CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 439

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/nsp13439G439RG5763RnonsynGgaAga12173121680.99958917551-17553
ORF1ab/nsp13439G439RG5763RnonsynGgaCga1217350.00041074517551-17553
ORF1ab/nsp13439G439GG5763GsynggAggG5614300.76648817551-17553
ORF1ab/nsp13439G439GG5763GsynggAggC5611200.21390417551-17553
ORF1ab/nsp13439G439GG5763GsynggAggT561110.019607817551-17553
ORF1ab/nsp13439G439VG5763VnonsyngGagTa71700.98591517551-17553
ORF1ab/nsp13439G439VG5763VnonsyngGAgTG7110.014084517551-17553
ORF1ab/nsp13439G439EG5763EnonsyngGagAa6666117551-17553
ORF1ab/nsp13439G439delG5763deldelGGA---2626117551-17553
ORF1ab/nsp13439G439XG5763XnonsynGgaTga1313117551-17553
ORF1ab/nsp13439G439del1G5763del1delGga-ga650.83333317551-17553
ORF1ab/nsp13439G439del1G5763del1delggAgg-610.16666717551-17553
ORF1ab/nsp13439G439SG5763SnonsynGGaTCa420.517551-17553
ORF1ab/nsp13439G439SG5763SnonsynGGATCG420.517551-17553
ORF1ab/nsp13439G439TG5763TnonsynGGAACG420.517551-17553
ORF1ab/nsp13439G439TG5763TnonsynGGaACa420.517551-17553
ORF1ab/nsp13439G439LG5763LnonsynGGaTTa11117551-17553
ORF1ab/nsp13439G439KG5763KnonsynGGaAAa11117551-17553

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/nsp13439G439RGgaAga1216812173All0.002327
ORF1ab/nsp13439G439RGgaCga512173All0.000001
ORF1ab/nsp13439G439RGgaAga1108711087R.10.99793
ORF1ab/nsp13439G439GggAggG430561All0.000082
ORF1ab/nsp13439G439GggAggC120561All0.000023
ORF1ab/nsp13439G439GggAggT11561All0.000002
ORF1ab/nsp13439G439RGgaAga275275B.1.10.004989
ORF1ab/nsp13439G439RGgaAga258258B.1.2580.017169
ORF1ab/nsp13439G439GggAggG185194B.1.1.70.000166
ORF1ab/nsp13439G439GggAggC6194B.1.1.70.000005
ORF1ab/nsp13439G439GggAggT3194B.1.1.70.000003
ORF1ab/nsp13439G439RGgaAga101101B.1.1.2200.187732
ORF1ab/nsp13439G439RGgaAga8181B.10.000742
ORF1ab/nsp13439G439GggAggC5278AY.440.000317
ORF1ab/nsp13439G439GggAggG2578AY.440.000152
ORF1ab/nsp13439G439GggAggT178AY.440.000006
ORF1ab/nsp13439G439VgGagTa7071All0.000013
ORF1ab/nsp13439G439VgGAgTG171All0
ORF1ab/nsp13439G439EgGagAa6666All0.000013
ORF1ab/nsp13439G439GggAggG5454AY.1020.001432
ORF1ab/nsp13439G439RGgaAga5354AY.1030.000329
ORF1ab/nsp13439G439RGgaCga154AY.1030.000006
ORF1ab/nsp13439G439RGgaAga5152B.1.1.70.000046
ORF1ab/nsp13439G439RGgaCga152B.1.1.70.000001
ORF1ab/nsp13439G439GggAggC3342AY.98.10.001598
ORF1ab/nsp13439G439GggAggG942AY.98.10.000436
ORF1ab/nsp13439G439RGgaAga3434B.1.1.5250.185792
ORF1ab/nsp13439G439GggAggG3131A.2.5.20.048742
