CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 428

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/nsp13428L428FL5752FnonsynCttTtt54825482117518-17520
ORF1ab/nsp13428L428LL5752LsynctTctC96910.94791717518-17520
ORF1ab/nsp13428L428LL5752LsynCtTTtA9630.0312517518-17520
ORF1ab/nsp13428L428LL5752LsynctTctA9620.020833317518-17520
ORF1ab/nsp13428L428IL5752InonsynCttAtt6060117518-17520
ORF1ab/nsp13428L428delL5752deldelCTT---2020117518-17520
ORF1ab/nsp13428L428TL5752TnonsynCTTACA840.517518-17520
ORF1ab/nsp13428L428TL5752TnonsynCTTACC840.517518-17520
ORF1ab/nsp13428L428VL5752VnonsynCttGtt44117518-17520
ORF1ab/nsp13428L428PL5752PnonsyncTtcCt33117518-17520
ORF1ab/nsp13428L428HL5752HnonsyncTtcAt33117518-17520
ORF1ab/nsp13428L428YL5752YnonsynCTtTAt22117518-17520
ORF1ab/nsp13428L428del2L5752del2delcTTc--22117518-17520
ORF1ab/nsp13428L428XL5752XnonsynCTTTAA11117518-17520
ORF1ab/nsp13428L428del1L5752del1delcTtc-t11117518-17520
ORF1ab/nsp13428L428NL5752NnonsynCTtAAt11117518-17520

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/nsp13428L428FCttTtt54825482All0.001048
ORF1ab/nsp13428L428FCttTtt15731573B.1.1.70.001408
ORF1ab/nsp13428L428FCttTtt986986B.10.009031
ORF1ab/nsp13428L428FCttTtt648648B.1.5240.911392
ORF1ab/nsp13428L428FCttTtt437437B.1.3050.939785
ORF1ab/nsp13428L428FCttTtt251251B.1.1770.003305
ORF1ab/nsp13428L428FCttTtt147147B.1.20.001294
ORF1ab/nsp13428L428FCttTtt130130AY.40.000202
ORF1ab/nsp13428L428LctTctC9196All0.000017
ORF1ab/nsp13428L428LCtTTtA396All0.000001
ORF1ab/nsp13428L428LctTctA296All0
ORF1ab/nsp13428L428FCttTtt8080B.1.10.001451
ORF1ab/nsp13428L428FCttTtt7474B.1.2210.005256
ORF1ab/nsp13428L428FCttTtt6464P.10.001008
ORF1ab/nsp13428L428ICttAtt6060All0.000011
ORF1ab/nsp13428L428FCttTtt5353AY.440.000323
ORF1ab/nsp13428L428FCttTtt5353B.1.564.10.083596
ORF1ab/nsp13428L428FCttTtt5050B.1.1.580.268817
ORF1ab/nsp13428L428FCttTtt3939P.1.10.012389
ORF1ab/nsp13428L428FCttTtt3838B.1.1.2770.028832
ORF1ab/nsp13428L428FCttTtt3535D.20.002626
ORF1ab/nsp13428L428FCttTtt3333B.1.1.3280.559322
ORF1ab/nsp13428L428FCttTtt3333B.1.1600.001029
ORF1ab/nsp13428L428FCttTtt2929B.1.2340.003826
ORF1ab/nsp13428L428FCttTtt2929B.1.4290.000682
ORF1ab/nsp13428L428LctTctC2525AY.40.000039
ORF1ab/nsp13428L428FCttTtt2424B.1.1.5060.888889
ORF1ab/nsp13428L428FCttTtt2424B.1.617.20.00009
ORF1ab/nsp13428L428FCttTtt2222B.1.1.250.012507
