CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 39 & Codon = ctA

Details of the codons used for the mutation across all lineages (CodonProp is the proportion each codon is used for this AA mutation):

ORFCodonNumMutORF1abMutMutTypeRefCodonMutCodonAACountCodonCountCodonPropGenome Position
ORF1ab/nsp239L39LL219LsynctGctA1114125550.229333920-922

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp239L39LctGctA255511141All0.000489
ORF1ab/nsp239L39LctGctA751898B.1.1.70.000067
ORF1ab/nsp239L39LctGctA13051305B.1.36.270.996183
ORF1ab/nsp239L39LctGctA99627AY.40.000154
ORF1ab/nsp239L39LctGctA23418AY.440.00014
ORF1ab/nsp239L39LctGctA108411B.1.617.20.000407
ORF1ab/nsp239L39LctGctA14403B.1.4290.000329
ORF1ab/nsp239L39LctGctA312323B.1.360.045521
ORF1ab/nsp239L39LctGctA18318AY.1030.000112
ORF1ab/nsp239L39LctGctA45266P.10.000709
ORF1ab/nsp239L39LctGctA1248B.1.2580.000067
ORF1ab/nsp239L39LctGctA16228B.1.20.000141
ORF1ab/nsp239L39LctGctA11212B.1.1770.000145
ORF1ab/nsp239L39LctGctA20179B.10.000183
ORF1ab/nsp239L39LctGctA3141AY.30.00003
ORF1ab/nsp239L39LctGctA2117B.1.6370.000146
ORF1ab/nsp239L39LctGctA8115AY.430.000035
ORF1ab/nsp239L39LctGctA1114B.1.5960.000087
ORF1ab/nsp239L39LctGctA19102B.1.10.000345
ORF1ab/nsp239L39LctGctA171AY.200.000039
ORF1ab/nsp239L39LctGctA6266B.1.1.2140.003438
ORF1ab/nsp239L39LctGctA165B.1.6090.000479
ORF1ab/nsp239L39LctGctA6262A0.023994
ORF1ab/nsp239L39LctGctA155AY.390.000025
ORF1ab/nsp239L39LctGctA5555AY.7.10.006199
ORF1ab/nsp239L39LctGctA1254AY.39.10.000475
ORF1ab/nsp239L39LctGctA551AY.250.00003
ORF1ab/nsp239L39LctGctA450B.1.5260.000094
ORF1ab/nsp239L39LctGctA349AY.1020.00008
ORF1ab/nsp239L39LctGctA1849AY.99.20.001659
ORF1ab/nsp239L39LctGctA248AY.470.000062
ORF1ab/nsp239L39LctGctA344B.1.6210.000266
ORF1ab/nsp239L39LctGctA139AY.50.000021
ORF1ab/nsp239L39LctGctA2538AY.1000.00115
ORF1ab/nsp239L39LctGctA3234AY.9.10.002679
ORF1ab/nsp239L39LctGctA2833AY.290.000442
ORF1ab/nsp239L39LctGctA233B.1.3510.000059
ORF1ab/nsp239L39LctGctA130AY.610.000105
ORF1ab/nsp239L39LctGctA129AY.330.000067
ORF1ab/nsp239L39LctGctA1326B.1.1.5190.000516
ORF1ab/nsp239L39LctGctA826B.1.4270.000404
ORF1ab/nsp239L39LctGctA1822AY.1210.002436
ORF1ab/nsp239L39LctGctA321AY.4.20.000065
ORF1ab/nsp239L39LctGctA316B.1.1.280.000934
ORF1ab/nsp239L39LctGctA115B.1.1.3170.000412
ORF1ab/nsp239L39LctGctA1213AY.140.001056
ORF1ab/nsp239L39LctGctA312AY.9.20.00011
ORF1ab/nsp239L39LctGctA511AY.420.000201
