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/nsp2 | 268 | D268del | D448del | del | GAC | --- | 2740 | 2740 | 1 | 1607-1609 |
Details of the mutation D268del 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/nsp2 | 268 | D268del | GAC | --- | 2740 | 2740 | All | 0.000524 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 646 | 646 | B | 0.082566 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 312 | 312 | B.23 | 0.912281 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 257 | 257 | B.45 | 0.984674 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 228 | 228 | B.55 | 0.672566 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 176 | 176 | B.11 | 0.902564 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 128 | 128 | C.23 | 0.744186 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 117 | 117 | B.10 | 0.966942 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 88 | 88 | B.52 | 0.888889 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 67 | 67 | B.1.617.2 | 0.000252 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 60 | 60 | P.1.1 | 0.01906 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 58 | 58 | B.27 | 0.892308 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 56 | 56 | B.57 | 0.848485 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 55 | 55 | B.15 | 0.964912 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 46 | 46 | B.1.177.86 | 0.008439 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 43 | 43 | B.1 | 0.000394 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 43 | 43 | B.26 | 0.632353 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 38 | 38 | B.1.1 | 0.000689 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 38 | 38 | B.47 | 0.77551 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 33 | 33 | B.1.1.7 | 0.00003 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 29 | 29 | AY.98 | 0.002291 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 20 | 20 | B.49 | 1 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 20 | 20 | P.1 | 0.000315 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 11 | 11 | B.1.2 | 0.000097 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 10 | 10 | AY.3 | 0.000099 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 10 | 10 | AY.4 | 0.000016 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 9 | 9 | AY.44 | 0.000055 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 8 | 8 | AY.20 | 0.000311 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 8 | 8 | B.1.1.1 | 0.002614 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 8 | 8 | C.37 | 0.000929 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 7 | 7 | B.1.258 | 0.000466 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 6 | 6 | B.1.1.434 | 0.002091 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 5 | 5 | AY.103 | 0.000031 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 5 | 5 | AY.26 | 0.000142 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 4 | 4 | AY.9.2 | 0.000147 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 4 | 4 | B.1.1.33 | 0.001684 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 3 | 3 | AY.110 | 0.000338 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 3 | 3 | AY.39 | 0.000074 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 3 | 3 | B.1.1.348 | 0.002389 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 3 | 3 | B.1.284 | 0.039474 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | AY.29 | 0.000032 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | AY.54 | 0.000191 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | AY.85 | 0.000854 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | AY.9 | 0.000135 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | B.1.1.28 | 0.000622 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | B.1.1.37 | 0.000386 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | B.1.1.521 | 0.010695 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | B.1.1.63 | 0.000772 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | B.1.177.81 | 0.000379 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | B.1.221 | 0.000142 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | B.1.595 | 0.000522 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | B.4 | 0.004415 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | D.2 | 0.00015 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | N.6 | 0.014184 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 2 | 2 | P.2 | 0.000373 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | A | 0.000387 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | A.2.3 | 0.004739 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | A.5 | 0.001923 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.2 | 0.000356 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.25 | 0.000006 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.60 | 0.000938 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.65 | 0.000533 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.70 | 0.000209 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.1.220 | 0.001859 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.1.294 | 0.001266 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.1.375 | 0.011905 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.111 | 0.001175 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.157 | 0.002985 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.177 | 0.000013 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.177.87 | 0.000728 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.214.2 | 0.0006 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.240 | 0.000216 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.36.8 | 0.001 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.450 | 0.011364 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.471 | 0.002732 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.1.93 | 0.000934 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | B.5 | 0.038462 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | C.1 | 0.002392 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | R.1 | 0.00009 |
ORF1ab/nsp2 | 268 | D268del | GAC | --- | 1 | 1 | Y.1 | 0.012821 |
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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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