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 | 1442 | P1442S | P2260S | nonsyn | Cct | Tct | 1021 | 1020 | 0.999021 | 7043-7045 |
ORF1ab/nsp3 | 1442 | P1442S | P2260S | nonsyn | CcT | TcC | 1021 | 1 | 0.000979432 | 7043-7045 |
Details of the mutation P1442S 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 | 1442 | P1442S | Cct | Tct | 1020 | 1021 | All | 0.000195 |
ORF1ab/nsp3 | 1442 | P1442S | CcT | TcC | 1 | 1021 | All | 0 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 283 | 283 | P.6 | 0.889937 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 150 | 150 | B.1.1.7 | 0.000134 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 134 | 134 | AY.4 | 0.000209 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 56 | 56 | B.1.369 | 0.015973 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 32 | 32 | B.1.1.297 | 0.071588 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 32 | 32 | B.1.239 | 0.039072 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 26 | 26 | B.1.617.2 | 0.000098 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 23 | 23 | B.1.258.17 | 0.002391 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 20 | 20 | B.1.1 | 0.000363 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 18 | 18 | B.1.2 | 0.000158 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 16 | 16 | B.1 | 0.000147 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 14 | 14 | AY.103 | 0.000087 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 13 | 13 | AY.44 | 0.000079 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 12 | 12 | B.1.427 | 0.000606 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 11 | 11 | B.1.258 | 0.000732 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 10 | 10 | B.1.177 | 0.000132 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 9 | 9 | AY.43 | 0.00004 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 7 | 7 | B.1.429 | 0.000165 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 6 | 6 | AY.25 | 0.000036 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 6 | 6 | AY.69 | 0.00112 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 6 | 6 | P.1.10 | 0.001617 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 5 | 5 | AY.113 | 0.000712 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 5 | 5 | B.1.526 | 0.000118 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 4 | 4 | AY.102 | 0.000106 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 4 | 4 | AY.3 | 0.00004 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 4 | 4 | AY.4.2 | 0.000087 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 4 | 4 | AY.41 | 0.001176 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 4 | 4 | AY.45 | 0.000487 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 4 | 4 | P.1 | 0.000063 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 3 | 3 | AY.33 | 0.0002 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 3 | 3 | AY.75 | 0.000168 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 3 | 3 | B.1.1.28 | 0.000934 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 3 | 3 | B.1.1.519 | 0.000119 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 3 | 3 | B.1.396 | 0.002117 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 3 | 3 | D.2 | 0.000225 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 2 | 0.055556 | |
ORF1ab/nsp3 | 1442 | P1442S | CcT | TcC | 1 | 2 | 0.055556 | |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | AB.1 | 0.016393 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | AY.120 | 0.000074 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | AY.31 | 0.037037 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | AY.99.2 | 0.000184 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | B.1.1.305 | 0.007722 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | B.1.177.18 | 0.00232 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | B.1.367 | 0.001585 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | B.1.593 | 0.021739 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | B.1.609 | 0.000959 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 2 | 2 | B.1.637 | 0.000146 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | A | 0.000387 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AE.8 | 0.000489 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.4.3 | 0.000842 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.82 | 0.001357 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.87 | 0.000833 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.129 | 0.009174 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.181 | 0.004545 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.240 | 0.004695 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.25 | 0.000569 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.265 | 0.003155 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.461 | 0.012048 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.1.67 | 0.004566 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.108 | 0.005814 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.110.3 | 0.000718 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.177.67 | 0.007634 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.177.8 | 0.000752 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.258.3 | 0.001675 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.424 | 0.008065 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.459 | 0.004082 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.1.9.5 | 0.005682 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | P.1.13 | 0.000898 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | P.1.17 | 0.000162 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | P.3 | 0.001595 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | P.7 | 0.004367 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp3 | 1442 | P1442S | Cct | Tct | 1 | 1 | S.1 | 0.00495 |
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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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