CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp10 : CodonNum = 48

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/nsp1048H48HH4301HsyncaCcaT1535315353113166-13168
ORF1ab/nsp1048H48YH4301YnonsynCacTac952952113166-13168
ORF1ab/nsp1048H48RH4301RnonsyncAccGc3636113166-13168
ORF1ab/nsp1048H48delH4301deldelCAC---1414113166-13168
ORF1ab/nsp1048H48NH4301NnonsynCacAac88113166-13168
ORF1ab/nsp1048H48LH4301LnonsyncACcTT44113166-13168
ORF1ab/nsp1048H48QH4301QnonsyncaCcaA320.66666713166-13168
ORF1ab/nsp1048H48QH4301QnonsyncaCcaG310.33333313166-13168
ORF1ab/nsp1048H48KH4301KnonsynCaCAaA22113166-13168
ORF1ab/nsp1048H48del2H4301del2delCAC--T22113166-13168
ORF1ab/nsp1048H48PH4301PnonsyncACcCT22113166-13168
ORF1ab/nsp1048H48SH4301SnonsynCAcAGc11113166-13168

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/nsp1048H48HcaCcaT1535315353All0.002936
ORF1ab/nsp1048H48HcaCcaT70087008AY.1210.948309
ORF1ab/nsp1048H48HcaCcaT51905190B.1.617.20.019543
ORF1ab/nsp1048H48YCacTac952952All0.000182
ORF1ab/nsp1048H48YCacTac465465B.1.617.20.001751
ORF1ab/nsp1048H48HcaCcaT426426AY.430.001887
ORF1ab/nsp1048H48YCacTac244244AY.610.025566
ORF1ab/nsp1048H48HcaCcaT185185AY.390.004572
ORF1ab/nsp1048H48HcaCcaT162162B.1.1.70.000145
ORF1ab/nsp1048H48HcaCcaT144144AY.1200.005354
ORF1ab/nsp1048H48HcaCcaT134134AY.1050.086174
ORF1ab/nsp1048H48HcaCcaT128128AY.440.000779
ORF1ab/nsp1048H48HcaCcaT128128AY.750.007171
ORF1ab/nsp1048H48HcaCcaT125125AY.1020.003314
ORF1ab/nsp1048H48HcaCcaT108108AY.1030.000671
ORF1ab/nsp1048H48HcaCcaT103103B.1.36.120.990385
ORF1ab/nsp1048H48HcaCcaT8383AY.420.003339
ORF1ab/nsp1048H48HcaCcaT8181AY.330.005409
ORF1ab/nsp1048H48HcaCcaT6666AY.40.000103
ORF1ab/nsp1048H48HcaCcaT6666AY.98.10.003196
ORF1ab/nsp1048H48HcaCcaT6565AY.46.20.041296
ORF1ab/nsp1048H48HcaCcaT5252B.1.1.1771
ORF1ab/nsp1048H48HcaCcaT5151AY.980.004029
ORF1ab/nsp1048H48HcaCcaT5050AY.1170.004226
ORF1ab/nsp1048H48HcaCcaT4848AY.470.001493
ORF1ab/nsp1048H48HcaCcaT4545AY.340.004363
ORF1ab/nsp1048H48HcaCcaT4545B.1.5250.005092
ORF1ab/nsp1048H48HcaCcaT4444AY.690.008214
ORF1ab/nsp1048H48RcAccGc3636All0.000007
ORF1ab/nsp1048H48HcaCcaT3636AY.250.000217
ORF1ab/nsp1048H48HcaCcaT3535AY.1060.011721
ORF1ab/nsp1048H48HcaCcaT3333AY.450.004016
ORF1ab/nsp1048H48YCacTac3333B.1.1.70.00003
ORF1ab/nsp1048H48HcaCcaT3232AY.34.10.016318
ORF1ab/nsp1048H48HcaCcaT2626AY.230.001813
ORF1ab/nsp1048H48HcaCcaT2525B.10.000229
ORF1ab/nsp1048H48HcaCcaT2424AY.50.000496
ORF1ab/nsp1048H48HcaCcaT2121AY.1180.001316
