CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 345

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/nsp12345G345GG4737GsynggAggG16363163030.99633314473-14475
ORF1ab/nsp12345G345GG4737GsynggAggC16363460.0028112214473-14475
ORF1ab/nsp12345G345GG4737GsynggAggT16363140.00085558914473-14475
ORF1ab/nsp12345G345delG4737deldelGGA---120120114473-14475
ORF1ab/nsp12345G345RG4737RnonsynGgaAga18140.77777814473-14475
ORF1ab/nsp12345G345RG4737RnonsynGgAAgG1830.16666714473-14475
ORF1ab/nsp12345G345RG4737RnonsynGgACgG1810.055555614473-14475
ORF1ab/nsp12345G345VG4737VnonsyngGagTa17140.82352914473-14475
ORF1ab/nsp12345G345VG4737VnonsyngGAgTG1720.11764714473-14475
ORF1ab/nsp12345G345VG4737VnonsyngGAgTT1710.058823514473-14475
ORF1ab/nsp12345G345XG4737XnonsynGgaTga1212114473-14475
ORF1ab/nsp12345G345EG4737EnonsyngGagAa12110.91666714473-14475
ORF1ab/nsp12345G345EG4737EnonsyngGAgAG1210.083333314473-14475
ORF1ab/nsp12345G345del2G4737del2delGGa--a1160.54545514473-14475
ORF1ab/nsp12345G345del2G4737del2delgGAg--1150.45454514473-14475
ORF1ab/nsp12345G345del1G4737del1delGGA-AG1040.414473-14475
ORF1ab/nsp12345G345del1G4737del1delggAgg-1040.414473-14475
ORF1ab/nsp12345G345del1G4737del1delGga-ga1020.214473-14475
ORF1ab/nsp12345G345KG4737KnonsynGGaAAa44114473-14475
ORF1ab/nsp12345G345WG4737WnonsynGgATgG44114473-14475
ORF1ab/nsp12345G345SG4737SnonsynGgAAgT420.514473-14475
ORF1ab/nsp12345G345SG4737SnonsynGGATCG410.2514473-14475
ORF1ab/nsp12345G345SG4737SnonsynGGaTCa410.2514473-14475
ORF1ab/nsp12345G345TG4737TnonsynGGaACa33114473-14475
ORF1ab/nsp12345G345CG4737CnonsynGgATgC33114473-14475
ORF1ab/nsp12345G345LG4737LnonsynGGaTTa22114473-14475
ORF1ab/nsp12345G345AG4737AnonsyngGagCa11114473-14475
ORF1ab/nsp12345G345YG4737YnonsynGGATAC11114473-14475
ORF1ab/nsp12345G345DG4737DnonsyngGAgAT11114473-14475
ORF1ab/nsp12345G345IG4737InonsynGGaATa11114473-14475

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/nsp12345G345GggAggG1630316363All0.003118
ORF1ab/nsp12345G345GggAggC4616363All0.000009
ORF1ab/nsp12345G345GggAggT1416363All0.000003
ORF1ab/nsp12345G345GggAggG1544015440AY.270.999288
ORF1ab/nsp12345G345GggAggG148163B.1.1.70.000132
ORF1ab/nsp12345G345GggAggC12163B.1.1.70.000011
ORF1ab/nsp12345G345GggAggT3163B.1.1.70.000003
ORF1ab/nsp12345G345GggAggG119121B.1.617.20.000448
ORF1ab/nsp12345G345GggAggC2121B.1.617.20.000008
ORF1ab/nsp12345G345delGGA---120120All0.000023
ORF1ab/nsp12345G345GggAggG113115AY.40.000176
ORF1ab/nsp12345G345GggAggC2115AY.40.000003
ORF1ab/nsp12345G345GggAggG6767AY.370.021176
ORF1ab/nsp12345G345GggAggG5256AY.430.00023
ORF1ab/nsp12345G345GggAggC356AY.430.000013
ORF1ab/nsp12345G345GggAggT156AY.430.000004
ORF1ab/nsp12345G345delGGA---5353B.1.1.70.000047
ORF1ab/nsp12345G345GggAggG4043AY.1030.000248
