CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1256

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/nsp31256D1256DD2074DsyngaCgaT86086016485-6487
ORF1ab/nsp31256D1256ND2074NnonsynGacAac56956916485-6487
ORF1ab/nsp31256D1256delD2074deldelGAC---55655616485-6487
ORF1ab/nsp31256D1256YD2074YnonsynGacTac23523516485-6487
ORF1ab/nsp31256D1256GD2074GnonsyngAcgGc1421390.9788736485-6487
ORF1ab/nsp31256D1256GD2074GnonsyngACgGT14220.01408456485-6487
ORF1ab/nsp31256D1256GD2074GnonsyngACgGA14210.007042256485-6487
ORF1ab/nsp31256D1256ED2074EnonsyngaCgaG47330.7021286485-6487
ORF1ab/nsp31256D1256ED2074EnonsyngaCgaA47140.2978726485-6487
ORF1ab/nsp31256D1256AD2074AnonsyngAcgCc7716485-6487
ORF1ab/nsp31256D1256HD2074HnonsynGacCac3316485-6487
ORF1ab/nsp31256D1256VD2074VnonsyngACgTT320.6666676485-6487
ORF1ab/nsp31256D1256VD2074VnonsyngAcgTc310.3333336485-6487
ORF1ab/nsp31256D1256FD2074FnonsynGAcTTc1116485-6487
ORF1ab/nsp31256D1256SD2074SnonsynGACAGT1116485-6487
ORF1ab/nsp31256D1256RD2074RnonsynGACCGT1116485-6487
ORF1ab/nsp31256D1256del1D2074del1delgAcg-c1116485-6487
ORF1ab/nsp31256D1256KD2074KnonsynGaCAaA1116485-6487

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/nsp31256D1256DgaCgaT860860All0.000164
ORF1ab/nsp31256D1256NGacAac569569All0.000109
ORF1ab/nsp31256D1256delGAC---556556All0.000106
ORF1ab/nsp31256D1256delGAC---525525L.11
ORF1ab/nsp31256D1256DgaCgaT349349AY.40.000543
ORF1ab/nsp31256D1256NGacAac267267B.1.1.70.000239
ORF1ab/nsp31256D1256YGacTac235235All0.000045
ORF1ab/nsp31256D1256GgAcgGc139142All0.000027
ORF1ab/nsp31256D1256GgACgGT2142All0
ORF1ab/nsp31256D1256GgACgGA1142All0
ORF1ab/nsp31256D1256NGacAac130130B.1.20.001145
ORF1ab/nsp31256D1256DgaCgaT117117B.1.1.70.000105
ORF1ab/nsp31256D1256DgaCgaT8686AY.440.000523
ORF1ab/nsp31256D1256NGacAac7777AY.440.000469
ORF1ab/nsp31256D1256EgaCgaG3347All0.000006
ORF1ab/nsp31256D1256EgaCgaA1447All0.000003
ORF1ab/nsp31256D1256DgaCgaT4444P.10.000693
ORF1ab/nsp31256D1256DgaCgaT4242AY.250.000253
ORF1ab/nsp31256D1256GgAcgGc3939AY.1170.003296
ORF1ab/nsp31256D1256DgaCgaT2727B.1.617.20.000102
ORF1ab/nsp31256D1256YGacTac2626B.1.177.860.00477
ORF1ab/nsp31256D1256YGacTac2525B.1.1.70.000022
ORF1ab/nsp31256D1256GgAcgGc2323B.1.617.20.000087
ORF1ab/nsp31256D1256NGacAac2121D.20.001576
ORF1ab/nsp31256D1256YGacTac1919AY.40.00003
ORF1ab/nsp31256D1256YGacTac1919B.1.617.20.000072
ORF1ab/nsp31256D1256DgaCgaT1515AY.30.000149
ORF1ab/nsp31256D1256GgAcgGc1414AY.270.000906
ORF1ab/nsp31256D1256DgaCgaT1313AY.1030.000081
ORF1ab/nsp31256D1256EgaCgaG1313B.1.1770.000171
