CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 204

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/nsp13204D204YD5528YnonsynGacTac13021302116846-16848
ORF1ab/nsp13204D204DD5528DsyngaCgaT563563116846-16848
ORF1ab/nsp13204D204ED5528EnonsyngaCgaA1901890.99473716846-16848
ORF1ab/nsp13204D204ED5528EnonsyngaCgaG19010.0052631616846-16848
ORF1ab/nsp13204D204delD5528deldelGAC---5858116846-16848
ORF1ab/nsp13204D204TD5528TnonsynGACACT41400.9756116846-16848
ORF1ab/nsp13204D204TD5528TnonsynGACACG4110.024390216846-16848
ORF1ab/nsp13204D204HD5528HnonsynGacCac2323116846-16848
ORF1ab/nsp13204D204GD5528GnonsyngAcgGc1515116846-16848
ORF1ab/nsp13204D204ND5528NnonsynGacAac1010116846-16848
ORF1ab/nsp13204D204VD5528VnonsyngAcgTc650.83333316846-16848
ORF1ab/nsp13204D204VD5528VnonsyngACgTG610.16666716846-16848
ORF1ab/nsp13204D204del1D5528del1delGac-ac320.66666716846-16848
ORF1ab/nsp13204D204del1D5528del1delgaCga-310.33333316846-16848
ORF1ab/nsp13204D204LD5528LnonsynGACTTG22116846-16848
ORF1ab/nsp13204D204WD5528WnonsynGACTGG22116846-16848

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/nsp13204D204YGacTac13021302All0.000249
ORF1ab/nsp13204D204DgaCgaT563563All0.000108
ORF1ab/nsp13204D204YGacTac292292B.1.1491
ORF1ab/nsp13204D204EgaCgaA189190All0.000036
ORF1ab/nsp13204D204EgaCgaG1190All0
ORF1ab/nsp13204D204YGacTac172172AY.40.000268
ORF1ab/nsp13204D204EgaCgaA152152AY.290.002398
ORF1ab/nsp13204D204DgaCgaT144144P.1.70.045977
ORF1ab/nsp13204D204DgaCgaT121121AY.40.000188
ORF1ab/nsp13204D204YGacTac102102B.1.617.20.000384
ORF1ab/nsp13204D204YGacTac8686AY.4.50.009244
ORF1ab/nsp13204D204delGAC---5858All0.000011
ORF1ab/nsp13204D204YGacTac5454B.1.1.70.000048
ORF1ab/nsp13204D204DgaCgaT5050B.1.1.70.000045
ORF1ab/nsp13204D204YGacTac4646B.10.000421
ORF1ab/nsp13204D204DgaCgaT4242B.1.36.210.090713
ORF1ab/nsp13204D204TGACACT4041All0.000008
ORF1ab/nsp13204D204TGACACG141All0
ORF1ab/nsp13204D204YGacTac3838AY.1000.001748
ORF1ab/nsp13204D204YGacTac3232AY.250.000192
ORF1ab/nsp13204D204DgaCgaT3131B.1.10.000562
ORF1ab/nsp13204D204YGacTac2929B.1.2980.061311
ORF1ab/nsp13204D204DgaCgaT2929C.370.003366
ORF1ab/nsp13204D204YGacTac2626B.1.5260.000611
ORF1ab/nsp13204D204HGacCac2323All0.000004
ORF1ab/nsp13204D204YGacTac2222AY.440.000134
ORF1ab/nsp13204D204YGacTac2121AY.1050.013505
ORF1ab/nsp13204D204TGACACT2121P.20.003919
ORF1ab/nsp13204D204YGacTac1919AY.430.000084
ORF1ab/nsp13204D204YGacTac1919B.1.20.000167
ORF1ab/nsp13204D204YGacTac1919B.1.2430.001322
ORF1ab/nsp13204D204YGacTac1616AY.1030.000099
ORF1ab/nsp13204D204GgAcgGc1515All0.000003
ORF1ab/nsp13204D204YGacTac1515AY.50.00031
ORF1ab/nsp13204D204YGacTac1515AY.610.001572
