CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp16 : CodonNum = 258

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/nsp16258A258VA7056VnonsyngCtgTt16431643121430-21432
ORF1ab/nsp16258A258delA7056deldelGCT---265265121430-21432
ORF1ab/nsp16258A258AA7056AsyngcTgcC1961560.79591821430-21432
ORF1ab/nsp16258A258AA7056AsyngcTgcA196240.12244921430-21432
ORF1ab/nsp16258A258AA7056AsyngcTgcG196160.081632721430-21432
ORF1ab/nsp16258A258SA7056SnonsynGctTct6262121430-21432
ORF1ab/nsp16258A258TA7056TnonsynGctAct1212121430-21432
ORF1ab/nsp16258A258PA7056PnonsynGctCct66121430-21432
ORF1ab/nsp16258A258DA7056DnonsyngCtgAt55121430-21432
ORF1ab/nsp16258A258del1A7056del1delGct-ct420.521430-21432
ORF1ab/nsp16258A258del1A7056del1delgCtg-t410.2521430-21432
ORF1ab/nsp16258A258del1A7056del1delgcTgc-410.2521430-21432
ORF1ab/nsp16258A258del2A7056del2delgCTg--210.521430-21432
ORF1ab/nsp16258A258del2A7056del2delGCT--N210.521430-21432
ORF1ab/nsp16258A258FA7056FnonsynGCtTTt11121430-21432
ORF1ab/nsp16258A258IA7056InonsynGCtATt11121430-21432
ORF1ab/nsp16258A258KA7056KnonsynGCTAAG11121430-21432
ORF1ab/nsp16258A258RA7056RnonsynGCtCGt11121430-21432
ORF1ab/nsp16258A258LA7056LnonsynGCTTTA11121430-21432
ORF1ab/nsp16258A258YA7056YnonsynGCTTAC11121430-21432

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/nsp16258A258VgCtgTt16431643All0.000314
ORF1ab/nsp16258A258VgCtgTt783783B.1.3750.641803
ORF1ab/nsp16258A258delGCT---265265All0.000051
ORF1ab/nsp16258A258AgcTgcC156196All0.00003
ORF1ab/nsp16258A258AgcTgcA24196All0.000005
ORF1ab/nsp16258A258AgcTgcG16196All0.000003
ORF1ab/nsp16258A258VgCtgTt152152B.1.1390.111437
ORF1ab/nsp16258A258VgCtgTt128128B.1.1.70.000115
ORF1ab/nsp16258A258delGCT---103103AY.39.10.00408
ORF1ab/nsp16258A258SGctTct6262All0.000012
ORF1ab/nsp16258A258VgCtgTt5252B.1.4290.001224
ORF1ab/nsp16258A258VgCtgTt4444B.1.20.000387
ORF1ab/nsp16258A258VgCtgTt4242B.1.4080.154982
ORF1ab/nsp16258A258AgcTgcC3335AY.430.000146
ORF1ab/nsp16258A258AgcTgcG135AY.430.000004
ORF1ab/nsp16258A258AgcTgcA135AY.430.000004
ORF1ab/nsp16258A258VgCtgTt3535B.10.000321
ORF1ab/nsp16258A258AgcTgcC3135B.1.1.70.000028
ORF1ab/nsp16258A258AgcTgcG335B.1.1.70.000003
ORF1ab/nsp16258A258AgcTgcA135B.1.1.70.000001
ORF1ab/nsp16258A258VgCtgTt3434AY.440.000207
ORF1ab/nsp16258A258VgCtgTt3131B.1.617.20.000117
ORF1ab/nsp16258A258VgCtgTt2727AY.40.000042
ORF1ab/nsp16258A258AgcTgcC2525B.1.20.00022
ORF1ab/nsp16258A258VgCtgTt2323AY.230.001604
ORF1ab/nsp16258A258delGCT---2121AY.390.000519
ORF1ab/nsp16258A258VgCtgTt2121B.1.2400.004527
ORF1ab/nsp16258A258VgCtgTt1616B.1.1.5190.000635
ORF1ab/nsp16258A258SGctTct1616B.1.1.70.000014