ORF1ab/nsp1048H48HcaCcaT1919AY.210.036053
ORF1ab/nsp1048H48HcaCcaT1919AY.840.008311
ORF1ab/nsp1048H48HcaCcaT1818AY.1100.002028
ORF1ab/nsp1048H48HcaCcaT1717AY.5.30.005735
ORF1ab/nsp1048H48HcaCcaT1616AY.120.10.005136
ORF1ab/nsp1048H48YCacTac1515AY.75.10.002705
ORF1ab/nsp1048H48delCAC---1414All0.000003
ORF1ab/nsp1048H48HcaCcaT1414AY.460.001457
ORF1ab/nsp1048H48HcaCcaT1414AY.920.004022
ORF1ab/nsp1048H48HcaCcaT1313AY.1190.000459
ORF1ab/nsp1048H48YCacTac1313AY.3.10.001108
ORF1ab/nsp1048H48HcaCcaT1313B.1.1.5190.000516
ORF1ab/nsp1048H48HcaCcaT1313B.1.20.000114
ORF1ab/nsp1048H48YCacTac1313B.1.4000.005577
ORF1ab/nsp1048H48HcaCcaT1212AY.120.003793
ORF1ab/nsp1048H48HcaCcaT1212AY.320.00639
ORF1ab/nsp1048H48HcaCcaT1212AY.770.013529
ORF1ab/nsp1048H48HcaCcaT1212P.10.000189
ORF1ab/nsp1048H48YCacTac1111AY.100.005829
ORF1ab/nsp1048H48RcAccGc1010AY.1130.001424
ORF1ab/nsp1048H48HcaCcaT1010AY.290.000158
ORF1ab/nsp1048H48YCacTac1010AY.40.000016
ORF1ab/nsp1048H48YCacTac1010AY.420.000402
ORF1ab/nsp1048H48HcaCcaT1010AY.46.40.001645
ORF1ab/nsp1048H48HcaCcaT1010AY.70.00196
ORF1ab/nsp1048H48HcaCcaT1010AY.780.015408
ORF1ab/nsp1048H48HcaCcaT1010AY.930.002731
ORF1ab/nsp1048H48HcaCcaT99AY.1000.000414
ORF1ab/nsp1048H48HcaCcaT99AY.4.50.000967
ORF1ab/nsp1048H48NCacAac88All0.000002
ORF1ab/nsp1048H48YCacTac88AY.130.001288
ORF1ab/nsp1048H48YCacTac88AY.710.0038
ORF1ab/nsp1048H48HcaCcaT88AY.740.000925
ORF1ab/nsp1048H48HcaCcaT88AY.9.20.000294
ORF1ab/nsp1048H48HcaCcaT88AY.900.005476
ORF1ab/nsp1048H48YCacTac88B.10.000073
ORF1ab/nsp1048H48YCacTac88B.1.20.00007
ORF1ab/nsp1048H48HcaCcaT77AY.1110.001282
ORF1ab/nsp1048H48HcaCcaT77AY.1160.002007
ORF1ab/nsp1048H48YCacTac77AY.30.00007
ORF1ab/nsp1048H48HcaCcaT77AY.410.002058
ORF1ab/nsp1048H48HcaCcaT77AY.820.009498
ORF1ab/nsp1048H48HcaCcaT77AY.950.005327
ORF1ab/nsp1048H48YCacTac77B.1.1.2140.000388
ORF1ab/nsp1048H48HcaCcaT66AY.130.000966
ORF1ab/nsp1048H48HcaCcaT66AY.140.000528
ORF1ab/nsp1048H48HcaCcaT66AY.3.10.000512
ORF1ab/nsp1048H48HcaCcaT66AY.46.10.00616
ORF1ab/nsp1048H48HcaCcaT66AY.99.20.000553
ORF1ab/nsp1048H48RcAccGc66B.1.1.70.000005
ORF1ab/nsp1048H48YCacTac66B.1.36.380.009852
ORF1ab/nsp1048H48HcaCcaT66B.1.4290.000141
ORF1ab/nsp1048H48HcaCcaT66C.370.000696
ORF1ab/nsp1048H48HcaCcaT55AY.1080.005513
ORF1ab/nsp1048H48YCacTac55AY.440.00003
ORF1ab/nsp1048H48HcaCcaT55AY.710.002375
ORF1ab/nsp1048H48HcaCcaT55AY.880.004421
ORF1ab/nsp1048H48HcaCcaT55AY.910.003652
ORF1ab/nsp1048H48HcaCcaT55AY.990.005247
ORF1ab/nsp1048H48HcaCcaT55B.1.10.000091
