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 | 100 | G100V | nonsyn | gGc | gTc | 2458 | 2456 | 0.999186 | 25690-25692 | |
ORF3a | 100 | G100V | nonsyn | gGC | gTA | 2458 | 1 | 0.000406835 | 25690-25692 | |
ORF3a | 100 | G100V | nonsyn | gGC | gTT | 2458 | 1 | 0.000406835 | 25690-25692 |
Details of the mutation G100V 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 | 100 | G100V | gGc | gTc | 2456 | 2458 | All | 0.00047 |
ORF3a | 100 | G100V | gGC | gTA | 1 | 2458 | All | 0 |
ORF3a | 100 | G100V | gGC | gTT | 1 | 2458 | All | 0 |
ORF3a | 100 | G100V | gGc | gTc | 1403 | 1403 | AY.64 | 0.835119 |
ORF3a | 100 | G100V | gGc | gTc | 319 | 319 | B.1.1.7 | 0.000286 |
ORF3a | 100 | G100V | gGc | gTc | 98 | 98 | B.1.1.291 | 0.072754 |
ORF3a | 100 | G100V | gGc | gTc | 91 | 91 | B.1.617.2 | 0.000343 |
ORF3a | 100 | G100V | gGc | gTc | 81 | 81 | AY.4 | 0.000126 |
ORF3a | 100 | G100V | gGc | gTc | 65 | 65 | B.1.2 | 0.000572 |
ORF3a | 100 | G100V | gGc | gTc | 33 | 33 | AY.43 | 0.000146 |
ORF3a | 100 | G100V | gGc | gTc | 32 | 32 | AY.98 | 0.002528 |
ORF3a | 100 | G100V | gGc | gTc | 25 | 25 | AY.25 | 0.00015 |
ORF3a | 100 | G100V | gGc | gTc | 21 | 21 | AY.65 | 0.011194 |
ORF3a | 100 | G100V | gGc | gTc | 19 | 20 | AY.44 | 0.000116 |
ORF3a | 100 | G100V | gGC | gTA | 1 | 20 | AY.44 | 0.000006 |
ORF3a | 100 | G100V | gGc | gTc | 17 | 17 | AY.9.2 | 0.000624 |
ORF3a | 100 | G100V | gGc | gTc | 12 | 12 | AY.103 | 0.000075 |
ORF3a | 100 | G100V | gGc | gTc | 12 | 12 | AY.119 | 0.000424 |
ORF3a | 100 | G100V | gGc | gTc | 12 | 12 | P.1 | 0.000189 |
ORF3a | 100 | G100V | gGc | gTc | 10 | 10 | AY.102 | 0.000265 |
ORF3a | 100 | G100V | gGc | gTc | 10 | 10 | AY.99.2 | 0.000922 |
ORF3a | 100 | G100V | gGc | gTc | 9 | 9 | AY.13 | 0.001449 |
ORF3a | 100 | G100V | gGc | gTc | 9 | 9 | AY.5 | 0.000186 |
ORF3a | 100 | G100V | gGc | gTc | 8 | 8 | B.1.1 | 0.000145 |
ORF3a | 100 | G100V | gGc | gTc | 8 | 8 | B.1.1.217 | 0.029091 |
ORF3a | 100 | G100V | gGc | gTc | 7 | 7 | B.1.177 | 0.000092 |
ORF3a | 100 | G100V | gGc | gTc | 7 | 7 | D.2 | 0.000525 |
ORF3a | 100 | G100V | gGc | gTc | 6 | 6 | B.1 | 0.000055 |
ORF3a | 100 | G100V | gGc | gTc | 6 | 6 | B.1.351 | 0.000178 |
ORF3a | 100 | G100V | gGc | gTc | 5 | 5 | AY.120 | 0.000186 |
ORF3a | 100 | G100V | gGc | gTc | 5 | 5 | AY.24 | 0.002155 |
ORF3a | 100 | G100V | gGc | gTc | 5 | 5 | AY.3 | 0.00005 |
ORF3a | 100 | G100V | gGc | gTc | 5 | 5 | AY.4.2 | 0.000108 |
ORF3a | 100 | G100V | gGc | gTc | 5 | 5 | AY.4.5 | 0.000537 |
ORF3a | 100 | G100V | gGc | gTc | 4 | 4 | AY.39 | 0.000099 |
ORF3a | 100 | G100V | gGc | gTc | 4 | 4 | AY.61 | 0.000419 |
ORF3a | 100 | G100V | gGc | gTc | 4 | 4 | B.1.1.214 | 0.000222 |
ORF3a | 100 | G100V | gGc | gTc | 4 | 4 | B.1.177.86 | 0.000734 |
ORF3a | 100 | G100V | gGc | gTc | 4 | 4 | B.1.241 | 0.003247 |
ORF3a | 100 | G100V | gGc | gTc | 4 | 4 | B.1.36 | 0.000584 |
ORF3a | 100 | G100V | gGc | gTc | 4 | 4 | B.1.570 | 0.011765 |
ORF3a | 100 | G100V | gGc | gTc | 3 | 3 | AY.105 | 0.001929 |
ORF3a | 100 | G100V | gGc | gTc | 3 | 3 | AY.118 | 0.000188 |
ORF3a | 100 | G100V | gGc | gTc | 3 | 3 | AY.33 | 0.0002 |
ORF3a | 100 | G100V | gGc | gTc | 3 | 3 | AY.60 | 0.002814 |
ORF3a | 100 | G100V | gGc | gTc | 3 | 3 | AY.67 | 0.001393 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 2 | 0.055556 | |
ORF3a | 100 | G100V | gGC | gTT | 1 | 2 | 0.055556 | |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | AY.100 | 0.000092 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | AY.23 | 0.000139 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | AY.30 | 0.000791 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | AY.5.3 | 0.000675 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | AY.62 | 0.000871 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | AY.73 | 0.001331 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | AY.75 | 0.000112 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | AY.80 | 0.002257 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | B | 0.000256 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | B.1.1.222 | 0.000408 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | B.1.36.31 | 0.003503 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | B.1.429 | 0.000047 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | P.1.12 | 0.000968 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | P.1.14 | 0.000096 |
ORF3a | 100 | G100V | gGc | gTc | 2 | 2 | Q.8 | 0.00033 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AE.8 | 0.000489 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.10 | 0.00053 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.110 | 0.000113 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.16 | 0.00038 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.2 | 0.000356 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.20 | 0.000039 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.3.1 | 0.000085 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.37 | 0.000316 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.39.1 | 0.00004 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.42 | 0.00004 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.45 | 0.000122 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.46 | 0.000104 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.46.1 | 0.001027 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.47 | 0.000031 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.74 | 0.000116 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.79 | 0.001211 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.93 | 0.000273 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AY.98.1 | 0.000048 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | AZ.2 | 0.000821 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.1.163 | 0.007634 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.1.189 | 0.001513 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.1.361 | 0.045455 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.104 | 0.00369 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.214 | 0.003663 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.22 | 0.001318 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.258 | 0.000067 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.468 | 0.005714 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.523 | 0.002451 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.554 | 0.004405 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.560 | 0.00463 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.596 | 0.000087 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.609 | 0.000479 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.1.617.1 | 0.000129 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.28 | 0.003279 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | B.6 | 0.00091 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | C.37 | 0.000116 |
ORF3a | 100 | G100V | gGc | gTc | 1 | 1 | P.2 | 0.000187 |
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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