ORF1ab/nsp13439G439VgGagTa3030B.1.1.70.000027
ORF1ab/nsp13439G439RGgaAga2728B.1.1600.000842
ORF1ab/nsp13439G439RGgaCga128B.1.1600.000031
ORF1ab/nsp13439G439delGGA---2626All0.000005
ORF1ab/nsp13439G439GggAggG1222B.1.617.20.000045
ORF1ab/nsp13439G439GggAggC822B.1.617.20.00003
ORF1ab/nsp13439G439GggAggT222B.1.617.20.000008
ORF1ab/nsp13439G439GggAggG1819B.1.10.000327
ORF1ab/nsp13439G439GggAggC119B.1.10.000018
ORF1ab/nsp13439G439RGgaAga1818B.1.617.20.000068
ORF1ab/nsp13439G439RGgaAga1717B.1.1.3170.006999
ORF1ab/nsp13439G439GggAggG1415AY.30.000139
ORF1ab/nsp13439G439GggAggC115AY.30.00001
ORF1ab/nsp13439G439XGgaTga1313All0.000002
ORF1ab/nsp13439G439RGgaAga1313B.1.4160.016497
ORF1ab/nsp13439G439RGgaAga1212B.1.1.100.013378
ORF1ab/nsp13439G439delGGA---1212B.1.1.70.000011
ORF1ab/nsp13439G439EgGagAa1212B.1.1.70.000011
ORF1ab/nsp13439G439RGgaAga1111AY.40.000017
ORF1ab/nsp13439G439RGgaAga1010B.1.20.000088
ORF1ab/nsp13439G439GggAggG69AY.250.000036
ORF1ab/nsp13439G439GggAggC39AY.250.000018
ORF1ab/nsp13439G439GggAggG99B.1.3510.000268
ORF1ab/nsp13439G439GggAggG48AY.40.000006
ORF1ab/nsp13439G439GggAggT28AY.40.000003
ORF1ab/nsp13439G439GggAggC28AY.40.000003
ORF1ab/nsp13439G439GggAggG77AY.1030.000043
ORF1ab/nsp13439G439RGgaAga77AY.30.00007
ORF1ab/nsp13439G439VgGagTa77B.1.264.10.333333
ORF1ab/nsp13439G439VgGagTa67B.1.617.20.000023
ORF1ab/nsp13439G439VgGAgTG17B.1.617.20.000004
ORF1ab/nsp13439G439RGgaAga77B.1.9.50.039773
ORF1ab/nsp13439G439del1Gga-ga56All0.000001
ORF1ab/nsp13439G439del1ggAgg-16All0
ORF1ab/nsp13439G439VgGagTa66AY.230.000418
ORF1ab/nsp13439G439EgGagAa66AY.40.000009
ORF1ab/nsp13439G439EgGagAa66AY.430.000027
ORF1ab/nsp13439G439RGgaAga66AY.440.000037
ORF1ab/nsp13439G439EgGagAa66AY.98.10.000291
ORF1ab/nsp13439G439GggAggG55AY.200.000194
ORF1ab/nsp13439G439EgGagAa55AY.250.00003
ORF1ab/nsp13439G439RGgaAga55AY.430.000022
ORF1ab/nsp13439G439GggAggG55B.10.000046
ORF1ab/nsp13439G439RGgaAga55B.1.1.2220.00102
ORF1ab/nsp13439G439TGGaACa240.111111
ORF1ab/nsp13439G439TGGAACG240.111111
ORF1ab/nsp13439G439SGGaTCa240.111111
ORF1ab/nsp13439G439SGGATCG240.111111
ORF1ab/nsp13439G439SGGATCG24All0
ORF1ab/nsp13439G439TGGAACG24All0
ORF1ab/nsp13439G439TGGaACa24All0
ORF1ab/nsp13439G439SGGaTCa24All0
ORF1ab/nsp13439G439RGgaAga44AY.250.000024
ORF1ab/nsp13439G439GggAggG44AY.540.000381
ORF1ab/nsp13439G439GggAggG44AY.590.002119
ORF1ab/nsp13439G439RGgaAga44B.1.1770.000053
ORF1ab/nsp13439G439RGgaAga44B.1.177.320.005398
ORF1ab/nsp13439G439GggAggG44B.1.20.000035
ORF1ab/nsp13439G439EgGagAa44B.1.617.20.000015