ORF1ab/nsp31256D1256DgaCgaT1212AZ.10.010408
ORF1ab/nsp31256D1256NGacAac1212B.1.5990.043796
ORF1ab/nsp31256D1256NGacAac1111AY.40.000017
ORF1ab/nsp31256D1256DgaCgaT1111B.10.000101
ORF1ab/nsp31256D1256YGacTac1111B.1.177.810.002083
ORF1ab/nsp31256D1256GgAcgGc1111B.1.4290.000259
ORF1ab/nsp31256D1256YGacTac1010AY.430.000044
ORF1ab/nsp31256D1256YGacTac1010B.1.3620.015408
ORF1ab/nsp31256D1256NGacAac99B.10.000082
ORF1ab/nsp31256D1256YGacTac99B.10.000082
ORF1ab/nsp31256D1256EgaCgaG99B.1.1.70.000008
ORF1ab/nsp31256D1256YGacTac99B.1.20.000079
ORF1ab/nsp31256D1256DgaCgaT99B.1.5200.195652
ORF1ab/nsp31256D1256YGacTac88B.1.160.280.023392
ORF1ab/nsp31256D1256EgaCgaG88B.1.5250.000905
ORF1ab/nsp31256D1256AgAcgCc77All0.000001
ORF1ab/nsp31256D1256YGacTac77AY.1130.000997
ORF1ab/nsp31256D1256DgaCgaT77B.1.10.000127
ORF1ab/nsp31256D1256NGacAac77B.1.1770.000092
ORF1ab/nsp31256D1256NGacAac77B.1.177.810.001325
ORF1ab/nsp31256D1256DgaCgaT77B.1.20.000062
ORF1ab/nsp31256D1256YGacTac77B.1.4290.000165
ORF1ab/nsp31256D1256DgaCgaT66AY.1020.000159
ORF1ab/nsp31256D1256YGacTac66AY.260.00017
ORF1ab/nsp31256D1256GgAcgGc66AY.46.60.000433
ORF1ab/nsp31256D1256delGAC---66B.1.1.100.006689
ORF1ab/nsp31256D1256DgaCgaT66B.1.6210.000531
ORF1ab/nsp31256D1256DgaCgaT55AY.290.000079
ORF1ab/nsp31256D1256DgaCgaT55AY.430.000022
ORF1ab/nsp31256D1256YGacTac55AY.50.000103
ORF1ab/nsp31256D1256GgAcgGc55AY.60.000206
ORF1ab/nsp31256D1256delGAC---55B.1.1.70.000004
ORF1ab/nsp31256D1256DgaCgaT55B.1.2580.000333
ORF1ab/nsp31256D1256YGacTac55B.1.36.310.008757
ORF1ab/nsp31256D1256NGacAac55B.1.617.20.000019
ORF1ab/nsp31256D1256GgAcgGc240.111111
ORF1ab/nsp31256D1256GgACgGA140.055556
ORF1ab/nsp31256D1256GgACgGT140.055556
ORF1ab/nsp31256D1256YGacTac44AY.290.000063
ORF1ab/nsp31256D1256DgaCgaT44AY.390.000099
ORF1ab/nsp31256D1256GgAcgGc44AY.390.000099
ORF1ab/nsp31256D1256EgaCgaA44AY.40.000006
ORF1ab/nsp31256D1256NGacAac44AY.430.000018
ORF1ab/nsp31256D1256YGacTac44B.1.10.000073
ORF1ab/nsp31256D1256DgaCgaT44B.1.360.000584
ORF1ab/nsp31256D1256delGAC---44P.1.140.000191
ORF1ab/nsp31256D1256HGacCac33All0.000001
ORF1ab/nsp31256D1256VgACgTT23All0
ORF1ab/nsp31256D1256VgAcgTc13All0
ORF1ab/nsp31256D1256DgaCgaT33AY.1140.000693
ORF1ab/nsp31256D1256YGacTac33AY.250.000018
ORF1ab/nsp31256D1256NGacAac33AY.250.000018
ORF1ab/nsp31256D1256YGacTac33AY.30.00003
ORF1ab/nsp31256D1256DgaCgaT33AY.330.0002
ORF1ab/nsp31256D1256YGacTac33AY.340.000291
ORF1ab/nsp31256D1256GgAcgGc33AY.40.000005
ORF1ab/nsp31256D1256YGacTac33AY.420.000121
ORF1ab/nsp31256D1256YGacTac33AY.440.000018
