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/nsp13 | 420 | E420E | E5744E | syn | gaA | gaG | 19764 | 19764 | 1 | 17494-17496 |
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/nsp13 | 420 | E420E | gaA | gaG | 19764 | 19764 | All | 0.00378 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 8940 | 8940 | B.1.617.2 | 0.033663 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4181 | 4181 | AY.35 | 0.974365 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2835 | 2835 | B.1.1.7 | 0.002538 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1754 | 1754 | AY.48 | 0.815814 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 589 | 589 | AY.16.1 | 0.276786 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 208 | 208 | AY.44 | 0.001266 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 176 | 176 | AY.13 | 0.028332 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 128 | 128 | AY.108 | 0.141125 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 111 | 111 | AY.23 | 0.007742 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 62 | 62 | AY.92 | 0.017811 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 57 | 57 | AY.59 | 0.030191 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 54 | 54 | AY.54 | 0.005149 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 48 | 48 | AY.68 | 0.01314 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 45 | 45 | AY.98 | 0.003555 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 45 | 45 | B.1.177.59 | 0.725806 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 40 | 40 | AY.66 | 0.042781 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 37 | 37 | AY.19 | 0.042189 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 30 | 30 | AY.52 | 0.02443 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 28 | 28 | AY.37 | 0.00885 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 27 | 27 | B.1 | 0.000247 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 25 | 25 | AY.100 | 0.00115 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 20 | 20 | AY.103 | 0.000124 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 20 | 20 | AY.5.4 | 0.005534 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 18 | 18 | AY.116 | 0.005162 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 18 | 18 | AY.43 | 0.00008 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 13 | 13 | AY.25 | 0.000078 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 12 | 12 | AY.47 | 0.000373 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 11 | 11 | AY.118 | 0.000689 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 11 | 11 | AY.4 | 0.000017 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 11 | 11 | AY.62 | 0.004793 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 10 | 10 | AY.121 | 0.001353 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 9 | 9 | AY.24 | 0.003879 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 9 | 9 | AY.55 | 0.008257 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 8 | 8 | AY.75 | 0.000448 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 8 | 8 | AY.77 | 0.009019 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 8 | 8 | AY.9.2 | 0.000294 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 7 | 7 | AY.87 | 0.005828 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 7 | 7 | AY.98.1 | 0.000339 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 6 | 6 | AY.3 | 0.00006 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 6 | 6 | AY.64 | 0.003571 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 5 | 5 | AY.56 | 0.008026 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 5 | 5 | AY.61 | 0.000524 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | AY.117 | 0.000338 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | AY.20 | 0.000155 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | AY.42 | 0.000161 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | AY.45 | 0.000487 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | AY.67 | 0.001857 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | AY.84 | 0.00175 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | AY.88 | 0.003537 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | B | 0.000511 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | B.1.1.519 | 0.000159 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | B.1.160 | 0.000125 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | B.1.617.1 | 0.000516 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 4 | 4 | P.1 | 0.000063 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | A | 0.001161 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | AY.106 | 0.001005 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | AY.22 | 0.006276 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | AY.53 | 0.000863 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | AY.71 | 0.001425 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | AY.78 | 0.004622 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | AY.93 | 0.000819 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | AY.95 | 0.002283 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 3 | 3 | B.1.221.4 | 0.0125 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2 | 2 | AY.10 | 0.00106 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2 | 2 | AY.101 | 0.000981 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2 | 2 | AY.11 | 0.002677 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2 | 2 | AY.12 | 0.000632 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2 | 2 | AY.6 | 0.000082 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2 | 2 | AY.70 | 0.000417 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2 | 2 | B.1.1 | 0.000036 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 2 | 2 | B.1.637 | 0.000146 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AU.1 | 0.001266 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.102 | 0.000027 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.28 | 0.00189 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.29 | 0.000016 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.38 | 0.000499 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.39 | 0.000025 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.4.2 | 0.000022 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.51 | 0.000909 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.58 | 0.000907 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.75.1 | 0.00018 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.82 | 0.001357 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.85 | 0.000427 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.96 | 0.002075 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | B.1.1.216 | 0.00089 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | B.1.2 | 0.000009 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | B.1.524 | 0.001406 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | B.1.609 | 0.000479 |
ORF1ab/nsp13 | 420 | E420E | gaA | gaG | 1 | 1 | Q.1 | 0.000126 |
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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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