | R126S | agG | agT | 55 | 55 | AY.4.2 | 0.001193 |
ORF3a | 126 | R126S | agG | agT | 45 | 45 | B.1.177 | 0.000593 |
ORF3a | 126 | R126S | agG | agT | 39 | 39 | B.1.558 | 0.178082 |
ORF3a | 126 | R126S | agG | agT | 34 | 34 | AY.117 | 0.002874 |
ORF3a | 126 | R126S | agG | agT | 27 | 27 | B.1.351 | 0.000803 |
ORF3a | 126 | R126S | agG | agT | 22 | 23 | B.1 | 0.000202 |
ORF3a | 126 | R126S | agG | agC | 1 | 23 | B.1 | 0.000009 |
ORF3a | 126 | R126S | agG | agT | 23 | 23 | B.1.2 | 0.000203 |
ORF3a | 126 | R126S | agG | agT | 18 | 18 | AY.42 | 0.000724 |
ORF3a | 126 | R126S | agG | agT | 15 | 15 | B.1.416.1 | 0.023438 |
ORF3a | 126 | R126S | agG | agT | 8 | 15 | P.1 | 0.000126 |
ORF3a | 126 | R126S | agG | agC | 7 | 15 | P.1 | 0.00011 |
ORF3a | 126 | R126S | agG | agT | 11 | 13 | AY.44 | 0.000067 |
ORF3a | 126 | R126S | agG | agC | 2 | 13 | AY.44 | 0.000012 |
ORF3a | 126 | R126S | agG | agC | 7 | 7 | AY.48 | 0.003256 |
ORF3a | 126 | R126S | agG | agT | 6 | 6 | AY.3 | 0.00006 |
ORF3a | 126 | R126S | agG | agT | 6 | 6 | B.1.1.50 | 0.004073 |
ORF3a | 126 | R126S | agG | agC | 6 | 6 | B.1.575 | 0.00182 |
ORF3a | 126 | R126S | agG | agT | 5 | 5 | AY.106 | 0.001674 |
ORF3a | 126 | R126S | agG | agT | 5 | 5 | B.1.1.189 | 0.007564 |
ORF3a | 126 | R126S | agG | agT | 5 | 5 | B.1.1.519 | 0.000199 |
ORF3a | 126 | R126S | agG | agT | 5 | 5 | B.1.258.3 | 0.008375 |
ORF3a | 126 | R126S | agG | agT | 5 | 5 | C.37 | 0.00058 |
ORF3a | 126 | R126S | agG | agT | 4 | 4 | AY.33 | 0.000267 |
ORF3a | 126 | R126S | agG | agT | 4 | 4 | AY.5.3 | 0.00135 |
ORF3a | 126 | R126S | agG | agT | 4 | 4 | AY.99.2 | 0.000369 |
ORF3a | 126 | R126S | agG | agT | 3 | 3 | AY.20 | 0.000117 |
ORF3a | 126 | R126S | agG | agT | 3 | 3 | AY.29 | 0.000047 |
ORF3a | 126 | R126S | agG | agT | 3 | 3 | AY.47 | 0.000093 |
ORF3a | 126 | R126S | agG | agT | 2 | 3 | AY.5 | 0.000041 |
ORF3a | 126 | R126S | agG | agC | 1 | 3 | AY.5 | 0.000021 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | 0.111111 | |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | A.1 | 0.000564 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | AD.2 | 0.000438 |
ORF3a | 126 | R126S | agG | agT | 1 | 2 | AY.100 | 0.000046 |
ORF3a | 126 | R126S | agG | agC | 1 | 2 | AY.100 | 0.000046 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | AY.102 | 0.000053 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | AY.26 | 0.000057 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | AY.27 | 0.000129 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | AY.39 | 0.000049 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | AY.45 | 0.000243 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | AY.88 | 0.001768 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | B.1.177.21 | 0.000153 |
ORF3a | 126 | R126S | agG | agC | 2 | 2 | B.1.524 | 0.002813 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | B.1.596 | 0.000174 |
ORF3a | 126 | R126S | agG | agT | 2 | 2 | C.35 | 0.001548 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AE.8 | 0.000489 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.110 | 0.000113 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.113 | 0.000142 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.119 | 0.000035 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.13 | 0.000161 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.16.1 | 0.00047 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.23 | 0.00007 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.29.1 | 0.000221 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.30 | 0.000396 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.37 | 0.000316 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.4.5 | 0.000107 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.46 | 0.000104 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.46.4 | 0.000165 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.53 | 0.000288 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.6 | 0.000041 |
ORF3a | 126 | R126S | agG | agC | 1 | 1 | AY.69 | 0.000187 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.7 | 0.000196 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.72 | 0.001361 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.75.1 | 0.00018 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.9 | 0.000068 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.9.1 | 0.000084 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | AY.98 | 0.000079 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.1 | 0.000327 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.12 | 0.007463 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.129 | 0.009174 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.282 | 0.011628 |
ORF3a | 126 | R126S | agG | agC | 1 | 1 | B.1.1.318 | 0.000302 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.33 | 0.000421 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.369 | 0.000446 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.372 | 0.000689 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.507 | 0.008696 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.1.70 | 0.000341 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.177.4 | 0.000211 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.177.7 | 0.000165 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.177.79 | 0.002342 |
ORF3a | 126 | R126S | agG | agC | 1 | 1 | B.1.234 | 0.000132 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.258.17 | 0.000104 |
ORF3a | 126 | R126S | agG | agC | 1 | 1 | B.1.422 | 0.000812 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.427 | 0.00005 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.429 | 0.000024 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.523 | 0.002451 |
ORF3a | 126 | R126S | agG | agC | 1 | 1 | B.1.525 | 0.000113 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.576 | 0.000907 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.582 | 0.000491 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.598 | 0.016949 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.1.9.5 | 0.005682 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | B.6.6 | 0.000889 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | C.23 | 0.005814 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | C.6 | 0.037037 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | D.2 | 0.000075 |
ORF3a | 126 | R126S | agG | agC | 1 | 1 | P.3 | 0.001595 |
ORF3a | 126 | R126S | agG | agT | 1 | 1 | Q.4 | 0.000455 |
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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