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 |
S | 20 | T20T | syn | acC | acA | 32402 | 1544 | 0.0476514 | 21620-21622 |
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 |
S | 20 | T20T | acC | acA | 1544 | 32402 | All | 0.000295 |
S | 20 | T20T | acC | acA | 2 | 3888 | AY.75.1 | 0.000361 |
S | 20 | T20T | acC | acA | 215 | 2482 | B.1.1.7 | 0.000192 |
S | 20 | T20T | acC | acA | 32 | 1729 | B.1.617.2 | 0.00012 |
S | 20 | T20T | acC | acA | 11 | 770 | B.1.427 | 0.000555 |
S | 20 | T20T | acC | acA | 50 | 731 | AY.4 | 0.000078 |
S | 20 | T20T | acC | acA | 650 | 650 | B.1.524 | 0.914205 |
S | 20 | T20T | acC | acA | 6 | 427 | AY.47 | 0.000187 |
S | 20 | T20T | acC | acA | 34 | 425 | AY.103 | 0.000211 |
S | 20 | T20T | acC | acA | 35 | 406 | AY.25 | 0.000211 |
S | 20 | T20T | acC | acA | 60 | 271 | B.1.2 | 0.000528 |
S | 20 | T20T | acC | acA | 13 | 156 | AY.4.2 | 0.000282 |
S | 20 | T20T | acC | acA | 6 | 155 | AY.42 | 0.000241 |
S | 20 | T20T | acC | acA | 24 | 144 | B.1.1 | 0.000435 |
S | 20 | T20T | acC | acA | 21 | 143 | AY.44 | 0.000128 |
S | 20 | T20T | acC | acA | 29 | 139 | AY.43 | 0.000128 |
S | 20 | T20T | acC | acA | 33 | 127 | B.1 | 0.000302 |
S | 20 | T20T | acC | acA | 14 | 64 | B.1.429 | 0.000329 |
S | 20 | T20T | acC | acA | 1 | 60 | AY.34 | 0.000097 |
S | 20 | T20T | acC | acA | 9 | 59 | AY.39 | 0.000222 |
S | 20 | T20T | acC | acA | 2 | 52 | AY.26 | 0.000057 |
S | 20 | T20T | acC | acA | 1 | 51 | B.1.1.519 | 0.00004 |
S | 20 | T20T | acC | acA | 4 | 51 | B.1.177 | 0.000053 |
S | 20 | T20T | acC | acA | 1 | 45 | AY.119 | 0.000035 |
S | 20 | T20T | acC | acA | 15 | 45 | AY.3 | 0.000149 |
S | 20 | T20T | acC | acA | 2 | 43 | AY.33 | 0.000134 |
S | 20 | T20T | acC | acA | 33 | 41 | AY.120 | 0.001227 |
S | 20 | T20T | acC | acA | 23 | 39 | B.1.637 | 0.001681 |
S | 20 | T20T | acC | acA | 7 | 29 | B.1.160 | 0.000218 |
S | 20 | T20T | acC | acA | 29 | 29 | B.1.177.10 | 0.025461 |
S | 20 | T20T | acC | acA | 25 | 29 | B.1.258.17 | 0.002599 |
S | 20 | T20T | acC | acA | 6 | 24 | B.1.621 | 0.000531 |
S | 20 | T20T | acC | acA | 1 | 23 | AY.62 | 0.000436 |
S | 20 | T20T | acC | acA | 5 | 23 | AY.9.2 | 0.000184 |
S | 20 | T20T | acC | acA | 12 | 22 | C.37 | 0.001393 |
S | 20 | T20T | acC | acA | 1 | 16 | AY.39.1 | 0.00004 |
S | 20 | T20T | acC | acA | 2 | 15 | AY.23 | 0.000139 |
S | 20 | T20T | acC | acA | 5 | 15 | B.1.258 | 0.000333 |
S | 20 | T20T | acC | acA | 14 | 14 | B.6.6 | 0.012444 |
S | 20 | T20T | acC | acA | 1 | 13 | P.2 | 0.000187 |
S | 20 | T20T | acC | acA | 8 | 11 | B.1.1.216 | 0.007124 |
S | 20 | T20T | acC | acA | 3 | 11 | B.1.596 | 0.000261 |
S | 20 | T20T | acC | acA | 4 | 10 | AY.100 | 0.000184 |
S | 20 | T20T | acC | acA | 1 | 9 | AY.61 | 0.000105 |
S | 20 | T20T | acC | acA | 1 | 9 | B.1.466.2 | 0.000391 |
S | 20 | T20T | acC | acA | 3 | 9 | Q.8 | 0.000495 |
S | 20 | T20T | acC | acA | 2 | 8 | AY.45 | 0.000243 |
S | 20 | T20T | acC | acA | 1 | 8 | B.1.214.2 | 0.0006 |
S | 20 | T20T | acC | acA | 1 | 8 | B.1.36 | 0.000146 |
S | 20 | T20T | acC | acA | 6 | 7 | AY.121 | 0.000812 |