ORF1ab/nsp12345G345GggAggC243AY.1030.000012
ORF1ab/nsp12345G345GggAggT143AY.1030.000006
ORF1ab/nsp12345G345GggAggG4040B.1.4290.000941
ORF1ab/nsp12345G345GggAggG2427AY.750.001345
ORF1ab/nsp12345G345GggAggC227AY.750.000112
ORF1ab/nsp12345G345GggAggT127AY.750.000056
ORF1ab/nsp12345G345GggAggG1919AY.740.002197
ORF1ab/nsp12345G345RGgaAga1418All0.000003
ORF1ab/nsp12345G345RGgAAgG318All0.000001
ORF1ab/nsp12345G345RGgACgG118All0
ORF1ab/nsp12345G345VgGagTa1417All0.000003
ORF1ab/nsp12345G345VgGAgTG217All0
ORF1ab/nsp12345G345VgGAgTT117All0
ORF1ab/nsp12345G345GggAggG1617AY.470.000498
ORF1ab/nsp12345G345GggAggC117AY.470.000031
ORF1ab/nsp12345G345GggAggG1616AY.160.006074
ORF1ab/nsp12345G345GggAggG1515AY.880.013263
ORF1ab/nsp12345G345GggAggG714AY.440.000043
ORF1ab/nsp12345G345GggAggC614AY.440.000037
ORF1ab/nsp12345G345GggAggT114AY.440.000006
ORF1ab/nsp12345G345XGgaTga1212All0.000002
ORF1ab/nsp12345G345EgGagAa1112All0.000002
ORF1ab/nsp12345G345EgGAgAG112All0
ORF1ab/nsp12345G345GggAggG1112AY.250.000066
ORF1ab/nsp12345G345GggAggC112AY.250.000006
ORF1ab/nsp12345G345GggAggG1212AY.75.10.002164
ORF1ab/nsp12345G345del2GGa--a611All0.000001
ORF1ab/nsp12345G345del2gGAg--511All0.000001
ORF1ab/nsp12345G345del1GGA-AG410All0.000001
ORF1ab/nsp12345G345del1ggAgg-410All0.000001
ORF1ab/nsp12345G345del1Gga-ga210All0
ORF1ab/nsp12345G345GggAggG910B.10.000082
ORF1ab/nsp12345G345GggAggT110B.10.000009
ORF1ab/nsp12345G345GggAggG99AY.260.000255
ORF1ab/nsp12345G345GggAggG79AY.50.000145
ORF1ab/nsp12345G345GggAggC29AY.50.000041
ORF1ab/nsp12345G345GggAggG88AY.390.000198
ORF1ab/nsp12345G345GggAggG67AY.1190.000212
ORF1ab/nsp12345G345GggAggT17AY.1190.000035
ORF1ab/nsp12345G345GggAggG77AY.280.013233
ORF1ab/nsp12345G345delGGA---66B.10.000055
ORF1ab/nsp12345G345GggAggG66B.1.6370.000438
ORF1ab/nsp12345G345GggAggG46P.10.000063
ORF1ab/nsp12345G345GggAggC26P.10.000032
ORF1ab/nsp12345G345GggAggG55AY.620.002179
ORF1ab/nsp12345G345GggAggG45AY.90.00027
ORF1ab/nsp12345G345GggAggT15AY.90.000068
ORF1ab/nsp12345G345RGgaAga45B.1.10.000073
ORF1ab/nsp12345G345RGgAAgG15B.1.10.000018
ORF1ab/nsp12345G345GggAggG55B.1.1.5190.000199
ORF1ab/nsp12345G345delGGA---55B.1.1770.000066
ORF1ab/nsp12345G345GggAggG45B.1.20.000035
ORF1ab/nsp12345G345GggAggT15B.1.20.000009
ORF1ab/nsp12345G345KGGaAAa44All0.000001
ORF1ab/nsp12345G345WGgATgG44All0.000001
ORF1ab/nsp12345G345SGgAAgT24All0
ORF1ab/nsp12345G345SGGaTCa14All0
ORF1ab/nsp12345G345SGGATCG14All0
ORF1ab/nsp12345G345GggAggG34AY.1020.00008
ORF1ab/nsp12345G345GggAggC14AY.1020.000027
ORF1ab/nsp12345G345GggAggG34AY.200.000117
ORF1ab/nsp12345G345GggAggT14AY.200.000039
ORF1ab/nsp12345G345delGGA---44AY.40.000006
ORF1ab/nsp12345G345GggAggG44B.1.1.1590.018692
ORF1ab/nsp12345G345GggAggG44B.1.1.5230.00625