ORF1ab/nsp13428L428FCttTtt2121B.1.177.570.005901
ORF1ab/nsp13428L428delCTT---2020All0.000004
ORF1ab/nsp13428L428FCttTtt2020B.1.438.10.002145
ORF1ab/nsp13428L428FCttTtt1919AY.39.10.000753
ORF1ab/nsp13428L428FCttTtt1919B.6.60.016889
ORF1ab/nsp13428L428FCttTtt1818C.390.339623
ORF1ab/nsp13428L428FCttTtt1616B.1.2430.001113
ORF1ab/nsp13428L428FCttTtt1616B.1.5960.001394
ORF1ab/nsp13428L428FCttTtt1515AY.29.10.003308
ORF1ab/nsp13428L428FCttTtt1414AY.1020.000371
ORF1ab/nsp13428L428LctTctC1313B.1.1.70.000012
ORF1ab/nsp13428L428FCttTtt1313B.1.3510.000386
ORF1ab/nsp13428L428FCttTtt1313Q.80.002144
ORF1ab/nsp13428L428FCttTtt1212B.1.177.560.008011
ORF1ab/nsp13428L428FCttTtt1212B.1.4200.125
ORF1ab/nsp13428L428FCttTtt1111B.1.3360.026829
ORF1ab/nsp13428L428FCttTtt1010AY.250.00006
ORF1ab/nsp13428L428FCttTtt1010AY.740.001156
ORF1ab/nsp13428L428FCttTtt1010B.1.5250.001132
ORF1ab/nsp13428L428FCttTtt1010B.1.5260.000235
ORF1ab/nsp13428L428FCttTtt99B.1.1.2740.045455
ORF1ab/nsp13428L428FCttTtt99B.1.1.5190.000357
ORF1ab/nsp13428L428delCTT---99B.1.1.70.000008
ORF1ab/nsp13428L428FCttTtt99B.1.2580.000599
ORF1ab/nsp13428L428TCTTACC480.222222
ORF1ab/nsp13428L428TCTTACA480.222222
ORF1ab/nsp13428L428TCTTACC48All0.000001
ORF1ab/nsp13428L428TCTTACA48All0.000001
ORF1ab/nsp13428L428ICttAtt88B.1.1.70.000007
ORF1ab/nsp13428L428LctTctC88B.1.1600.00025
ORF1ab/nsp13428L428FCttTtt88B.1.177.330.013158
ORF1ab/nsp13428L428FCttTtt88B.1.3110.002197
ORF1ab/nsp13428L428FCttTtt88B.1.466.20.00313
ORF1ab/nsp13428L428ICttAtt77AY.430.000031
ORF1ab/nsp13428L428LctTctC77AY.46.60.000505
ORF1ab/nsp13428L428LctTctC67B.1.10.000109
ORF1ab/nsp13428L428LCtTTtA17B.1.10.000018
ORF1ab/nsp13428L428FCttTtt77B.1.1.330.002946
ORF1ab/nsp13428L428FCttTtt77B.1.1110.008226
ORF1ab/nsp13428L428FCttTtt77B.1.2100.014925
ORF1ab/nsp13428L428FCttTtt77B.1.4330.022364
ORF1ab/nsp13428L428ICttAtt77C.400.194444
ORF1ab/nsp13428L428ICttAtt66AY.840.002625
ORF1ab/nsp13428L428FCttTtt66AZ.20.004926
ORF1ab/nsp13428L428FCttTtt66B.1.1280.003812
ORF1ab/nsp13428L428FCttTtt66B.1.360.000875
ORF1ab/nsp13428L428FCttTtt66B.1.4040.007812
ORF1ab/nsp13428L428LctTctC66B.1.5960.000523
ORF1ab/nsp13428L428FCttTtt66P.1.140.000287
ORF1ab/nsp13428L428ICttAtt66P.1.170.000971
ORF1ab/nsp13428L428FCttTtt55AY.30.00005
ORF1ab/nsp13428L428ICttAtt55AY.540.000477
ORF1ab/nsp13428L428FCttTtt55B.1.2400.001078
