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 | 1230 | S1230F | S2048F | nonsyn | tCt | tTt | 34945 | 34944 | 0.999971 | 6407-6409 |
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/nsp3 | 1230 | S1230F | tCt | tTt | 34944 | 34945 | All | 0.006683 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 23719 | 23719 | AY.120 | 0.881846 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 3424 | 3425 | AY.4 | 0.005329 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 3006 | 3006 | AY.120.1 | 0.965008 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2001 | 2001 | AY.120.2.1 | 0.99701 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 704 | 704 | AY.120.2 | 0.904884 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 549 | 549 | AY.103 | 0.003409 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 387 | 387 | B.1.617.2 | 0.001457 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 314 | 314 | B.1.1.7 | 0.000281 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 152 | 152 | B.1 | 0.001392 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 80 | 80 | B.1.177 | 0.001053 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 61 | 61 | AY.3 | 0.000607 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 49 | 49 | AY.32 | 0.026092 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 38 | 38 | AY.119 | 0.001342 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 36 | 36 | AY.4.2 | 0.000781 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 33 | 33 | AY.43 | 0.000146 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 29 | 29 | Q.1 | 0.003663 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 23 | 23 | B.1.429 | 0.000541 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 19 | 19 | AY.102 | 0.000504 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 16 | 16 | AY.26 | 0.000453 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 16 | 16 | AY.39 | 0.000395 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 15 | 15 | AY.44 | 0.000091 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 14 | 14 | AY.4.5 | 0.001505 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 14 | 14 | B.1.526 | 0.000329 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 12 | 12 | AY.9 | 0.000811 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 11 | 11 | AY.5 | 0.000227 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 11 | 11 | AY.6 | 0.000452 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 11 | 11 | B.1.1.165 | 0.169231 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 9 | 9 | AY.46 | 0.000937 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 8 | 8 | AY.100 | 0.000368 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 7 | 7 | AY.25 | 0.000042 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 7 | 7 | B.1.2 | 0.000062 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 6 | 6 | B.1.1 | 0.000109 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 6 | 6 | B.1.240 | 0.001293 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 6 | 6 | B.1.351 | 0.000178 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 6 | 6 | P.1 | 0.000095 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 5 | 5 | AY.23 | 0.000349 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 5 | 5 | AY.42 | 0.000201 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 5 | 5 | AY.46.1 | 0.005133 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 5 | 5 | AY.75 | 0.00028 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 5 | 5 | B.1.1.519 | 0.000199 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 5 | 5 | B.1.239 | 0.006105 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 4 | 4 | AY.117 | 0.000338 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 4 | 4 | AY.45 | 0.000487 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 4 | 4 | AY.54 | 0.000381 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 4 | 4 | AY.79 | 0.004843 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 4 | 4 | B.1.243.1 | 0.088889 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 4 | 4 | B.1.609 | 0.001918 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 3 | 3 | AY.106 | 0.001005 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 3 | 3 | AY.92 | 0.000862 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 3 | 3 | AY.99.2 | 0.000276 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 3 | 3 | B.1.36 | 0.000438 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | AY.110 | 0.000225 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | AY.3.1 | 0.000171 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | AY.39.1 | 0.000079 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | AY.5.3 | 0.000675 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | AY.68 | 0.000547 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | AY.84 | 0.000875 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | B.1.1.205 | 0.007435 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | B.1.1.306 | 0.000877 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | B.1.1.70 | 0.000682 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | B.1.110 | 0.00905 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | B.1.258 | 0.000133 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | B.1.466.2 | 0.000782 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | B.1.621 | 0.000177 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | B.1.8 | 0.003945 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 2 | 2 | Q.8 | 0.00033 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | 0.055556 | |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.14 | 0.000088 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.37 | 0.000316 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.56 | 0.001605 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.58 | 0.000907 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.93 | 0.000273 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B | 0.000128 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.1.34 | 0.013158 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.1.416 | 0.000905 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.1.46 | 0.004367 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.164 | 0.014925 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.177.86 | 0.000183 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.214 | 0.003663 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.361 | 0.001289 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.375 | 0.00082 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.459 | 0.004082 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.574 | 0.002151 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.599 | 0.00365 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | B.61 | 0.005747 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | P.1.1 | 0.000318 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | P.1.6 | 0.001946 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | R.1 | 0.00009 |
ORF1ab/nsp3 | 1230 | S1230F | tCt | tTt | 1 | 1 | W.1 | 0.008696 |
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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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