CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 92

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/nsp392E92DE910DnonsyngaGgaT5014950.9880242993-2995
ORF1ab/nsp392E92DE910DnonsyngaGgaC50160.0119762993-2995
ORF1ab/nsp392E92GE910GnonsyngAggGg3063040.9934642993-2995
ORF1ab/nsp392E92GE910GnonsyngAGgGT30610.003267972993-2995
ORF1ab/nsp392E92GE910GnonsyngAGgGA30610.003267972993-2995
ORF1ab/nsp392E92KE910KnonsynGagAag26026012993-2995
ORF1ab/nsp392E92EE910EsyngaGgaA19019012993-2995
ORF1ab/nsp392E92delE910deldelGAG---404012993-2995
ORF1ab/nsp392E92VE910VnonsyngAggTg242412993-2995
ORF1ab/nsp392E92AE910AnonsyngAggCg202012993-2995
ORF1ab/nsp392E92XE910XnonsynGagTag7712993-2995
ORF1ab/nsp392E92del1E910del1delgaGga-650.8333332993-2995
ORF1ab/nsp392E92del1E910del1delgAgg-g610.1666672993-2995
ORF1ab/nsp392E92FE910FnonsynGAGTTC530.62993-2995
ORF1ab/nsp392E92SE910SnonsynGAGTCC530.62993-2995
ORF1ab/nsp392E92FE910FnonsynGAGTTT520.42993-2995
ORF1ab/nsp392E92SE910SnonsynGAGTCT520.42993-2995
ORF1ab/nsp392E92TE910TnonsynGAGACC420.52993-2995
ORF1ab/nsp392E92TE910TnonsynGAGACT420.52993-2995
ORF1ab/nsp392E92IE910InonsynGAGATT420.52993-2995
ORF1ab/nsp392E92IE910InonsynGAGATC420.52993-2995
ORF1ab/nsp392E92QE910QnonsynGagCag3312993-2995
ORF1ab/nsp392E92YE910YnonsynGaGTaC2212993-2995
ORF1ab/nsp392E92LE910LnonsynGAgTTg2212993-2995
ORF1ab/nsp392E92RE910RnonsynGAgAGg2212993-2995
ORF1ab/nsp392E92ME910MnonsynGAgATg2212993-2995
ORF1ab/nsp392E92del2E910del2delgAGg--210.52993-2995
ORF1ab/nsp392E92del2E910del2delGAg--g210.52993-2995
ORF1ab/nsp392E92PE910PnonsynGAGCCC1112993-2995
ORF1ab/nsp392E92NE910NnonsynGaGAaT1112993-2995

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/nsp392E92DgaGgaT495501All0.000095
ORF1ab/nsp392E92DgaGgaC6501All0.000001
ORF1ab/nsp392E92GgAggGg304306All0.000058
ORF1ab/nsp392E92GgAGgGT1306All0
ORF1ab/nsp392E92GgAGgGA1306All0
ORF1ab/nsp392E92KGagAag260260All0.00005
ORF1ab/nsp392E92KGagAag212212B.1.1770.002792
ORF1ab/nsp392E92EgaGgaA190190All0.000036
ORF1ab/nsp392E92GgAggGg169169B.1.177.701
ORF1ab/nsp392E92DgaGgaT9999AY.40.000154
ORF1ab/nsp392E92DgaGgaT5556AY.440.000335
ORF1ab/nsp392E92DgaGgaC156AY.440.000006
ORF1ab/nsp392E92EgaGgaA4646B.1.1.70.000041
ORF1ab/nsp392E92DgaGgaT4344B.1.1.70.000038
ORF1ab/nsp392E92DgaGgaC144B.1.1.70.000001
ORF1ab/nsp392E92delGAG---4040All0.000008
ORF1ab/nsp392E92GgAggGg3535AY.430.000155
ORF1ab/nsp392E92DgaGgaT2828B.1.617.20.000105
ORF1ab/nsp392E92VgAggTg2424All0.000005
ORF1ab/nsp392E92DgaGgaT2323B.1.3490.01644
ORF1ab/nsp392E92GgAggGg2222B.1.1.70.00002
ORF1ab/nsp392E92DgaGgaT2121AY.4.20.000455