ORF1ab/nsp13428L428FCttTtt55B.1.3490.003574
ORF1ab/nsp13428L428FCttTtt55B.1.5820.002453
ORF1ab/nsp13428L428FCttTtt55P.20.000933
ORF1ab/nsp13428L428FCttTtt55Q.10.000632
ORF1ab/nsp13428L428VCttGtt44All0.000001
ORF1ab/nsp13428L428FCttTtt44AY.1030.000025
ORF1ab/nsp13428L428FCttTtt44AY.390.000099
ORF1ab/nsp13428L428FCttTtt44AY.4.20.000087
ORF1ab/nsp13428L428FCttTtt44B.1.177.600.000874
ORF1ab/nsp13428L428FCttTtt44B.1.177.70.000659
ORF1ab/nsp13428L428FCttTtt44B.1.2390.004884
ORF1ab/nsp13428L428FCttTtt44B.1.4970.001259
ORF1ab/nsp13428L428FCttTtt44B.1.6370.000292
ORF1ab/nsp13428L428FCttTtt44N.50.007067
ORF1ab/nsp13428L428FCttTtt44P.1.20.004624
ORF1ab/nsp13428L428HcTtcAt33All0.000001
ORF1ab/nsp13428L428PcTtcCt33All0.000001
ORF1ab/nsp13428L428FCttTtt33AY.1190.000106
ORF1ab/nsp13428L428LctTctC33B.10.000027
ORF1ab/nsp13428L428FCttTtt33B.1.1.3180.000905
ORF1ab/nsp13428L428FCttTtt33B.1.1.390.001529
ORF1ab/nsp13428L428FCttTtt33B.1.177.20.013636
ORF1ab/nsp13428L428FCttTtt33B.1.1920.027778
ORF1ab/nsp13428L428HcTtcAt33B.1.2580.0002
ORF1ab/nsp13428L428FCttTtt33B.1.4280.003061
ORF1ab/nsp13428L428FCttTtt33B.1.4700.004213
ORF1ab/nsp13428L428FCttTtt33B.1.5300.021429
ORF1ab/nsp13428L428FCttTtt33B.1.5510.003871
ORF1ab/nsp13428L428FCttTtt33B.1.5610.001191
ORF1ab/nsp13428L428FCttTtt33B.1.6090.001438
ORF1ab/nsp13428L428LctTctC33B.1.617.20.000011
ORF1ab/nsp13428L428FCttTtt33B.230.008772
ORF1ab/nsp13428L428FCttTtt33C.350.002322
ORF1ab/nsp13428L428FCttTtt22A.2.5.20.003145
ORF1ab/nsp13428L428FCttTtt22AD.20.000438
ORF1ab/nsp13428L428YCTtTAt22All0
ORF1ab/nsp13428L428del2cTTc--22All0
ORF1ab/nsp13428L428FCttTtt22AY.16.10.00094
ORF1ab/nsp13428L428ICttAtt22AY.30.00002
ORF1ab/nsp13428L428ICttAtt22AY.40.000003
ORF1ab/nsp13428L428FCttTtt22AY.430.000009
ORF1ab/nsp13428L428LctTctC22AY.430.000009
ORF1ab/nsp13428L428ICttAtt22AY.440.000012
ORF1ab/nsp13428L428FCttTtt22AY.610.00021
ORF1ab/nsp13428L428LctTctC22AY.710.00095
ORF1ab/nsp13428L428FCttTtt22AY.720.002721
ORF1ab/nsp13428L428FCttTtt22AY.9.20.000073
ORF1ab/nsp13428L428LctTctC22AY.98.10.000097
ORF1ab/nsp13428L428FCttTtt22AY.98.10.000097
ORF1ab/nsp13428L428FCttTtt22B0.000256
ORF1ab/nsp13428L428FCttTtt22B.1.1.280.000622
ORF1ab/nsp13428L428FCttTtt22B.1.1.3020.004149
ORF1ab/nsp13428L428FCttTtt22B.1.1.3110.000716
ORF1ab/nsp13428L428FCttTtt22B.1.1.3170.000823
ORF1ab/nsp13428L428ICttAtt22B.1.1.330.000842