ORF1ab/nsp16258A258VgCtgTt1616B.1.2210.001137
ORF1ab/nsp16258A258delGCT---1616B.1.617.20.00006
ORF1ab/nsp16258A258VgCtgTt1414AY.30.000139
ORF1ab/nsp16258A258AgcTgcC1414AY.5.40.003874
ORF1ab/nsp16258A258VgCtgTt1414B.1.10.000254
ORF1ab/nsp16258A258AgcTgcC1313B.1.5060.309524
ORF1ab/nsp16258A258TGctAct1212All0.000002
ORF1ab/nsp16258A258VgCtgTt1212AY.1030.000075
ORF1ab/nsp16258A258AgcTgcC1112AY.40.000017
ORF1ab/nsp16258A258AgcTgcA112AY.40.000002
ORF1ab/nsp16258A258delGCT---1212B.1.1.70.000011
ORF1ab/nsp16258A258AgcTgcA1212P.30.019139
ORF1ab/nsp16258A258delGCT---1111AY.250.000066
ORF1ab/nsp16258A258VgCtgTt1111B.1.2340.001451
ORF1ab/nsp16258A258VgCtgTt1111B.1.3490.007863
ORF1ab/nsp16258A258VgCtgTt1010B.1.1770.000132
ORF1ab/nsp16258A258AgcTgcG99B.1.1.4470.321429
ORF1ab/nsp16258A258AgcTgcC99B.1.617.20.000034
ORF1ab/nsp16258A258VgCtgTt88AY.1110.001465
ORF1ab/nsp16258A258VgCtgTt88AY.430.000035
ORF1ab/nsp16258A258VgCtgTt88B.1.351.20.002421
ORF1ab/nsp16258A258VgCtgTt77AY.390.000173
ORF1ab/nsp16258A258SGctTct77AY.50.000145
ORF1ab/nsp16258A258VgCtgTt77P.10.00011
ORF1ab/nsp16258A258PGctCct66All0.000001
ORF1ab/nsp16258A258delGCT---66AY.450.00073
ORF1ab/nsp16258A258delGCT---66B.10.000055
ORF1ab/nsp16258A258VgCtgTt66B.1.1.3170.00247
ORF1ab/nsp16258A258delGCT---66B.1.1770.000079
ORF1ab/nsp16258A258delGCT---66B.1.20.000053
ORF1ab/nsp16258A258DgCtgAt55All0.000001
ORF1ab/nsp16258A258VgCtgTt55AY.290.000079
ORF1ab/nsp16258A258VgCtgTt55AY.60.000206
ORF1ab/nsp16258A258VgCtgTt55AY.98.10.000242
ORF1ab/nsp16258A258VgCtgTt55B.1.1.2630.007788
ORF1ab/nsp16258A258del1Gct-ct24All0
ORF1ab/nsp16258A258del1gcTgc-14All0
ORF1ab/nsp16258A258del1gCtg-t14All0
ORF1ab/nsp16258A258delGCT---44AY.440.000024
ORF1ab/nsp16258A258delGCT---44AY.50.000083
ORF1ab/nsp16258A258VgCtgTt44AY.99.20.000369
ORF1ab/nsp16258A258AgcTgcA24B.1.1770.000026
ORF1ab/nsp16258A258AgcTgcC14B.1.1770.000013
ORF1ab/nsp16258A258AgcTgcG14B.1.1770.000013
ORF1ab/nsp16258A258VgCtgTt44B.1.177.40.000844
ORF1ab/nsp16258A258VgCtgTt44B.1.3670.00317
ORF1ab/nsp16258A258VgCtgTt44P.20.000747
ORF1ab/nsp16258A258SGctTct33AY.1020.00008
ORF1ab/nsp16258A258delGCT---33AY.1160.00086
ORF1ab/nsp16258A258VgCtgTt33AY.200.000117
ORF1ab/nsp16258A258SGctTct33AY.300.001187
ORF1ab/nsp16258A258SGctTct33AY.40.000005
ORF1ab/nsp16258A258delGCT---33AY.430.000013
ORF1ab/nsp16258A258VgCtgTt33AY.50.000062
ORF1ab/nsp16258A258AgcTgcC33AY.9.20.00011
ORF1ab/nsp16258A258SGctTct33B.10.000027
ORF1ab/nsp16258A258delGCT---33B.1.10.000054
ORF1ab/nsp16258A258SGctTct33B.1.10.000054
ORF1ab/nsp16258A258VgCtgTt33B.1.1.3890.018182
ORF1ab/nsp16258A258delGCT---33B.1.1.5190.000119
ORF1ab/nsp16258A258TGctAct33B.1.1.70.000003