ORF1ab/nsp392E92DgaGgaT2121AY.860.017427
ORF1ab/nsp392E92AgAggCg2020All0.000004
ORF1ab/nsp392E92DgaGgaT1920P.10.000299
ORF1ab/nsp392E92DgaGgaC120P.10.000016
ORF1ab/nsp392E92EgaGgaA1717C.180.044041
ORF1ab/nsp392E92EgaGgaA1515AY.430.000066
ORF1ab/nsp392E92EgaGgaA1515P.10.000236
ORF1ab/nsp392E92GgAggGg1414B.1.3110.003844
ORF1ab/nsp392E92DgaGgaT1212AY.1070.005592
ORF1ab/nsp392E92EgaGgaA1111B.1.621.10.005564
ORF1ab/nsp392E92DgaGgaT1010AY.1030.000062
ORF1ab/nsp392E92GgAggGg1010AY.40.000016
ORF1ab/nsp392E92GgAggGg1010AY.440.000061
ORF1ab/nsp392E92DgaGgaT1010B.1.1.3060.004384
ORF1ab/nsp392E92DgaGgaT1010B.1.177.440.005189
ORF1ab/nsp392E92EgaGgaA1010B.1.3510.000297
ORF1ab/nsp392E92DgaGgaT1010C.50.909091
ORF1ab/nsp392E92EgaGgaA99B.1.2210.000639
ORF1ab/nsp392E92EgaGgaA99B.1.617.20.000034
ORF1ab/nsp392E92DgaGgaT88AY.430.000035
ORF1ab/nsp392E92DgaGgaT88B.10.000073
ORF1ab/nsp392E92XGagTag77All0.000001
ORF1ab/nsp392E92VgAggTg77AY.320.003727
ORF1ab/nsp392E92DgaGgaT77AY.390.000173
ORF1ab/nsp392E92KGagAag77AY.9.20.000257
ORF1ab/nsp392E92DgaGgaT77B.1.5260.000165
ORF1ab/nsp392E92del1gaGga-56All0.000001
ORF1ab/nsp392E92del1gAgg-g16All0
ORF1ab/nsp392E92AgAggCg66AY.5.40.00166
ORF1ab/nsp392E92DgaGgaT66B.1.1.10.00196
ORF1ab/nsp392E92KGagAag66B.1.1.2860.017391
ORF1ab/nsp392E92delGAG---66B.1.1.70.000005
ORF1ab/nsp392E92KGagAag66B.1.1.70.000005
ORF1ab/nsp392E92GgAggGg66B.1.4290.000141
ORF1ab/nsp392E92FGAGTTC35All0.000001
ORF1ab/nsp392E92SGAGTCC35All0.000001
ORF1ab/nsp392E92FGAGTTT25All0
ORF1ab/nsp392E92SGAGTCT25All0
ORF1ab/nsp392E92EgaGgaA55B.10.000046
ORF1ab/nsp392E92DgaGgaT55B.1.10.000091
ORF1ab/nsp392E92DgaGgaT55B.1.1600.000156
ORF1ab/nsp392E92EgaGgaA55B.1.20.000044
ORF1ab/nsp392E92VgAggTg55B.1.3890.00501
ORF1ab/nsp392E92GgAggGg55B.1.617.20.000019
ORF1ab/nsp392E92DgaGgaT55B.1.6230.002682
ORF1ab/nsp392E92TGAGACT240.111111
ORF1ab/nsp392E92TGAGACC240.111111
ORF1ab/nsp392E92FGAGTTC240.111111
ORF1ab/nsp392E92IGAGATC240.111111
ORF1ab/nsp392E92SGAGTCT240.111111
ORF1ab/nsp392E92FGAGTTT240.111111
ORF1ab/nsp392E92SGAGTCC240.111111
ORF1ab/nsp392E92IGAGATT240.111111
ORF1ab/nsp392E92IGAGATT24All0
ORF1ab/nsp392E92TGAGACT24All0
ORF1ab/nsp392E92IGAGATC24All0
ORF1ab/nsp392E92TGAGACC24All0
ORF1ab/nsp392E92DgaGgaT44AY.250.000024
ORF1ab/nsp392E92EgaGgaA44AY.40.000006
ORF1ab/nsp392E92EgaGgaA44AY.46.40.000658
ORF1ab/nsp392E92KGagAag44B.10.000037
ORF1ab/nsp392E92delGAG---44B.10.000037
ORF1ab/nsp392E92AgAggCg44B.1.1.70.000004
ORF1ab/nsp392E92DgaGgaT44B.1.2210.000284
ORF1ab/nsp392E92DgaGgaT44B.1.2340.000528
ORF1ab/nsp392E92EgaGgaA44B.1.4290.000094
ORF1ab/nsp392E92DgaGgaT44B.1.6370.000292
