CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : Mut = T492T

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/nsp4492T492TT3255TsynacCacT437042810.97963410028-10030
ORF1ab/nsp4492T492TT3255TsynacCacA4370830.018993110028-10030
ORF1ab/nsp4492T492TT3255TsynacCacG437060.00137310028-10030

Details of the mutation T492T within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp4492T492TacCacT42814370All0.000819
ORF1ab/nsp4492T492TacCacA834370All0.000016
ORF1ab/nsp4492T492TacCacG64370All0.000001
ORF1ab/nsp4492T492TacCacT12721272B.1.5770.874227
ORF1ab/nsp4492T492TacCacT756785B.1.1.70.000677
ORF1ab/nsp4492T492TacCacA29785B.1.1.70.000026
ORF1ab/nsp4492T492TacCacT538545B.1.5950.140397
ORF1ab/nsp4492T492TacCacA7545B.1.5950.001827
ORF1ab/nsp4492T492TacCacT254254U.30.980695
ORF1ab/nsp4492T492TacCacT199199B.1.20.001752
ORF1ab/nsp4492T492TacCacT121126B.10.001108
ORF1ab/nsp4492T492TacCacA5126B.10.000046
ORF1ab/nsp4492T492TacCacT116116B.1.438.10.012442
ORF1ab/nsp4492T492TacCacT6469B.1.5260.001504
ORF1ab/nsp4492T492TacCacA569B.1.5260.000118
ORF1ab/nsp4492T492TacCacT5152B.1.10.000925
ORF1ab/nsp4492T492TacCacG152B.1.10.000018
ORF1ab/nsp4492T492TacCacT4949B.1.2580.003261
ORF1ab/nsp4492T492TacCacT4042B.1.617.20.000151
ORF1ab/nsp4492T492TacCacA242B.1.617.20.000008
ORF1ab/nsp4492T492TacCacT3940B.1.1.280.012138
ORF1ab/nsp4492T492TacCacA140B.1.1.280.000311
ORF1ab/nsp4492T492TacCacT3940B.1.1770.000514
ORF1ab/nsp4492T492TacCacA140B.1.1770.000013
ORF1ab/nsp4492T492TacCacT3939B.1.2430.002714
ORF1ab/nsp4492T492TacCacT2834P.10.000441
ORF1ab/nsp4492T492TacCacG534P.10.000079
ORF1ab/nsp4492T492TacCacA134P.10.000016
ORF1ab/nsp4492T492TacCacT3232B.1.1.2140.001775
ORF1ab/nsp4492T492TacCacT3030B.1.3510.000892
ORF1ab/nsp4492T492TacCacT2929B.1.1.3540.127193
ORF1ab/nsp4492T492TacCacT2727Q.30.003916
ORF1ab/nsp4492T492TacCacA1424B.1.4290.000329
ORF1ab/nsp4492T492TacCacT1024B.1.4290.000235
ORF1ab/nsp4492T492TacCacT2323B.1.2400.004958
ORF1ab/nsp4492T492TacCacT2222B.1.5960.001917
ORF1ab/nsp4492T492TacCacT2121B.1.1600.000655
ORF1ab/nsp4492T492TacCacT2121B.1.6370.001535
ORF1ab/nsp4492T492TacCacT2020AY.680.005475
ORF1ab/nsp4492T492TacCacT1818AY.700.003753
ORF1ab/nsp4492T492TacCacT1818B.1.177.600.003932
ORF1ab/nsp4492T492TacCacT1515AY.610.001572
ORF1ab/nsp4492T492TacCacT1515B.1.5610.005955
ORF1ab/nsp4492T492TacCacT1414AY.9.20.000514
ORF1ab/nsp4492T492TacCacT1313AY.260.000368
ORF1ab/nsp4492T492TacCacT1212B.1.2340.001583
ORF1ab/nsp4492T492TacCacT1111B.1.1.2630.017134
ORF1ab/nsp4492T492TacCacT1111B.1.5600.050926
ORF1ab/nsp4492T492TacCacT99B.1.177.770.006536
ORF1ab/nsp4492T492TacCacT99B.1.214.20.005396
ORF1ab/nsp4492T492TacCacT99C.36.30.005105
ORF1ab/nsp4492T492TacCacT78B.1.1.630.002701
ORF1ab/nsp4492T492TacCacA18B.1.1.630.000386
ORF1ab/nsp4492T492TacCacT88B.1.6090.003835
ORF1ab/nsp4492T492TacCacT77AY.140.000616
ORF1ab/nsp4492T492TacCacT77AY.75.10.001262
ORF1ab/nsp4492T492TacCacT77B.1.2210.000497
ORF1ab/nsp4492T492TacCacT77B.1.3690.001997
ORF1ab/nsp4492T492TacCacT77B.1.3960.00494
