CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp6 : CodonNum = 290

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/nsp6290Q290HQ3859HnonsyncaGcaT9129000.98684211840-11842
ORF1ab/nsp6290Q290HQ3859HnonsyncaGcaC912120.013157911840-11842
ORF1ab/nsp6290Q290QQ3859QsyncaGcaA828828111840-11842
ORF1ab/nsp6290Q290XQ3859XnonsynCagTag28260.92857111840-11842
ORF1ab/nsp6290Q290XQ3859XnonsynCAGTGA2820.071428611840-11842
ORF1ab/nsp6290Q290delQ3859deldelCAG---1313111840-11842
ORF1ab/nsp6290Q290KQ3859KnonsynCagAag77111840-11842
ORF1ab/nsp6290Q290EQ3859EnonsynCagGag44111840-11842
ORF1ab/nsp6290Q290RQ3859RnonsyncAgcGg44111840-11842
ORF1ab/nsp6290Q290YQ3859YnonsynCaGTaT22111840-11842
ORF1ab/nsp6290Q290del1Q3859del1delcAgc-g210.511840-11842
ORF1ab/nsp6290Q290del1Q3859del1delCag-ag210.511840-11842
ORF1ab/nsp6290Q290LQ3859LnonsyncAGcTC11111840-11842
ORF1ab/nsp6290Q290VQ3859VnonsynCAgGTg11111840-11842
ORF1ab/nsp6290Q290GQ3859GnonsynCAgGGg11111840-11842
ORF1ab/nsp6290Q290TQ3859TnonsynCAgACg11111840-11842

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/nsp6290Q290HcaGcaT900912All0.000172
ORF1ab/nsp6290Q290HcaGcaC12912All0.000002
ORF1ab/nsp6290Q290QcaGcaA828828All0.000158
ORF1ab/nsp6290Q290QcaGcaA477477B.1.2360.979466
ORF1ab/nsp6290Q290HcaGcaT8080AY.40.000125
ORF1ab/nsp6290Q290QcaGcaA6363AY.40.000098
ORF1ab/nsp6290Q290HcaGcaT5860B.1.20.000511
ORF1ab/nsp6290Q290HcaGcaC260B.1.20.000018
ORF1ab/nsp6290Q290HcaGcaT5858B.1.617.20.000218
ORF1ab/nsp6290Q290HcaGcaT4848B.1.1.70.000043
ORF1ab/nsp6290Q290HcaGcaT4646AY.1020.00122
ORF1ab/nsp6290Q290HcaGcaT4040AY.370.012642
ORF1ab/nsp6290Q290HcaGcaT3939AY.470.001213
ORF1ab/nsp6290Q290HcaGcaT3538AY.430.000155
ORF1ab/nsp6290Q290HcaGcaC338AY.430.000013
ORF1ab/nsp6290Q290HcaGcaT3434AY.1030.000211
ORF1ab/nsp6290Q290HcaGcaT3434AY.440.000207
ORF1ab/nsp6290Q290QcaGcaA3131AY.430.000137
ORF1ab/nsp6290Q290QcaGcaA3131B.1.1180.208054
ORF1ab/nsp6290Q290QcaGcaA3030B.1.1.70.000027
ORF1ab/nsp6290Q290XCagTag2628All0.000005
ORF1ab/nsp6290Q290XCAGTGA228All0
ORF1ab/nsp6290Q290QcaGcaA2525B.1.1580.595238
ORF1ab/nsp6290Q290HcaGcaT2424AY.50.000496
ORF1ab/nsp6290Q290HcaGcaT2323B.1.1600.000717
ORF1ab/nsp6290Q290HcaGcaT2222B.1.6210.001947
ORF1ab/nsp6290Q290QcaGcaA2020B.1.10.000363