ORF1ab/nsp392E92QGagCag33All0.000001
ORF1ab/nsp392E92VgAggTg33AY.1020.00008
ORF1ab/nsp392E92DgaGgaT33AY.1020.00008
ORF1ab/nsp392E92DgaGgaT33AY.1190.000106
ORF1ab/nsp392E92DgaGgaT33AY.140.000264
ORF1ab/nsp392E92KGagAag33AY.230.000209
ORF1ab/nsp392E92EgaGgaA33AY.30.00003
ORF1ab/nsp392E92DgaGgaT33AY.30.00003
ORF1ab/nsp392E92GgAggGg33AY.420.000121
ORF1ab/nsp392E92delGAG---33B.1.1.330.001263
ORF1ab/nsp392E92DgaGgaT33B.1.1.4130.02069
ORF1ab/nsp392E92DgaGgaT33B.1.1770.00004
ORF1ab/nsp392E92GgAggGg33B.1.20.000026
ORF1ab/nsp392E92GgAggGg33B.1.3510.000089
ORF1ab/nsp392E92EgaGgaA33B.1.3990.005803
ORF1ab/nsp392E92DgaGgaT33B.1.4800.007463
ORF1ab/nsp392E92KGagAag33B.1.6090.001438
ORF1ab/nsp392E92KGagAag33B.1.617.20.000011
ORF1ab/nsp392E92delGAG---220.111111
ORF1ab/nsp392E92LGAgTTg220.111111
ORF1ab/nsp392E92MGAgATg220.111111
ORF1ab/nsp392E92LGAgTTg22All0
ORF1ab/nsp392E92YGaGTaC22All0
ORF1ab/nsp392E92RGAgAGg22All0
ORF1ab/nsp392E92MGAgATg22All0
ORF1ab/nsp392E92del2GAg--g12All0
ORF1ab/nsp392E92del2gAGg--12All0
ORF1ab/nsp392E92DgaGgaT22AY.1000.000092
ORF1ab/nsp392E92EgaGgaA22AY.120.10.000642
ORF1ab/nsp392E92DgaGgaT22AY.200.000078
ORF1ab/nsp392E92GgAggGg22AY.230.000139
ORF1ab/nsp392E92VgAggTg22AY.390.000049
ORF1ab/nsp392E92delGAG---22AY.430.000009
ORF1ab/nsp392E92EgaGgaA22AY.440.000012
ORF1ab/nsp392E92DgaGgaT22AY.50.000041
ORF1ab/nsp392E92AgAggCg22AY.670.000929
ORF1ab/nsp392E92EgaGgaA22AY.98.10.000097
ORF1ab/nsp392E92DgaGgaT22AZ.20.001642
ORF1ab/nsp392E92GgAggGg22B.10.000018
ORF1ab/nsp392E92VgAggTg22B.10.000018
ORF1ab/nsp392E92GgAggGg22B.1.10.000036
ORF1ab/nsp392E92delGAG---22B.1.1.3480.001592
ORF1ab/nsp392E92DgaGgaC12B.1.1.390.00051
ORF1ab/nsp392E92DgaGgaT12B.1.1.390.00051
ORF1ab/nsp392E92KGagAag22B.1.1600.000062
ORF1ab/nsp392E92DgaGgaT22B.1.1890.008584
ORF1ab/nsp392E92AgAggCg22B.1.2210.000142
ORF1ab/nsp392E92KGagAag22B.1.2210.000142
ORF1ab/nsp392E92EgaGgaA22B.1.2580.000133
ORF1ab/nsp392E92DgaGgaT22B.1.3110.000549
ORF1ab/nsp392E92DgaGgaT22B.1.36.290.001035
ORF1ab/nsp392E92DgaGgaT22B.1.4290.000047
ORF1ab/nsp392E92DgaGgaT22B.1.5380.016129
ORF1ab/nsp392E92GgAggGg22B.1.5580.009132
ORF1ab/nsp392E92delGAG---22B.1.617.20.000008
ORF1ab/nsp392E92delGAG---22N.60.014184
ORF1ab/nsp392E92delGAG---22P.10.000032
ORF1ab/nsp392E92GgAggGg22R.10.00018
ORF1ab/nsp392E92GgAggGg110.055556
ORF1ab/nsp392E92VgAggTg11A.20.000662
ORF1ab/nsp392E92DgaGgaT11A.23.10.000704
ORF1ab/nsp392E92EgaGgaA11AE.80.000489
ORF1ab/nsp392E92PGAGCCC11All0
ORF1ab/nsp392E92NGaGAaT11All0
ORF1ab/nsp392E92delGAG---11AY.1000.000046
ORF1ab/nsp392E92EgaGgaA11AY.1020.000027