ORF1ab/nsp13204D204delGAC---1515B.1.1.70.000013
ORF1ab/nsp13204D204YGacTac1414AY.1020.000371
ORF1ab/nsp13204D204YGacTac1313P.10.000205
ORF1ab/nsp13204D204YGacTac1212AY.130.001932
ORF1ab/nsp13204D204DgaCgaT1212AY.250.000072
ORF1ab/nsp13204D204YGacTac1212B.1.4290.000282
ORF1ab/nsp13204D204YGacTac1212B.1.4821
ORF1ab/nsp13204D204EgaCgaA1111B.1.1390.008065
ORF1ab/nsp13204D204NGacAac1010All0.000002
ORF1ab/nsp13204D204DgaCgaT1010AY.430.000044
ORF1ab/nsp13204D204HGacCac1010B.1.1.70.000009
ORF1ab/nsp13204D204YGacTac99A.2.50.004491
ORF1ab/nsp13204D204DgaCgaT99B.1.2650.011436
ORF1ab/nsp13204D204HGacCac99B.1.5250.001018
ORF1ab/nsp13204D204DgaCgaT99B.1.617.20.000034
ORF1ab/nsp13204D204TGACACT99P.10.000142
ORF1ab/nsp13204D204DgaCgaT99P.10.000142
ORF1ab/nsp13204D204YGacTac88AY.30.00008
ORF1ab/nsp13204D204DgaCgaT88B.10.000073
ORF1ab/nsp13204D204YGacTac88B.1.10.000145
ORF1ab/nsp13204D204YGacTac88B.1.1770.000105
ORF1ab/nsp13204D204YGacTac77AY.1060.002344
ORF1ab/nsp13204D204YGacTac77B.1.1600.000218
ORF1ab/nsp13204D204YGacTac77R.10.00063
ORF1ab/nsp13204D204VgAcgTc56All0.000001
ORF1ab/nsp13204D204VgACgTG16All0
ORF1ab/nsp13204D204YGacTac66AY.1200.000223
ORF1ab/nsp13204D204DgaCgaT66AY.230.000418
ORF1ab/nsp13204D204YGacTac66AY.290.000095
ORF1ab/nsp13204D204YGacTac66B.1.1.5190.000238
ORF1ab/nsp13204D204DgaCgaT66B.1.36.220.007246
ORF1ab/nsp13204D204EgaCgaA66B.1.5260.000141
ORF1ab/nsp13204D204YGacTac66C.36.30.003403
ORF1ab/nsp13204D204delGAC---440.222222
ORF1ab/nsp13204D204GgAcgGc44AY.140.000352
ORF1ab/nsp13204D204YGacTac44AY.260.000113
ORF1ab/nsp13204D204delGAC---44AY.40.000006
ORF1ab/nsp13204D204DgaCgaT44AY.4.20.000087
ORF1ab/nsp13204D204YGacTac44B0.000511
ORF1ab/nsp13204D204TGACACT44B.1.10.000073
ORF1ab/nsp13204D204YGacTac44B.1.177.210.000306
ORF1ab/nsp13204D204YGacTac44B.1.3600.050633
ORF1ab/nsp13204D204YGacTac44B.1.617.10.000516
ORF1ab/nsp13204D204YGacTac44B.1.6210.000354
ORF1ab/nsp13204D204DgaCgaT44N.50.007067
ORF1ab/nsp13204D204del1Gac-ac23All0
ORF1ab/nsp13204D204del1gaCga-13All0
ORF1ab/nsp13204D204YGacTac33AY.100.00159
ORF1ab/nsp13204D204YGacTac33AY.1180.000188
ORF1ab/nsp13204D204YGacTac33AY.200.000117
ORF1ab/nsp13204D204DgaCgaT33AY.260.000085
ORF1ab/nsp13204D204YGacTac33AY.460.000312
ORF1ab/nsp13204D204YGacTac33AY.99.20.000276
ORF1ab/nsp13204D204delGAC---33B.10.000027
ORF1ab/nsp13204D204YGacTac33B.1.1.2220.000612
ORF1ab/nsp13204D204YGacTac33B.1.1.3180.000905
ORF1ab/nsp13204D204EgaCgaA33B.1.1.70.000003
ORF1ab/nsp13204D204DgaCgaT33B.1.177.810.000568
ORF1ab/nsp13204D204DgaCgaT33B.1.20.000026
ORF1ab/nsp13204D204YGacTac33B.1.3510.000089
ORF1ab/nsp13204D204delGAC---33B.1.617.20.000011
ORF1ab/nsp13204D204YGacTac33B.400.001093
ORF1ab/nsp13204D204TGACACT33N.90.017857
