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/nsp5A-B | 33 | D33D | D3296D | syn | gaT | gaC | 1219 | 1219 | 1 | 10151-10153 |
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/nsp5A-B | 33 | D33D | gaT | gaC | 1219 | 1219 | All | 0.000233 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 218 | 218 | B.1.541 | 0.964602 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 169 | 169 | AY.34.1 | 0.086181 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 128 | 128 | B.1.1.7 | 0.000115 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 107 | 107 | AY.4 | 0.000167 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 102 | 102 | AD.1 | 0.419753 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 98 | 98 | B.1.36.9 | 0.315113 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 80 | 80 | B.1 | 0.000733 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 75 | 75 | B.1.36.21 | 0.161987 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 24 | 24 | B.1.617.2 | 0.00009 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 15 | 15 | B.1.429 | 0.000353 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 14 | 14 | AY.44 | 0.000085 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 13 | 13 | AY.25 | 0.000078 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 10 | 10 | AY.103 | 0.000062 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 10 | 10 | AY.98.1 | 0.000484 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 10 | 10 | B.1.2 | 0.000088 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 8 | 8 | AY.34 | 0.000776 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 8 | 8 | AY.61 | 0.000838 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 7 | 7 | AY.43 | 0.000031 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 6 | 6 | AY.3 | 0.00006 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 6 | 6 | B.1.526 | 0.000141 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 5 | 5 | AY.39 | 0.000124 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 5 | 5 | AY.46 | 0.00052 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 5 | 5 | AY.98 | 0.000395 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 4 | 4 | AY.20 | 0.000155 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 4 | 4 | B.1.177 | 0.000053 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 4 | 4 | W.4 | 0.005405 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 3 | 3 | A | 0.001161 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 3 | 3 | AY.100 | 0.000138 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 3 | 3 | AY.116 | 0.00086 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 3 | 3 | AY.19 | 0.003421 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 3 | 3 | AY.39.1 | 0.000119 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 3 | 3 | AY.42 | 0.000121 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 3 | 3 | B.1.1.25 | 0.001706 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 3 | 3 | B.1.221 | 0.000213 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | AY.118 | 0.000125 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | AY.29 | 0.000032 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | AY.36 | 0.000296 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | AY.54 | 0.000191 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | AY.75 | 0.000112 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | AY.9 | 0.000135 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | B.1.177.60 | 0.000437 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | B.1.36 | 0.000292 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | B.1.369 | 0.00057 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | B.1.617.1 | 0.000258 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | P.1 | 0.000032 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 2 | 2 | P.1.14 | 0.000096 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.108 | 0.001103 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.11 | 0.001339 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.113 | 0.000142 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.16.1 | 0.00047 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.24 | 0.000431 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.26 | 0.000028 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.30 | 0.000396 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.46.6 | 0.000072 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.47 | 0.000031 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | AY.93 | 0.000273 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.1 | 0.000018 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.1.231 | 0.003096 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.1.318 | 0.000302 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.1.372 | 0.000689 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.1.435 | 0.034483 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.1.63 | 0.000386 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.146 | 0.004237 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.177.12 | 0.000152 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.177.16 | 0.000664 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.177.21 | 0.000076 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.177.62 | 0.001192 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.36.1 | 0.00114 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.36.23 | 0.016393 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.420 | 0.010417 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.422 | 0.000812 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | B.1.595 | 0.000261 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | D.2 | 0.000075 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 1 | 1 | Q.1 | 0.000126 |
ORF1ab/nsp5A-B | 33 | D33D | gaT | gaC | 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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