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 | 1502 | A1502V | A2320V | nonsyn | gCt | gTt | 4063 | 4062 | 0.999754 | 7223-7225 |
ORF1ab/nsp3 | 1502 | A1502V | A2320V | nonsyn | gCT | gTG | 4063 | 1 | 0.000246124 | 7223-7225 |
Details of the mutation A1502V 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 | 1502 | A1502V | gCt | gTt | 4062 | 4063 | All | 0.000777 |
ORF1ab/nsp3 | 1502 | A1502V | gCT | gTG | 1 | 4063 | All | 0 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1960 | 1960 | Q.4 | 0.891314 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 602 | 602 | B.1.258.16 | 0.98527 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 409 | 409 | B.1.1.7 | 0.000366 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 193 | 193 | AY.4 | 0.0003 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 78 | 78 | B.1.617.2 | 0.000294 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 73 | 73 | B.1.110.3 | 0.052443 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 51 | 52 | B.1.1 | 0.000925 |
ORF1ab/nsp3 | 1502 | A1502V | gCT | gTG | 1 | 52 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 47 | 47 | AY.44 | 0.000286 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 41 | 41 | AY.20 | 0.001593 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 35 | 35 | AY.43 | 0.000155 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 34 | 34 | B.1.2 | 0.000299 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 33 | 33 | B.1.160 | 0.001029 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 33 | 33 | Q.8 | 0.005442 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 31 | 31 | AY.103 | 0.000192 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 24 | 24 | AY.47 | 0.000747 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 23 | 23 | B.1 | 0.000211 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 20 | 20 | B.1.177 | 0.000263 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 19 | 19 | AY.102 | 0.000504 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 19 | 19 | AY.25 | 0.000114 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 16 | 16 | AY.3 | 0.000159 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 16 | 16 | B.1.234 | 0.002111 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 14 | 14 | AY.72 | 0.019048 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 12 | 12 | P.1.7 | 0.003831 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 11 | 11 | B.1.637 | 0.000804 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 10 | 10 | B.1.1.70 | 0.003411 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 9 | 9 | AY.111 | 0.001648 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 9 | 9 | AY.9.2 | 0.000331 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 9 | 9 | B.1.258 | 0.000599 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 9 | 9 | B.1.482 | 0.75 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 8 | 8 | AY.42 | 0.000322 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 7 | 7 | AY.30 | 0.00277 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 7 | 7 | AY.81 | 0.013944 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 7 | 7 | B.1.1.397 | 0.015766 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 7 | 7 | C.16 | 0.007423 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 6 | 6 | AY.117 | 0.000507 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 6 | 6 | AY.29 | 0.000095 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 6 | 6 | AY.98 | 0.000474 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 6 | 6 | B.1.236 | 0.01232 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 6 | 6 | P.1 | 0.000095 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 5 | 5 | AY.5 | 0.000103 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 5 | 5 | B.1.1.284 | 0.000537 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 5 | 5 | B.1.221 | 0.000355 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 5 | 5 | B.1.243 | 0.000348 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 5 | 5 | B.1.351 | 0.000149 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 5 | 5 | B.1.526 | 0.000118 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 4 | 4 | AY.16.1 | 0.00188 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 4 | 4 | AY.46.6 | 0.000289 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 4 | 4 | AY.59 | 0.002119 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 4 | 4 | B.1.525 | 0.000453 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 4 | 4 | B.1.621 | 0.000354 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 3 | 3 | AY.119 | 0.000106 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 3 | 3 | AY.120.1 | 0.000963 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 3 | 3 | AY.39 | 0.000074 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 3 | 3 | AY.4.2 | 0.000065 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 3 | 3 | AY.74 | 0.000347 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 3 | 3 | B.1.1.28 | 0.000934 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 3 | 3 | B.1.429 | 0.000071 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | AY.105 | 0.001286 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | AY.32 | 0.001065 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | AY.45 | 0.000243 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | AY.62 | 0.000871 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | AY.7.1 | 0.000225 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | AY.75.1 | 0.000361 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | B.1.1.174 | 0.006757 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | B.1.1.51 | 0.003436 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | B.1.428.3 | 0.025641 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | B.1.471 | 0.005464 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 2 | 2 | P.7 | 0.008734 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | A.2.5.1 | 0.004808 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | A.28 | 0.002646 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | A.30 | 0.142857 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.12 | 0.000316 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.4.4 | 0.000409 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.7 | 0.000196 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.77 | 0.001127 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | AY.94 | 0.000443 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B | 0.000128 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.141 | 0.002012 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.214 | 0.000055 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.266 | 0.012195 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.289 | 0.002083 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.312 | 0.001912 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.369 | 0.000446 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.432 | 0.001266 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.434 | 0.000349 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.486 | 0.001577 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.177.43 | 0.001477 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.177.45 | 0.000381 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.177.7 | 0.000165 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.177.77 | 0.000726 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.177.8 | 0.000752 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.232 | 0.000537 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.258.11 | 0.000396 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.351.2 | 0.000303 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.36.18 | 0.00042 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.456 | 0.003268 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.499 | 0.00105 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.564.1 | 0.001577 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | C.35 | 0.000774 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | N.10 | 0.029412 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp3 | 1502 | A1502V | gCt | gTt | 1 | 1 | Q.7 | 0.001111 |
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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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