CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1584

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/nsp31584D1584DD2402DsyngaCgaT1619161917469-7471
ORF1ab/nsp31584D1584YD2402YnonsynGacTac12412417469-7471
ORF1ab/nsp31584D1584ED2402EnonsyngaCgaA82810.9878057469-7471
ORF1ab/nsp31584D1584ED2402EnonsyngaCgaG8210.01219517469-7471
ORF1ab/nsp31584D1584ND2402NnonsynGacAac727217469-7471
ORF1ab/nsp31584D1584delD2402deldelGAC---383817469-7471
ORF1ab/nsp31584D1584GD2402GnonsyngAcgGc262617469-7471
ORF1ab/nsp31584D1584HD2402HnonsynGacCac232317469-7471
ORF1ab/nsp31584D1584AD2402AnonsyngAcgCc5517469-7471
ORF1ab/nsp31584D1584del1D2402del1delGac-ac310.3333337469-7471
ORF1ab/nsp31584D1584del1D2402del1delgAcg-c310.3333337469-7471
ORF1ab/nsp31584D1584del1D2402del1delgaCga-310.3333337469-7471
ORF1ab/nsp31584D1584SD2402SnonsynGACAGT2217469-7471
ORF1ab/nsp31584D1584VD2402VnonsyngAcgTc1117469-7471

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/nsp31584D1584DgaCgaT16191619All0.00031
ORF1ab/nsp31584D1584DgaCgaT279279B.1.1.70.00025
ORF1ab/nsp31584D1584DgaCgaT189189AY.40.000294
ORF1ab/nsp31584D1584DgaCgaT142142B.1.20.00125
ORF1ab/nsp31584D1584YGacTac124124All0.000024
ORF1ab/nsp31584D1584EgaCgaA8182All0.000015
ORF1ab/nsp31584D1584EgaCgaG182All0
ORF1ab/nsp31584D1584DgaCgaT8181AY.250.000487
ORF1ab/nsp31584D1584DgaCgaT7979B.1.4680.451429
ORF1ab/nsp31584D1584NGacAac7272All0.000014
ORF1ab/nsp31584D1584DgaCgaT6565AY.410.019106
ORF1ab/nsp31584D1584DgaCgaT6161B.1.617.20.00023
ORF1ab/nsp31584D1584EgaCgaA4747B.1.617.20.000177
ORF1ab/nsp31584D1584DgaCgaT4646P.10.000725
ORF1ab/nsp31584D1584DgaCgaT4545AY.540.004291
ORF1ab/nsp31584D1584YGacTac3939AY.40.000061
ORF1ab/nsp31584D1584delGAC---3838All0.000007
ORF1ab/nsp31584D1584DgaCgaT3030AY.290.000473
ORF1ab/nsp31584D1584DgaCgaT2727AY.1030.000168
ORF1ab/nsp31584D1584GgAcgGc2626All0.000005
ORF1ab/nsp31584D1584DgaCgaT2626B.1.5260.000611
ORF1ab/nsp31584D1584DgaCgaT2525AY.330.001669
ORF1ab/nsp31584D1584DgaCgaT2525B.1.4290.000588
ORF1ab/nsp31584D1584DgaCgaT2525D.20.001876
ORF1ab/nsp31584D1584DgaCgaT2424AY.1020.000636
ORF1ab/nsp31584D1584HGacCac2323All0.000004
ORF1ab/nsp31584D1584YGacTac2323AY.4.50.002472
ORF1ab/nsp31584D1584DgaCgaT2222AY.430.000097
ORF1ab/nsp31584D1584DgaCgaT2020B.1.416.10.03125
ORF1ab/nsp31584D1584DgaCgaT1818AY.1180.001128
ORF1ab/nsp31584D1584HGacCac1717AY.1030.000106
ORF1ab/nsp31584D1584DgaCgaT1616AY.50.00033
ORF1ab/nsp31584D1584DgaCgaT1515AY.30.000149
ORF1ab/nsp31584D1584GgAcgGc1515AY.40.000023
ORF1ab/nsp31584D1584DgaCgaT1414AY.730.009315
ORF1ab/nsp31584D1584DgaCgaT1414B.1.10.000254
ORF1ab/nsp31584D1584DgaCgaT1414B.1.1770.000184
ORF1ab/nsp31584D1584DgaCgaT1313B.1.2580.000865