ORF1ab/nsp6290Q290HcaGcaT1919B.1.4290.000447
ORF1ab/nsp6290Q290HcaGcaT1818AY.1180.001128
ORF1ab/nsp6290Q290HcaGcaT1818AY.30.000179
ORF1ab/nsp6290Q290HcaGcaT1515B.1.1.130.535714
ORF1ab/nsp6290Q290HcaGcaT1515B.1.177.110.025467
ORF1ab/nsp6290Q290HcaGcaT1414B.1.1.4811
ORF1ab/nsp6290Q290QcaGcaA1414P.1.40.013672
ORF1ab/nsp6290Q290delCAG---1313All0.000002
ORF1ab/nsp6290Q290HcaGcaT1313AY.420.000523
ORF1ab/nsp6290Q290QcaGcaA1111B.10.000101
ORF1ab/nsp6290Q290HcaGcaT1111B.1.4270.000555
ORF1ab/nsp6290Q290QcaGcaA1111B.1.617.20.000041
ORF1ab/nsp6290Q290HcaGcaT1010AY.250.00006
ORF1ab/nsp6290Q290HcaGcaT1010AY.390.000247
ORF1ab/nsp6290Q290HcaGcaT1010B.10.000092
ORF1ab/nsp6290Q290HcaGcaT1010B.1.1.1640.051546
ORF1ab/nsp6290Q290HcaGcaT1010B.1.177.750.010406
ORF1ab/nsp6290Q290QcaGcaA99AZ.10.007806
ORF1ab/nsp6290Q290QcaGcaA88AY.1030.00005
ORF1ab/nsp6290Q290HcaGcaT88AY.98.10.000387
ORF1ab/nsp6290Q290HcaGcaT88B.1.5870.01518
ORF1ab/nsp6290Q290KCagAag77All0.000001
ORF1ab/nsp6290Q290QcaGcaA77AY.1100.000789
ORF1ab/nsp6290Q290QcaGcaA77AY.250.000042
ORF1ab/nsp6290Q290QcaGcaA77AY.440.000043
ORF1ab/nsp6290Q290QcaGcaA77B.1.20.000062
ORF1ab/nsp6290Q290QcaGcaA66AY.1210.000812
ORF1ab/nsp6290Q290HcaGcaT66AY.7.10.000676
ORF1ab/nsp6290Q290HcaGcaT66AY.880.005305
ORF1ab/nsp6290Q290QcaGcaA66B.1.177.430.008863
ORF1ab/nsp6290Q290HcaGcaT66B.1.5960.000523
ORF1ab/nsp6290Q290HcaGcaT55AY.4.20.000108
ORF1ab/nsp6290Q290HcaGcaT55AY.99.20.000461
ORF1ab/nsp6290Q290HcaGcaT55B.1.10.000091
ORF1ab/nsp6290Q290HcaGcaT55B.1.1770.000066
ORF1ab/nsp6290Q290HcaGcaC55B.1.177.570.001405
ORF1ab/nsp6290Q290HcaGcaT55B.1.360.00073
ORF1ab/nsp6290Q290QcaGcaA55B.1.5960.000436
ORF1ab/nsp6290Q290HcaGcaT55R.10.00045
ORF1ab/nsp6290Q290RcAgcGg44All0.000001
ORF1ab/nsp6290Q290ECagGag44All0.000001
ORF1ab/nsp6290Q290HcaGcaT44AY.230.000279
ORF1ab/nsp6290Q290XCagTag44B.1.1.70.000004
ORF1ab/nsp6290Q290HcaGcaT44B.1.240.10.1
ORF1ab/nsp6290Q290HcaGcaT44B.1.2430.000278
ORF1ab/nsp6290Q290XCagTag44D.20.0003
ORF1ab/nsp6290Q290HcaGcaT34D.20.000225
ORF1ab/nsp6290Q290HcaGcaC14D.20.000075
ORF1ab/nsp6290Q290QcaGcaA44P.10.000063
ORF1ab/nsp6290Q290HcaGcaT44P.40.015209
ORF1ab/nsp6290Q290HcaGcaT33A.280.007937
ORF1ab/nsp6290Q290QcaGcaA33AY.160.001139
ORF1ab/nsp6290Q290HcaGcaT33AY.39.20.004622