ORF1ab/nsp13428L428FCttTtt22B.1.1.3480.001592
ORF1ab/nsp13428L428FCttTtt22B.1.1.3490.020619
ORF1ab/nsp13428L428FCttTtt22B.1.1.3720.001377
ORF1ab/nsp13428L428FCttTtt22B.1.1.4200.002012
ORF1ab/nsp13428L428FCttTtt22B.1.1.4320.002532
ORF1ab/nsp13428L428FCttTtt22B.1.1.4340.000697
ORF1ab/nsp13428L428FCttTtt22B.1.1.4400.023529
ORF1ab/nsp13428L428FCttTtt22B.1.1.5000.04
ORF1ab/nsp13428L428FCttTtt22B.1.1430.042553
ORF1ab/nsp13428L428LctTctC22B.1.1770.000026
ORF1ab/nsp13428L428ICttAtt22B.1.1770.000026
ORF1ab/nsp13428L428FCttTtt22B.1.2450.0625
ORF1ab/nsp13428L428LctTctC22B.1.2580.000133
ORF1ab/nsp13428L428FCttTtt22B.1.258.170.000208
ORF1ab/nsp13428L428FCttTtt22B.1.2980.004228
ORF1ab/nsp13428L428FCttTtt22B.1.3690.00057
ORF1ab/nsp13428L428FCttTtt22B.1.3880.181818
ORF1ab/nsp13428L428FCttTtt22B.1.4270.000101
ORF1ab/nsp13428L428VCttGtt22B.1.4290.000047
ORF1ab/nsp13428L428FCttTtt22B.1.4620.014493
ORF1ab/nsp13428L428LCtTTtA22B.1.5240.002813
ORF1ab/nsp13428L428FCttTtt22B.1.5660.038462
ORF1ab/nsp13428L428FCttTtt22B.1.5970.009259
ORF1ab/nsp13428L428ICttAtt22B.1.617.20.000008
ORF1ab/nsp13428L428FCttTtt22B.30.001661
ORF1ab/nsp13428L428FCttTtt22R.10.00018
ORF1ab/nsp13428L428ICttAtt22R.10.00018
ORF1ab/nsp13428L428del2cTTc--11A0.000387
ORF1ab/nsp13428L428delCTT---11AD.20.000219
ORF1ab/nsp13428L428FCttTtt11AE.80.000489
ORF1ab/nsp13428L428del1cTtc-t11All0
ORF1ab/nsp13428L428XCTTTAA11All0
ORF1ab/nsp13428L428NCTtAAt11All0
ORF1ab/nsp13428L428ICttAtt11AY.1020.000027
ORF1ab/nsp13428L428LctTctC11AY.1020.000027
ORF1ab/nsp13428L428FCttTtt11AY.1110.000183
ORF1ab/nsp13428L428ICttAtt11AY.1170.000085
ORF1ab/nsp13428L428FCttTtt11AY.140.000088
ORF1ab/nsp13428L428FCttTtt11AY.190.00114
ORF1ab/nsp13428L428FCttTtt11AY.200.000039
ORF1ab/nsp13428L428LctTctC11AY.250.000006
ORF1ab/nsp13428L428ICttAtt11AY.250.000006
ORF1ab/nsp13428L428FCttTtt11AY.260.000028
ORF1ab/nsp13428L428FCttTtt11AY.3.10.000085
ORF1ab/nsp13428L428FCttTtt11AY.350.000233
ORF1ab/nsp13428L428LctTctA11AY.350.000233
ORF1ab/nsp13428L428LctTctC11AY.390.000025
ORF1ab/nsp13428L428VCttGtt11AY.4.20.000022
ORF1ab/nsp13428L428FCttTtt11AY.4.50.000107
ORF1ab/nsp13428L428delCTT---11AY.4.50.000107
ORF1ab/nsp13428L428delCTT---11AY.430.000004
ORF1ab/nsp13428L428LctTctC11AY.440.000006
ORF1ab/nsp13428L428FCttTtt11AY.450.000122
ORF1ab/nsp13428L428FCttTtt11AY.460.000104
