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 | R119C | R119C | nonsyn | Cgc | Tgc | 1076 | 1075 | 0.999071 | 620-622 |
ORF1ab/nsp1 | 119 | R119C | R119C | nonsyn | CgC | TgT | 1076 | 1 | 0.000929368 | 620-622 |
Details of the mutation R119C 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 | R119C | Cgc | Tgc | 1075 | 1076 | All | 0.000206 |
ORF1ab/nsp1 | 119 | R119C | CgC | TgT | 1 | 1076 | All | 0 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 385 | 385 | AY.26 | 0.010899 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 105 | 105 | AY.111 | 0.019231 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 86 | 86 | B.1.617.2 | 0.000324 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 49 | 49 | B.1.1.214 | 0.002717 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 47 | 47 | AY.16.1 | 0.022086 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 41 | 41 | B.1.1.7 | 0.000037 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 40 | 40 | AY.4 | 0.000062 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 38 | 38 | AY.25 | 0.000229 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 32 | 32 | AY.43 | 0.000142 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 15 | 15 | B.1 | 0.000137 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 13 | 13 | B.1.177 | 0.000171 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 12 | 12 | AY.44 | 0.000073 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 11 | 11 | AY.61 | 0.001153 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 10 | 10 | P.1 | 0.000158 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 9 | 9 | B.1.1.461 | 0.108434 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 8 | 8 | AY.39 | 0.000198 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 8 | 8 | B.1.377 | 0.03653 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 8 | 8 | B.1.580 | 0.03252 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 7 | 7 | AY.103 | 0.000043 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 7 | 7 | AY.3 | 0.00007 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 7 | 7 | B.1.429 | 0.000165 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 5 | 5 | AY.102 | 0.000133 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 5 | 5 | AY.29 | 0.000079 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 5 | 5 | B.1.232 | 0.002687 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 5 | 5 | B.1.351 | 0.000149 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 4 | 4 | B.1.1 | 0.000073 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 4 | 4 | B.1.2 | 0.000035 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 4 | 4 | P.1.17 | 0.000647 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | AY.10 | 0.00159 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | AY.113 | 0.000427 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | AY.120 | 0.000112 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | AY.45 | 0.000365 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | AY.47 | 0.000093 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | AY.74 | 0.000347 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | AY.9.2 | 0.00011 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | B.1.104 | 0.01107 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 3 | 3 | B.1.526 | 0.000071 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | AY.114 | 0.000462 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | AY.4.2 | 0.000043 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | AY.46 | 0.000208 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | AY.48 | 0.00093 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | AY.5 | 0.000041 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | AY.75 | 0.000112 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | AY.98.1 | 0.000097 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | B.1.1.284 | 0.000215 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | B.1.1.372 | 0.001377 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | B.1.1.519 | 0.000079 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 2 | B.1.160.16 | 0.000929 |
ORF1ab/nsp1 | 119 | R119C | CgC | TgT | 1 | 2 | B.1.160.16 | 0.000929 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 2 | 2 | B.1.596 | 0.000174 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | 0.055556 | |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AD.2 | 0.000219 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AU.1 | 0.001266 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.100 | 0.000046 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.117 | 0.000085 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.119 | 0.000035 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.121 | 0.000135 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.20 | 0.000039 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.32 | 0.000532 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.33 | 0.000067 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.34 | 0.000097 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.36 | 0.000148 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.42 | 0.00004 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.46.4 | 0.000165 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.53 | 0.000288 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.59 | 0.00053 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.60 | 0.000938 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.65 | 0.000533 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.7.1 | 0.000113 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.78 | 0.001541 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.9 | 0.000068 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.93 | 0.000273 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.98 | 0.000079 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | AY.99.2 | 0.000092 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B | 0.000128 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.1.192 | 0.002309 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.1.222 | 0.000204 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.1.263 | 0.001558 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.1.37 | 0.000193 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.1.507 | 0.008696 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.1.523 | 0.001563 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.1.70 | 0.000341 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.160 | 0.000031 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.160.30 | 0.002976 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.177.75 | 0.001041 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.177.8 | 0.000752 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.258 | 0.000067 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.258.17 | 0.000104 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.351.3 | 0.000876 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.36 | 0.000146 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.36.29 | 0.000517 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.362 | 0.001541 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.366 | 0.004878 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.400 | 0.000429 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.409 | 0.000781 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.416 | 0.001269 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.427 | 0.00005 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.438.1 | 0.000107 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.474 | 0.001901 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.525 | 0.000113 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.617.1 | 0.000129 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | B.1.621 | 0.000089 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | C.37 | 0.000116 |
ORF1ab/nsp1 | 119 | R119C | Cgc | Tgc | 1 | 1 | D.2 | 0.000075 |
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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