ORF1ab/nsp12345G345GggAggG330.166667
ORF1ab/nsp12345G345WGgATgG330.166667
ORF1ab/nsp12345G345TGGaACa33All0.000001
ORF1ab/nsp12345G345CGgATgC33All0.000001
ORF1ab/nsp12345G345GggAggG23AY.670.000929
ORF1ab/nsp12345G345GggAggT13AY.670.000464
ORF1ab/nsp12345G345del2GGa--a23B.10.000018
ORF1ab/nsp12345G345del2gGAg--13B.10.000009
ORF1ab/nsp12345G345delGGA---33B.1.10.000054
ORF1ab/nsp12345G345VgGagTa33B.1.1.70.000003
ORF1ab/nsp12345G345GggAggG33B.1.1600.000094
ORF1ab/nsp12345G345delGGA---33B.1.177.830.004444
ORF1ab/nsp12345G345delGGA---33B.1.20.000026
ORF1ab/nsp12345G345GggAggG33B.1.3510.000089
ORF1ab/nsp12345G345delGGA---33B.1.3670.002377
ORF1ab/nsp12345G345GggAggG23B.1.5260.000047
ORF1ab/nsp12345G345GggAggC13B.1.5260.000024
ORF1ab/nsp12345G345EgGagAa33B.1.5820.001472
ORF1ab/nsp12345G345VgGagTa33P.10.000047
ORF1ab/nsp12345G345EgGagAa33P.10.000047
ORF1ab/nsp12345G345GggAggG33Q.10.000379
ORF1ab/nsp12345G345CGgATgC220.111111
ORF1ab/nsp12345G345del1ggAgg-220.111111
ORF1ab/nsp12345G345GggAggC22A.290.010638
ORF1ab/nsp12345G345LGGaTTa22All0
ORF1ab/nsp12345G345GggAggG22AY.1000.000092
ORF1ab/nsp12345G345GggAggG22AY.1210.000271
ORF1ab/nsp12345G345GggAggG22AY.130.000322
ORF1ab/nsp12345G345GggAggG12AY.39.10.00004
ORF1ab/nsp12345G345GggAggC12AY.39.10.00004
ORF1ab/nsp12345G345delGGA---22AY.4.50.000215
ORF1ab/nsp12345G345delGGA---22AY.430.000009
ORF1ab/nsp12345G345delGGA---22AY.440.000012
ORF1ab/nsp12345G345GggAggG22AY.70.000392
ORF1ab/nsp12345G345delGGA---22AY.9.20.000073
ORF1ab/nsp12345G345del1GGA-AG22B.10.000018
ORF1ab/nsp12345G345RGgACgG12B.10.000009
ORF1ab/nsp12345G345RGgaAga12B.10.000009
ORF1ab/nsp12345G345GggAggG22B.1.10.000036
ORF1ab/nsp12345G345GggAggG22B.1.1.2160.001781
ORF1ab/nsp12345G345KGGaAAa22B.1.1.280.000622
ORF1ab/nsp12345G345RGgaAga22B.1.1.70.000002
ORF1ab/nsp12345G345XGgaTga22B.1.1.70.000002
ORF1ab/nsp12345G345del2gGAg--22B.1.1.70.000002
ORF1ab/nsp12345G345GggAggG22B.1.1770.000026
ORF1ab/nsp12345G345del2GGa--a22B.1.1770.000026
ORF1ab/nsp12345G345RGgAAgG12B.1.1770.000013
ORF1ab/nsp12345G345RGgaAga12B.1.1770.000013
ORF1ab/nsp12345G345delGGA---22B.1.177.40.000422
ORF1ab/nsp12345G345GggAggG22B.1.177.870.001456
ORF1ab/nsp12345G345XGgaTga22B.1.20.000018
ORF1ab/nsp12345G345GggAggG22B.1.258.170.000208
ORF1ab/nsp12345G345GggAggG22B.1.3110.000549
ORF1ab/nsp12345G345GggAggG22B.1.4130.008511
ORF1ab/nsp12345G345GggAggG22B.1.6040.034483
ORF1ab/nsp12345G345GggAggG22C.360.001821
ORF1ab/nsp12345G345RGgaAga22P.10.000032
ORF1ab/nsp12345G345RGgaAga12P.20.000187
ORF1ab/nsp12345G345RGgAAgG12P.20.000187
ORF1ab/nsp12345G345XGgaTga110.055556
ORF1ab/nsp12345G345delGGA---11AE.20.058824
ORF1ab/nsp12345G345EgGagAa11AE.30.032258
ORF1ab/nsp12345G345AgGagCa11All0
ORF1ab/nsp12345G345YGGATAC11All0
ORF1ab/nsp12345G345IGGaATa11All0