ORF1ab/nsp13428L428FCttTtt11AY.470.000031
ORF1ab/nsp13428L428FCttTtt11AY.60.000041
ORF1ab/nsp13428L428FCttTtt11AY.690.000187
ORF1ab/nsp13428L428FCttTtt11AY.730.000665
ORF1ab/nsp13428L428FCttTtt11AY.75.10.00018
ORF1ab/nsp13428L428FCttTtt11AY.980.000079
ORF1ab/nsp13428L428delCTT---11AY.99.10.001553
ORF1ab/nsp13428L428del2cTTc--11B.10.000009
ORF1ab/nsp13428L428XCTTTAA11B.1.10.000018
ORF1ab/nsp13428L428YCTtTAt11B.1.10.000018
ORF1ab/nsp13428L428FCttTtt11B.1.1.130.035714
ORF1ab/nsp13428L428FCttTtt11B.1.1.1980.001468
ORF1ab/nsp13428L428FCttTtt11B.1.1.2180.007692
ORF1ab/nsp13428L428LctTctC11B.1.1.2200.001859
ORF1ab/nsp13428L428FCttTtt11B.1.1.2200.001859
ORF1ab/nsp13428L428FCttTtt11B.1.1.3060.000438
ORF1ab/nsp13428L428FCttTtt11B.1.1.3150.008475
ORF1ab/nsp13428L428FCttTtt11B.1.1.3160.000925
ORF1ab/nsp13428L428ICttAtt11B.1.1.3160.000925
ORF1ab/nsp13428L428FCttTtt11B.1.1.3690.000446
ORF1ab/nsp13428L428FCttTtt11B.1.1.3880.045455
ORF1ab/nsp13428L428FCttTtt11B.1.1.3890.006061
ORF1ab/nsp13428L428FCttTtt11B.1.1.4190.007407
ORF1ab/nsp13428L428FCttTtt11B.1.1.4330.001425
ORF1ab/nsp13428L428FCttTtt11B.1.1.4480.002033
ORF1ab/nsp13428L428FCttTtt11B.1.1.450.014085
ORF1ab/nsp13428L428VCttGtt11B.1.1.70.000001
ORF1ab/nsp13428L428FCttTtt11B.1.1160.011628
ORF1ab/nsp13428L428FCttTtt11B.1.1390.000733
ORF1ab/nsp13428L428FCttTtt11B.1.1510.011111
ORF1ab/nsp13428L428FCttTtt11B.1.1570.002985
ORF1ab/nsp13428L428FCttTtt11B.1.160.300.002976
ORF1ab/nsp13428L428FCttTtt11B.1.1700.00431
ORF1ab/nsp13428L428FCttTtt11B.1.177.210.000076
ORF1ab/nsp13428L428FCttTtt11B.1.177.380.010417
ORF1ab/nsp13428L428FCttTtt11B.1.177.40.000211
ORF1ab/nsp13428L428FCttTtt11B.1.177.420.000894
ORF1ab/nsp13428L428PcTtcCt11B.1.177.440.000519
ORF1ab/nsp13428L428FCttTtt11B.1.177.730.000566
ORF1ab/nsp13428L428delCTT---11B.1.177.760.002494
ORF1ab/nsp13428L428FCttTtt11B.1.177.770.000726
ORF1ab/nsp13428L428FCttTtt11B.1.177.810.000189
ORF1ab/nsp13428L428FCttTtt11B.1.177.870.000728
ORF1ab/nsp13428L428delCTT---11B.1.1790.003759
ORF1ab/nsp13428L428FCttTtt11B.1.1890.004292
ORF1ab/nsp13428L428FCttTtt11B.1.1900.01
ORF1ab/nsp13428L428ICttAtt11B.1.20.000009
ORF1ab/nsp13428L428FCttTtt11B.1.214.30.007143
ORF1ab/nsp13428L428ICttAtt11B.1.2210.000071
ORF1ab/nsp13428L428LctTctA11B.1.2320.000537
ORF1ab/nsp13428L428FCttTtt11B.1.2360.002053
ORF1ab/nsp13428L428FCttTtt11B.1.2410.000812
