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 | 1525 | L1525L | L2343L | syn | Ttg | Ctg | 2785 | 2274 | 0.816517 | 7292-7294 |
ORF1ab/nsp3 | 1525 | L1525L | L2343L | syn | ttG | ttA | 2785 | 509 | 0.182765 | 7292-7294 |
ORF1ab/nsp3 | 1525 | L1525L | L2343L | syn | TtG | CtT | 2785 | 1 | 0.000359066 | 7292-7294 |
ORF1ab/nsp3 | 1525 | L1525L | L2343L | syn | TtG | CtA | 2785 | 1 | 0.000359066 | 7292-7294 |
Details of the mutation L1525L 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 | 1525 | L1525L | Ttg | Ctg | 2274 | 2785 | All | 0.000435 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 509 | 2785 | All | 0.000097 |
ORF1ab/nsp3 | 1525 | L1525L | TtG | CtA | 1 | 2785 | All | 0 |
ORF1ab/nsp3 | 1525 | L1525L | TtG | CtT | 1 | 2785 | All | 0 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1698 | 1711 | AY.26 | 0.048071 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 13 | 1711 | AY.26 | 0.000368 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 226 | 252 | B.1.1.7 | 0.000202 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 26 | 252 | B.1.1.7 | 0.000023 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 166 | 166 | B.1.36.28 | 0.954023 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 106 | 113 | AY.4 | 0.000165 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 7 | 113 | AY.4 | 0.000011 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 98 | 98 | AY.25 | 0.000589 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 34 | 46 | AY.3 | 0.000338 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 12 | 46 | AY.3 | 0.000119 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 27 | 37 | B.1.617.2 | 0.000102 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 10 | 37 | B.1.617.2 | 0.000038 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 28 | 32 | B.1 | 0.000256 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 3 | 32 | B.1 | 0.000027 |
ORF1ab/nsp3 | 1525 | L1525L | TtG | CtT | 1 | 32 | B.1 | 0.000009 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 27 | 31 | B.1.429 | 0.000635 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 4 | 31 | B.1.429 | 0.000094 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 29 | 29 | B.1.497 | 0.009128 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 23 | 24 | B.1.351 | 0.000684 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 24 | B.1.351 | 0.00003 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 19 | 23 | B.1.177 | 0.00025 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 4 | 23 | B.1.177 | 0.000053 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 12 | 15 | P.1 | 0.000189 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 3 | 15 | P.1 | 0.000047 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 12 | 14 | AY.44 | 0.000073 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 2 | 14 | AY.44 | 0.000012 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 12 | 14 | B.1.2 | 0.000106 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 2 | 14 | B.1.2 | 0.000018 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 10 | 11 | B.1.258.17 | 0.00104 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 11 | B.1.258.17 | 0.000104 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 9 | 10 | AY.43 | 0.00004 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 10 | AY.43 | 0.000004 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 10 | 10 | AY.98.1 | 0.000484 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 5 | 8 | B.1.36 | 0.00073 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 3 | 8 | B.1.36 | 0.000438 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 4 | 6 | B.1.526 | 0.000094 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 2 | 6 | B.1.526 | 0.000047 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 3 | 5 | AY.103 | 0.000019 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 2 | 5 | AY.103 | 0.000012 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 5 | 5 | B.1.1.50 | 0.003394 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 4 | 5 | B.1.160 | 0.000125 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 5 | B.1.160 | 0.000031 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 5 | 5 | B.1.517.1 | 0.026316 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 4 | 4 | AY.119 | 0.000141 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 4 | 4 | AY.47 | 0.000124 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 4 | 4 | B.1.36.29 | 0.002069 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 4 | 4 | P.1.2 | 0.004624 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 3 | 3 | AY.102 | 0.00008 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 2 | 3 | AY.33 | 0.000134 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 3 | AY.33 | 0.000067 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 3 | 3 | AY.61 | 0.000314 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 3 | 3 | B.1.1.214 | 0.000166 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 3 | B.1.1.326 | 0.001761 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 3 | B.1.1.326 | 0.001761 |
ORF1ab/nsp3 | 1525 | L1525L | TtG | CtA | 1 | 3 | B.1.1.326 | 0.001761 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 2 | 3 | B.1.234 | 0.000264 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 3 | B.1.234 | 0.000132 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 3 | 3 | B.1.240.2 | 0.090909 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 3 | 3 | B.1.427 | 0.000151 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 2 | AY.118 | 0.000063 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 2 | AY.118 | 0.000063 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 2 | AY.20 | 0.000039 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 2 | AY.20 | 0.000039 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 2 | AY.23 | 0.00007 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 2 | AY.23 | 0.00007 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 2 | AY.39 | 0.000025 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 2 | AY.39 | 0.000025 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 2 | 2 | AY.4.2 | 0.000043 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 2 | AY.5 | 0.000021 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 2 | AY.5 | 0.000021 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 2 | 2 | AY.98 | 0.000158 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 2 | 2 | B.1.177.15 | 0.001262 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 2 | 2 | B.1.177.7 | 0.00033 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 2 | 2 | B.1.243 | 0.000139 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 2 | C.37 | 0.000116 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 2 | C.37 | 0.000116 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 2 | 2 | P.1.14 | 0.000096 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 2 | 2 | P.1.17 | 0.000324 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 2 | 2 | Q.6 | 0.013245 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | A.21 | 0.00277 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | AF.1 | 0.037037 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.109 | 0.00074 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.120 | 0.000037 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.120.2 | 0.001285 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.23.1 | 0.000417 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.34.1 | 0.00051 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.39.1 | 0.00004 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | AY.54 | 0.000095 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.69 | 0.000187 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.1.1.189 | 0.001513 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.1.1.507 | 0.008696 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.1.1.526 | 0.003546 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.1.1.8 | 0.003584 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.1.126 | 0.001276 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.1.189 | 0.004292 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.1.258.12 | 0.007874 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.1.260 | 0.003344 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.1.329 | 0.000608 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.1.560 | 0.00463 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.1.618 | 0.004032 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | B.3 | 0.000831 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | B.30 | 0.014706 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | C.16 | 0.00106 |
ORF1ab/nsp3 | 1525 | L1525L | ttG | ttA | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp3 | 1525 | L1525L | Ttg | Ctg | 1 | 1 | Q.8 | 0.000165 |
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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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