ORF1ab/nsp31584D1584DgaCgaT1212AY.1200.000446
ORF1ab/nsp31584D1584EgaCgaA1212AY.430.000053
ORF1ab/nsp31584D1584delGAC---1212B.1.1.70.000011
ORF1ab/nsp31584D1584NGacAac1111AY.260.000311
ORF1ab/nsp31584D1584DgaCgaT1111AY.340.001067
ORF1ab/nsp31584D1584DgaCgaT1111AY.440.000067
ORF1ab/nsp31584D1584DgaCgaT1010AY.1190.000353
ORF1ab/nsp31584D1584DgaCgaT1010B.10.000092
ORF1ab/nsp31584D1584NGacAac1010B.1.6210.000885
ORF1ab/nsp31584D1584EgaCgaA99AY.1020.000239
ORF1ab/nsp31584D1584DgaCgaT99AY.390.000222
ORF1ab/nsp31584D1584DgaCgaT99AY.950.006849
ORF1ab/nsp31584D1584DgaCgaT99AY.98.10.000436
ORF1ab/nsp31584D1584DgaCgaT99B.1.3130.059211
ORF1ab/nsp31584D1584DgaCgaT99B.1.5960.000784
ORF1ab/nsp31584D1584DgaCgaT77B.1.1.10.002287
ORF1ab/nsp31584D1584NGacAac77B.1.617.20.000026
ORF1ab/nsp31584D1584YGacTac77B.1.617.20.000026
ORF1ab/nsp31584D1584DgaCgaT66AY.200.000233
ORF1ab/nsp31584D1584DgaCgaT66AY.260.00017
ORF1ab/nsp31584D1584EgaCgaA66AY.30.00006
ORF1ab/nsp31584D1584DgaCgaT66B.1.351.20.001815
ORF1ab/nsp31584D1584AgAcgCc55All0.000001
ORF1ab/nsp31584D1584NGacAac55AY.1020.000133
ORF1ab/nsp31584D1584DgaCgaT55AY.39.10.000198
ORF1ab/nsp31584D1584YGacTac55AY.90.000338
ORF1ab/nsp31584D1584YGacTac55B.10.000046
ORF1ab/nsp31584D1584DgaCgaT55B.1.1.5190.000199
ORF1ab/nsp31584D1584NGacAac55B.1.1.70.000004
ORF1ab/nsp31584D1584YGacTac55B.1.1770.000066
ORF1ab/nsp31584D1584DgaCgaT55B.1.177.860.000917
ORF1ab/nsp31584D1584DgaCgaT55B.1.36.290.002587
ORF1ab/nsp31584D1584DgaCgaT55B.1.4881
ORF1ab/nsp31584D1584DgaCgaT55B.1.5760.004533
ORF1ab/nsp31584D1584DgaCgaT55P.1.70.001596
ORF1ab/nsp31584D1584DgaCgaT440.222222
ORF1ab/nsp31584D1584DgaCgaT44AY.1000.000184
ORF1ab/nsp31584D1584HGacCac44AY.1130.00057
ORF1ab/nsp31584D1584DgaCgaT44AY.4.20.000087
ORF1ab/nsp31584D1584DgaCgaT44AY.75.10.000721
ORF1ab/nsp31584D1584YGacTac44AY.80.002424
ORF1ab/nsp31584D1584delGAC---44B.10.000037
ORF1ab/nsp31584D1584DgaCgaT44B.1.360.000584
ORF1ab/nsp31584D1584del1gaCga-13All0
ORF1ab/nsp31584D1584del1Gac-ac13All0
ORF1ab/nsp31584D1584del1gAcg-c13All0
ORF1ab/nsp31584D1584YGacTac33AY.1000.000138
ORF1ab/nsp31584D1584GgAcgGc33AY.1030.000019
ORF1ab/nsp31584D1584NGacAac33AY.1160.00086
ORF1ab/nsp31584D1584DgaCgaT33AY.150.006667
ORF1ab/nsp31584D1584DgaCgaT33AY.230.000209
ORF1ab/nsp31584D1584NGacAac33AY.330.0002
ORF1ab/nsp31584D1584NGacAac33AY.40.000005
ORF1ab/nsp31584D1584DgaCgaT33B.1.1.2220.000612
ORF1ab/nsp31584D1584DgaCgaT33B.1.1460.012712
ORF1ab/nsp31584D1584DgaCgaT33Q.10.000379
ORF1ab/nsp31584D1584NGacAac220.111111
ORF1ab/nsp31584D1584delGAC---22A0.000774
ORF1ab/nsp31584D1584SGACAGT22All0
ORF1ab/nsp31584D1584NGacAac22AY.1030.000012
ORF1ab/nsp31584D1584EgaCgaA22AY.1030.000012
ORF1ab/nsp31584D1584DgaCgaT22AY.1110.000366