ORF1ab/nsp4492T492TacCacA57D.20.000375
ORF1ab/nsp4492T492TacCacT27D.20.00015
ORF1ab/nsp4492T492TacCacT56B0.000639
ORF1ab/nsp4492T492TacCacA16B0.000128
ORF1ab/nsp4492T492TacCacT66B.1.5760.00544
ORF1ab/nsp4492T492TacCacT66B.1.617.10.000774
ORF1ab/nsp4492T492TacCacT55A.210.01385
ORF1ab/nsp4492T492TacCacT55AY.530.001438
ORF1ab/nsp4492T492TacCacT55B.1.1.4860.007886
ORF1ab/nsp4492T492TacCacT55B.1.1.500.003394
ORF1ab/nsp4492T492TacCacT45B.1.1.700.001364
ORF1ab/nsp4492T492TacCacA15B.1.1.700.000341
ORF1ab/nsp4492T492TacCacT55B.1.2840.065789
ORF1ab/nsp4492T492TacCacT44A.20.002647
ORF1ab/nsp4492T492TacCacT44AY.20.001425
ORF1ab/nsp4492T492TacCacT44B.1.1.1860.013746
ORF1ab/nsp4492T492TacCacT44B.1.1.390.002039
ORF1ab/nsp4492T492TacCacT44B.1.177.750.004162
ORF1ab/nsp4492T492TacCacT44B.1.258.30.0067
ORF1ab/nsp4492T492TacCacT44B.1.4970.001259
ORF1ab/nsp4492T492TacCacT44B.1.5250.000453
ORF1ab/nsp4492T492TacCacT33A.2.40.010101
ORF1ab/nsp4492T492TacCacT33AY.470.000093
ORF1ab/nsp4492T492TacCacT33AY.650.001599
ORF1ab/nsp4492T492TacCacT33AY.740.000347
ORF1ab/nsp4492T492TacCacA23B.1.1.10.000653
ORF1ab/nsp4492T492TacCacT13B.1.1.10.000327
ORF1ab/nsp4492T492TacCacT33B.1.1.3180.000905
ORF1ab/nsp4492T492TacCacT33B.1.160.230.014493
ORF1ab/nsp4492T492TacCacT33B.1.1650.035714
ORF1ab/nsp4492T492TacCacT33B.1.1700.012931
ORF1ab/nsp4492T492TacCacT33B.1.177.440.001557
ORF1ab/nsp4492T492TacCacT33B.1.177.730.001699
ORF1ab/nsp4492T492TacCacT33B.1.3240.004815
ORF1ab/nsp4492T492TacCacT33B.1.360.000438
ORF1ab/nsp4492T492TacCacT33B.1.3890.003006
ORF1ab/nsp4492T492TacCacT33B.1.4090.002344
ORF1ab/nsp4492T492TacCacT33P.1.70.000958
ORF1ab/nsp4492T492TacCacT22AD.20.000438
ORF1ab/nsp4492T492TacCacT22AY.100.00106
ORF1ab/nsp4492T492TacCacT22AY.350.000466
ORF1ab/nsp4492T492TacCacT22B.1.1.1530.002191
ORF1ab/nsp4492T492TacCacT22B.1.1.2220.000408
ORF1ab/nsp4492T492TacCacT22B.1.1.250.001137
ORF1ab/nsp4492T492TacCacT22B.1.1.3170.000823
ORF1ab/nsp4492T492TacCacT12B.1.1.330.000421
ORF1ab/nsp4492T492TacCacA12B.1.1.330.000421
ORF1ab/nsp4492T492TacCacT22B.1.1.3480.001592
ORF1ab/nsp4492T492TacCacT22B.1.1.3620.011236
ORF1ab/nsp4492T492TacCacT22B.1.1.4160.00181
ORF1ab/nsp4492T492TacCacT22B.1.1.4240.090909
ORF1ab/nsp4492T492TacCacT22B.1.177.210.000153
ORF1ab/nsp4492T492TacCacT22B.1.177.810.000379
ORF1ab/nsp4492T492TacCacT22B.1.1890.008584
ORF1ab/nsp4492T492TacCacT22B.1.3110.000549
ORF1ab/nsp4492T492TacCacA12B.1.4270.00005
ORF1ab/nsp4492T492TacCacT12B.1.4270.00005
ORF1ab/nsp4492T492TacCacT22B.1.4700.002809
ORF1ab/nsp4492T492TacCacA12B.1.6230.000536
ORF1ab/nsp4492T492TacCacT12B.1.6230.000536
ORF1ab/nsp4492T492TacCacT22B.1.9.30.076923
ORF1ab/nsp4492T492TacCacA22C.140.008658
ORF1ab/nsp4492T492TacCacT12C.180.002591
ORF1ab/nsp4492T492TacCacA12C.180.002591
ORF1ab/nsp4492T492TacCacT22P.1.10.000635
ORF1ab/nsp4492T492TacCacT22P.1.140.000096
ORF1ab/nsp4492T492TacCacT22Q.50.033898
ORF1ab/nsp4492T492TacCacT22Q.80.00033
ORF1ab/nsp4492T492TacCacT11A.10.000282
ORF1ab/nsp4492T492TacCacT11AU.30.00211