ORF1ab/nsp13428L428delCTT---11B.1.2580.000067
ORF1ab/nsp13428L428FCttTtt11B.1.2600.003344
ORF1ab/nsp13428L428FCttTtt11B.1.2790.000514
ORF1ab/nsp13428L428PcTtcCt11B.1.3110.000275
ORF1ab/nsp13428L428FCttTtt11B.1.3400.004292
ORF1ab/nsp13428L428ICttAtt11B.1.3510.00003
ORF1ab/nsp13428L428FCttTtt11B.1.36.10.00114
ORF1ab/nsp13428L428FCttTtt11B.1.36.170.000494
ORF1ab/nsp13428L428FCttTtt11B.1.3620.001541
ORF1ab/nsp13428L428FCttTtt11B.1.3960.000706
ORF1ab/nsp13428L428FCttTtt11B.1.4000.000429
ORF1ab/nsp13428L428FCttTtt11B.1.4090.000781
ORF1ab/nsp13428L428delCTT---11B.1.4150.014286
ORF1ab/nsp13428L428LctTctC11B.1.416.10.001563
ORF1ab/nsp13428L428FCttTtt11B.1.4170.028571
ORF1ab/nsp13428L428FCttTtt11B.1.4260.001009
ORF1ab/nsp13428L428FCttTtt11B.1.4360.001029
ORF1ab/nsp13428L428FCttTtt11B.1.4390.005917
ORF1ab/nsp13428L428FCttTtt11B.1.4430.004673
ORF1ab/nsp13428L428FCttTtt11B.1.4590.004082
ORF1ab/nsp13428L428FCttTtt11B.1.4660.023256
ORF1ab/nsp13428L428FCttTtt11B.1.5560.007519
ORF1ab/nsp13428L428FCttTtt11B.1.5600.00463
ORF1ab/nsp13428L428FCttTtt11B.1.5650.00081
ORF1ab/nsp13428L428NCTtAAt11B.1.5770.000687
ORF1ab/nsp13428L428YCTtTAt11B.1.5770.000687
ORF1ab/nsp13428L428FCttTtt11B.1.5800.004065
ORF1ab/nsp13428L428FCttTtt11B.1.5950.000261
ORF1ab/nsp13428L428FCttTtt11B.1.595.30.026316
ORF1ab/nsp13428L428PcTtcCt11B.1.5960.000087
ORF1ab/nsp13428L428FCttTtt11B.1.617.10.000129
ORF1ab/nsp13428L428delCTT---11B.1.617.20.000004
ORF1ab/nsp13428L428FCttTtt11B.1.6210.000089
ORF1ab/nsp13428L428delCTT---11B.1.6300.005236
ORF1ab/nsp13428L428FCttTtt11B.1.6360.006711
ORF1ab/nsp13428L428FCttTtt11B.1.80.001972
ORF1ab/nsp13428L428FCttTtt11B.1.810.021277
ORF1ab/nsp13428L428LctTctC11B.1.90.006173
ORF1ab/nsp13428L428FCttTtt11B.370.028571
ORF1ab/nsp13428L428FCttTtt11B.4.10.018868
ORF1ab/nsp13428L428FCttTtt11B.4.50.011905
ORF1ab/nsp13428L428FCttTtt11B.60.00091
ORF1ab/nsp13428L428FCttTtt11C.36.30.000567
ORF1ab/nsp13428L428FCttTtt11C.370.000116
ORF1ab/nsp13428L428LctTctC11D.20.000075
ORF1ab/nsp13428L428FCttTtt11D.30.005917
ORF1ab/nsp13428L428LctTctC11P.10.000016
ORF1ab/nsp13428L428LctTctC11P.1.120.000484
ORF1ab/nsp13428L428FCttTtt11P.1.150.000232
ORF1ab/nsp13428L428FCttTtt11P.1.70.000319
ORF1ab/nsp13428L428del1cTtc-t11Q.20.000613
ORF1ab/nsp13428L428FCttTtt11Q.30.000145
ORF1ab/nsp13428L428delCTT---11U.30.003861

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.