ORF1ab/nsp31584D1584YGacTac22AY.1200.000074
ORF1ab/nsp31584D1584DgaCgaT22AY.140.000176
ORF1ab/nsp31584D1584YGacTac22AY.230.000139
ORF1ab/nsp31584D1584delGAC---22AY.250.000012
ORF1ab/nsp31584D1584DgaCgaT22AY.270.000129
ORF1ab/nsp31584D1584YGacTac22AY.290.000032
ORF1ab/nsp31584D1584GgAcgGc22AY.30.00002
ORF1ab/nsp31584D1584AgAcgCc22AY.40.000003
ORF1ab/nsp31584D1584delGAC---22AY.40.000003
ORF1ab/nsp31584D1584DgaCgaT22AY.4.50.000215
ORF1ab/nsp31584D1584NGacAac22AY.440.000012
ORF1ab/nsp31584D1584DgaCgaT22AY.460.000208
ORF1ab/nsp31584D1584DgaCgaT22AY.46.60.000144
ORF1ab/nsp31584D1584DgaCgaT22AY.520.001629
ORF1ab/nsp31584D1584YGacTac22AY.580.001815
ORF1ab/nsp31584D1584DgaCgaT22AY.590.001059
ORF1ab/nsp31584D1584DgaCgaT22AY.610.00021
ORF1ab/nsp31584D1584DgaCgaT22AY.680.000547
ORF1ab/nsp31584D1584DgaCgaT22AY.750.000112
ORF1ab/nsp31584D1584DgaCgaT22AY.90.000135
ORF1ab/nsp31584D1584DgaCgaT22AY.980.000158
ORF1ab/nsp31584D1584DgaCgaT22AY.990.002099
ORF1ab/nsp31584D1584NGacAac22B.1.10.000036
ORF1ab/nsp31584D1584DgaCgaT22B.1.1.1700.002494
ORF1ab/nsp31584D1584DgaCgaT22B.1.1.2040.006079
ORF1ab/nsp31584D1584DgaCgaT22B.1.1.3060.000877
ORF1ab/nsp31584D1584DgaCgaT22B.1.1.4200.002012
ORF1ab/nsp31584D1584YGacTac22B.1.1.70.000002
ORF1ab/nsp31584D1584DgaCgaT22B.1.1600.000062
ORF1ab/nsp31584D1584DgaCgaT22B.1.177.530.004785
ORF1ab/nsp31584D1584NGacAac22B.1.177.820.000955
ORF1ab/nsp31584D1584del1Gac-ac12B.1.20.000009
ORF1ab/nsp31584D1584del1gAcg-c12B.1.20.000009
ORF1ab/nsp31584D1584DgaCgaT22B.1.2430.000139
ORF1ab/nsp31584D1584AgAcgCc22B.1.617.20.000008
ORF1ab/nsp31584D1584DgaCgaT22B.1.6210.000177
ORF1ab/nsp31584D1584DgaCgaT22C.360.001821
ORF1ab/nsp31584D1584YGacTac22D.20.00015
ORF1ab/nsp31584D1584DgaCgaT11A.2.5.10.004808
ORF1ab/nsp31584D1584VgAcgTc11All0
ORF1ab/nsp31584D1584GgAcgGc11AY.1000.000046
ORF1ab/nsp31584D1584DgaCgaT11AY.1170.000085
ORF1ab/nsp31584D1584NGacAac11AY.1190.000035
ORF1ab/nsp31584D1584delGAC---11AY.1200.000037
ORF1ab/nsp31584D1584NGacAac11AY.1210.000135
ORF1ab/nsp31584D1584YGacTac11AY.170.008197
ORF1ab/nsp31584D1584NGacAac11AY.200.000039
ORF1ab/nsp31584D1584NGacAac11AY.23.10.000417
ORF1ab/nsp31584D1584DgaCgaT11AY.23.10.000417
ORF1ab/nsp31584D1584delGAC---11AY.240.000431
ORF1ab/nsp31584D1584NGacAac11AY.250.000006
ORF1ab/nsp31584D1584NGacAac11AY.290.000016
ORF1ab/nsp31584D1584GgAcgGc11AY.290.000016
ORF1ab/nsp31584D1584AgAcgCc11AY.290.000016
ORF1ab/nsp31584D1584DgaCgaT11AY.3.10.000085
ORF1ab/nsp31584D1584DgaCgaT11AY.380.000499
ORF1ab/nsp31584D1584GgAcgGc11AY.4.20.000022
ORF1ab/nsp31584D1584YGacTac11AY.4.20.000022
ORF1ab/nsp31584D1584NGacAac11AY.4.40.000409
ORF1ab/nsp31584D1584DgaCgaT11AY.420.00004
ORF1ab/nsp31584D1584delGAC---11AY.430.000004
ORF1ab/nsp31584D1584NGacAac11AY.430.000004