ORF1ab/nsp4492T492TacCacT11AY.440.000006
ORF1ab/nsp4492T492TacCacT11AY.510.000909
ORF1ab/nsp4492T492TacCacT11AY.540.000095
ORF1ab/nsp4492T492TacCacT11AY.550.000917
ORF1ab/nsp4492T492TacCacA11AY.620.000436
ORF1ab/nsp4492T492TacCacT11AY.690.000187
ORF1ab/nsp4492T492TacCacT11AY.710.000475
ORF1ab/nsp4492T492TacCacT11AY.730.000665
ORF1ab/nsp4492T492TacCacT11AY.750.000056
ORF1ab/nsp4492T492TacCacT11AY.90.000068
ORF1ab/nsp4492T492TacCacT11AY.980.000079
ORF1ab/nsp4492T492TacCacT11B.1.1.1390.022727
ORF1ab/nsp4492T492TacCacT11B.1.1.2130.021739
ORF1ab/nsp4492T492TacCacT11B.1.1.2800.003086
ORF1ab/nsp4492T492TacCacT11B.1.1.2840.000107
ORF1ab/nsp4492T492TacCacT11B.1.1.3010.001179
ORF1ab/nsp4492T492TacCacT11B.1.1.3110.000358
ORF1ab/nsp4492T492TacCacT11B.1.1.3290.003846
ORF1ab/nsp4492T492TacCacT11B.1.1.3720.000689
ORF1ab/nsp4492T492TacCacT11B.1.1.3980.003226
ORF1ab/nsp4492T492TacCacT11B.1.1.4330.001425
ORF1ab/nsp4492T492TacCacT11B.1.1.450.014085
ORF1ab/nsp4492T492TacCacT11B.1.1390.000733
ORF1ab/nsp4492T492TacCacT11B.1.160.100.008065
ORF1ab/nsp4492T492TacCacT11B.1.160.140.002119
ORF1ab/nsp4492T492TacCacT11B.1.160.290.004219
ORF1ab/nsp4492T492TacCacT11B.1.177.40.000211
ORF1ab/nsp4492T492TacCacT11B.1.177.450.000381
ORF1ab/nsp4492T492TacCacT11B.1.177.610.043478
ORF1ab/nsp4492T492TacCacT11B.1.177.70.000165
ORF1ab/nsp4492T492TacCacT11B.1.177.790.002342
ORF1ab/nsp4492T492TacCacT11B.1.177.80.000752
ORF1ab/nsp4492T492TacCacT11B.1.177.840.006667
ORF1ab/nsp4492T492TacCacT11B.1.221.30.000833
ORF1ab/nsp4492T492TacCacT11B.1.2320.000537
ORF1ab/nsp4492T492TacCacT11B.1.258.140.00098
ORF1ab/nsp4492T492TacCacT11B.1.3460.001311
ORF1ab/nsp4492T492TacCacT11B.1.3490.000715
ORF1ab/nsp4492T492TacCacT11B.1.351.20.000303
ORF1ab/nsp4492T492TacCacT11B.1.36.180.00042
ORF1ab/nsp4492T492TacCacT11B.1.36.80.001
ORF1ab/nsp4492T492TacCacT11B.1.3670.000792
ORF1ab/nsp4492T492TacCacT11B.1.4080.00369
ORF1ab/nsp4492T492TacCacT11B.1.4320.011236
ORF1ab/nsp4492T492TacCacT11B.1.4380.006536
ORF1ab/nsp4492T492TacCacT11B.1.4990.00105
ORF1ab/nsp4492T492TacCacT11B.1.5640.000426
ORF1ab/nsp4492T492TacCacA11B.1.5670.003333
ORF1ab/nsp4492T492TacCacT11B.1.5820.000491
ORF1ab/nsp4492T492TacCacT11B.1.5970.00463
ORF1ab/nsp4492T492TacCacT11B.1.6120.002653
ORF1ab/nsp4492T492TacCacT11B.1.6250.002353
ORF1ab/nsp4492T492TacCacT11B.1.80.001972
ORF1ab/nsp4492T492TacCacT11B.30.000831
ORF1ab/nsp4492T492TacCacT11C.10.002392
ORF1ab/nsp4492T492TacCacT11C.20.016129
ORF1ab/nsp4492T492TacCacT11C.300.001727
ORF1ab/nsp4492T492TacCacT11C.350.000774
ORF1ab/nsp4492T492TacCacT11N.40.004255
ORF1ab/nsp4492T492TacCacT11N.50.001767
ORF1ab/nsp4492T492TacCacT11P.1.120.000484
ORF1ab/nsp4492T492TacCacT11P.1.150.000232
ORF1ab/nsp4492T492TacCacT11P.1.170.000162
ORF1ab/nsp4492T492TacCacT11P.1.60.001946
ORF1ab/nsp4492T492TacCacT11P.20.000187

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

CoV-GLUE uses sequence data from GISAID. GISAID data provided via this web application is subject to GISAID's Terms and Conditions.