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/nsp3 | 869 | E869D | E1687D | nonsyn | gaG | gaT | 1225 | 1220 | 0.995918 | 5324-5326 |
ORF1ab/nsp3 | 869 | E869D | E1687D | nonsyn | gaG | gaC | 1225 | 5 | 0.00408163 | 5324-5326 |
Details of the mutation E869D 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/nsp3 | 869 | E869D | gaG | gaT | 1220 | 1225 | All | 0.000233 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaC | 5 | 1225 | All | 0.000001 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 358 | 359 | AY.43 | 0.001586 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaC | 1 | 359 | AY.43 | 0.000004 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 189 | 189 | P.1 | 0.002978 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 92 | 92 | B.1.1.7 | 0.000082 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 83 | 83 | B.1.1.234 | 1 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 65 | 66 | AY.4 | 0.000101 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaC | 1 | 66 | AY.4 | 0.000002 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 53 | 53 | B.1 | 0.000485 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 37 | 37 | AY.72 | 0.05034 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 32 | 32 | B.1.1 | 0.000581 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 27 | 27 | AY.26 | 0.000764 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 18 | 18 | AY.46 | 0.001873 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 15 | 15 | AY.3 | 0.000149 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 15 | 15 | B.1.617.2 | 0.000056 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 13 | 13 | AY.44 | 0.000079 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 11 | 11 | AY.103 | 0.000068 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 11 | 11 | AY.25 | 0.000066 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 11 | 11 | B.1.396 | 0.007763 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 10 | 10 | AY.20 | 0.000389 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 9 | 9 | B.1.2 | 0.000079 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 8 | 8 | B.1.1.222 | 0.001632 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 7 | 7 | AY.46.5 | 0.001389 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 6 | 6 | B.1.351.2 | 0.001815 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 6 | 6 | P.1.12 | 0.002904 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 5 | 5 | AY.107 | 0.00233 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 5 | 5 | AY.4.5 | 0.000537 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 5 | 5 | AY.7.1 | 0.000564 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 4 | 4 | AY.100 | 0.000184 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 4 | 4 | AY.102 | 0.000106 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 4 | 4 | AY.29 | 0.000063 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 4 | 4 | AY.39 | 0.000099 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 4 | 4 | B.1.239 | 0.004884 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 4 | 4 | B.1.466.2 | 0.001565 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 3 | 3 | AY.101 | 0.001471 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 3 | 3 | AY.42 | 0.000121 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 3 | 3 | AY.5 | 0.000062 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 3 | 3 | AY.9.1 | 0.000251 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 3 | 3 | B.1.1.519 | 0.000119 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 3 | 3 | B.1.564 | 0.001278 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 3 | 3 | P.1.1 | 0.000953 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | AY.27 | 0.000129 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | AY.65 | 0.001066 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | B.1.1.189 | 0.003026 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaC | 1 | 2 | B.1.160 | 0.000031 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 2 | B.1.160 | 0.000031 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | B.1.177.45 | 0.000762 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | B.1.36.39 | 0.004435 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | B.1.426 | 0.002018 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | B.1.429 | 0.000047 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | B.1.623 | 0.001073 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 2 | 2 | P.1.13 | 0.001797 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | A.21 | 0.00277 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AE.8 | 0.000489 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.67 | 0.000464 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.87 | 0.000833 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.94 | 0.000443 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.99 | 0.001049 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaC | 1 | 1 | B | 0.000128 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.1.153 | 0.001095 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.1.322 | 0.008772 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.1.337 | 0.003597 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.1.464 | 0.001473 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.147 | 0.000756 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.160.8 | 0.001289 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.177.86 | 0.000183 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.279 | 0.000514 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.36.16 | 0.001425 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.526 | 0.000024 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.556 | 0.007519 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaC | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.1.625 | 0.002353 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | B.4.1 | 0.018868 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | C.14 | 0.004329 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | C.36.3 | 0.000567 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp3 | 869 | E869D | gaG | gaT | 1 | 1 | P.1.17 | 0.000162 |
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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