ORF1ab/nsp31256D1256DgaCgaT33AY.470.000093
ORF1ab/nsp31256D1256GgAcgGc33AY.470.000093
ORF1ab/nsp31256D1256DgaCgaT33B.1.1.5190.000119
ORF1ab/nsp31256D1256DgaCgaT33B.1.1600.000094
ORF1ab/nsp31256D1256NGacAac33B.1.177.820.001432
ORF1ab/nsp31256D1256GgAcgGc33B.1.20.000026
ORF1ab/nsp31256D1256DgaCgaT33B.1.4270.000151
ORF1ab/nsp31256D1256DgaCgaT33B.1.4290.000071
ORF1ab/nsp31256D1256GgAcgGc33B.1.5260.000071
ORF1ab/nsp31256D1256DgaCgaT33B.1.5610.001191
ORF1ab/nsp31256D1256AgAcgCc33B.1.617.20.000011
ORF1ab/nsp31256D1256DgaCgaT33P.1.10.000953
ORF1ab/nsp31256D1256DgaCgaT33P.1.120.001452
ORF1ab/nsp31256D1256EgaCgaA220.111111
ORF1ab/nsp31256D1256VgAcgTc120.055556
ORF1ab/nsp31256D1256VgACgTT120.055556
ORF1ab/nsp31256D1256YGacTac22A.2.50.000998
ORF1ab/nsp31256D1256GgAcgGc22AY.250.000012
ORF1ab/nsp31256D1256YGacTac22AY.34.10.00102
ORF1ab/nsp31256D1256YGacTac22AY.370.000632
ORF1ab/nsp31256D1256DgaCgaT22AY.4.30.001684
ORF1ab/nsp31256D1256GgACgGT12AY.440.000006
ORF1ab/nsp31256D1256GgAcgGc12AY.440.000006
ORF1ab/nsp31256D1256DgaCgaT22AY.46.40.000329
ORF1ab/nsp31256D1256delGAC---22AY.470.000062
ORF1ab/nsp31256D1256YGacTac22B.1.1.2880.003831
ORF1ab/nsp31256D1256DgaCgaT22B.1.1.4480.004065
ORF1ab/nsp31256D1256GgAcgGc22B.1.1.70.000002
ORF1ab/nsp31256D1256YGacTac22B.1.1600.000062
ORF1ab/nsp31256D1256NGacAac22B.1.1600.000062
ORF1ab/nsp31256D1256EgaCgaA22B.1.2210.000142
ORF1ab/nsp31256D1256YGacTac22B.1.360.000292
ORF1ab/nsp31256D1256DgaCgaT22B.1.6230.001073
ORF1ab/nsp31256D1256DgaCgaT22D.20.00015
ORF1ab/nsp31256D1256YGacTac22P.10.000032
ORF1ab/nsp31256D1256DgaCgaT22P.1.140.000096
ORF1ab/nsp31256D1256DgaCgaT22Q.80.00033
ORF1ab/nsp31256D1256YGacTac110.055556
ORF1ab/nsp31256D1256DgaCgaT110.055556
ORF1ab/nsp31256D1256DgaCgaT11A.2.20.001689
ORF1ab/nsp31256D1256YGacTac11A.2.5.20.001572
ORF1ab/nsp31256D1256YGacTac11A.23.10.000704
ORF1ab/nsp31256D1256DgaCgaT11A.23.10.000704
ORF1ab/nsp31256D1256DgaCgaT11AD.20.000219
ORF1ab/nsp31256D1256KGaCAaA11All0
ORF1ab/nsp31256D1256SGACAGT11All0
ORF1ab/nsp31256D1256RGACCGT11All0
ORF1ab/nsp31256D1256del1gAcg-c11All0
ORF1ab/nsp31256D1256FGAcTTc11All0
ORF1ab/nsp31256D1256DgaCgaT11AY.10.000396
ORF1ab/nsp31256D1256GgAcgGc11AY.1000.000046
ORF1ab/nsp31256D1256GgAcgGc11AY.1020.000027
ORF1ab/nsp31256D1256NGacAac11AY.1030.000006
ORF1ab/nsp31256D1256YGacTac11AY.1030.000006
ORF1ab/nsp31256D1256EgaCgaA11AY.1030.000006
ORF1ab/nsp31256D1256GgAcgGc11AY.1030.000006
ORF1ab/nsp31256D1256DgaCgaT11AY.116.10.000311
ORF1ab/nsp31256D1256DgaCgaT11AY.1180.000063
ORF1ab/nsp31256D1256NGacAac11AY.1180.000063