ORF1ab/nsp392E92DgaGgaT11AY.1130.000142
ORF1ab/nsp392E92GgAggGg11AY.1140.000231
ORF1ab/nsp392E92DgaGgaT11AY.1160.000287
ORF1ab/nsp392E92DgaGgaT11AY.1170.000085
ORF1ab/nsp392E92GgAggGg11AY.1170.000085
ORF1ab/nsp392E92EgaGgaA11AY.1180.000063
ORF1ab/nsp392E92EgaGgaA11AY.160.00038
ORF1ab/nsp392E92GgAGgGA11AY.200.000039
ORF1ab/nsp392E92delGAG---11AY.250.000006
ORF1ab/nsp392E92XGagTag11AY.250.000006
ORF1ab/nsp392E92EgaGgaA11AY.29.10.000221
ORF1ab/nsp392E92del2gAGg--11AY.30.00001
ORF1ab/nsp392E92GgAggGg11AY.30.00001
ORF1ab/nsp392E92KGagAag11AY.320.000532
ORF1ab/nsp392E92DgaGgaT11AY.39.10.00004
ORF1ab/nsp392E92KGagAag11AY.40.000002
ORF1ab/nsp392E92VgAggTg11AY.40.000002
ORF1ab/nsp392E92DgaGgaT11AY.4.50.000107
ORF1ab/nsp392E92delGAG---11AY.420.00004
ORF1ab/nsp392E92DgaGgaT11AY.420.00004
ORF1ab/nsp392E92KGagAag11AY.430.000004
ORF1ab/nsp392E92QGagCag11AY.440.000006
ORF1ab/nsp392E92KGagAag11AY.440.000006
ORF1ab/nsp392E92EgaGgaA11AY.450.000122
ORF1ab/nsp392E92delGAG---11AY.460.000104
ORF1ab/nsp392E92DgaGgaT11AY.46.60.000072
ORF1ab/nsp392E92AgAggCg11AY.50.000021
ORF1ab/nsp392E92EgaGgaA11AY.5.30.000337
ORF1ab/nsp392E92GgAggGg11AY.5.40.000277
ORF1ab/nsp392E92EgaGgaA11AY.520.000814
ORF1ab/nsp392E92GgAggGg11AY.60.000041
ORF1ab/nsp392E92GgAggGg11AY.610.000105
ORF1ab/nsp392E92KGagAag11AY.610.000105
ORF1ab/nsp392E92EgaGgaA11AY.750.000056
ORF1ab/nsp392E92DgaGgaT11AY.75.10.00018
ORF1ab/nsp392E92VgAggTg11AY.850.000427
ORF1ab/nsp392E92EgaGgaA11AY.880.000884
ORF1ab/nsp392E92KGagAag11AY.90.000068
ORF1ab/nsp392E92DgaGgaT11AY.9.20.000037
ORF1ab/nsp392E92EgaGgaA11AY.910.00073
ORF1ab/nsp392E92delGAG---11AY.990.001049
ORF1ab/nsp392E92GgAggGg11AY.99.20.000092
ORF1ab/nsp392E92delGAG---11AZ.20.000821
ORF1ab/nsp392E92del1gaGga-11B0.000128
ORF1ab/nsp392E92XGagTag11B.10.000009
ORF1ab/nsp392E92PGAGCCC11B.10.000009
ORF1ab/nsp392E92FGAGTTC11B.1.10.000018
ORF1ab/nsp392E92YGaGTaC11B.1.10.000018
ORF1ab/nsp392E92KGagAag11B.1.10.000018
ORF1ab/nsp392E92SGAGTCC11B.1.10.000018
ORF1ab/nsp392E92delGAG---11B.1.10.000018
ORF1ab/nsp392E92EgaGgaA11B.1.10.000018
ORF1ab/nsp392E92del1gaGga-11B.1.10.000018
ORF1ab/nsp392E92DgaGgaT11B.1.1.1740.003378
ORF1ab/nsp392E92VgAggTg11B.1.1.1940.00495
ORF1ab/nsp392E92EgaGgaA11B.1.1.2220.000204
ORF1ab/nsp392E92KGagAag11B.1.1.2220.000204
ORF1ab/nsp392E92DgaGgaT11B.1.1.250.000569
ORF1ab/nsp392E92GgAggGg11B.1.1.280.000311
ORF1ab/nsp392E92AgAggCg11B.1.1.280.000311
ORF1ab/nsp392E92DgaGgaT11B.1.1.280.000311
ORF1ab/nsp392E92DgaGgaT11B.1.1.3160.000925
ORF1ab/nsp392E92DgaGgaT11B.1.1.3480.000796
ORF1ab/nsp392E92DgaGgaT11B.1.1.3560.008547
