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 | 125 | T125T | T5449T | syn | acC | acT | 1164 | 641 | 0.550687 | 16609-16611 |
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 | 125 | T125T | acC | acT | 641 | 1164 | All | 0.000123 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 83 | 333 | AY.4 | 0.000129 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 98 | 256 | B.1.1.7 | 0.000088 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 156 | 158 | AY.103 | 0.000969 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 12 | 39 | B.1.617.2 | 0.000045 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 34 | 37 | B.1 | 0.000311 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 32 | 32 | AY.46.6 | 0.002311 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 18 | 23 | AY.43 | 0.00008 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 19 | 23 | B.1.2 | 0.000167 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 6 | 18 | P.1 | 0.000095 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 16 | 16 | AY.47 | 0.000498 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 11 | 12 | AY.20 | 0.000428 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 12 | 12 | B.1.1.519 | 0.000477 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 8 | 11 | AY.25 | 0.000048 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 7 | 10 | AY.44 | 0.000043 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 9 | 9 | B.1.177.87 | 0.00655 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 6 | 7 | B.1.221 | 0.000426 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 4 | 6 | AY.102 | 0.000106 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 5 | 6 | AY.29 | 0.000079 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 5 | 6 | B.1.1 | 0.000091 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 6 | 6 | B.1.367 | 0.004754 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 5 | 5 | AY.4.2 | 0.000108 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 5 | 5 | B.1.177.7 | 0.000824 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 4 | 5 | B.1.243 | 0.000278 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 5 | 5 | B.1.497 | 0.001574 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 5 | 5 | C.37 | 0.00058 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 4 | AY.3 | 0.00001 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 4 | B.1.1.306 | 0.000438 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 3 | 3 | AY.100 | 0.000138 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 3 | AY.26 | 0.000028 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 3 | AY.9 | 0.000135 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 3 | B.1.351 | 0.000059 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 3 | B.1.623 | 0.001073 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 3 | 3 | N.5 | 0.0053 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | AY.54 | 0.000191 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | AY.63 | 0.000774 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | B.1.1.486 | 0.003155 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | B.1.160.25 | 0.022222 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 2 | B.1.177 | 0.000013 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | B.1.177.86 | 0.000367 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | B.1.427 | 0.000101 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | B.1.429 | 0.000047 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | B.1.450 | 0.022727 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | B.1.525 | 0.000226 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 2 | 2 | P.2 | 0.000373 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | A.2.5.1 | 0.004808 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.111 | 0.000183 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.16 | 0.00038 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.27 | 0.000065 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.67 | 0.000464 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.75 | 0.000056 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | AY.93 | 0.000273 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.1.263 | 0.001558 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.1.33 | 0.000421 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.1.348 | 0.000796 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.1.487 | 0.005587 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.13 | 0.002375 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.258.14 | 0.00098 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.311 | 0.000275 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.439 | 0.005917 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.575 | 0.000303 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.628 | 0.000352 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.1.637 | 0.000073 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | B.6 | 0.00091 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | C.36 | 0.000911 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | P.1.14 | 0.000048 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | Q.3 | 0.000145 |
ORF1ab/nsp13 | 125 | T125T | acC | acT | 1 | 1 | Q.8 | 0.000165 |
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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