ORF1ab/nsp13439G439GggAggG34P.10.000047
ORF1ab/nsp13439G439GggAggT14P.10.000016
ORF1ab/nsp13439G439GggAggC33AY.230.000209
ORF1ab/nsp13439G439RGgaAga33AY.420.000121
ORF1ab/nsp13439G439GggAggC33AY.660.003209
ORF1ab/nsp13439G439VgGagTa33B.10.000027
ORF1ab/nsp13439G439RGgaAga33B.1.1.390.001529
ORF1ab/nsp13439G439RGgaAga33B.1.1.5210.016043
ORF1ab/nsp13439G439del1Gga-ga23B.1.20.000018
ORF1ab/nsp13439G439del1ggAgg-13B.1.20.000009
ORF1ab/nsp13439G439GggAggG33B.1.5170.001281
ORF1ab/nsp13439G439RGgaAga33B.1.6210.000266
ORF1ab/nsp13439G439delGGA---220.111111
ORF1ab/nsp13439G439EgGagAa22AY.1020.000053
ORF1ab/nsp13439G439RGgaAga22AY.1020.000053
ORF1ab/nsp13439G439EgGagAa22AY.1030.000012
ORF1ab/nsp13439G439EgGagAa22AY.390.000049
ORF1ab/nsp13439G439RGgaAga22AY.390.000049
ORF1ab/nsp13439G439delGGA---22AY.4.50.000215
ORF1ab/nsp13439G439GggAggT12AY.420.00004
ORF1ab/nsp13439G439GggAggG12AY.420.00004
ORF1ab/nsp13439G439GggAggG22AY.430.000009
ORF1ab/nsp13439G439RGgaAga22AY.610.00021
ORF1ab/nsp13439G439EgGagAa22AY.750.000112
ORF1ab/nsp13439G439EgGagAa22AY.90.000135
ORF1ab/nsp13439G439EgGagAa22AY.9.10.000167
ORF1ab/nsp13439G439VgGagTa22B.1.10.000036
ORF1ab/nsp13439G439RGgaAga22B.1.1.2140.000111
ORF1ab/nsp13439G439GggAggG12B.1.1.280.000311
ORF1ab/nsp13439G439GggAggT12B.1.1.280.000311
ORF1ab/nsp13439G439RGgaAga22B.1.1.2910.001485
ORF1ab/nsp13439G439GggAggC22B.1.1.3060.000877
ORF1ab/nsp13439G439RGgaAga22B.1.1.510.003436
ORF1ab/nsp13439G439del1Gga-ga22B.1.1.70.000002
ORF1ab/nsp13439G439RGgaAga22B.1.1.830.00542
ORF1ab/nsp13439G439GggAggG22B.1.36.290.001035
ORF1ab/nsp13439G439RGgaAga22B.1.4290.000047
ORF1ab/nsp13439G439GggAggG22B.1.5250.000226
ORF1ab/nsp13439G439RGgaAga22B.1.6310.006734
ORF1ab/nsp13439G439EgGagAa22B.1.6370.000146
ORF1ab/nsp13439G439XGgaTga22D.20.00015
ORF1ab/nsp13439G439RGgaAga22P.10.000032
ORF1ab/nsp13439G439RGgaAga11A0.000387
ORF1ab/nsp13439G439XGgaTga11A.10.000282
ORF1ab/nsp13439G439RGgaAga11A.23.10.000704
ORF1ab/nsp13439G439RGgaAga11A.280.002646
ORF1ab/nsp13439G439delGGA---11AD.20.000219
ORF1ab/nsp13439G439GggAggG11AD.20.000219
ORF1ab/nsp13439G439KGGaAAa11All0
ORF1ab/nsp13439G439LGGaTTa11All0
ORF1ab/nsp13439G439EgGagAa11AY.1000.000046
ORF1ab/nsp13439G439VgGagTa11AY.1030.000006
ORF1ab/nsp13439G439EgGagAa11AY.1100.000113
ORF1ab/nsp13439G439GggAggC11AY.1160.000287
ORF1ab/nsp13439G439VgGagTa11AY.1190.000035
ORF1ab/nsp13439G439GggAggG11AY.1190.000035
ORF1ab/nsp13439G439RGgaAga11AY.1200.000037
ORF1ab/nsp13439G439VgGagTa11AY.1200.000037