ORF1ab/nsp392E92QGagCag11B.1.1.390.00051
ORF1ab/nsp392E92EgaGgaA11B.1.1.3970.002252
ORF1ab/nsp392E92KGagAag11B.1.1.4480.002033
ORF1ab/nsp392E92EgaGgaA11B.1.1.4640.001473
ORF1ab/nsp392E92GgAggGg11B.1.1.5190.00004
ORF1ab/nsp392E92XGagTag11B.1.1.610.008772
ORF1ab/nsp392E92EgaGgaA11B.1.1.630.000386
ORF1ab/nsp392E92del2GAg--g11B.1.1.70.000001
ORF1ab/nsp392E92XGagTag11B.1.1.70.000001
ORF1ab/nsp392E92VgAggTg11B.1.1.700.000341
ORF1ab/nsp392E92DgaGgaT11B.1.1030.019231
ORF1ab/nsp392E92DgaGgaT11B.1.1280.000635
ORF1ab/nsp392E92DgaGgaT11B.1.1310.008772
ORF1ab/nsp392E92DgaGgaT11B.1.160.160.000929
ORF1ab/nsp392E92delGAG---11B.1.160.160.000929
ORF1ab/nsp392E92delGAG---11B.1.177.540.000606
ORF1ab/nsp392E92GgAggGg11B.1.177.770.000726
ORF1ab/nsp392E92DgaGgaT11B.1.177.860.000183
ORF1ab/nsp392E92del1gaGga-11B.1.177.860.000183
ORF1ab/nsp392E92XGagTag11B.1.20.000009
ORF1ab/nsp392E92del1gaGga-11B.1.20.000009
ORF1ab/nsp392E92KGagAag11B.1.20.000009
ORF1ab/nsp392E92NGaGAaT11B.1.20.000009
ORF1ab/nsp392E92delGAG---11B.1.20.000009
ORF1ab/nsp392E92AgAggCg11B.1.20.000009
ORF1ab/nsp392E92KGagAag11B.1.2340.000132
ORF1ab/nsp392E92AgAggCg11B.1.2400.000216
ORF1ab/nsp392E92DgaGgaT11B.1.2400.000216
ORF1ab/nsp392E92DgaGgaC11B.1.3400.004292
ORF1ab/nsp392E92delGAG---11B.1.3490.000715
ORF1ab/nsp392E92DgaGgaT11B.1.3510.00003
ORF1ab/nsp392E92XGagTag11B.1.3560.001727
ORF1ab/nsp392E92GgAGgGT11B.1.3770.004566
ORF1ab/nsp392E92DgaGgaT11B.1.4080.00369
ORF1ab/nsp392E92RGAgAGg11B.1.4160.001269
ORF1ab/nsp392E92delGAG---11B.1.416.10.001563
ORF1ab/nsp392E92delGAG---11B.1.4290.000024
ORF1ab/nsp392E92AgAggCg11B.1.4680.005714
ORF1ab/nsp392E92DgaGgaT11B.1.5240.001406
ORF1ab/nsp392E92EgaGgaA11B.1.5240.001406
ORF1ab/nsp392E92EgaGgaA11B.1.5460.003704
ORF1ab/nsp392E92EgaGgaA11B.1.5510.00129
ORF1ab/nsp392E92delGAG---11B.1.5610.000397
ORF1ab/nsp392E92RGAgAGg11B.1.5640.000426
ORF1ab/nsp392E92DgaGgaC11B.1.5750.000303
ORF1ab/nsp392E92delGAG---11B.1.5770.000687
ORF1ab/nsp392E92EgaGgaA11B.1.617.10.000129
ORF1ab/nsp392E92del1gAgg-g11B.1.617.20.000004
ORF1ab/nsp392E92YGaGTaC11B.1.617.20.000004
ORF1ab/nsp392E92EgaGgaA11B.1.619.10.000641
ORF1ab/nsp392E92EgaGgaA11B.1.6210.000089
ORF1ab/nsp392E92AgAggCg11B.30.000831
ORF1ab/nsp392E92del1gaGga-11B.390.002331
ORF1ab/nsp392E92QGagCag11C.10.002392
ORF1ab/nsp392E92GgAggGg11C.36.30.000567
ORF1ab/nsp392E92XGagTag11P.10.000016
ORF1ab/nsp392E92DgaGgaT11P.1.140.000048
ORF1ab/nsp392E92DgaGgaT11P.1.150.000232
ORF1ab/nsp392E92GgAggGg11P.1.150.000232
ORF1ab/nsp392E92KGagAag11P.20.000187
ORF1ab/nsp392E92GgAggGg11Q.80.000165

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.