ORF1ab/nsp6290Q290delCAG---33B.10.000027
ORF1ab/nsp6290Q290HcaGcaT33B.1.1.10.00098
ORF1ab/nsp6290Q290QcaGcaA33B.1.1.460.0131
ORF1ab/nsp6290Q290XCagTag23B.1.20.000018
ORF1ab/nsp6290Q290XCAGTGA13B.1.20.000009
ORF1ab/nsp6290Q290HcaGcaT33B.1.2210.000213
ORF1ab/nsp6290Q290HcaGcaT33P.10.000047
ORF1ab/nsp6290Q290KCagAag220.111111
ORF1ab/nsp6290Q290YCaGTaT220.111111
ORF1ab/nsp6290Q290YCaGTaT22All0
ORF1ab/nsp6290Q290del1cAgc-g12All0
ORF1ab/nsp6290Q290del1Cag-ag12All0
ORF1ab/nsp6290Q290HcaGcaT22AY.1130.000285
ORF1ab/nsp6290Q290HcaGcaT22AY.1140.000462
ORF1ab/nsp6290Q290HcaGcaT22AY.1160.000574
ORF1ab/nsp6290Q290HcaGcaT22AY.1170.000169
ORF1ab/nsp6290Q290QcaGcaA22AY.1190.000071
ORF1ab/nsp6290Q290HcaGcaT22AY.1200.000074
ORF1ab/nsp6290Q290HcaGcaT22AY.120.10.000642
ORF1ab/nsp6290Q290QcaGcaA22AY.230.000139
ORF1ab/nsp6290Q290ECagGag22AY.250.000012
ORF1ab/nsp6290Q290HcaGcaT22AY.290.000032
ORF1ab/nsp6290Q290HcaGcaT22AY.3.10.000171
ORF1ab/nsp6290Q290HcaGcaT22AY.300.000791
ORF1ab/nsp6290Q290HcaGcaT22AY.330.000134
ORF1ab/nsp6290Q290QcaGcaA22AY.390.000049
ORF1ab/nsp6290Q290XCagTag12AY.440.000006
ORF1ab/nsp6290Q290XCAGTGA12AY.440.000006
ORF1ab/nsp6290Q290HcaGcaT22AY.450.000243
ORF1ab/nsp6290Q290QcaGcaA22AY.50.000041
ORF1ab/nsp6290Q290HcaGcaT22AY.5.40.000553
ORF1ab/nsp6290Q290HcaGcaT22AY.590.001059
ORF1ab/nsp6290Q290HcaGcaT12AY.740.000116
ORF1ab/nsp6290Q290HcaGcaC12AY.740.000116
ORF1ab/nsp6290Q290HcaGcaT22AY.75.10.000361
ORF1ab/nsp6290Q290QcaGcaA22AY.9.20.000073
ORF1ab/nsp6290Q290HcaGcaT22AY.940.000885
ORF1ab/nsp6290Q290HcaGcaT22AY.980.000158
ORF1ab/nsp6290Q290HcaGcaT22B0.000256
ORF1ab/nsp6290Q290XCagTag22B.10.000018
ORF1ab/nsp6290Q290HcaGcaT22B.1.1.3170.000823
ORF1ab/nsp6290Q290HcaGcaT22B.1.1.370.000386
ORF1ab/nsp6290Q290HcaGcaT22B.1.1.5280.009615
ORF1ab/nsp6290Q290KCagAag22B.1.1.70.000002
ORF1ab/nsp6290Q290XCagTag22B.1.1770.000026
ORF1ab/nsp6290Q290QcaGcaA22B.1.1770.000026
ORF1ab/nsp6290Q290QcaGcaA22B.1.2210.000142
ORF1ab/nsp6290Q290HcaGcaT22B.1.2580.000133
ORF1ab/nsp6290Q290QcaGcaA22B.1.351.50.001199
ORF1ab/nsp6290Q290QcaGcaA22B.1.36.390.004435
ORF1ab/nsp6290Q290QcaGcaA22B.1.617.10.000258
ORF1ab/nsp6290Q290HcaGcaT22Q.10.000253
ORF1ab/nsp6290Q290delCAG---11A0.000387
ORF1ab/nsp6290Q290GCAgGGg11All0