ORF1ab/nsp1048H48HcaCcaT55B.1.1600.000156
ORF1ab/nsp1048H48HcaCcaT55B.1.177.560.003338
ORF1ab/nsp1048H48LcACcTT440.222222
ORF1ab/nsp1048H48LcACcTT44All0.000001
ORF1ab/nsp1048H48YCacTac44AY.1030.000025
ORF1ab/nsp1048H48HcaCcaT44AY.1040.007937
ORF1ab/nsp1048H48HcaCcaT44AY.110.005355
ORF1ab/nsp1048H48HcaCcaT44AY.270.000259
ORF1ab/nsp1048H48HcaCcaT44AY.400.003857
ORF1ab/nsp1048H48HcaCcaT44AY.510.003636
ORF1ab/nsp1048H48HcaCcaT44AY.800.004515
ORF1ab/nsp1048H48HcaCcaT44AY.860.00332
ORF1ab/nsp1048H48HcaCcaT44B.1.1770.000053
ORF1ab/nsp1048H48YCacTac44B.1.5260.000094
ORF1ab/nsp1048H48HcaCcaT44B.1.5260.000094
ORF1ab/nsp1048H48RcAccGc44C.370.000464
ORF1ab/nsp1048H48HcaCcaT33A.2.50.001497
ORF1ab/nsp1048H48QcaCcaA23All0
ORF1ab/nsp1048H48QcaCcaG13All0
ORF1ab/nsp1048H48YCacTac33AY.1080.003308
ORF1ab/nsp1048H48HcaCcaT33AY.1140.000693
ORF1ab/nsp1048H48HcaCcaT33AY.170.02459
ORF1ab/nsp1048H48HcaCcaT33AY.30.00003
ORF1ab/nsp1048H48YCacTac33AY.470.000093
ORF1ab/nsp1048H48HcaCcaT33AY.5.40.00083
ORF1ab/nsp1048H48HcaCcaT33AY.620.001307
ORF1ab/nsp1048H48HcaCcaT33AY.870.002498
ORF1ab/nsp1048H48RcAccGc33AY.980.000237
ORF1ab/nsp1048H48delCAC---33B.1.1.70.000003
ORF1ab/nsp1048H48RcAccGc33B.1.20.000026
ORF1ab/nsp1048H48HcaCcaT33B.1.5950.000783
ORF1ab/nsp1048H48HcaCcaT33B.1.5960.000261
ORF1ab/nsp1048H48HcaCcaT33B.1.617.10.000387
ORF1ab/nsp1048H48YCacTac33B.1.6370.000219
ORF1ab/nsp1048H48YCacTac33C.370.000348
ORF1ab/nsp1048H48YCacTac33P.10.000047
ORF1ab/nsp1048H48HcaCcaT33P.1.140.000143
ORF1ab/nsp1048H48PcACcCT220.111111
ORF1ab/nsp1048H48KCaCAaA220.111111
ORF1ab/nsp1048H48del2CAC--T220.111111
ORF1ab/nsp1048H48PcACcCT22All0
ORF1ab/nsp1048H48del2CAC--T22All0
ORF1ab/nsp1048H48KCaCAaA22All0
ORF1ab/nsp1048H48YCacTac22AY.190.002281
ORF1ab/nsp1048H48HcaCcaT22AY.190.002281
ORF1ab/nsp1048H48HcaCcaT22AY.200.000078
ORF1ab/nsp1048H48HcaCcaT22AY.260.000057
ORF1ab/nsp1048H48HcaCcaT22AY.350.000466
ORF1ab/nsp1048H48HcaCcaT22AY.360.000296
ORF1ab/nsp1048H48RcAccGc22AY.40.000003
ORF1ab/nsp1048H48YCacTac22AY.4.20.000043
ORF1ab/nsp1048H48YCacTac22AY.410.000588
ORF1ab/nsp1048H48NCacAac22AY.430.000009
ORF1ab/nsp1048H48YCacTac22AY.430.000009
ORF1ab/nsp1048H48HcaCcaT22AY.46.60.000144
ORF1ab/nsp1048H48HcaCcaT22AY.500.001599
ORF1ab/nsp1048H48HcaCcaT22AY.520.001629
ORF1ab/nsp1048H48YCacTac22AY.540.000191
ORF1ab/nsp1048H48HcaCcaT22AY.60.000082
ORF1ab/nsp1048H48HcaCcaT22AY.640.00119
ORF1ab/nsp1048H48HcaCcaT22AY.670.000929
ORF1ab/nsp1048H48HcaCcaT22AY.75.10.000361
ORF1ab/nsp1048H48HcaCcaT22AY.830.003448
