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/nsp4 | 14 | T14I | T2777I | nonsyn | aCa | aTa | 2193 | 2189 | 0.998176 | 8594-8596 |
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/nsp4 | 14 | T14I | aCa | aTa | 2189 | 2193 | All | 0.000419 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 526 | 526 | B.1.2 | 0.004632 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 520 | 520 | AY.4 | 0.000809 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 402 | 402 | B.1.1.374 | 0.954869 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 206 | 206 | B.1.1.7 | 0.000184 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 127 | 127 | B.1.617.2 | 0.000478 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 42 | 42 | AY.103 | 0.000261 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 25 | 25 | AY.33 | 0.001669 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 18 | 18 | B.1.36.36 | 0.010837 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 17 | 17 | B.1.1 | 0.000308 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 15 | 16 | B.1 | 0.000137 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 15 | 15 | B.1.177 | 0.000198 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 12 | 12 | B.1.350 | 0.035191 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 11 | 11 | AY.25 | 0.000066 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 10 | 10 | B.1.258.17 | 0.00104 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 8 | 9 | AY.44 | 0.000049 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 9 | 9 | B.1.1.12 | 0.067164 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 8 | 9 | B.1.221 | 0.000568 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 9 | 9 | B.1.351 | 0.000268 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 9 | 9 | B.1.429 | 0.000212 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 8 | 8 | AY.3 | 0.00008 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 6 | 6 | AY.20 | 0.000233 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 6 | 6 | B.1.258 | 0.000399 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 6 | 6 | B.1.371 | 0.006734 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 6 | 6 | B.1.526 | 0.000141 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 5 | 5 | AY.43 | 0.000022 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 5 | 5 | AY.46.6 | 0.000361 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 5 | 5 | B.1.1.192 | 0.011547 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 5 | 5 | B.1.1.214 | 0.000277 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 5 | 5 | B.1.160 | 0.000156 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 5 | 5 | B.1.621 | 0.000443 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 4 | 4 | AY.102 | 0.000106 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 4 | 4 | AY.29 | 0.000063 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 4 | 4 | AY.39 | 0.000099 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 4 | 4 | B.1.1.462 | 0.034483 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 4 | 4 | P.1 | 0.000063 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 4 | 4 | Q.1 | 0.000505 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | A.5 | 0.005769 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | AY.26 | 0.000085 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | AY.34 | 0.000291 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | AY.65 | 0.001599 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | AY.85 | 0.001282 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | B.1.1.134 | 0.034091 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | B.1.1.39 | 0.001529 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | B.1.631 | 0.010101 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 3 | 3 | Q.8 | 0.000495 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 2 | 0.055556 | |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | A.2.5 | 0.000998 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | AY.4.2 | 0.000043 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | AY.47 | 0.000062 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | AY.98 | 0.000158 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.1.318 | 0.000604 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.1.398 | 0.006452 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.126 | 0.002551 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.157 | 0.00597 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.177.73 | 0.001133 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.177.81 | 0.000379 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.236 | 0.004107 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.399 | 0.003868 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.438.1 | 0.000215 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.516 | 0.003914 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 2 | 2 | P.2 | 0.000373 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AD.2 | 0.000219 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.1 | 0.000396 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.109 | 0.00074 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.13 | 0.000161 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.3.1 | 0.000085 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.40 | 0.000964 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.41 | 0.000294 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.45 | 0.000122 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.79 | 0.001211 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.9.1 | 0.000084 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.91.1 | 0.004065 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | AY.98.1 | 0.000048 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.1.1 | 0.000327 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.1.200 | 0.007463 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.1.363 | 0.005988 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.1.397 | 0.002252 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.1.437 | 0.010417 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.1.56 | 0.017857 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.160.30 | 0.002976 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.177.32 | 0.00135 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.177.53 | 0.002392 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.192 | 0.009259 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.214.2 | 0.0006 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.221.3 | 0.000833 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.234 | 0.000132 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.36.10 | 0.004785 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.36.8 | 0.001 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.361 | 0.001289 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.369 | 0.000285 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.556 | 0.007519 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.562 | 0.018519 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.597 | 0.00463 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | B.40 | 0.000364 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | P.1.15 | 0.000232 |
ORF1ab/nsp4 | 14 | T14I | aCa | aTa | 1 | 1 | Q.3 | 0.000145 |
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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