ORF1ab/nsp13439G439EgGagAa11AY.130.000161
ORF1ab/nsp13439G439RGgaAga11AY.160.00038
ORF1ab/nsp13439G439RGgaAga11AY.180.010101
ORF1ab/nsp13439G439VgGagTa11AY.200.000039
ORF1ab/nsp13439G439EgGagAa11AY.200.000039
ORF1ab/nsp13439G439RGgaAga11AY.230.00007
ORF1ab/nsp13439G439VgGagTa11AY.250.000006
ORF1ab/nsp13439G439GggAggG11AY.260.000028
ORF1ab/nsp13439G439GggAggG11AY.290.000016
ORF1ab/nsp13439G439EgGagAa11AY.30.00001
ORF1ab/nsp13439G439GggAggC11AY.330.000067
ORF1ab/nsp13439G439GggAggG11AY.360.000148
ORF1ab/nsp13439G439RGgaAga11AY.380.000499
ORF1ab/nsp13439G439GggAggG11AY.390.000025
ORF1ab/nsp13439G439VgGagTa11AY.40.000002
ORF1ab/nsp13439G439VgGagTa11AY.440.000006
ORF1ab/nsp13439G439RGgaAga11AY.490.003195
ORF1ab/nsp13439G439EgGagAa11AY.50.000021
ORF1ab/nsp13439G439RGgaAga11AY.540.000095
ORF1ab/nsp13439G439RGgaAga11AY.60.000041
ORF1ab/nsp13439G439VgGagTa11AY.610.000105
ORF1ab/nsp13439G439LGGaTTa11AY.620.000436
ORF1ab/nsp13439G439delGGA---11AY.670.000464
ORF1ab/nsp13439G439VgGagTa11AY.7.20.000559
ORF1ab/nsp13439G439GggAggG11AY.710.000475
ORF1ab/nsp13439G439GggAggG11AY.950.000761
ORF1ab/nsp13439G439RGgaAga11AY.980.000079
ORF1ab/nsp13439G439delGGA---11AY.99.10.001553
ORF1ab/nsp13439G439GggAggG11B0.000128
ORF1ab/nsp13439G439EgGagAa11B.10.000009
ORF1ab/nsp13439G439delGGA---11B.1.10.000018
ORF1ab/nsp13439G439XGgaTga11B.1.10.000018
ORF1ab/nsp13439G439RGgaAga11B.1.1.1250.010204
ORF1ab/nsp13439G439GggAggG11B.1.1.1410.002012
ORF1ab/nsp13439G439RGgaAga11B.1.1.1960.005714
ORF1ab/nsp13439G439RGgaAga11B.1.1.1980.001468
ORF1ab/nsp13439G439VgGagTa11B.1.1.2100.005714
ORF1ab/nsp13439G439RGgaAga11B.1.1.2360.006897
ORF1ab/nsp13439G439EgGagAa11B.1.1.2550.00303
ORF1ab/nsp13439G439RGgaAga11B.1.1.2630.001558
ORF1ab/nsp13439G439RGgaAga11B.1.1.3050.003861
ORF1ab/nsp13439G439VgGagTa11B.1.1.3100.015152
ORF1ab/nsp13439G439EgGagAa11B.1.1.3160.000925
ORF1ab/nsp13439G439RGgaAga11B.1.1.3260.001761
ORF1ab/nsp13439G439RGgaAga11B.1.1.330.000421
ORF1ab/nsp13439G439RGgaAga11B.1.1.370.000193
ORF1ab/nsp13439G439GggAggG11B.1.1.3830.0625
ORF1ab/nsp13439G439GggAggG11B.1.1.4070.041667
ORF1ab/nsp13439G439VgGagTa11B.1.1.4330.001425
ORF1ab/nsp13439G439RGgaAga11B.1.1.4640.001473
ORF1ab/nsp13439G439GggAggG11B.1.1.5190.00004
ORF1ab/nsp13439G439RGgaAga11B.1.1.5190.00004
ORF1ab/nsp13439G439RGgaAga11B.1.1.5220.017241
ORF1ab/nsp13439G439XGgaTga11B.1.1.70.000001
ORF1ab/nsp13439G439XGgaTga11B.1.1.700.000341
ORF1ab/nsp13439G439RGgaAga11B.1.1.80.003584
ORF1ab/nsp13439G439RGgaAga11B.1.1610.017241
