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 |
ORF3a | 93 | H93Y | nonsyn | Cac | Tac | 5463 | 5460 | 0.999451 | 25669-25671 |
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 |
ORF3a | 93 | H93Y | Cac | Tac | 5460 | 5463 | All | 0.001044 |
ORF3a | 93 | H93Y | Cac | Tac | 1354 | 1354 | AY.47 | 0.042116 |
ORF3a | 93 | H93Y | Cac | Tac | 392 | 393 | AY.25 | 0.002358 |
ORF3a | 93 | H93Y | Cac | Tac | 348 | 349 | B.1.1.7 | 0.000312 |
ORF3a | 93 | H93Y | Cac | Tac | 304 | 304 | AY.99.2 | 0.028016 |
ORF3a | 93 | H93Y | Cac | Tac | 303 | 303 | B.3.1 | 0.502488 |
ORF3a | 93 | H93Y | Cac | Tac | 293 | 293 | AY.120 | 0.010893 |
ORF3a | 93 | H93Y | Cac | Tac | 292 | 292 | AY.44 | 0.001777 |
ORF3a | 93 | H93Y | Cac | Tac | 283 | 283 | B.1.160 | 0.008826 |
ORF3a | 93 | H93Y | Cac | Tac | 279 | 279 | AY.4.2 | 0.006051 |
ORF3a | 93 | H93Y | Cac | Tac | 191 | 191 | B.1.617.2 | 0.000719 |
ORF3a | 93 | H93Y | Cac | Tac | 135 | 135 | AY.100 | 0.006211 |
ORF3a | 93 | H93Y | Cac | Tac | 110 | 110 | B.1 | 0.001008 |
ORF3a | 93 | H93Y | Cac | Tac | 105 | 105 | B.1.351 | 0.003121 |
ORF3a | 93 | H93Y | Cac | Tac | 104 | 104 | AY.4 | 0.000162 |
ORF3a | 93 | H93Y | Cac | Tac | 73 | 73 | B.1.2 | 0.000643 |
ORF3a | 93 | H93Y | Cac | Tac | 62 | 62 | AY.103 | 0.000385 |
ORF3a | 93 | H93Y | Cac | Tac | 60 | 60 | AY.39 | 0.001483 |
ORF3a | 93 | H93Y | Cac | Tac | 53 | 53 | AY.43 | 0.000235 |
ORF3a | 93 | H93Y | Cac | Tac | 52 | 52 | B.1.429 | 0.001224 |
ORF3a | 93 | H93Y | Cac | Tac | 47 | 47 | B.1.177.16 | 0.031229 |
ORF3a | 93 | H93Y | Cac | Tac | 39 | 39 | AY.3 | 0.000388 |
ORF3a | 93 | H93Y | Cac | Tac | 35 | 35 | B.1.177 | 0.000461 |
ORF3a | 93 | H93Y | Cac | Tac | 35 | 35 | B.1.351.2 | 0.01059 |
ORF3a | 93 | H93Y | Cac | Tac | 30 | 30 | AY.91 | 0.021914 |
ORF3a | 93 | H93Y | Cac | Tac | 30 | 30 | B.1.160.13 | 0.833333 |
ORF3a | 93 | H93Y | Cac | Tac | 29 | 29 | P.1.14 | 0.001386 |
ORF3a | 93 | H93Y | Cac | Tac | 24 | 24 | AY.102 | 0.000636 |
ORF3a | 93 | H93Y | Cac | Tac | 21 | 21 | P.1 | 0.000331 |
ORF3a | 93 | H93Y | Cac | Tac | 19 | 19 | B.1.1.358 | 0.655172 |
ORF3a | 93 | H93Y | Cac | Tac | 17 | 17 | AY.9.2 | 0.000624 |
ORF3a | 93 | H93Y | Cac | Tac | 13 | 13 | AY.69 | 0.002427 |
ORF3a | 93 | H93Y | Cac | Tac | 12 | 12 | B.1.1.519 | 0.000477 |
ORF3a | 93 | H93Y | Cac | Tac | 12 | 12 | B.1.526 | 0.000282 |
ORF3a | 93 | H93Y | Cac | Tac | 10 | 10 | AY.13 | 0.00161 |
ORF3a | 93 | H93Y | Cac | Tac | 9 | 9 | AY.118 | 0.000564 |
ORF3a | 93 | H93Y | Cac | Tac | 9 | 9 | AY.46.4 | 0.001481 |
ORF3a | 93 | H93Y | Cac | Tac | 9 | 9 | B.1.1 | 0.000163 |
ORF3a | 93 | H93Y | Cac | Tac | 9 | 9 | B.1.1.33 | 0.003788 |
ORF3a | 93 | H93Y | Cac | Tac | 9 | 9 | B.1.243 | 0.000626 |
ORF3a | 93 | H93Y | Cac | Tac | 8 | 8 | AY.85 | 0.003417 |
ORF3a | 93 | H93Y | Cac | Tac | 7 | 7 | AY.117 | 0.000592 |
ORF3a | 93 | H93Y | Cac | Tac | 7 | 7 | AY.119 | 0.000247 |
ORF3a | 93 | H93Y | Cac | Tac | 7 | 7 | AY.45 | 0.000852 |
ORF3a | 93 | H93Y | Cac | Tac | 7 | 7 | AY.7.1 | 0.000789 |
ORF3a | 93 | H93Y | Cac | Tac | 7 | 7 | B.1.399 | 0.01354 |
ORF3a | 93 | H93Y | Cac | Tac | 6 | 6 | AY.26 | 0.00017 |
ORF3a | 93 | H93Y | Cac | Tac | 6 | 6 | AY.5 | 0.000124 |
ORF3a | 93 | H93Y | Cac | Tac | 6 | 6 | AY.98 | 0.000474 |
ORF3a | 93 | H93Y | Cac | Tac | 6 | 6 | B.1.1.1 | 0.00196 |
ORF3a | 93 | H93Y | Cac | Tac | 6 | 6 | B.1.1.300 | 0.064516 |
ORF3a | 93 | H93Y | Cac | Tac | 6 | 6 | B.3 | 0.004983 |
ORF3a | 93 | H93Y | Cac | Tac | 5 | 5 | AY.23 | 0.000349 |
ORF3a | 93 | H93Y | Cac | Tac | 5 | 5 | AY.75 | 0.00028 |
ORF3a | 93 | H93Y | Cac | Tac | 5 | 5 | B.1.177.60 | 0.001092 |
ORF3a | 93 | H93Y | Cac | Tac | 5 | 5 | P.1.7 | 0.001596 |
ORF3a | 93 | H93Y | Cac | Tac | 4 | 4 | B.1.1.39 | 0.002039 |
ORF3a | 93 | H93Y | Cac | Tac | 4 | 4 | B.1.221 | 0.000284 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 4 | B.1.36 | 0.000438 |
ORF3a | 93 | H93Y | Cac | Tac | 4 | 4 | B.1.36.18 | 0.001681 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | AY.46 | 0.000312 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | AY.54 | 0.000286 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | AY.62 | 0.001307 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | AY.67 | 0.001393 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | AY.84 | 0.001312 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | AY.92 | 0.000862 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | B.1.1.216 | 0.002671 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | B.1.1.28 | 0.000934 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | B.1.280 | 0.021429 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | B.1.609 | 0.001438 |