ORF1ab/nsp16258A258VgCtgTt33B.1.3110.000824
ORF1ab/nsp16258A258VgCtgTt33B.1.4270.000151
ORF1ab/nsp16258A258SGctTct33B.1.4990.003151
ORF1ab/nsp16258A258delGCT---33B.1.5250.000339
ORF1ab/nsp16258A258VgCtgTt33B.1.5750.00091
ORF1ab/nsp16258A258VgCtgTt33B.1.5960.000261
ORF1ab/nsp16258A258VgCtgTt33B.1.617.10.000387
ORF1ab/nsp16258A258VgCtgTt33B.1.6370.000219
ORF1ab/nsp16258A258delGCT---33P.10.000047
ORF1ab/nsp16258A258delGCT---220.111111
ORF1ab/nsp16258A258del2GCT--N12All0
ORF1ab/nsp16258A258del2gCTg--12All0
ORF1ab/nsp16258A258delGCT---22AY.1000.000092
ORF1ab/nsp16258A258VgCtgTt22AY.1060.00067
ORF1ab/nsp16258A258SGctTct22AY.1130.000285
ORF1ab/nsp16258A258VgCtgTt22AY.1160.000574
ORF1ab/nsp16258A258VgCtgTt22AY.1190.000071
ORF1ab/nsp16258A258delGCT---22AY.120.20.002571
ORF1ab/nsp16258A258AgcTgcC22AY.230.000139
ORF1ab/nsp16258A258VgCtgTt22AY.250.000012
ORF1ab/nsp16258A258VgCtgTt22AY.260.000057
ORF1ab/nsp16258A258SGctTct22AY.290.000032
ORF1ab/nsp16258A258delGCT---22AY.40.000003
ORF1ab/nsp16258A258delGCT---22AY.420.00008
ORF1ab/nsp16258A258AgcTgcC22AY.440.000012
ORF1ab/nsp16258A258delGCT---22AY.910.001461
ORF1ab/nsp16258A258TGctAct22B.10.000018
ORF1ab/nsp16258A258AgcTgcA12B.10.000009
ORF1ab/nsp16258A258AgcTgcC12B.10.000009
ORF1ab/nsp16258A258SGctTct22B.1.1.5190.000079
ORF1ab/nsp16258A258VgCtgTt22B.1.160.280.005848
ORF1ab/nsp16258A258TGctAct22B.1.1770.000026
ORF1ab/nsp16258A258VgCtgTt22B.1.1950.01005
ORF1ab/nsp16258A258VgCtgTt22B.1.2430.000139
ORF1ab/nsp16258A258delGCT---22B.1.2580.000133
ORF1ab/nsp16258A258delGCT---22B.1.3510.000059
ORF1ab/nsp16258A258VgCtgTt22B.1.36.70.008
ORF1ab/nsp16258A258VgCtgTt22B.1.416.10.003125
ORF1ab/nsp16258A258AgcTgcC22B.1.4290.000047
ORF1ab/nsp16258A258del1Gct-ct22B.1.6270.00404
ORF1ab/nsp16258A258delGCT---22P.1.10.000635
ORF1ab/nsp16258A258del1gCtg-t11A0.000387
ORF1ab/nsp16258A258AgcTgcC11A0.000387
ORF1ab/nsp16258A258delGCT---11A0.000387
ORF1ab/nsp16258A258del2GCT--N11A.2.40.003367
ORF1ab/nsp16258A258delGCT---11A.2.40.003367
ORF1ab/nsp16258A258VgCtgTt11A.2.50.000499
ORF1ab/nsp16258A258PGctCct11AD.20.000219
ORF1ab/nsp16258A258VgCtgTt11AE.80.000489
ORF1ab/nsp16258A258IGCtATt11All0
ORF1ab/nsp16258A258YGCTTAC11All0
ORF1ab/nsp16258A258RGCtCGt11All0
ORF1ab/nsp16258A258FGCtTTt11All0
ORF1ab/nsp16258A258LGCTTTA11All0
ORF1ab/nsp16258A258KGCTAAG11All0
ORF1ab/nsp16258A258VgCtgTt11AY.10.000396
ORF1ab/nsp16258A258VgCtgTt11AY.1000.000046
ORF1ab/nsp16258A258VgCtgTt11AY.1010.00049
ORF1ab/nsp16258A258VgCtgTt11AY.1020.000027
ORF1ab/nsp16258A258delGCT---11AY.1030.000006
ORF1ab/nsp16258A258SGctTct11AY.1030.000006
ORF1ab/nsp16258A258delGCT---11AY.1070.000466