ORF1ab/nsp31256D1256DgaCgaT11AY.1190.000035
ORF1ab/nsp31256D1256DgaCgaT11AY.1200.000037
ORF1ab/nsp31256D1256DgaCgaT11AY.120.10.000321
ORF1ab/nsp31256D1256DgaCgaT11AY.140.000088
ORF1ab/nsp31256D1256YGacTac11AY.16.10.00047
ORF1ab/nsp31256D1256NGacAac11AY.230.00007
ORF1ab/nsp31256D1256DgaCgaT11AY.230.00007
ORF1ab/nsp31256D1256YGacTac11AY.240.000431
ORF1ab/nsp31256D1256delGAC---11AY.250.000006
ORF1ab/nsp31256D1256EgaCgaA11AY.250.000006
ORF1ab/nsp31256D1256HGacCac11AY.250.000006
ORF1ab/nsp31256D1256DgaCgaT11AY.260.000028
ORF1ab/nsp31256D1256GgAcgGc11AY.260.000028
ORF1ab/nsp31256D1256DgaCgaT11AY.270.000065
ORF1ab/nsp31256D1256delGAC---11AY.30.00001
ORF1ab/nsp31256D1256EgaCgaA11AY.320.000532
ORF1ab/nsp31256D1256NGacAac11AY.360.000148
ORF1ab/nsp31256D1256DgaCgaT11AY.360.000148
ORF1ab/nsp31256D1256DgaCgaT11AY.380.000499
ORF1ab/nsp31256D1256delGAC---11AY.40.000002
ORF1ab/nsp31256D1256YGacTac11AY.4.20.000022
ORF1ab/nsp31256D1256GgAcgGc11AY.4.20.000022
ORF1ab/nsp31256D1256delGAC---11AY.4.50.000107
ORF1ab/nsp31256D1256GgAcgGc11AY.4.50.000107
ORF1ab/nsp31256D1256GgAcgGc11AY.420.00004
ORF1ab/nsp31256D1256EgaCgaA11AY.430.000004
ORF1ab/nsp31256D1256AgAcgCc11AY.430.000004
ORF1ab/nsp31256D1256GgAcgGc11AY.430.000004
ORF1ab/nsp31256D1256FGAcTTc11AY.440.000006
ORF1ab/nsp31256D1256DgaCgaT11AY.450.000122
ORF1ab/nsp31256D1256AgAcgCc11AY.450.000122
ORF1ab/nsp31256D1256YGacTac11AY.46.60.000072
ORF1ab/nsp31256D1256DgaCgaT11AY.46.60.000072
ORF1ab/nsp31256D1256YGacTac11AY.470.000031
ORF1ab/nsp31256D1256SGACAGT11AY.480.000465
ORF1ab/nsp31256D1256GgAcgGc11AY.550.000917
ORF1ab/nsp31256D1256EgaCgaG11AY.560.001605
ORF1ab/nsp31256D1256DgaCgaT11AY.60.000041
ORF1ab/nsp31256D1256delGAC---11AY.660.00107
ORF1ab/nsp31256D1256YGacTac11AY.680.000274
ORF1ab/nsp31256D1256DgaCgaT11AY.690.000187
ORF1ab/nsp31256D1256EgaCgaG11AY.70.000196
ORF1ab/nsp31256D1256del1gAcg-c11AY.710.000475
ORF1ab/nsp31256D1256DgaCgaT11AY.740.000116
ORF1ab/nsp31256D1256YGacTac11AY.750.000056
ORF1ab/nsp31256D1256DgaCgaT11AY.840.000437
ORF1ab/nsp31256D1256NGacAac11AY.980.000079
ORF1ab/nsp31256D1256DgaCgaT11AY.98.10.000048
ORF1ab/nsp31256D1256YGacTac11AY.99.20.000092
ORF1ab/nsp31256D1256DgaCgaT11B0.000128
ORF1ab/nsp31256D1256AgAcgCc11B.10.000009
ORF1ab/nsp31256D1256EgaCgaA11B.10.000009
ORF1ab/nsp31256D1256NGacAac11B.1.10.000018
ORF1ab/nsp31256D1256delGAC---11B.1.10.000018
ORF1ab/nsp31256D1256delGAC---11B.1.1.1330.008475
ORF1ab/nsp31256D1256DgaCgaT11B.1.1.1760.000439
ORF1ab/nsp31256D1256YGacTac11B.1.1.2140.000055
ORF1ab/nsp31256D1256DgaCgaT11B.1.1.2220.000204