ORF1ab/nsp31584D1584YGacTac11AY.440.000006
ORF1ab/nsp31584D1584EgaCgaA11AY.440.000006
ORF1ab/nsp31584D1584DgaCgaT11AY.450.000122
ORF1ab/nsp31584D1584DgaCgaT11AY.46.40.000165
ORF1ab/nsp31584D1584DgaCgaT11AY.470.000031
ORF1ab/nsp31584D1584YGacTac11AY.490.003195
ORF1ab/nsp31584D1584DgaCgaT11AY.5.40.000277
ORF1ab/nsp31584D1584DgaCgaT11AY.530.000288
ORF1ab/nsp31584D1584NGacAac11AY.540.000095
ORF1ab/nsp31584D1584DgaCgaT11AY.60.000041
ORF1ab/nsp31584D1584NGacAac11AY.60.000041
ORF1ab/nsp31584D1584delGAC---11AY.660.00107
ORF1ab/nsp31584D1584DgaCgaT11AY.700.000209
ORF1ab/nsp31584D1584EgaCgaG11AY.75.10.00018
ORF1ab/nsp31584D1584YGacTac11AY.870.000833
ORF1ab/nsp31584D1584DgaCgaT11AY.9.10.000084
ORF1ab/nsp31584D1584EgaCgaA11AY.9.10.000084
ORF1ab/nsp31584D1584NGacAac11AY.9.20.000037
ORF1ab/nsp31584D1584DgaCgaT11AY.970.001701
ORF1ab/nsp31584D1584NGacAac11AY.980.000079
ORF1ab/nsp31584D1584DgaCgaT11AY.99.10.001553
ORF1ab/nsp31584D1584DgaCgaT11AY.99.20.000092
ORF1ab/nsp31584D1584GgAcgGc11B0.000128
ORF1ab/nsp31584D1584NGacAac11B0.000128
ORF1ab/nsp31584D1584HGacCac11B.10.000009
ORF1ab/nsp31584D1584delGAC---11B.1.10.000018
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.1410.002012
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.1480.008772
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.1530.001095
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.1890.001513
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.2140.000055
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.2160.00089
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.2320.001815
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.280.000311
ORF1ab/nsp31584D1584delGAC---11B.1.1.3150.008475
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.3170.000412
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.3220.008772
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.330.000421
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.370.000193
ORF1ab/nsp31584D1584YGacTac11B.1.1.3760.005952
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.3890.006061
ORF1ab/nsp31584D1584DgaCgaT11B.1.1.4160.000905
ORF1ab/nsp31584D1584delGAC---11B.1.1.460.004367
ORF1ab/nsp31584D1584YGacTac11B.1.1.5190.00004
ORF1ab/nsp31584D1584YGacTac11B.1.1.580.005376
ORF1ab/nsp31584D1584EgaCgaA11B.1.1.70.000001
ORF1ab/nsp31584D1584DgaCgaT11B.1.1110.001175
ORF1ab/nsp31584D1584YGacTac11B.1.1580.02381
ORF1ab/nsp31584D1584YGacTac11B.1.160.120.00641
ORF1ab/nsp31584D1584YGacTac11B.1.160.140.002119
ORF1ab/nsp31584D1584YGacTac11B.1.160.160.000929
ORF1ab/nsp31584D1584delGAC---11B.1.1610.017241
ORF1ab/nsp31584D1584EgaCgaA11B.1.1770.000013
ORF1ab/nsp31584D1584delGAC---11B.1.1770.000013