ORF1ab/nsp16258A258delGCT---11AY.1080.001103
ORF1ab/nsp16258A258delGCT---11AY.1100.000113
ORF1ab/nsp16258A258delGCT---11AY.1130.000142
ORF1ab/nsp16258A258delGCT---11AY.1180.000063
ORF1ab/nsp16258A258VgCtgTt11AY.130.000161
ORF1ab/nsp16258A258SGctTct11AY.190.00114
ORF1ab/nsp16258A258DgCtgAt11AY.23.10.000417
ORF1ab/nsp16258A258PGctCct11AY.23.10.000417
ORF1ab/nsp16258A258SGctTct11AY.250.000006
ORF1ab/nsp16258A258AgcTgcG11AY.250.000006
ORF1ab/nsp16258A258VgCtgTt11AY.3.10.000085
ORF1ab/nsp16258A258FGCtTTt11AY.300.000396
ORF1ab/nsp16258A258delGCT---11AY.330.000067
ORF1ab/nsp16258A258VgCtgTt11AY.340.000097
ORF1ab/nsp16258A258delGCT---11AY.370.000316
ORF1ab/nsp16258A258delGCT---11AY.380.000499
ORF1ab/nsp16258A258del2gCTg--11AY.390.000025
ORF1ab/nsp16258A258AgcTgcA11AY.390.000025
ORF1ab/nsp16258A258IGCtATt11AY.4.20.000022
ORF1ab/nsp16258A258AgcTgcG11AY.4.20.000022
ORF1ab/nsp16258A258VgCtgTt11AY.4.2.10.000149
ORF1ab/nsp16258A258delGCT---11AY.4.50.000107
ORF1ab/nsp16258A258del1gcTgc-11AY.430.000004
ORF1ab/nsp16258A258SGctTct11AY.460.000104
ORF1ab/nsp16258A258delGCT---11AY.5.30.000337
ORF1ab/nsp16258A258VgCtgTt11AY.520.000814
ORF1ab/nsp16258A258delGCT---11AY.540.000095
ORF1ab/nsp16258A258delGCT---11AY.580.000907
ORF1ab/nsp16258A258SGctTct11AY.610.000105
ORF1ab/nsp16258A258delGCT---11AY.680.000274
ORF1ab/nsp16258A258VgCtgTt11AY.690.000187
ORF1ab/nsp16258A258AgcTgcC11AY.750.000056
ORF1ab/nsp16258A258TGctAct11AY.750.000056
ORF1ab/nsp16258A258delGCT---11AY.75.10.00018
ORF1ab/nsp16258A258VgCtgTt11AY.980.000079
ORF1ab/nsp16258A258KGCTAAG11B.10.000009
ORF1ab/nsp16258A258TGctAct11B.1.10.000018
ORF1ab/nsp16258A258AgcTgcA11B.1.10.000018
ORF1ab/nsp16258A258PGctCct11B.1.10.000018
ORF1ab/nsp16258A258delGCT---11B.1.1.1370.0125
ORF1ab/nsp16258A258VgCtgTt11B.1.1.1980.001468
ORF1ab/nsp16258A258delGCT---11B.1.1.2180.007692
ORF1ab/nsp16258A258VgCtgTt11B.1.1.2220.000204
ORF1ab/nsp16258A258SGctTct11B.1.1.2220.000204
ORF1ab/nsp16258A258AgcTgcC11B.1.1.2220.000204
ORF1ab/nsp16258A258VgCtgTt11B.1.1.2280.003049
ORF1ab/nsp16258A258AgcTgcC11B.1.1.250.000569
ORF1ab/nsp16258A258VgCtgTt11B.1.1.250.000569
ORF1ab/nsp16258A258VgCtgTt11B.1.1.2770.000759
ORF1ab/nsp16258A258SGctTct11B.1.1.280.000311
ORF1ab/nsp16258A258VgCtgTt11B.1.1.2800.003086
ORF1ab/nsp16258A258AgcTgcC11B.1.1.2840.000107
ORF1ab/nsp16258A258delGCT---11B.1.1.3150.008475
ORF1ab/nsp16258A258VgCtgTt11B.1.1.3960.045455
ORF1ab/nsp16258A258delGCT---11B.1.1.440.00241
ORF1ab/nsp16258A258delGCT---11B.1.1.460.004367
ORF1ab/nsp16258A258LGCTTTA11B.1.1.70.000001
ORF1ab/nsp16258A258DgCtgAt11B.1.1.70.000001
ORF1ab/nsp16258A258PGctCct11B.1.1.70.000001
