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 | 1370 | S1370F | S2188F | nonsyn | tCt | tTt | 1755 | 1754 | 0.99943 | 6827-6829 |
ORF1ab/nsp3 | 1370 | S1370F | S2188F | nonsyn | tCT | tTC | 1755 | 1 | 0.000569801 | 6827-6829 |
Details of the mutation S1370F 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 | 1370 | S1370F | tCt | tTt | 1754 | 1755 | All | 0.000335 |
ORF1ab/nsp3 | 1370 | S1370F | tCT | tTC | 1 | 1755 | All | 0 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 475 | 475 | AY.108 | 0.523705 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 407 | 407 | AY.25 | 0.002448 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 167 | 167 | B.1.1.7 | 0.00015 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 144 | 144 | B.1.429 | 0.003388 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 64 | 64 | AY.111 | 0.011722 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 59 | 59 | AY.103 | 0.000366 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 49 | 49 | B.1.1.214 | 0.002717 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 41 | 41 | B.1.617.2 | 0.000154 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 37 | 37 | AY.4 | 0.000058 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 35 | 35 | AY.3 | 0.000348 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 32 | 32 | B.1 | 0.000293 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 30 | 30 | AY.43 | 0.000133 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 29 | 29 | B.1.160 | 0.000904 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 20 | 20 | B.1.2 | 0.000176 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 18 | 18 | AY.98 | 0.001422 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 13 | 13 | AY.100 | 0.000598 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 10 | 10 | B.1.177 | 0.000132 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 7 | 7 | B.1.206 | 0.00571 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 6 | 6 | B.1.637 | 0.000438 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 5 | 5 | AY.119 | 0.000177 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 5 | 5 | AY.45 | 0.000608 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 5 | 5 | B.1.36 | 0.00073 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 5 | 5 | P.1 | 0.000079 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 4 | 4 | AY.106 | 0.00134 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 4 | 4 | AY.117 | 0.000338 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 4 | AY.44 | 0.000018 |
ORF1ab/nsp3 | 1370 | S1370F | tCT | tTC | 1 | 4 | AY.44 | 0.000006 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 3 | AY.34 | 0.000291 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 3 | AY.5 | 0.000062 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 3 | AY.9.1 | 0.000251 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 3 | B.1.258 | 0.0002 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 3 | B.1.466.2 | 0.001174 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 3 | 3 | B.1.526 | 0.000071 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | 0.111111 | |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | AY.114 | 0.000462 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | AY.23 | 0.000139 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | AY.3.1 | 0.000171 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | AY.33 | 0.000134 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | AY.46.6 | 0.000144 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | AY.54 | 0.000191 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | AY.85 | 0.000854 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 2 | 2 | C.16 | 0.002121 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.78 | 0.001541 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.141 | 0.002012 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.242 | 0.043478 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.306 | 0.000438 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.307 | 0.002532 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.44 | 0.00241 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.519 | 0.00004 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.128 | 0.000635 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.177.35 | 0.000691 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.177.8 | 0.000752 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.210 | 0.002132 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.221.3 | 0.000833 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp3 | 1370 | S1370F | tCt | tTt | 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
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