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/nsp5A-B | 45 | T45I | T3308I | nonsyn | aCc | aTc | 1935 | 1934 | 0.999483 | 10187-10189 |
ORF1ab/nsp5A-B | 45 | T45I | T3308I | nonsyn | aCC | aTT | 1935 | 1 | 0.000516796 | 10187-10189 |
Details of the mutation T45I 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/nsp5A-B | 45 | T45I | aCc | aTc | 1934 | 1935 | All | 0.00037 |
ORF1ab/nsp5A-B | 45 | T45I | aCC | aTT | 1 | 1935 | All | 0 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1018 | 1018 | B.1 | 0.009324 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 78 | 78 | AY.4 | 0.000121 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 70 | 70 | B.1.521 | 0.348259 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 66 | 66 | AY.3 | 0.000656 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 47 | 47 | B.1.298 | 0.099366 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 45 | 45 | B.1.1.7 | 0.00004 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 39 | 39 | B.1.177 | 0.000514 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 38 | 38 | B.1.617.2 | 0.000143 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 36 | 36 | B.1.506 | 0.857143 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 33 | 33 | AY.29 | 0.000521 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 33 | 33 | AY.5 | 0.000681 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 29 | 29 | B.1.36 | 0.004231 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 26 | 26 | AY.25 | 0.000156 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 22 | 22 | AY.103 | 0.000137 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 22 | 22 | C.16 | 0.02333 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 20 | 20 | B.1.1 | 0.000363 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 17 | 17 | AY.44 | 0.000103 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 17 | 17 | B.1.221 | 0.001208 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 16 | 16 | AE.4 | 0.695652 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 14 | 14 | AY.9.2 | 0.000514 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 12 | 12 | B.1.2 | 0.000106 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 11 | 11 | B.1.234 | 0.001451 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 11 | 11 | B.1.429 | 0.000259 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 8 | 8 | AY.26 | 0.000226 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 8 | 8 | B.1.1.214 | 0.000444 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 7 | 7 | AY.43 | 0.000031 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 7 | 7 | AY.98 | 0.000553 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 5 | 5 | AY.102 | 0.000133 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 5 | 5 | AY.39.1 | 0.000198 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 5 | 5 | AY.4.2 | 0.000108 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 5 | 5 | AY.60 | 0.00469 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 5 | 5 | B.1.582 | 0.002453 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 5 | 5 | P.1 | 0.000079 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | AY.121 | 0.000541 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | AY.33 | 0.000267 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | B.1.1.28 | 0.001245 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | B.1.1.37 | 0.000771 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | B.1.311 | 0.001098 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | B.1.526 | 0.000094 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | B.1.596 | 0.000349 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | B.1.637 | 0.000292 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 4 | 4 | B.1.9.5 | 0.022727 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 3 | 3 | AY.20 | 0.000117 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 3 | 3 | B.1.160 | 0.000094 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 3 | B.1.367 | 0.001585 |
ORF1ab/nsp5A-B | 45 | T45I | aCC | aTT | 1 | 3 | B.1.367 | 0.000792 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 3 | 3 | B.1.565 | 0.002431 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | A.1 | 0.000564 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | AY.119 | 0.000071 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | AY.3.1 | 0.000171 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | AY.39 | 0.000049 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | AY.46 | 0.000208 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | AY.61 | 0.00021 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | AY.9 | 0.000135 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.1.118 | 0.020408 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.1.348 | 0.001592 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.1.398 | 0.006452 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.177.86 | 0.000367 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.258.14 | 0.001961 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.265 | 0.002541 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.351 | 0.000059 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.369 | 0.00057 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | B.3 | 0.001661 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 2 | 2 | Q.1 | 0.000253 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.106 | 0.000335 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.107 | 0.000466 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.120.1 | 0.000321 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.120.2 | 0.001285 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.56 | 0.001605 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | AY.95 | 0.000761 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B | 0.000128 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.10 | 0.001115 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.107 | 0.032258 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.121 | 0.002427 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.123 | 0.017857 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.133 | 0.008475 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.148 | 0.008772 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.216 | 0.00089 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.256 | 0.013699 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.317 | 0.000412 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.336 | 0.016667 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.432 | 0.001266 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.1.90 | 0.1 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.194 | 0.04 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.206 | 0.000816 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.258.16 | 0.001637 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.258.4 | 0.003448 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.284 | 0.013158 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.349 | 0.000715 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.370 | 0.008 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.396 | 0.000706 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.404 | 0.001302 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.413 | 0.004255 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.424 | 0.008065 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.438.1 | 0.000107 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.456 | 0.003268 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.459 | 0.004082 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.509 | 0.000866 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.577 | 0.000687 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.618 | 0.004032 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.1.88.1 | 0.004808 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.12 | 0.00641 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.19 | 0.037037 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.20 | 0.023256 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | C.1.2 | 0.004255 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | C.36.1 | 0.004149 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | P.2 | 0.000187 |
ORF1ab/nsp5A-B | 45 | T45I | aCc | aTc | 1 | 1 | Q.8 | 0.000165 |
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
|