ORF1ab/nsp13204D204LGACTTG220.111111
ORF1ab/nsp13204D204NGacAac220.111111
ORF1ab/nsp13204D204WGACTGG220.111111
ORF1ab/nsp13204D204DgaCgaT22A.2.50.000998
ORF1ab/nsp13204D204LGACTTG22All0
ORF1ab/nsp13204D204WGACTGG22All0
ORF1ab/nsp13204D204DgaCgaT22AY.1030.000012
ORF1ab/nsp13204D204EgaCgaA22AY.1030.000012
ORF1ab/nsp13204D204delGAC---22AY.1080.002205
ORF1ab/nsp13204D204YGacTac22AY.1110.000366
ORF1ab/nsp13204D204YGacTac22AY.1190.000071
ORF1ab/nsp13204D204DgaCgaT22AY.200.000078
ORF1ab/nsp13204D204YGacTac22AY.230.000139
ORF1ab/nsp13204D204DgaCgaT22AY.30.00002
ORF1ab/nsp13204D204YGacTac22AY.3.10.000171
ORF1ab/nsp13204D204YGacTac22AY.320.001065
ORF1ab/nsp13204D204DgaCgaT22AY.330.000134
ORF1ab/nsp13204D204GgAcgGc22AY.40.000003
ORF1ab/nsp13204D204YGacTac22AY.450.000243
ORF1ab/nsp13204D204EgaCgaA22AY.530.000575
ORF1ab/nsp13204D204delGAC---22AY.670.000929
ORF1ab/nsp13204D204YGacTac22AY.700.000417
ORF1ab/nsp13204D204YGacTac22AY.750.000112
ORF1ab/nsp13204D204YGacTac22AY.75.10.000361
ORF1ab/nsp13204D204DgaCgaT22AY.98.10.000097
ORF1ab/nsp13204D204delGAC---22B.1.10.000036
ORF1ab/nsp13204D204TGACACT22B.1.1.280.000622
ORF1ab/nsp13204D204DgaCgaT22B.1.1.330.000842
ORF1ab/nsp13204D204DgaCgaT22B.1.1.3480.001592
ORF1ab/nsp13204D204DgaCgaT22B.1.1.3720.001377
ORF1ab/nsp13204D204YGacTac22B.1.1.3850.008929
ORF1ab/nsp13204D204YGacTac22B.1.1.390.001019
ORF1ab/nsp13204D204DgaCgaT22B.1.1.5190.000079
ORF1ab/nsp13204D204GgAcgGc22B.1.1.70.000002
ORF1ab/nsp13204D204EgaCgaA22B.1.1.710.012121
ORF1ab/nsp13204D204DgaCgaT22B.1.1600.000062
ORF1ab/nsp13204D204DgaCgaT22B.1.1770.000026
ORF1ab/nsp13204D204EgaCgaA22B.1.177.100.001756
ORF1ab/nsp13204D204delGAC---22B.1.20.000018
ORF1ab/nsp13204D204DgaCgaT22B.1.2210.000142
ORF1ab/nsp13204D204DgaCgaT22B.1.2400.000431
ORF1ab/nsp13204D204DgaCgaT22B.1.2430.000139
ORF1ab/nsp13204D204YGacTac22B.1.3400.008584
ORF1ab/nsp13204D204YGacTac22B.1.36.80.002
ORF1ab/nsp13204D204YGacTac22B.1.390.007812
ORF1ab/nsp13204D204DgaCgaT22B.1.4110.007407
ORF1ab/nsp13204D204YGacTac22B.1.416.10.003125
ORF1ab/nsp13204D204YGacTac22B.1.4220.001625
ORF1ab/nsp13204D204delGAC---22B.1.4290.000047
ORF1ab/nsp13204D204YGacTac22B.1.4970.00063
ORF1ab/nsp13204D204YGacTac22B.1.5750.000607
ORF1ab/nsp13204D204DgaCgaT22B.1.5950.000522
ORF1ab/nsp13204D204DgaCgaT22B.1.6210.000177
ORF1ab/nsp13204D204YGacTac22B.1.621.10.001012
ORF1ab/nsp13204D204YGacTac22B.1.6370.000146
ORF1ab/nsp13204D204YGacTac22B.1.9.40.01227
ORF1ab/nsp13204D204YGacTac22C.370.000232
ORF1ab/nsp13204D204DgaCgaT22R.10.00018
ORF1ab/nsp13204D204NGacAac11A.10.000282
ORF1ab/nsp13204D204GgAcgGc11AY.1030.000006
ORF1ab/nsp13204D204YGacTac11AY.1080.001103
ORF1ab/nsp13204D204YGacTac11AY.1100.000113