ORF1ab/nsp6290Q290TCAgACg11All0
ORF1ab/nsp6290Q290VCAgGTg11All0
ORF1ab/nsp6290Q290LcAGcTC11All0
ORF1ab/nsp6290Q290HcaGcaT11AY.1000.000046
ORF1ab/nsp6290Q290HcaGcaT11AY.1070.000466
ORF1ab/nsp6290Q290HcaGcaT11AY.1100.000113
ORF1ab/nsp6290Q290HcaGcaT11AY.1150.005208
ORF1ab/nsp6290Q290HcaGcaT11AY.1190.000035
ORF1ab/nsp6290Q290ECagGag11AY.1190.000035
ORF1ab/nsp6290Q290HcaGcaT11AY.1210.000135
ORF1ab/nsp6290Q290HcaGcaT11AY.200.000039
ORF1ab/nsp6290Q290delCAG---11AY.250.000006
ORF1ab/nsp6290Q290HcaGcaT11AY.260.000028
ORF1ab/nsp6290Q290HcaGcaT11AY.270.000065
ORF1ab/nsp6290Q290HcaGcaT11AY.29.10.000221
ORF1ab/nsp6290Q290QcaGcaA11AY.30.00001
ORF1ab/nsp6290Q290HcaGcaT11AY.320.000532
ORF1ab/nsp6290Q290HcaGcaT11AY.340.000097
ORF1ab/nsp6290Q290HcaGcaT11AY.360.000148
ORF1ab/nsp6290Q290GCAgGGg11AY.39.10.00004
ORF1ab/nsp6290Q290HcaGcaT11AY.4.50.000107
ORF1ab/nsp6290Q290delCAG---11AY.4.50.000107
ORF1ab/nsp6290Q290RcAgcGg11AY.440.000006
ORF1ab/nsp6290Q290QcaGcaA11AY.450.000122
ORF1ab/nsp6290Q290HcaGcaT11AY.460.000104
ORF1ab/nsp6290Q290QcaGcaA11AY.46.20.000635
ORF1ab/nsp6290Q290HcaGcaT11AY.46.60.000072
ORF1ab/nsp6290Q290QcaGcaA11AY.540.000095
ORF1ab/nsp6290Q290QcaGcaA11AY.550.000917
ORF1ab/nsp6290Q290HcaGcaT11AY.610.000105
ORF1ab/nsp6290Q290delCAG---11AY.7.20.000559
ORF1ab/nsp6290Q290HcaGcaT11AY.710.000475
ORF1ab/nsp6290Q290QcaGcaA11AY.850.000427
ORF1ab/nsp6290Q290HcaGcaT11AY.870.000833
ORF1ab/nsp6290Q290XCagTag11AY.90.000068
ORF1ab/nsp6290Q290HcaGcaT11AY.9.10.000084
ORF1ab/nsp6290Q290QcaGcaA11AY.98.10.000048
ORF1ab/nsp6290Q290RcAgcGg11B.10.000009
ORF1ab/nsp6290Q290KCagAag11B.10.000009
ORF1ab/nsp6290Q290delCAG---11B.1.10.000018
ORF1ab/nsp6290Q290HcaGcaT11B.1.1.3180.000302
ORF1ab/nsp6290Q290QcaGcaA11B.1.1.5190.00004
ORF1ab/nsp6290Q290delCAG---11B.1.1.70.000001
ORF1ab/nsp6290Q290TCAgACg11B.1.1.70.000001
ORF1ab/nsp6290Q290del1Cag-ag11B.1.1.70.000001
ORF1ab/nsp6290Q290HcaGcaT11B.1.1280.000635
ORF1ab/nsp6290Q290HcaGcaT11B.1.1570.002985
ORF1ab/nsp6290Q290QcaGcaA11B.1.1600.000031
ORF1ab/nsp6290Q290XCagTag11B.1.1600.000031
ORF1ab/nsp6290Q290HcaGcaT11B.1.160.260.002421
ORF1ab/nsp6290Q290HcaGcaT11B.1.177.160.000664
ORF1ab/nsp6290Q290QcaGcaA11B.1.177.230.003236
ORF1ab/nsp6290Q290HcaGcaT11B.1.177.440.000519
