CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp1 : CodonNum = 3 & Codon = agT

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/nsp13S3SS3SsynagCagT290529051272-274

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/nsp13S3SagCagT29052905All0.000556
ORF1ab/nsp13S3SagCagT887887B.1.2430.061722
ORF1ab/nsp13S3SagCagT532532B.1.1.70.000476
ORF1ab/nsp13S3SagCagT309309B.1.1.40.919643
ORF1ab/nsp13S3SagCagT196196AY.250.001179
ORF1ab/nsp13S3SagCagT6565AY.430.000288
ORF1ab/nsp13S3SagCagT6565P.10.001024
ORF1ab/nsp13S3SagCagT5757B.1.617.20.000215
ORF1ab/nsp13S3SagCagT5656AY.40.000087
ORF1ab/nsp13S3SagCagT5353AY.9.20.001947
ORF1ab/nsp13S3SagCagT4747B.1.20.000414
ORF1ab/nsp13S3SagCagT3838B.10.000348
ORF1ab/nsp13S3SagCagT3434B.1.10.000617
ORF1ab/nsp13S3SagCagT3131B.1.1990.128099
ORF1ab/nsp13S3SagCagT2929AY.98.10.001404
ORF1ab/nsp13S3SagCagT2828AY.330.00187
ORF1ab/nsp13S3SagCagT2626AY.30.000259
ORF1ab/nsp13S3SagCagT2525AY.440.000152
ORF1ab/nsp13S3SagCagT2222B.1.5260.000517
ORF1ab/nsp13S3SagCagT2121B.1.1770.000277
ORF1ab/nsp13S3SagCagT2020B.1.1.470.106952
ORF1ab/nsp13S3SagCagT1818B.1.6210.001593
ORF1ab/nsp13S3SagCagT1818P.1.150.004182
ORF1ab/nsp13S3SagCagT1717B.1.1.2610.146552
ORF1ab/nsp13S3SagCagT1414AY.1030.000087
ORF1ab/nsp13S3SagCagT1414B.1.4290.000329
ORF1ab/nsp13S3SagCagT1212B.1.1.410.075949
ORF1ab/nsp13S3SagCagT1212P.1.100.003234
ORF1ab/nsp13S3SagCagT88AY.340.000776
ORF1ab/nsp13S3SagCagT88B.1.1.630.003086
ORF1ab/nsp13S3SagCagT88B.1.258.160.013093
ORF1ab/nsp13S3SagCagT88B.1.3510.000238
ORF1ab/nsp13S3SagCagT77B.1.1600.000218
ORF1ab/nsp13S3SagCagT77B.1.258.170.000728
ORF1ab/nsp13S3SagCagT66AY.46.60.000433
ORF1ab/nsp13S3SagCagT66C.370.000696
ORF1ab/nsp13S3SagCagT55AY.200.000194
ORF1ab/nsp13S3SagCagT55AY.260.000142
ORF1ab/nsp13S3SagCagT55AY.290.000079
ORF1ab/nsp13S3SagCagT55AY.90.000338
ORF1ab/nsp13S3SagCagT55AY.99.20.000461
ORF1ab/nsp13S3SagCagT55U.30.019305
ORF1ab/nsp13S3SagCagT44AD.20.000876
ORF1ab/nsp13S3SagCagT44AY.10.001583
ORF1ab/nsp13S3SagCagT44AY.1020.000106
ORF1ab/nsp13S3SagCagT44AY.1130.00057
ORF1ab/nsp13S3SagCagT44N.90.02381
ORF1ab/nsp13S3SagCagT33AY.1000.000138
ORF1ab/nsp13S3SagCagT33AY.1180.000188
ORF1ab/nsp13S3SagCagT33AY.1190.000106
ORF1ab/nsp13S3SagCagT33AY.390.000074
ORF1ab/nsp13S3SagCagT33AY.4.20.000065
ORF1ab/nsp13S3SagCagT33AY.470.000093
ORF1ab/nsp13S3SagCagT33AY.50.000062
ORF1ab/nsp13S3SagCagT33AY.980.000237
ORF1ab/nsp13S3SagCagT33B.1.1460.012712
ORF1ab/nsp13S3SagCagT33B.1.221.40.0125
ORF1ab/nsp13S3SagCagT33B.1.2340.000396
ORF1ab/nsp13S3SagCagT33B.1.360.000438
ORF1ab/nsp13S3SagCagT33B.1.3890.003006
ORF1ab/nsp13S3SagCagT33B.1.617.10.000387
ORF1ab/nsp13S3SagCagT33P.20.00056
ORF1ab/nsp13S3SagCagT22AH.30.007605
ORF1ab/nsp13S3SagCagT22AY.1200.000074
ORF1ab/nsp13S3SagCagT22AY.16.10.00094
ORF1ab/nsp13S3SagCagT22AY.3.10.000171
ORF1ab/nsp13S3SagCagT22AY.350.000466
ORF1ab/nsp13S3SagCagT22AY.450.000243
ORF1ab/nsp13S3SagCagT22AY.540.000191
ORF1ab/nsp13S3SagCagT22AY.750.000112