ORF1ab/nsp13204D204delGAC---11AY.1110.000183
ORF1ab/nsp13204D204DgaCgaT11AY.1140.000231
ORF1ab/nsp13204D204YGacTac11AY.116.10.000311
ORF1ab/nsp13204D204YGacTac11AY.1170.000085
ORF1ab/nsp13204D204DgaCgaT11AY.1190.000035
ORF1ab/nsp13204D204DgaCgaT11AY.1200.000037
ORF1ab/nsp13204D204delGAC---11AY.1200.000037
ORF1ab/nsp13204D204YGacTac11AY.1210.000135
ORF1ab/nsp13204D204DgaCgaT11AY.140.000088
ORF1ab/nsp13204D204delGAC---11AY.190.00114
ORF1ab/nsp13204D204GgAcgGc11AY.230.00007
ORF1ab/nsp13204D204GgAcgGc11AY.250.000006
ORF1ab/nsp13204D204DgaCgaT11AY.290.000016
ORF1ab/nsp13204D204EgaCgaA11AY.29.10.000221
ORF1ab/nsp13204D204YGacTac11AY.29.10.000221
ORF1ab/nsp13204D204DgaCgaT11AY.360.000148
ORF1ab/nsp13204D204YGacTac11AY.390.000025
ORF1ab/nsp13204D204DgaCgaT11AY.390.000025
ORF1ab/nsp13204D204EgaCgaA11AY.40.000002
ORF1ab/nsp13204D204NGacAac11AY.40.000002
ORF1ab/nsp13204D204delGAC---11AY.4.20.000022
ORF1ab/nsp13204D204YGacTac11AY.4.20.000022
ORF1ab/nsp13204D204delGAC---11AY.4.50.000107
ORF1ab/nsp13204D204delGAC---11AY.430.000004
ORF1ab/nsp13204D204delGAC---11AY.440.000006
ORF1ab/nsp13204D204EgaCgaA11AY.440.000006
ORF1ab/nsp13204D204DgaCgaT11AY.440.000006
ORF1ab/nsp13204D204YGacTac11AY.480.000465
ORF1ab/nsp13204D204delGAC---11AY.520.000814
ORF1ab/nsp13204D204YGacTac11AY.540.000095
ORF1ab/nsp13204D204DgaCgaT11AY.540.000095
ORF1ab/nsp13204D204DgaCgaT11AY.550.000917
ORF1ab/nsp13204D204YGacTac11AY.60.000041
ORF1ab/nsp13204D204YGacTac11AY.620.000436
ORF1ab/nsp13204D204delGAC---11AY.680.000274
ORF1ab/nsp13204D204YGacTac11AY.70.000196
ORF1ab/nsp13204D204delGAC---11AY.720.001361
ORF1ab/nsp13204D204YGacTac11AY.860.00083
ORF1ab/nsp13204D204delGAC---11AY.90.000068
ORF1ab/nsp13204D204YGacTac11AY.9.20.000037
ORF1ab/nsp13204D204DgaCgaT11AY.970.001701
ORF1ab/nsp13204D204YGacTac11AY.980.000079
ORF1ab/nsp13204D204YGacTac11AY.990.001049
ORF1ab/nsp13204D204VgAcgTc11B0.000128
ORF1ab/nsp13204D204HGacCac11B.10.000009
ORF1ab/nsp13204D204NGacAac11B.10.000009
ORF1ab/nsp13204D204VgAcgTc11B.1.10.000018
ORF1ab/nsp13204D204NGacAac11B.1.10.000018
ORF1ab/nsp13204D204YGacTac11B.1.1.10.000327
ORF1ab/nsp13204D204EgaCgaA11B.1.1.2140.000055
ORF1ab/nsp13204D204YGacTac11B.1.1.2160.00089
ORF1ab/nsp13204D204TGACACG11B.1.1.2320.001815
ORF1ab/nsp13204D204YGacTac11B.1.1.2370.005405
ORF1ab/nsp13204D204YGacTac11B.1.1.2610.008621
ORF1ab/nsp13204D204DgaCgaT11B.1.1.2840.000107
ORF1ab/nsp13204D204TGACACT11B.1.1.330.000421
ORF1ab/nsp13204D204YGacTac11B.1.1.370.000193
ORF1ab/nsp13204D204YGacTac11B.1.1.3720.000689
ORF1ab/nsp13204D204DgaCgaT11B.1.1.4090.002833
ORF1ab/nsp13204D204YGacTac11B.1.1.4320.001266
ORF1ab/nsp13204D204delGAC---11B.1.1.4480.002033