ORF1ab/nsp13439G439EgGagAa11B.1.1770.000013
ORF1ab/nsp13439G439GggAggG11B.1.177.170.000821
ORF1ab/nsp13439G439RGgaAga11B.1.177.440.000519
ORF1ab/nsp13439G439RGgaAga11B.1.177.750.001041
ORF1ab/nsp13439G439RGgaAga11B.1.177.840.006667
ORF1ab/nsp13439G439delGGA---11B.1.1790.003759
ORF1ab/nsp13439G439RGgaAga11B.1.214.20.0006
ORF1ab/nsp13439G439RGgaAga11B.1.2430.00007
ORF1ab/nsp13439G439delGGA---11B.1.2580.000067
ORF1ab/nsp13439G439VgGagTa11B.1.258.140.00098
ORF1ab/nsp13439G439RGgaAga11B.1.258.210.007752
ORF1ab/nsp13439G439RGgaAga11B.1.2650.001271
ORF1ab/nsp13439G439RGgaAga11B.1.2770.02381
ORF1ab/nsp13439G439GggAggC11B.1.3110.000275
ORF1ab/nsp13439G439del1Gga-ga11B.1.3510.00003
ORF1ab/nsp13439G439XGgaTga11B.1.3890.001002
ORF1ab/nsp13439G439delGGA---11B.1.4150.014286
ORF1ab/nsp13439G439RGgaAga11B.1.4270.00005
ORF1ab/nsp13439G439XGgaTga11B.1.4290.000024
ORF1ab/nsp13439G439RGgaAga11B.1.4660.023256
ORF1ab/nsp13439G439RGgaAga11B.1.4680.005714
ORF1ab/nsp13439G439GggAggC11B.1.4700.001404
ORF1ab/nsp13439G439VgGagTa11B.1.5170.000427
ORF1ab/nsp13439G439EgGagAa11B.1.5250.000113
ORF1ab/nsp13439G439GggAggG11B.1.5260.000024
ORF1ab/nsp13439G439RGgaAga11B.1.5330.009615
ORF1ab/nsp13439G439GggAggC11B.1.5640.000426
ORF1ab/nsp13439G439RGgaAga11B.1.5810.009434
ORF1ab/nsp13439G439XGgaTga11B.1.5870.001898
ORF1ab/nsp13439G439XGgaTga11B.1.5960.000087
ORF1ab/nsp13439G439RGgaCga11B.1.5980.016949
ORF1ab/nsp13439G439RGgaAga11B.1.617.10.000129
ORF1ab/nsp13439G439XGgaTga11B.1.617.20.000004
ORF1ab/nsp13439G439delGGA---11B.1.617.20.000004
ORF1ab/nsp13439G439GggAggG11B.1.6230.000536
ORF1ab/nsp13439G439RGgaAga11B.1.6280.000352
ORF1ab/nsp13439G439delGGA---11B.1.6300.005236
ORF1ab/nsp13439G439RGgaAga11B.1.930.000934
ORF1ab/nsp13439G439GggAggG11B.30.000831
ORF1ab/nsp13439G439VgGagTa11B.4.50.011905
ORF1ab/nsp13439G439RGgaAga11B.400.000364
ORF1ab/nsp13439G439GggAggG11B.6.60.000889
ORF1ab/nsp13439G439XGgaTga11B.6.60.000889
ORF1ab/nsp13439G439VgGagTa11B.6.60.000889
ORF1ab/nsp13439G439GggAggG11C.110.010638
ORF1ab/nsp13439G439XGgaTga11C.170.055556
ORF1ab/nsp13439G439EgGagAa11D.20.000075
ORF1ab/nsp13439G439RGgaCga11D.20.000075
ORF1ab/nsp13439G439RGgaAga11P.1.120.000484
ORF1ab/nsp13439G439RGgaAga11P.1.140.000048
ORF1ab/nsp13439G439EgGagAa11P.20.000187
ORF1ab/nsp13439G439GggAggG11P.70.004367
ORF1ab/nsp13439G439RGgaAga11Q.10.000126
ORF1ab/nsp13439G439GggAggC11Q.30.000145
ORF1ab/nsp13439G439KGGaAAa11R.10.00009
ORF1ab/nsp13439G439delGGA---11U.30.003861

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.