ORF1ab/nsp13S3SagCagT22AY.9.10.000167
ORF1ab/nsp13S3SagCagT22B0.000256
ORF1ab/nsp13S3SagCagT22B.1.1.1700.002494
ORF1ab/nsp13S3SagCagT22B.1.1.2940.002532
ORF1ab/nsp13S3SagCagT22B.1.160.300.005952
ORF1ab/nsp13S3SagCagT22B.1.177.540.001213
ORF1ab/nsp13S3SagCagT22B.1.177.810.000379
ORF1ab/nsp13S3SagCagT22B.1.2400.000431
ORF1ab/nsp13S3SagCagT22B.1.2580.000133
ORF1ab/nsp13S3SagCagT22B.1.3690.00057
ORF1ab/nsp13S3SagCagT22B.1.5750.000607
ORF1ab/nsp13S3SagCagT22B.1.5770.001375
ORF1ab/nsp13S3SagCagT22B.1.5820.000981
ORF1ab/nsp13S3SagCagT22B.1.6370.000146
ORF1ab/nsp13S3SagCagT22P.1.140.000096
ORF1ab/nsp13S3SagCagT22Q.80.00033
ORF1ab/nsp13S3SagCagT11A.210.00277
ORF1ab/nsp13S3SagCagT11AA.60.016129
ORF1ab/nsp13S3SagCagT11AE.80.000489
ORF1ab/nsp13S3SagCagT11AU.20.002421
ORF1ab/nsp13S3SagCagT11AY.100.00053
ORF1ab/nsp13S3SagCagT11AY.1040.001984
ORF1ab/nsp13S3SagCagT11AY.1050.000643
ORF1ab/nsp13S3SagCagT11AY.1060.000335
ORF1ab/nsp13S3SagCagT11AY.1080.001103
ORF1ab/nsp13S3SagCagT11AY.1090.00074
ORF1ab/nsp13S3SagCagT11AY.120.10.000321
ORF1ab/nsp13S3SagCagT11AY.1210.000135
ORF1ab/nsp13S3SagCagT11AY.230.00007
ORF1ab/nsp13S3SagCagT11AY.270.000065
ORF1ab/nsp13S3SagCagT11AY.300.000396
ORF1ab/nsp13S3SagCagT11AY.39.10.00004
ORF1ab/nsp13S3SagCagT11AY.4.2.10.000149
ORF1ab/nsp13S3SagCagT11AY.4.50.000107
ORF1ab/nsp13S3SagCagT11AY.510.000909
ORF1ab/nsp13S3SagCagT11AY.60.000041
ORF1ab/nsp13S3SagCagT11AY.610.000105
ORF1ab/nsp13S3SagCagT11AY.740.000116
ORF1ab/nsp13S3SagCagT11AY.790.001211
ORF1ab/nsp13S3SagCagT11AY.840.000437
ORF1ab/nsp13S3SagCagT11AY.910.00073
ORF1ab/nsp13S3SagCagT11AY.99.10.001553
ORF1ab/nsp13S3SagCagT11B.1.1.1610.003534
ORF1ab/nsp13S3SagCagT11B.1.1.2070.001182
ORF1ab/nsp13S3SagCagT11B.1.1.3700.012658
ORF1ab/nsp13S3SagCagT11B.1.1.3720.000689
ORF1ab/nsp13S3SagCagT11B.1.1.4320.001266
ORF1ab/nsp13S3SagCagT11B.1.1.4340.000349
ORF1ab/nsp13S3SagCagT11B.1.1.440.00241
ORF1ab/nsp13S3SagCagT11B.1.1.5260.003546
ORF1ab/nsp13S3SagCagT11B.1.1.700.000341
ORF1ab/nsp13S3SagCagT11B.1.1110.001175
ORF1ab/nsp13S3SagCagT11B.1.160.100.008065
ORF1ab/nsp13S3SagCagT11B.1.177.400.005155
ORF1ab/nsp13S3SagCagT11B.1.177.420.000894
ORF1ab/nsp13S3SagCagT11B.1.177.70.000165
ORF1ab/nsp13S3SagCagT11B.1.2390.001221
ORF1ab/nsp13S3SagCagT11B.1.264.10.047619
ORF1ab/nsp13S3SagCagT11B.1.3290.000608
ORF1ab/nsp13S3SagCagT11B.1.3490.000715
ORF1ab/nsp13S3SagCagT11B.1.36.100.004785
ORF1ab/nsp13S3SagCagT11B.1.36.170.000494
ORF1ab/nsp13S3SagCagT11B.1.3970.004854
ORF1ab/nsp13S3SagCagT11B.1.4270.00005
ORF1ab/nsp13S3SagCagT11B.1.5250.000113
ORF1ab/nsp13S3SagCagT11B.1.5610.000397
ORF1ab/nsp13S3SagCagT11B.1.5950.000261
ORF1ab/nsp13S3SagCagT11B.1.5960.000087
ORF1ab/nsp13S3SagCagT11B.30.000831
ORF1ab/nsp13S3SagCagT11C.300.001727
ORF1ab/nsp13S3SagCagT11D.20.000075
ORF1ab/nsp13S3SagCagT11P.1.10.000318
ORF1ab/nsp13S3SagCagT11Q.10.000126
ORF1ab/nsp13S3SagCagT11Z.10.00289

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.