ORF1ab/nsp12345G345DgGAgAT11All0
ORF1ab/nsp12345G345delGGA---11AY.1020.000027
ORF1ab/nsp12345G345TGGaACa11AY.1030.000006
ORF1ab/nsp12345G345GggAggG11AY.1050.000643
ORF1ab/nsp12345G345delGGA---11AY.1070.000466
ORF1ab/nsp12345G345delGGA---11AY.1110.000183
ORF1ab/nsp12345G345GggAggC11AY.1110.000183
ORF1ab/nsp12345G345del2GGa--a11AY.1170.000085
ORF1ab/nsp12345G345GggAggG11AY.1170.000085
ORF1ab/nsp12345G345GggAggG11AY.120.000316
ORF1ab/nsp12345G345VgGagTa11AY.240.000431
ORF1ab/nsp12345G345delGGA---11AY.260.000028
ORF1ab/nsp12345G345delGGA---11AY.30.00001
ORF1ab/nsp12345G345GggAggG11AY.330.000067
ORF1ab/nsp12345G345GggAggG11AY.360.000148
ORF1ab/nsp12345G345RGgaAga11AY.40.000002
ORF1ab/nsp12345G345del2GGa--a11AY.430.000004
ORF1ab/nsp12345G345LGGaTTa11AY.430.000004
ORF1ab/nsp12345G345AgGagCa11AY.440.000006
ORF1ab/nsp12345G345IGGaATa11AY.440.000006
ORF1ab/nsp12345G345GggAggC11AY.450.000122
ORF1ab/nsp12345G345GggAggG11AY.460.000104
ORF1ab/nsp12345G345GggAggG11AY.46.20.000635
ORF1ab/nsp12345G345del1Gga-ga11AY.46.60.000072
ORF1ab/nsp12345G345GggAggC11AY.46.60.000072
ORF1ab/nsp12345G345delGGA---11AY.46.60.000072
ORF1ab/nsp12345G345GggAggG11AY.520.000814
ORF1ab/nsp12345G345GggAggG11AY.530.000288
ORF1ab/nsp12345G345TGGaACa11AY.550.000917
ORF1ab/nsp12345G345GggAggG11AY.610.000105
ORF1ab/nsp12345G345del2gGAg--11AY.650.000533
ORF1ab/nsp12345G345delGGA---11AY.710.000475
ORF1ab/nsp12345G345delGGA---11AY.720.001361
ORF1ab/nsp12345G345SGgAAgT11AY.750.000056
ORF1ab/nsp12345G345LGGaTTa11AY.760.004831
ORF1ab/nsp12345G345GggAggT11AY.840.000437
ORF1ab/nsp12345G345GggAggC11AY.9.20.000037
ORF1ab/nsp12345G345GggAggG11AY.930.000273
ORF1ab/nsp12345G345del1Gga-ga11AY.950.000761
ORF1ab/nsp12345G345GggAggG11AY.98.10.000048
ORF1ab/nsp12345G345VgGAgTG11AY.990.001049
ORF1ab/nsp12345G345EgGagAa11AY.990.001049
ORF1ab/nsp12345G345RGgaAga11AY.99.20.000092
ORF1ab/nsp12345G345VgGagTa11B.10.000009
ORF1ab/nsp12345G345KGGaAAa11B.10.000009
ORF1ab/nsp12345G345DgGAgAT11B.10.000009
ORF1ab/nsp12345G345EgGagAa11B.10.000009
ORF1ab/nsp12345G345YGGATAC11B.10.000009
ORF1ab/nsp12345G345VgGagTa11B.1.10.000018
ORF1ab/nsp12345G345EgGAgAG11B.1.10.000018
ORF1ab/nsp12345G345del2gGAg--11B.1.10.000018
ORF1ab/nsp12345G345RGgaAga11B.1.1.10.000327
ORF1ab/nsp12345G345del1ggAgg-11B.1.1.1390.022727
ORF1ab/nsp12345G345XGgaTga11B.1.1.1700.001247
ORF1ab/nsp12345G345GggAggG11B.1.1.2140.000055
ORF1ab/nsp12345G345delGGA---11B.1.1.2210.010101
ORF1ab/nsp12345G345delGGA---11B.1.1.2840.000107
ORF1ab/nsp12345G345delGGA---11B.1.1.2880.001916
ORF1ab/nsp12345G345VgGAgTG11B.1.1.3060.000438
ORF1ab/nsp12345G345delGGA---11B.1.1.3120.001912
ORF1ab/nsp12345G345delGGA---11B.1.1.370.000193
ORF1ab/nsp12345G345GggAggG11B.1.1.4160.000905
ORF1ab/nsp12345G345GggAggG11B.1.1.630.000386
