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 |
noncoding | 64 | C64T | noncoding | C | T | 5073 | 5073 | 1 | 64-64 |
Details of the mutation C64T 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 |
noncoding | 64 | C64T | C | T | 5073 | 5073 | All | 0.00097 |
noncoding | 64 | C64T | C | T | 2433 | 2433 | AY.70 | 0.507298 |
noncoding | 64 | C64T | C | T | 453 | 453 | B.1.617.2 | 0.001706 |
noncoding | 64 | C64T | C | T | 301 | 301 | AY.4 | 0.000468 |
noncoding | 64 | C64T | C | T | 258 | 258 | B.1.1.7 | 0.000231 |
noncoding | 64 | C64T | C | T | 235 | 235 | AY.25 | 0.001413 |
noncoding | 64 | C64T | C | T | 185 | 185 | AY.102 | 0.004905 |
noncoding | 64 | C64T | C | T | 148 | 148 | AY.43 | 0.000656 |
noncoding | 64 | C64T | C | T | 67 | 67 | AY.44 | 0.000408 |
noncoding | 64 | C64T | C | T | 64 | 64 | B.1.177.21 | 0.004894 |
noncoding | 64 | C64T | C | T | 58 | 58 | AY.39 | 0.001433 |
noncoding | 64 | C64T | C | T | 51 | 51 | AY.103 | 0.000317 |
noncoding | 64 | C64T | C | T | 42 | 42 | AY.120 | 0.001562 |
noncoding | 64 | C64T | C | T | 40 | 40 | B.1.177.44 | 0.020758 |
noncoding | 64 | C64T | C | T | 39 | 39 | B.1.2 | 0.000343 |
noncoding | 64 | C64T | C | T | 37 | 37 | B.1.177 | 0.000487 |
noncoding | 64 | C64T | C | T | 37 | 37 | B.1.177.65 | 0.024617 |
noncoding | 64 | C64T | C | T | 31 | 31 | B.1.1.519 | 0.001231 |
noncoding | 64 | C64T | C | T | 30 | 30 | B.1 | 0.000275 |
noncoding | 64 | C64T | C | T | 27 | 27 | B.1.1 | 0.00049 |
noncoding | 64 | C64T | C | T | 18 | 18 | AY.78 | 0.027735 |
noncoding | 64 | C64T | C | T | 18 | 18 | C.35 | 0.013932 |
noncoding | 64 | C64T | C | T | 17 | 17 | AY.107 | 0.007922 |
noncoding | 64 | C64T | C | T | 17 | 17 | B.1.1.39 | 0.008665 |
noncoding | 64 | C64T | C | T | 17 | 17 | B.1.160 | 0.00053 |
noncoding | 64 | C64T | C | T | 15 | 15 | B.1.637 | 0.001096 |
noncoding | 64 | C64T | C | T | 14 | 14 | AY.73 | 0.009315 |
noncoding | 64 | C64T | C | T | 13 | 13 | AY.47 | 0.000404 |
noncoding | 64 | C64T | C | T | 13 | 13 | B.1.438.1 | 0.001394 |
noncoding | 64 | C64T | C | T | 12 | 12 | AY.3 | 0.000119 |
noncoding | 64 | C64T | C | T | 12 | 12 | B.1.177.16 | 0.007973 |
noncoding | 64 | C64T | C | T | 12 | 12 | B.1.596 | 0.001046 |
noncoding | 64 | C64T | C | T | 11 | 11 | AY.42 | 0.000443 |
noncoding | 64 | C64T | C | T | 10 | 10 | AY.5 | 0.000206 |
noncoding | 64 | C64T | C | T | 10 | 10 | P.1 | 0.000158 |
noncoding | 64 | C64T | C | T | 8 | 8 | AY.23 | 0.000558 |
noncoding | 64 | C64T | C | T | 8 | 8 | AY.26 | 0.000226 |
noncoding | 64 | C64T | C | T | 8 | 8 | AY.29 | 0.000126 |
noncoding | 64 | C64T | C | T | 8 | 8 | AY.46 | 0.000833 |
noncoding | 64 | C64T | C | T | 8 | 8 | AY.56 | 0.012841 |
noncoding | 64 | C64T | C | T | 8 | 8 | B.1.351 | 0.000238 |
noncoding | 64 | C64T | C | T | 7 | 7 | AY.116 | 0.002007 |
noncoding | 64 | C64T | C | T | 7 | 7 | AY.46.6 | 0.000505 |
noncoding | 64 | C64T | C | T | 7 | 7 | B.1.1.306 | 0.003069 |
noncoding | 64 | C64T | C | T | 7 | 7 | B.1.1.432 | 0.008861 |
noncoding | 64 | C64T | C | T | 7 | 7 | B.1.240 | 0.001509 |
noncoding | 64 | C64T | C | T | 7 | 7 | R.1 | 0.00063 |
noncoding | 64 | C64T | C | T | 6 | 6 | AY.100 | 0.000276 |
noncoding | 64 | C64T | C | T | 6 | 6 | AY.5.3 | 0.002024 |
noncoding | 64 | C64T | C | T | 6 | 6 | B.1.1.216 | 0.005343 |
noncoding | 64 | C64T | C | T | 6 | 6 | B.1.22 | 0.007905 |
noncoding | 64 | C64T | C | T | 6 | 6 | B.1.429 | 0.000141 |
noncoding | 64 | C64T | C | T | 6 | 6 | P.2 | 0.00112 |
noncoding | 64 | C64T | C | T | 5 | 5 | AY.117 | 0.000423 |
noncoding | 64 | C64T | C | T | 5 | 5 | AY.20 | 0.000194 |