ORF3a | 93 | H93Y | Cac | Tac | 3 | 3 | C.37 | 0.000348 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | A.2.5.2 | 0.003145 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.110 | 0.000225 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.113 | 0.000285 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.120.1 | 0.000642 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.14 | 0.000176 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.20 | 0.000078 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.24 | 0.000862 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.27 | 0.000129 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.35 | 0.000466 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.36 | 0.000296 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.4.5 | 0.000215 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.5.4 | 0.000553 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | AY.61 | 0.00021 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | B.1.1.234 | 0.024096 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | B.1.1.284 | 0.000215 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | B.1.336 | 0.004878 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | B.1.36.29 | 0.001035 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | B.1.398 | 0.005952 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | B.1.409 | 0.001563 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | B.1.610 | 0.007092 |
ORF3a | 93 | H93Y | Cac | Tac | 2 | 2 | Q.4 | 0.00091 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | A | 0.000387 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | A.2.2 | 0.001689 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | A.3 | 0.002096 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AD.2 | 0.000219 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AE.8 | 0.000489 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.10 | 0.00053 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.105 | 0.000643 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.29 | 0.000016 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.32 | 0.000532 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.33 | 0.000067 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.39.1 | 0.00004 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.4.2.1 | 0.000149 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.42 | 0.00004 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.46.2 | 0.000635 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.5.1 | 0.003759 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.5.2 | 0.002463 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.5.3 | 0.000337 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.53 | 0.000288 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.58 | 0.000907 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.59 | 0.00053 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.6 | 0.000041 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.74 | 0.000116 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.75.1 | 0.00018 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.8 | 0.000606 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.93 | 0.000273 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | AY.98.1 | 0.000048 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B | 0.000128 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.1.176 | 0.000439 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.1.192 | 0.002309 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.1.222 | 0.000204 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.1.315 | 0.008475 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.1.318 | 0.000302 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.1.63 | 0.000386 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.139 | 0.000733 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.177.21 | 0.000076 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.177.73 | 0.000566 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.234 | 0.000132 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.258 | 0.000067 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.281 | 0.021739 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.320 | 0.001245 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.349 | 0.000715 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.363 | 0.012987 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.44 | 0.008333 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.541 | 0.004425 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.558 | 0.004566 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.564 | 0.000426 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.596 | 0.000087 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.617.1 | 0.000129 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.634 | 0.003425 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.1.8 | 0.001972 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | B.6 | 0.00091 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | C.23 | 0.005814 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | C.36.3 | 0.000567 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | D.2 | 0.000075 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | P.1.12 | 0.000484 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | P.2 | 0.000187 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | Q.1 | 0.000126 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | Q.3 | 0.000145 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | R.1 | 0.00009 |
ORF3a | 93 | H93Y | Cac | Tac | 1 | 1 | W.4 | 0.001351 |
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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