ORF1ab/nsp31584D1584delGAC---11B.1.177.210.000076
ORF1ab/nsp31584D1584delGAC---11B.1.177.510.004566
ORF1ab/nsp31584D1584HGacCac11B.1.177.530.002392
ORF1ab/nsp31584D1584delGAC---11B.1.177.540.000606
ORF1ab/nsp31584D1584DgaCgaT11B.1.177.600.000218
ORF1ab/nsp31584D1584DgaCgaT11B.1.177.670.007634
ORF1ab/nsp31584D1584DgaCgaT11B.1.177.720.00339
ORF1ab/nsp31584D1584DgaCgaT11B.1.177.810.000189
ORF1ab/nsp31584D1584YGacTac11B.1.177.810.000189
ORF1ab/nsp31584D1584YGacTac11B.1.20.000009
ORF1ab/nsp31584D1584SGACAGT11B.1.20.000009
ORF1ab/nsp31584D1584DgaCgaT11B.1.2180.005155
ORF1ab/nsp31584D1584YGacTac11B.1.2210.000071
ORF1ab/nsp31584D1584DgaCgaT11B.1.2210.000071
ORF1ab/nsp31584D1584delGAC---11B.1.230.006061
ORF1ab/nsp31584D1584DgaCgaT11B.1.2320.000537
ORF1ab/nsp31584D1584DgaCgaT11B.1.2400.000216
ORF1ab/nsp31584D1584YGacTac11B.1.2430.00007
ORF1ab/nsp31584D1584del1gaCga-11B.1.2470.014925
ORF1ab/nsp31584D1584delGAC---11B.1.2580.000067
ORF1ab/nsp31584D1584VgAcgTc11B.1.2580.000067
ORF1ab/nsp31584D1584DgaCgaT11B.1.2760.016949
ORF1ab/nsp31584D1584YGacTac11B.1.3130.006579
ORF1ab/nsp31584D1584DgaCgaT11B.1.3500.002933
ORF1ab/nsp31584D1584DgaCgaT11B.1.3510.00003
ORF1ab/nsp31584D1584DgaCgaT11B.1.351.50.0006
ORF1ab/nsp31584D1584DgaCgaT11B.1.36.220.001208
ORF1ab/nsp31584D1584DgaCgaT11B.1.3670.000792
ORF1ab/nsp31584D1584EgaCgaA11B.1.3700.008
ORF1ab/nsp31584D1584YGacTac11B.1.3890.001002
ORF1ab/nsp31584D1584DgaCgaT11B.1.3960.000706
ORF1ab/nsp31584D1584DgaCgaT11B.1.4270.00005
ORF1ab/nsp31584D1584DgaCgaT11B.1.4620.007246
ORF1ab/nsp31584D1584DgaCgaT11B.1.466.20.000391
ORF1ab/nsp31584D1584GgAcgGc11B.1.5250.000113
ORF1ab/nsp31584D1584YGacTac11B.1.5250.000113
ORF1ab/nsp31584D1584DgaCgaT11B.1.5250.000113
ORF1ab/nsp31584D1584delGAC---11B.1.5610.000397
ORF1ab/nsp31584D1584DgaCgaT11B.1.5640.000426
ORF1ab/nsp31584D1584NGacAac11B.1.5950.000261
ORF1ab/nsp31584D1584YGacTac11B.1.5990.00365
ORF1ab/nsp31584D1584GgAcgGc11B.1.617.20.000004
ORF1ab/nsp31584D1584DgaCgaT11B.1.617.30.002985
ORF1ab/nsp31584D1584delGAC---11B.1.6210.000089
ORF1ab/nsp31584D1584DgaCgaT11B.1.621.10.000506
ORF1ab/nsp31584D1584DgaCgaT11B.1.6360.006711
ORF1ab/nsp31584D1584DgaCgaT11B.1.6370.000073
ORF1ab/nsp31584D1584DgaCgaT11C.10.002392
ORF1ab/nsp31584D1584YGacTac11C.160.00106
ORF1ab/nsp31584D1584DgaCgaT11C.180.002591
ORF1ab/nsp31584D1584SGACAGT11C.350.000774
ORF1ab/nsp31584D1584DgaCgaT11C.36.30.000567
ORF1ab/nsp31584D1584DgaCgaT11C.370.000116
ORF1ab/nsp31584D1584DgaCgaT11P.1.140.000048
ORF1ab/nsp31584D1584DgaCgaT11P.1.170.000162
ORF1ab/nsp31584D1584DgaCgaT11P.1.60.001946
ORF1ab/nsp31584D1584DgaCgaT11P.20.000187
ORF1ab/nsp31584D1584NGacAac11Q.40.000455

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.