CoV-GLUE | Mutations | Mutation
CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : Mut = I292T
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 | 292 | I292T | I3055T | nonsyn | aTc | aCc | 910 | 910 | 1 | 9428-9430 |
Details of the mutation I292T 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 | 292 | I292T | aTc | aCc | 910 | 910 | All | 0.000174 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 178 | 178 | AY.5 | 0.003676 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 98 | 98 | B.1.1.7 | 0.000088 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 88 | 88 | AY.19 | 0.100342 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 83 | 83 | B.1.617.2 | 0.000313 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 65 | 65 | B.1.2 | 0.000572 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 54 | 54 | AY.25 | 0.000325 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 53 | 53 | AY.4 | 0.000082 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 43 | 43 | AY.44 | 0.000262 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 25 | 25 | AY.43 | 0.000111 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 22 | 22 | AY.3 | 0.000219 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 13 | 13 | B.1 | 0.000119 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 12 | 12 | B.1.221 | 0.000852 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 11 | 11 | B.1.177 | 0.000145 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 9 | 9 | AY.39.1 | 0.000357 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 9 | 9 | AY.70 | 0.001877 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 7 | 7 | AY.103 | 0.000043 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 7 | 7 | B.1.1.519 | 0.000278 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 7 | 7 | B.1.160 | 0.000218 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 7 | 7 | B.1.177.57 | 0.001967 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 6 | 6 | AY.120 | 0.000223 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 6 | 6 | B.1.1.137 | 0.075 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 5 | 5 | AY.39 | 0.000124 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 5 | 5 | AY.75 | 0.00028 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 5 | 5 | B.1.507 | 0.05618 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 4 | 4 | AY.45 | 0.000487 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 4 | 4 | AY.75.1 | 0.000721 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 4 | 4 | B.1.517 | 0.001708 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 4 | 4 | P.1 | 0.000063 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 3 | 3 | AY.16.1 | 0.00141 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 3 | 3 | AY.20 | 0.000117 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 3 | 3 | AY.26 | 0.000085 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 3 | 3 | AY.59 | 0.001589 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 3 | 3 | B.1.1.33 | 0.001263 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 3 | 3 | B.1.177.52 | 0.005272 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 3 | 3 | B.1.621 | 0.000266 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | AY.100 | 0.000092 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | AY.11 | 0.002677 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | AY.13 | 0.000322 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | AY.4.2 | 0.000043 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | AY.47 | 0.000062 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | B.1.1.263 | 0.003115 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | B.1.1.50 | 0.001358 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | B.1.177.7 | 0.00033 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | B.1.351 | 0.000059 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 2 | 2 | D.2 | 0.00015 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.10 | 0.00053 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.106 | 0.000335 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.114 | 0.000231 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.119 | 0.000035 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.121 | 0.000135 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.14 | 0.000088 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.23 | 0.00007 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.33 | 0.000067 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.40 | 0.000964 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.42 | 0.00004 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.46.6 | 0.000072 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.61 | 0.000105 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.65 | 0.000533 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.71 | 0.000475 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.9.2 | 0.000037 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.93 | 0.000273 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.98 | 0.000079 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | AY.99.2 | 0.000092 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.1 | 0.000018 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.1.434 | 0.000349 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.177.44 | 0.000519 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.177.65 | 0.000665 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.258.14 | 0.00098 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.267 | 0.018519 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.36.16 | 0.001425 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.429 | 0.000024 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.582 | 0.000491 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.595.3 | 0.026316 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.596 | 0.000087 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.1.637 | 0.000073 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | B.4 | 0.002208 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | P.1.12 | 0.000484 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | P.1.14 | 0.000048 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | P.1.15 | 0.000232 |
| ORF1ab/nsp4 | 292 | I292T | aTc | aCc | 1 | 1 | P.2 | 0.000187 |
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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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