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/nsp1 | 119 | R119R | R119R | syn | cgC | cgT | 2038 | 2005 | 0.983808 | 620-622 |
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/nsp1 | 119 | R119R | cgC | cgT | 2005 | 2038 | All | 0.000383 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 791 | 795 | B.1.1.7 | 0.000708 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 253 | 253 | B.1.149 | 0.866438 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 112 | 112 | AY.34 | 0.01086 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 107 | 107 | AY.43 | 0.000474 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 74 | 75 | AY.4 | 0.000115 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 60 | 60 | AY.75 | 0.003361 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 52 | 52 | AY.121 | 0.007037 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 49 | 50 | B.1.617.2 | 0.000185 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 46 | 47 | AY.25 | 0.000277 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 45 | 46 | AY.119 | 0.001589 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 32 | 32 | AY.33 | 0.002137 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 29 | 30 | AY.98.1 | 0.001404 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 27 | 27 | C.36 | 0.02459 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 16 | 26 | AY.3 | 0.000159 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 23 | 23 | B.1 | 0.000211 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 23 | 23 | Q.8 | 0.003793 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 21 | 21 | B.1.177 | 0.000277 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 19 | 19 | P.1.14 | 0.000908 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 18 | 18 | P.1 | 0.000284 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 16 | 16 | B.1.2 | 0.000141 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 14 | 14 | AY.29 | 0.000221 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 10 | 13 | AY.103 | 0.000062 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 10 | 10 | B.1.1.519 | 0.000397 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 10 | 10 | B.1.234 | 0.001319 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 9 | 9 | B.1.1 | 0.000163 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 8 | 8 | AY.117 | 0.000676 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 6 | 6 | B.1.351 | 0.000178 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 5 | 5 | AY.102 | 0.000133 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 3 | 4 | AY.120 | 0.000112 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 4 | 4 | AY.26 | 0.000113 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 4 | AY.44 | 0.000012 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 4 | 4 | AY.8 | 0.002424 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 4 | 4 | B.1.526 | 0.000094 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 4 | 4 | Q.1 | 0.000505 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 3 | 3 | AY.20 | 0.000117 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 3 | 3 | AY.21 | 0.005693 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 3 | AY.4.2 | 0.000043 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 3 | AY.47 | 0.000062 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 3 | 3 | B.1.241 | 0.002435 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 3 | 3 | D.2 | 0.000225 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 3 | 3 | P.1.15 | 0.000697 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | 0.111111 | |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | AY.100 | 0.000092 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | AY.113 | 0.000285 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | AY.14 | 0.000176 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | AY.42 | 0.00008 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.1.135 | 0.00939 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.1.228 | 0.006098 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.1.33 | 0.000842 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.160.25 | 0.022222 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.177.21 | 0.000153 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.177.81 | 0.000379 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.237 | 0.00995 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.240 | 0.000431 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.39 | 0.007812 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | B.1.637 | 0.000146 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 2 | 2 | C.37 | 0.000232 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.116 | 0.000287 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.118 | 0.000063 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.23 | 0.00007 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.4.5 | 0.000107 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.46 | 0.000104 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.5.3 | 0.000337 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.5.4 | 0.000277 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.55 | 0.000917 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.6 | 0.000041 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.61 | 0.000105 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.62 | 0.000436 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.65 | 0.000533 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.68 | 0.000274 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.9.2 | 0.000037 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.91 | 0.00073 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.92 | 0.000287 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.96 | 0.002075 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | AZ.2.1 | 0.00813 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B | 0.000128 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.1.172 | 0.018182 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.1.284 | 0.000107 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.1.485 | 0.016667 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.1.507 | 0.008696 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.160.16 | 0.000929 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.170 | 0.00431 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.177.48 | 0.003125 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.177.7 | 0.000165 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.210 | 0.002132 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.221 | 0.000071 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.429 | 0.000024 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.438.1 | 0.000107 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.466.2 | 0.000391 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.468 | 0.005714 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.469 | 0.00361 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.487 | 0.019608 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.499 | 0.00105 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.503 | 0.002488 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.544 | 0.006024 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.564 | 0.000426 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.589 | 0.007576 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.596 | 0.000087 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.1.623 | 0.000536 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | B.3 | 0.000831 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 1 | 1 | P.1.4 | 0.000977 |
ORF1ab/nsp1 | 119 | R119R | cgC | cgT | 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
|