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/nsp4 | 269 | T269I | T3032I | nonsyn | aCa | aTa | 1822 | 1822 | 1 | 9359-9361 |
Details of the mutation no 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/nsp4 | 269 | T269I | aCa | aTa | 1822 | 1822 | All | 0.000348 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 296 | 296 | B.1.1.7 | 0.000265 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 256 | 256 | AY.117 | 0.021636 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 165 | 165 | AY.44 | 0.001004 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 152 | 152 | B.1.602 | 0.993464 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 80 | 80 | B.1.351 | 0.002378 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 64 | 64 | B.1.177.77 | 0.046478 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 60 | 60 | AY.4 | 0.000093 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 55 | 55 | B.1.1.216 | 0.048976 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 52 | 52 | AY.25 | 0.000313 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 46 | 46 | B.1.160 | 0.001435 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 39 | 39 | B.1.267 | 0.722222 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 38 | 38 | B.1.1 | 0.000689 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 37 | 37 | B.1 | 0.000339 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 37 | 37 | B.1.617.2 | 0.000139 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 34 | 34 | P.1 | 0.000536 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 29 | 29 | B.1.1.284 | 0.003115 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 21 | 21 | B.1.2 | 0.000185 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 21 | 21 | B.1.426 | 0.021191 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 20 | 20 | B.1.36 | 0.002918 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 19 | 19 | AY.103 | 0.000118 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 17 | 17 | AY.20 | 0.000661 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 16 | 16 | AY.6 | 0.000658 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 13 | 13 | B.1.177 | 0.000171 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 12 | 12 | AY.43 | 0.000053 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 12 | 12 | B.1.1.317 | 0.00494 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 12 | 12 | B.1.469 | 0.043321 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 11 | 11 | B.1.429 | 0.000259 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 8 | 8 | AY.27 | 0.000518 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 8 | 8 | AY.4.2 | 0.000174 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 8 | 8 | B.1.526 | 0.000188 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 8 | 8 | Y.1 | 0.102564 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 6 | 6 | AY.102 | 0.000159 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 6 | 6 | AY.39 | 0.000148 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 6 | 6 | B | 0.000767 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 6 | 6 | B.1.1.519 | 0.000238 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 6 | 6 | C.14 | 0.025974 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 5 | 5 | AY.3 | 0.00005 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 5 | 5 | AY.61 | 0.000524 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 5 | 5 | B.1.1.434 | 0.001743 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 4 | 4 | AY.29 | 0.000063 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 4 | 4 | B.1.621 | 0.000354 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 4 | 4 | P.1.14 | 0.000191 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 3 | 3 | AY.9.2 | 0.00011 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 3 | 3 | B.1.1.348 | 0.002389 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 3 | 3 | B.1.517 | 0.001281 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 3 | 3 | B.40 | 0.001093 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 3 | 3 | P.1.13 | 0.002695 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 3 | 3 | P.1.15 | 0.000697 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 3 | 3 | R.1 | 0.00027 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | AY.116 | 0.000574 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | AY.16.1 | 0.00094 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | AY.46.4 | 0.000329 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | AY.55 | 0.001835 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.1.157 | 0.001826 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.1.214 | 0.000111 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.1.294 | 0.002532 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.1.369 | 0.000892 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.177.81 | 0.000379 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.234 | 0.000264 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.369 | 0.00057 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.409 | 0.001563 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.438.1 | 0.000215 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.466.2 | 0.000782 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.564 | 0.000852 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | B.1.637 | 0.000146 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 2 | 2 | Q.8 | 0.00033 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | A.23.1 | 0.000704 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AU.3 | 0.00211 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.4.3 | 0.000842 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.57 | 0.000656 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.153 | 0.001095 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.159 | 0.004673 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.359 | 0.027778 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.406 | 0.006494 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.409 | 0.002833 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.41 | 0.006329 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.413 | 0.006897 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.423 | 0.0625 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.433 | 0.001425 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.63 | 0.000386 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.1.95 | 0.019608 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.167 | 0.007812 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.177.4 | 0.000211 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.177.55 | 0.002331 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.177.57 | 0.000281 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.258.14 | 0.00098 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.279 | 0.000514 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.320 | 0.001245 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.36.17 | 0.000494 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.459 | 0.004082 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.473 | 0.019231 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.499 | 0.00105 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.509 | 0.000866 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.546 | 0.003704 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.581 | 0.009434 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.582 | 0.000491 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | B.3 | 0.000831 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | C.30 | 0.001727 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | N.5 | 0.001767 |
ORF1ab/nsp4 | 269 | T269I | aCa | aTa | 1 | 1 | P.1.7 | 0.000319 |
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
|