noncoding | 64 | C64T | C | T | 5 | 5 | AY.33 | 0.000334 |
noncoding | 64 | C64T | C | T | 5 | 5 | B.1.1.222 | 0.00102 |
noncoding | 64 | C64T | C | T | 5 | 5 | B.1.526 | 0.000118 |
noncoding | 64 | C64T | C | T | 4 | 4 | AY.108 | 0.00441 |
noncoding | 64 | C64T | C | T | 4 | 4 | AY.119 | 0.000141 |
noncoding | 64 | C64T | C | T | 4 | 4 | AY.48 | 0.00186 |
noncoding | 64 | C64T | C | T | 4 | 4 | AY.9.1 | 0.000335 |
noncoding | 64 | C64T | C | T | 4 | 4 | B.1.177.81 | 0.000757 |
noncoding | 64 | C64T | C | T | 4 | 4 | B.1.258 | 0.000266 |
noncoding | 64 | C64T | C | T | 4 | 4 | B.1.36 | 0.000584 |
noncoding | 64 | C64T | C | T | 3 | 3 | A.2.5.3 | 0.030928 |
noncoding | 64 | C64T | C | T | 3 | 3 | AN.1 | 0.06 |
noncoding | 64 | C64T | C | T | 3 | 3 | AY.39.2 | 0.004622 |
noncoding | 64 | C64T | C | T | 3 | 3 | AY.4.2 | 0.000065 |
noncoding | 64 | C64T | C | T | 3 | 3 | AY.4.4 | 0.001227 |
noncoding | 64 | C64T | C | T | 3 | 3 | AY.45 | 0.000365 |
noncoding | 64 | C64T | C | T | 3 | 3 | AY.5.4 | 0.00083 |
noncoding | 64 | C64T | C | T | 3 | 3 | AY.54 | 0.000286 |
noncoding | 64 | C64T | C | T | 3 | 3 | AY.9.2 | 0.00011 |
noncoding | 64 | C64T | C | T | 3 | 3 | AY.98 | 0.000237 |
noncoding | 64 | C64T | C | T | 3 | 3 | B.1.1.317 | 0.001235 |
noncoding | 64 | C64T | C | T | 3 | 3 | B.1.396 | 0.002117 |
noncoding | 64 | C64T | C | T | 3 | 3 | B.1.409 | 0.002344 |
noncoding | 64 | C64T | C | T | 3 | 3 | P.1.14 | 0.000143 |
noncoding | 64 | C64T | C | T | 2 | 2 | AY.4.2.1 | 0.000298 |
noncoding | 64 | C64T | C | T | 2 | 2 | AY.4.5 | 0.000215 |
noncoding | 64 | C64T | C | T | 2 | 2 | AY.41 | 0.000588 |
noncoding | 64 | C64T | C | T | 2 | 2 | AY.53 | 0.000575 |
noncoding | 64 | C64T | C | T | 2 | 2 | AY.61 | 0.00021 |
noncoding | 64 | C64T | C | T | 2 | 2 | AY.92 | 0.000575 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.1.326 | 0.003521 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.1.50 | 0.001358 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.160.30 | 0.005952 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.177.73 | 0.001133 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.177.86 | 0.000367 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.221 | 0.000142 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.234 | 0.000264 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.239 | 0.002442 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.258.17 | 0.000208 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.369 | 0.00057 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.400 | 0.000858 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.428 | 0.002041 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.433 | 0.00639 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.448 | 0.005249 |
noncoding | 64 | C64T | C | T | 2 | 2 | B.1.617.1 | 0.000258 |
noncoding | 64 | C64T | C | T | 2 | 2 | P.4 | 0.007605 |
noncoding | 64 | C64T | C | T | 1 | 1 | AD.2 | 0.000219 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.10 | 0.00053 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.111 | 0.000183 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.113 | 0.000142 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.12 | 0.000316 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.120.1 | 0.000321 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.121 | 0.000135 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.14 | 0.000088 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.16.1 | 0.00047 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.27 | 0.000065 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.34.1 | 0.00051 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.39.1 | 0.00004 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.46.3 | 0.000934 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.6 | 0.000041 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.62 | 0.000436 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.67 | 0.000464 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.68 | 0.000274 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.7.1 | 0.000113 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.77 | 0.001127 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.84 | 0.000437 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.85 | 0.000427 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.88 | 0.000884 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.9 | 0.000068 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.95 | 0.000761 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.98.1 | 0.000048 |
noncoding | 64 | C64T | C | T | 1 | 1 | AY.99 | 0.001049 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.1 | 0.000327 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.214 | 0.000055 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.28 | 0.000311 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.311 | 0.000358 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.318 | 0.000302 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.413 | 0.006897 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.434 | 0.000349 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.46 | 0.004367 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.513 | 0.012346 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.1.525 | 0.005464 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.104 | 0.00369 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.111 | 0.001175 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.177.43 | 0.001477 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.177.46 | 0.000918 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.177.9 | 0.001332 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.223 | 0.002778 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.320 | 0.001245 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.324 | 0.001605 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.36.26 | 0.002857 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.36.29 | 0.000517 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.36.38 | 0.001642 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.377 | 0.004566 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.427 | 0.00005 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.44 | 0.008333 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.466 | 0.023256 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.525 | 0.000113 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.595 | 0.000261 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.1.93 | 0.000934 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.33 | 0.021277 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.4 | 0.002208 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.40 | 0.000364 |
noncoding | 64 | C64T | C | T | 1 | 1 | B.50 | 0.111111 |
noncoding | 64 | C64T | C | T | 1 | 1 | C.37 | 0.000116 |
noncoding | 64 | C64T | C | T | 1 | 1 | P.1.10 | 0.000269 |
noncoding | 64 | C64T | C | T | 1 | 1 | P.1.10.1 | 0.00813 |
noncoding | 64 | C64T | C | T | 1 | 1 | P.1.7 | 0.000319 |
noncoding | 64 | C64T | C | T | 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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