S | 20 | T20T | acC | acA | 4 | 6 | AY.9.1 | 0.000335 |
S | 20 | T20T | acC | acA | 6 | 6 | B.1.1.253 | 0.015038 |
S | 20 | T20T | acC | acA | 5 | 6 | B.1.1.316 | 0.004625 |
S | 20 | T20T | acC | acA | 4 | 5 | AY.27 | 0.000259 |
S | 20 | T20T | acC | acA | 2 | 5 | AY.6 | 0.000082 |
S | 20 | T20T | acC | acA | 2 | 5 | B.1.1.70 | 0.000682 |
S | 20 | T20T | acC | acA | 1 | 5 | B.1.177.75 | 0.001041 |
S | 20 | T20T | acC | acA | 1 | 4 | A.23.1 | 0.000704 |
S | 20 | T20T | acC | acA | 3 | 4 | AY.102 | 0.00008 |
S | 20 | T20T | acC | acA | 1 | 4 | B.1.1.33 | 0.000421 |
S | 20 | T20T | acC | acA | 1 | 4 | B.1.177.7 | 0.000165 |
S | 20 | T20T | acC | acA | 3 | 4 | B.1.351.2 | 0.000908 |
S | 20 | T20T | acC | acA | 4 | 4 | B.1.36.1 | 0.004561 |
S | 20 | T20T | acC | acA | 3 | 3 | AY.3.1 | 0.000256 |
S | 20 | T20T | acC | acA | 3 | 3 | AY.36 | 0.000445 |
S | 20 | T20T | acC | acA | 2 | 3 | AY.5 | 0.000041 |
S | 20 | T20T | acC | acA | 2 | 3 | B.1.1.277 | 0.001517 |
S | 20 | T20T | acC | acA | 1 | 3 | B.1.160.16 | 0.000929 |
S | 20 | T20T | acC | acA | 1 | 2 | AY.106 | 0.000335 |
S | 20 | T20T | acC | acA | 1 | 2 | AY.109 | 0.00074 |
S | 20 | T20T | acC | acA | 2 | 2 | AY.116 | 0.000574 |
S | 20 | T20T | acC | acA | 1 | 2 | AY.46 | 0.000104 |
S | 20 | T20T | acC | acA | 2 | 2 | AY.60 | 0.001876 |
S | 20 | T20T | acC | acA | 1 | 2 | B.1.157 | 0.002985 |
S | 20 | T20T | acC | acA | 1 | 2 | B.1.391 | 0.001127 |
S | 20 | T20T | acC | acA | 1 | 1 | AY.113 | 0.000142 |
S | 20 | T20T | acC | acA | 1 | 1 | AY.120.2.1 | 0.000498 |
S | 20 | T20T | acC | acA | 1 | 1 | AY.39.1.1 | 0.000725 |
S | 20 | T20T | acC | acA | 1 | 1 | AY.5.3 | 0.000337 |
S | 20 | T20T | acC | acA | 1 | 1 | AY.53 | 0.000288 |
S | 20 | T20T | acC | acA | 1 | 1 | AY.66 | 0.00107 |
S | 20 | T20T | acC | acA | 1 | 1 | AY.84 | 0.000437 |
S | 20 | T20T | acC | acA | 1 | 1 | AY.88 | 0.000884 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.1.157 | 0.000913 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.1.161 | 0.003534 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.1.189 | 0.001513 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.1.306 | 0.000438 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.1.518 | 0.006329 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.1.59 | 0.006494 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.1.8 | 0.003584 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.177.39 | 0.015385 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.311 | 0.000275 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.351.3 | 0.000876 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.36.16 | 0.001425 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.36.38 | 0.001642 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.362 | 0.001541 |
S | 20 | T20T | acC | acA | 1 | 1 | B.1.416.1 | 0.001563 |
S | 20 | T20T | acC | acA | 1 | 1 | P.3 | 0.001595 |
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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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