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 | 143 | T143T | T2906T | syn | acT | acG | 8374 | 7859 | 0.9385 | 8981-8983 |
ORF1ab/nsp4 | 143 | T143T | T2906T | syn | acT | acA | 8374 | 344 | 0.0410795 | 8981-8983 |
ORF1ab/nsp4 | 143 | T143T | T2906T | syn | acT | acC | 8374 | 171 | 0.0204203 | 8981-8983 |
Details of the mutation T143T 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 | 143 | T143T | acT | acG | 7859 | 8374 | All | 0.001503 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 344 | 8374 | All | 0.000066 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 171 | 8374 | All | 0.000033 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 6268 | 6268 | B.1.221 | 0.445234 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1188 | 1188 | B.1.221.3 | 0.99 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 239 | 281 | B.1.1.7 | 0.000214 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 38 | 281 | B.1.1.7 | 0.000034 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 4 | 281 | B.1.1.7 | 0.000004 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 242 | 242 | B.1.221.2 | 0.971888 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 56 | 63 | B.1 | 0.000513 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 6 | 63 | B.1 | 0.000055 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 63 | B.1 | 0.000009 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 17 | 29 | B.1.617.2 | 0.000064 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 10 | 29 | B.1.617.2 | 0.000038 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 2 | 29 | B.1.617.2 | 0.000008 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 23 | 25 | AY.9.1 | 0.001926 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 2 | 25 | AY.9.1 | 0.000167 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 12 | 25 | B.1.177 | 0.000158 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 11 | 25 | B.1.177 | 0.000145 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 2 | 25 | B.1.177 | 0.000026 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 23 | 23 | AY.30 | 0.009102 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 19 | 19 | AY.75.1 | 0.003426 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 18 | 18 | AY.103 | 0.000112 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 15 | 15 | B.1.177.77 | 0.010893 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 8 | 13 | P.1 | 0.000126 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 3 | 13 | P.1 | 0.000047 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 2 | 13 | P.1 | 0.000032 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 10 | 10 | AY.3 | 0.000099 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 7 | 10 | B.1.1 | 0.000127 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 2 | 10 | B.1.1 | 0.000036 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 10 | B.1.1 | 0.000018 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 9 | 10 | B.1.210 | 0.01919 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 10 | B.1.210 | 0.002132 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 7 | 9 | B.1.429 | 0.000165 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 2 | 9 | B.1.429 | 0.000047 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 7 | 7 | B.1.160.32 | 0.030043 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 7 | 7 | B.1.36.1 | 0.007982 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 3 | 7 | Q.1 | 0.000379 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 3 | 7 | Q.1 | 0.000379 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 7 | Q.1 | 0.000126 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 4 | 6 | B.1.160 | 0.000125 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 2 | 6 | B.1.160 | 0.000062 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 5 | 6 | B.1.526 | 0.000118 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 6 | B.1.526 | 0.000024 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 3 | 5 | AY.100 | 0.000138 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 2 | 5 | AY.100 | 0.000092 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 4 | 5 | AY.4 | 0.000006 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 5 | AY.4 | 0.000002 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 3 | 5 | AY.44 | 0.000018 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 2 | 5 | AY.44 | 0.000012 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 3 | 5 | B.1.2 | 0.000026 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 5 | B.1.2 | 0.000009 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 5 | B.1.2 | 0.000009 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 4 | 4 | B.1.1.277 | 0.003035 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 3 | 3 | AY.98.1 | 0.000145 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 2 | 2 | A.21 | 0.00554 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 2 | 2 | AY.20 | 0.000078 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 2 | AY.26 | 0.000028 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 2 | AY.26 | 0.000028 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 2 | 2 | AY.43 | 0.000009 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 2 | AY.61 | 0.000105 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 2 | AY.61 | 0.000105 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 2 | 2 | B.1.1.351 | 0.005587 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 2 | 2 | B.1.177.21 | 0.000153 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 2 | 2 | B.1.177.86 | 0.000367 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 2 | 2 | B.1.36.29 | 0.001035 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 2 | 2 | B.1.399 | 0.003868 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 2 | B.1.427 | 0.00005 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 2 | B.1.427 | 0.00005 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 2 | 2 | B.1.506 | 0.047619 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 2 | 2 | B.1.575 | 0.000607 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 2 | 2 | C.32 | 0.046512 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | A.2 | 0.000662 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | AY.114 | 0.000231 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | AY.21 | 0.001898 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | AY.23.1 | 0.000417 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | AY.35 | 0.000233 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | AY.5 | 0.000021 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 1 | AY.52 | 0.000814 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.1.162 | 0.029412 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 1 | B.1.1.232 | 0.001815 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | B.1.1.28 | 0.000311 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.1.302 | 0.002075 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.1.39 | 0.00051 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.1.51 | 0.001718 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.160.26 | 0.002421 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.177.43 | 0.001477 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.177.44 | 0.000519 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.177.73 | 0.000566 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.177.81 | 0.000189 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.177.84 | 0.006667 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.243 | 0.00007 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.258.11 | 0.000396 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 1 | B.1.351 | 0.00003 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | B.1.36.8 | 0.001 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.473 | 0.019231 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.609 | 0.000479 |
ORF1ab/nsp4 | 143 | T143T | acT | acG | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp4 | 143 | T143T | acT | acC | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp4 | 143 | T143T | acT | acA | 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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