ORF1ab/nsp13204D204DgaCgaT11B.1.1.5070.008696
ORF1ab/nsp13204D204YGacTac11B.1.1.5230.001563
ORF1ab/nsp13204D204NGacAac11B.1.1.70.000001
ORF1ab/nsp13204D204VgACgTG11B.1.1.70.000001
ORF1ab/nsp13204D204YGacTac11B.1.160.160.000929
ORF1ab/nsp13204D204delGAC---11B.1.160.80.001289
ORF1ab/nsp13204D204YGacTac11B.1.1700.00431
ORF1ab/nsp13204D204NGacAac11B.1.1770.000013
ORF1ab/nsp13204D204VgAcgTc11B.1.1770.000013
ORF1ab/nsp13204D204del1Gac-ac11B.1.1770.000013
ORF1ab/nsp13204D204GgAcgGc11B.1.1770.000013
ORF1ab/nsp13204D204EgaCgaA11B.1.1770.000013
ORF1ab/nsp13204D204YGacTac11B.1.177.120.000152
ORF1ab/nsp13204D204delGAC---11B.1.177.170.000821
ORF1ab/nsp13204D204delGAC---11B.1.177.830.001481
ORF1ab/nsp13204D204delGAC---11B.1.177.90.001332
ORF1ab/nsp13204D204HGacCac11B.1.20.000009
ORF1ab/nsp13204D204EgaCgaA11B.1.20.000009
ORF1ab/nsp13204D204YGacTac11B.1.2100.002132
ORF1ab/nsp13204D204YGacTac11B.1.2210.000071
ORF1ab/nsp13204D204GgAcgGc11B.1.2580.000067
ORF1ab/nsp13204D204del1Gac-ac11B.1.2580.000067
ORF1ab/nsp13204D204YGacTac11B.1.2580.000067
ORF1ab/nsp13204D204DgaCgaT11B.1.258.170.000104
ORF1ab/nsp13204D204YGacTac11B.1.3110.000275
ORF1ab/nsp13204D204VgAcgTc11B.1.3510.00003
ORF1ab/nsp13204D204DgaCgaT11B.1.3510.00003
ORF1ab/nsp13204D204YGacTac11B.1.36.10.00114
ORF1ab/nsp13204D204YGacTac11B.1.36.290.000517
ORF1ab/nsp13204D204delGAC---11B.1.36.290.000517
ORF1ab/nsp13204D204YGacTac11B.1.3830.009009
ORF1ab/nsp13204D204YGacTac11B.1.3890.001002
ORF1ab/nsp13204D204NGacAac11B.1.3890.001002
ORF1ab/nsp13204D204YGacTac11B.1.4270.00005
ORF1ab/nsp13204D204del1gaCga-11B.1.4270.00005
ORF1ab/nsp13204D204delGAC---11B.1.4270.00005
ORF1ab/nsp13204D204DgaCgaT11B.1.4290.000024
ORF1ab/nsp13204D204EgaCgaA11B.1.466.20.000391
ORF1ab/nsp13204D204YGacTac11B.1.4670.04
ORF1ab/nsp13204D204YGacTac11B.1.5030.002488
ORF1ab/nsp13204D204DgaCgaT11B.1.5260.000024
ORF1ab/nsp13204D204DgaCgaT11B.1.5750.000303
ORF1ab/nsp13204D204DgaCgaT11B.1.5870.001898
ORF1ab/nsp13204D204YGacTac11B.1.5950.000261
ORF1ab/nsp13204D204EgaCgaA11B.1.617.20.000004
ORF1ab/nsp13204D204GgAcgGc11B.1.617.20.000004
ORF1ab/nsp13204D204VgAcgTc11B.1.617.20.000004
ORF1ab/nsp13204D204HGacCac11B.1.6360.006711
ORF1ab/nsp13204D204YGacTac11B.1.760.011364
ORF1ab/nsp13204D204delGAC---11C.170.055556
ORF1ab/nsp13204D204EgaCgaG11C.350.000774
ORF1ab/nsp13204D204HGacCac11D.20.000075
ORF1ab/nsp13204D204NGacAac11P.10.000016
ORF1ab/nsp13204D204DgaCgaT11P.1.140.000048
ORF1ab/nsp13204D204YGacTac11P.1.140.000048
ORF1ab/nsp13204D204EgaCgaA11P.20.000187
ORF1ab/nsp13204D204YGacTac11Q.10.000126
ORF1ab/nsp13204D204DgaCgaT11Q.10.000126
ORF1ab/nsp13204D204GgAcgGc11R.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.