ORF1ab/nsp16258A258delGCT---11B.1.1400.018868
ORF1ab/nsp16258A258SGctTct11B.1.1460.004237
ORF1ab/nsp16258A258VgCtgTt11B.1.1600.000031
ORF1ab/nsp16258A258SGctTct11B.1.1600.000031
ORF1ab/nsp16258A258PGctCct11B.1.1730.026316
ORF1ab/nsp16258A258SGctTct11B.1.1770.000013
ORF1ab/nsp16258A258VgCtgTt11B.1.177.210.000076
ORF1ab/nsp16258A258VgCtgTt11B.1.177.410.0025
ORF1ab/nsp16258A258VgCtgTt11B.1.177.450.000381
ORF1ab/nsp16258A258VgCtgTt11B.1.177.600.000218
ORF1ab/nsp16258A258SGctTct11B.1.177.650.000665
ORF1ab/nsp16258A258delGCT---11B.1.177.680.015152
ORF1ab/nsp16258A258delGCT---11B.1.1800.05
ORF1ab/nsp16258A258TGctAct11B.1.20.000009
ORF1ab/nsp16258A258SGctTct11B.1.20.000009
ORF1ab/nsp16258A258YGCTTAC11B.1.2340.000132
ORF1ab/nsp16258A258AgcTgcA11B.1.2580.000067
ORF1ab/nsp16258A258VgCtgTt11B.1.3360.002439
ORF1ab/nsp16258A258VgCtgTt11B.1.3500.002933
ORF1ab/nsp16258A258RGCtCGt11B.1.3510.00003
ORF1ab/nsp16258A258SGctTct11B.1.3510.00003
ORF1ab/nsp16258A258VgCtgTt11B.1.3510.00003
ORF1ab/nsp16258A258SGctTct11B.1.351.20.000303
ORF1ab/nsp16258A258AgcTgcC11B.1.360.000146
ORF1ab/nsp16258A258delGCT---11B.1.36.290.000517
ORF1ab/nsp16258A258VgCtgTt11B.1.3690.000285
ORF1ab/nsp16258A258VgCtgTt11B.1.3820.008929
ORF1ab/nsp16258A258delGCT---11B.1.4150.014286
ORF1ab/nsp16258A258VgCtgTt11B.1.4160.001269
ORF1ab/nsp16258A258delGCT---11B.1.416.10.001563
ORF1ab/nsp16258A258AgcTgcC11B.1.4270.00005
ORF1ab/nsp16258A258VgCtgTt11B.1.4280.00102
ORF1ab/nsp16258A258PGctCct11B.1.4290.000024
ORF1ab/nsp16258A258DgCtgAt11B.1.4620.007246
ORF1ab/nsp16258A258DgCtgAt11B.1.4970.000315
ORF1ab/nsp16258A258VgCtgTt11B.1.5250.000113
ORF1ab/nsp16258A258AgcTgcA11B.1.5260.000024
ORF1ab/nsp16258A258VgCtgTt11B.1.5610.000397
ORF1ab/nsp16258A258delGCT---11B.1.5610.000397
ORF1ab/nsp16258A258VgCtgTt11B.1.564.10.001577
ORF1ab/nsp16258A258VgCtgTt11B.1.5650.00081
ORF1ab/nsp16258A258VgCtgTt11B.1.5760.000907
ORF1ab/nsp16258A258VgCtgTt11B.1.5890.007576
ORF1ab/nsp16258A258AgcTgcC11B.1.5960.000087
ORF1ab/nsp16258A258TGctAct11B.1.617.20.000004
ORF1ab/nsp16258A258DgCtgAt11B.1.617.20.000004
ORF1ab/nsp16258A258delGCT---11B.1.6200.000946
ORF1ab/nsp16258A258delGCT---11B.1.6210.000089
ORF1ab/nsp16258A258delGCT---11B.1.6370.000073
ORF1ab/nsp16258A258SGctTct11B.1.6370.000073
ORF1ab/nsp16258A258AgcTgcA11B.60.00091
ORF1ab/nsp16258A258AgcTgcC11B.6.60.000889
ORF1ab/nsp16258A258delGCT---11C.36.3.10.002717
ORF1ab/nsp16258A258AgcTgcA11D.20.000075
ORF1ab/nsp16258A258VgCtgTt11P.1.140.000048
ORF1ab/nsp16258A258TGctAct11P.1.140.000048
ORF1ab/nsp16258A258delGCT---11Q.20.000613
ORF1ab/nsp16258A258VgCtgTt11R.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.