ORF1ab/nsp239L39LctGctA111C.370.000116
ORF1ab/nsp239L39LctGctA29AY.29.10.000441
ORF1ab/nsp239L39LctGctA79B.1.177.440.003633
ORF1ab/nsp239L39LctGctA89B.1.4700.011236
ORF1ab/nsp239L39LctGctA18AY.120.000316
ORF1ab/nsp239L39LctGctA17AY.1190.000035
ORF1ab/nsp239L39LctGctA27AY.340.000194
ORF1ab/nsp239L39LctGctA17AY.460.000104
ORF1ab/nsp239L39LctGctA17AY.5.40.000277
ORF1ab/nsp239L39LctGctA17AY.60.000041
ORF1ab/nsp239L39LctGctA16AY.1180.000063
ORF1ab/nsp239L39LctGctA66B.1.4680.034286
ORF1ab/nsp239L39LctGctA15AY.1170.000085
ORF1ab/nsp239L39LctGctA15B.1.1.250.000569
ORF1ab/nsp239L39LctGctA15B.1.177.70.000165
ORF1ab/nsp239L39LctGctA15C.360.000911
ORF1ab/nsp239L39LctGctA14AY.240.000431
ORF1ab/nsp239L39LctGctA44AY.690.000747
ORF1ab/nsp239L39LctGctA14AY.770.001127
ORF1ab/nsp239L39LctGctA24B.1.2340.000264
ORF1ab/nsp239L39LctGctA14P.20.000187
ORF1ab/nsp239L39LctGctA13AY.1090.00074
ORF1ab/nsp239L39LctGctA13AY.1140.000231
ORF1ab/nsp239L39LctGctA13AY.130.000161
ORF1ab/nsp239L39LctGctA23AY.980.000158
ORF1ab/nsp239L39LctGctA23B.1.1.330.000842
ORF1ab/nsp239L39LctGctA33B.1.2600.010033
ORF1ab/nsp239L39LctGctA13B.1.5950.000261
ORF1ab/nsp239L39LctGctA22AY.790.002421
ORF1ab/nsp239L39LctGctA22AY.800.002257
ORF1ab/nsp239L39LctGctA12AY.840.000437
ORF1ab/nsp239L39LctGctA22B.1.1420.005797
ORF1ab/nsp239L39LctGctA22B.1.36.160.002849
ORF1ab/nsp239L39LctGctA22B.1.4660.046512
ORF1ab/nsp239L39LctGctA12B.1.4800.002488
ORF1ab/nsp239L39LctGctA11A.280.002646
ORF1ab/nsp239L39LctGctA11AY.10.000396
ORF1ab/nsp239L39LctGctA11AY.320.000532
ORF1ab/nsp239L39LctGctA11AY.540.000095
ORF1ab/nsp239L39LctGctA11B.1.1.2860.002899
ORF1ab/nsp239L39LctGctA11B.1.1.3180.000302
ORF1ab/nsp239L39LctGctA11B.1.160.230.004831
ORF1ab/nsp239L39LctGctA11B.1.177.150.000631
ORF1ab/nsp239L39LctGctA11B.1.177.650.000665
ORF1ab/nsp239L39LctGctA11B.1.1900.01
ORF1ab/nsp239L39LctGctA11B.1.220.001318
ORF1ab/nsp239L39LctGctA11B.1.3320.003497
ORF1ab/nsp239L39LctGctA11B.1.36.220.001208
ORF1ab/nsp239L39LctGctA11B.1.36.340.021277
ORF1ab/nsp239L39LctGctA11B.1.4080.00369
ORF1ab/nsp239L39LctGctA11B.1.4160.001269
ORF1ab/nsp239L39LctGctA11B.1.4560.003268
ORF1ab/nsp239L39LctGctA11B.1.5460.003704
ORF1ab/nsp239L39LctGctA11B.1.5880.00091
ORF1ab/nsp239L39LctGctA11B.1.5900.004545
ORF1ab/nsp239L39LctGctA11C.260.007353
ORF1ab/nsp239L39LctGctA11P.1.120.000484

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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