ORF1ab/nsp31256D1256YGacTac11B.1.1.2280.003049
ORF1ab/nsp31256D1256DgaCgaT11B.1.1.2790.001121
ORF1ab/nsp31256D1256YGacTac11B.1.1.310.066667
ORF1ab/nsp31256D1256YGacTac11B.1.1.3110.000358
ORF1ab/nsp31256D1256DgaCgaT11B.1.1.340.013158
ORF1ab/nsp31256D1256YGacTac11B.1.1.3480.000796
ORF1ab/nsp31256D1256delGAC---11B.1.1.3480.000796
ORF1ab/nsp31256D1256YGacTac11B.1.1.370.000193
ORF1ab/nsp31256D1256DgaCgaT11B.1.1.3720.000689
ORF1ab/nsp31256D1256GgAcgGc11B.1.1.3770.001381
ORF1ab/nsp31256D1256DgaCgaT11B.1.1.630.000386
ORF1ab/nsp31256D1256GgAcgGc11B.1.1040.00369
ORF1ab/nsp31256D1256delGAC---11B.1.1770.000013
ORF1ab/nsp31256D1256GgAcgGc11B.1.1770.000013
ORF1ab/nsp31256D1256DgaCgaT11B.1.177.40.000211
ORF1ab/nsp31256D1256YGacTac11B.1.177.440.000519
ORF1ab/nsp31256D1256delGAC---11B.1.177.510.004566
ORF1ab/nsp31256D1256delGAC---11B.1.177.620.001192
ORF1ab/nsp31256D1256VgACgTT11B.1.177.730.000566
ORF1ab/nsp31256D1256delGAC---11B.1.177.830.001481
ORF1ab/nsp31256D1256NGacAac11B.1.2210.000071
ORF1ab/nsp31256D1256NGacAac11B.1.360.000146
ORF1ab/nsp31256D1256HGacCac11B.1.36.10.00114
ORF1ab/nsp31256D1256DgaCgaT11B.1.36.290.000517
ORF1ab/nsp31256D1256GgAcgGc11B.1.36.80.001
ORF1ab/nsp31256D1256DgaCgaT11B.1.3990.001934
ORF1ab/nsp31256D1256DgaCgaT11B.1.4130.004255
ORF1ab/nsp31256D1256AgAcgCc11B.1.4270.00005
ORF1ab/nsp31256D1256GgAcgGc11B.1.4270.00005
ORF1ab/nsp31256D1256NGacAac11B.1.4290.000024
ORF1ab/nsp31256D1256HGacCac11B.1.4290.000024
ORF1ab/nsp31256D1256DgaCgaT11B.1.4410.009615
ORF1ab/nsp31256D1256GgAcgGc11B.1.4990.00105
ORF1ab/nsp31256D1256YGacTac11B.1.5080.025641
ORF1ab/nsp31256D1256NGacAac11B.1.5170.000427
ORF1ab/nsp31256D1256DgaCgaT11B.1.5250.000113
ORF1ab/nsp31256D1256DgaCgaT11B.1.5260.000024
ORF1ab/nsp31256D1256DgaCgaT11B.1.5750.000303
ORF1ab/nsp31256D1256YGacTac11B.1.5960.000087
ORF1ab/nsp31256D1256GgAcgGc11B.1.5960.000087
ORF1ab/nsp31256D1256DgaCgaT11B.1.6000.005848
ORF1ab/nsp31256D1256EgaCgaA11B.1.6060.006024
ORF1ab/nsp31256D1256delGAC---11B.1.617.20.000004
ORF1ab/nsp31256D1256delGAC---11B.1.6300.005236
ORF1ab/nsp31256D1256EgaCgaG11B.1.6360.006711
ORF1ab/nsp31256D1256DgaCgaT11B.6.60.000889
ORF1ab/nsp31256D1256KGaCAaA11C.350.000774
ORF1ab/nsp31256D1256DgaCgaT11C.370.000116
ORF1ab/nsp31256D1256YGacTac11D.20.000075
ORF1ab/nsp31256D1256RGACCGT11P.10.000016
ORF1ab/nsp31256D1256GgAcgGc11P.1.150.000232
ORF1ab/nsp31256D1256DgaCgaT11P.1.150.000232
ORF1ab/nsp31256D1256GgAcgGc11P.20.000187
ORF1ab/nsp31256D1256NGacAac11R.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.