ORF1ab/nsp6290Q290HcaGcaT11B.1.177.630.002703
ORF1ab/nsp6290Q290delCAG---11B.1.177.730.000566
ORF1ab/nsp6290Q290RcAgcGg11B.1.177.820.000477
ORF1ab/nsp6290Q290KCagAag11B.1.2580.000067
ORF1ab/nsp6290Q290QcaGcaA11B.1.2580.000067
ORF1ab/nsp6290Q290HcaGcaT11B.1.258.100.011364
ORF1ab/nsp6290Q290XCagTag11B.1.3110.000275
ORF1ab/nsp6290Q290HcaGcaT11B.1.3200.001245
ORF1ab/nsp6290Q290HcaGcaT11B.1.3240.001605
ORF1ab/nsp6290Q290XCagTag11B.1.3380.008621
ORF1ab/nsp6290Q290RcAgcGg11B.1.3510.00003
ORF1ab/nsp6290Q290delCAG---11B.1.3510.00003
ORF1ab/nsp6290Q290QcaGcaA11B.1.3510.00003
ORF1ab/nsp6290Q290HcaGcaT11B.1.351.50.0006
ORF1ab/nsp6290Q290HcaGcaT11B.1.36.290.000517
ORF1ab/nsp6290Q290XCagTag11B.1.36.290.000517
ORF1ab/nsp6290Q290QcaGcaA11B.1.36.310.001751
ORF1ab/nsp6290Q290QcaGcaA11B.1.3670.000792
ORF1ab/nsp6290Q290HcaGcaT11B.1.3690.000285
ORF1ab/nsp6290Q290XCagTag11B.1.3690.000285
ORF1ab/nsp6290Q290QcaGcaA11B.1.3690.000285
ORF1ab/nsp6290Q290XCagTag11B.1.3960.000706
ORF1ab/nsp6290Q290QcaGcaA11B.1.4040.001302
ORF1ab/nsp6290Q290QcaGcaA11B.1.4290.000024
ORF1ab/nsp6290Q290HcaGcaT11B.1.4530.003236
ORF1ab/nsp6290Q290QcaGcaA11B.1.466.20.000391
ORF1ab/nsp6290Q290XCagTag11B.1.4850.014925
ORF1ab/nsp6290Q290XCagTag11B.1.5210.004975
ORF1ab/nsp6290Q290HcaGcaT11B.1.5610.000397
ORF1ab/nsp6290Q290HcaGcaT11B.1.5640.000426
ORF1ab/nsp6290Q290XCagTag11B.1.5900.004545
ORF1ab/nsp6290Q290QcaGcaA11B.1.5950.000261
ORF1ab/nsp6290Q290LcAGcTC11B.1.617.20.000004
ORF1ab/nsp6290Q290delCAG---11B.1.617.20.000004
ORF1ab/nsp6290Q290QcaGcaA11B.1.6200.000946
ORF1ab/nsp6290Q290del1cAgc-g11B.1.6370.000073
ORF1ab/nsp6290Q290HcaGcaT11B.1.6370.000073
ORF1ab/nsp6290Q290XCagTag11B.1.6370.000073
ORF1ab/nsp6290Q290HcaGcaT11B.30.000831
ORF1ab/nsp6290Q290KCagAag11B.400.000364
ORF1ab/nsp6290Q290HcaGcaT11B.450.003831
ORF1ab/nsp6290Q290HcaGcaT11C.350.000774
ORF1ab/nsp6290Q290QcaGcaA11C.360.000911
ORF1ab/nsp6290Q290delCAG---11N.40.004255
ORF1ab/nsp6290Q290HcaGcaT11N.50.001767
ORF1ab/nsp6290Q290VCAgGTg11P.10.000016
ORF1ab/nsp6290Q290ECagGag11P.10.000016
ORF1ab/nsp6290Q290HcaGcaT11P.20.000187
ORF1ab/nsp6290Q290QcaGcaA11P.20.000187
ORF1ab/nsp6290Q290HcaGcaT11Q.30.000145
ORF1ab/nsp6290Q290QcaGcaA11Q.80.000165

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.