ORF1ab/nsp12345G345CGgATgC11B.1.1.70.000001
ORF1ab/nsp12345G345del1ggAgg-11B.1.1.70.000001
ORF1ab/nsp12345G345GggAggG11B.1.1310.008772
ORF1ab/nsp12345G345delGGA---11B.1.1600.000031
ORF1ab/nsp12345G345WGgATgG11B.1.1600.000031
ORF1ab/nsp12345G345XGgaTga11B.1.160.290.004219
ORF1ab/nsp12345G345SGGATCG11B.1.1770.000013
ORF1ab/nsp12345G345VgGagTa11B.1.1770.000013
ORF1ab/nsp12345G345GggAggG11B.1.177.210.000076
ORF1ab/nsp12345G345GggAggG11B.1.177.350.000691
ORF1ab/nsp12345G345delGGA---11B.1.177.530.002392
ORF1ab/nsp12345G345del1GGA-AG11B.1.177.530.002392
ORF1ab/nsp12345G345delGGA---11B.1.177.540.000606
ORF1ab/nsp12345G345delGGA---11B.1.177.570.000281
ORF1ab/nsp12345G345delGGA---11B.1.177.760.002494
ORF1ab/nsp12345G345delGGA---11B.1.1950.005025
ORF1ab/nsp12345G345XGgaTga11B.1.2060.000816
ORF1ab/nsp12345G345GggAggG11B.1.2340.000132
ORF1ab/nsp12345G345GggAggC11B.1.2430.00007
ORF1ab/nsp12345G345GggAggG11B.1.3130.006579
ORF1ab/nsp12345G345delGGA---11B.1.351.30.000876
ORF1ab/nsp12345G345GggAggG11B.1.360.000146
ORF1ab/nsp12345G345TGGaACa11B.1.3620.001541
ORF1ab/nsp12345G345XGgaTga11B.1.3690.000285
ORF1ab/nsp12345G345del1GGA-AG11B.1.4160.001269
ORF1ab/nsp12345G345GggAggG11B.1.4260.001009
ORF1ab/nsp12345G345delGGA---11B.1.4530.003236
ORF1ab/nsp12345G345GggAggG11B.1.4830.111111
ORF1ab/nsp12345G345VgGAgTT11B.1.5150.014493
ORF1ab/nsp12345G345delGGA---11B.1.5170.000427
ORF1ab/nsp12345G345SGgAAgT11B.1.5250.000113
ORF1ab/nsp12345G345GggAggG11B.1.5410.004425
ORF1ab/nsp12345G345delGGA---11B.1.5800.004065
ORF1ab/nsp12345G345GggAggG11B.1.5880.00091
ORF1ab/nsp12345G345VgGagTa11B.1.5950.000261
ORF1ab/nsp12345G345delGGA---11B.1.5960.000087
ORF1ab/nsp12345G345GggAggC11B.1.5960.000087
ORF1ab/nsp12345G345SGGaTCa11B.1.617.10.000129
ORF1ab/nsp12345G345delGGA---11B.1.617.10.000129
ORF1ab/nsp12345G345XGgaTga11B.1.617.20.000004
ORF1ab/nsp12345G345GggAggG11B.1.6190.000871
ORF1ab/nsp12345G345delGGA---11B.1.6210.000089
ORF1ab/nsp12345G345delGGA---11B.1.6370.000073
ORF1ab/nsp12345G345VgGagTa11B.60.00091
ORF1ab/nsp12345G345GggAggG11C.350.000774
ORF1ab/nsp12345G345delGGA---11C.360.000911
ORF1ab/nsp12345G345GggAggG11C.370.000116
ORF1ab/nsp12345G345GggAggG11C.390.018868
ORF1ab/nsp12345G345XGgaTga11D.20.000075
ORF1ab/nsp12345G345VgGagTa11D.20.000075
ORF1ab/nsp12345G345GggAggG11N.50.001767
ORF1ab/nsp12345G345XGgaTga11P.10.000016
ORF1ab/nsp12345G345delGGA---11P.1.100.000269
ORF1ab/nsp12345G345EgGagAa11P.1.140.000048
ORF1ab/nsp12345G345GggAggG11P.1.140.000048
ORF1ab/nsp12345G345GggAggG11P.1.70.000319
ORF1ab/nsp12345G345KGGaAAa11P.20.000187
ORF1ab/nsp12345G345VgGagTa11P.20.000187
ORF1ab/nsp12345G345EgGagAa11P.20.000187
ORF1ab/nsp12345G345GggAggG11R.10.00009

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.