ORF1ab/nsp1048H48HcaCcaT22AY.9.10.000167
ORF1ab/nsp1048H48YCacTac22AY.980.000158
ORF1ab/nsp1048H48HcaCcaT22B0.000256
ORF1ab/nsp1048H48YCacTac22B.1.10.000036
ORF1ab/nsp1048H48YCacTac22B.1.1.2080.02439
ORF1ab/nsp1048H48YCacTac22B.1.1.2910.001485
ORF1ab/nsp1048H48YCacTac22B.1.1.5230.003125
ORF1ab/nsp1048H48YCacTac22B.1.1770.000026
ORF1ab/nsp1048H48delCAC---22B.1.1770.000026
ORF1ab/nsp1048H48YCacTac22B.1.2210.000142
ORF1ab/nsp1048H48HcaCcaT22B.1.2580.000133
ORF1ab/nsp1048H48YCacTac22B.1.3490.00143
ORF1ab/nsp1048H48HcaCcaT22B.1.3510.000059
ORF1ab/nsp1048H48HcaCcaT22B.1.3690.00057
ORF1ab/nsp1048H48HcaCcaT22B.1.4270.000101
ORF1ab/nsp1048H48YCacTac22B.1.4290.000047
ORF1ab/nsp1048H48HcaCcaT22B.1.4780.023529
ORF1ab/nsp1048H48HcaCcaT22B.1.6230.001073
ORF1ab/nsp1048H48HcaCcaT22P.70.008734
ORF1ab/nsp1048H48YCacTac11AD.20.000219
ORF1ab/nsp1048H48HcaCcaT11AE.80.000489
ORF1ab/nsp1048H48SCAcAGc11All0
ORF1ab/nsp1048H48HcaCcaT11AY.1010.00049
ORF1ab/nsp1048H48NCacAac11AY.1020.000027
ORF1ab/nsp1048H48NCacAac11AY.1030.000006
ORF1ab/nsp1048H48HcaCcaT11AY.1090.00074
ORF1ab/nsp1048H48HcaCcaT11AY.1130.000142
ORF1ab/nsp1048H48HcaCcaT11AY.116.10.000311
ORF1ab/nsp1048H48YCacTac11AY.1180.000063
ORF1ab/nsp1048H48YCacTac11AY.1190.000035
ORF1ab/nsp1048H48YCacTac11AY.250.000006
ORF1ab/nsp1048H48delCAC---11AY.250.000006
ORF1ab/nsp1048H48RcAccGc11AY.260.000028
ORF1ab/nsp1048H48YCacTac11AY.290.000016
ORF1ab/nsp1048H48HcaCcaT11AY.29.10.000221
ORF1ab/nsp1048H48YCacTac11AY.330.000067
ORF1ab/nsp1048H48HcaCcaT11AY.370.000316
ORF1ab/nsp1048H48NCacAac11AY.390.000025
ORF1ab/nsp1048H48HcaCcaT11AY.39.10.00004
ORF1ab/nsp1048H48delCAC---11AY.40.000002
ORF1ab/nsp1048H48HcaCcaT11AY.4.2.10.000149
ORF1ab/nsp1048H48HcaCcaT11AY.4.30.000842
ORF1ab/nsp1048H48QcaCcaA11AY.430.000004
ORF1ab/nsp1048H48SCAcAGc11AY.440.000006
ORF1ab/nsp1048H48RcAccGc11AY.46.60.000072
ORF1ab/nsp1048H48YCacTac11AY.480.000465
ORF1ab/nsp1048H48YCacTac11AY.50.000021
ORF1ab/nsp1048H48YCacTac11AY.500.000799
ORF1ab/nsp1048H48HcaCcaT11AY.540.000095
ORF1ab/nsp1048H48HcaCcaT11AY.550.000917
ORF1ab/nsp1048H48HcaCcaT11AY.570.000656
ORF1ab/nsp1048H48HcaCcaT11AY.580.000907
ORF1ab/nsp1048H48HcaCcaT11AY.590.00053
ORF1ab/nsp1048H48delCAC---11AY.600.000938
ORF1ab/nsp1048H48HcaCcaT11AY.660.00107
ORF1ab/nsp1048H48YCacTac11AY.670.000464
ORF1ab/nsp1048H48NCacAac11AY.690.000187
ORF1ab/nsp1048H48HcaCcaT11AY.7.10.000113
ORF1ab/nsp1048H48HcaCcaT11AY.700.000209
ORF1ab/nsp1048H48delCAC---11AY.720.001361
ORF1ab/nsp1048H48HcaCcaT11AY.730.000665
ORF1ab/nsp1048H48YCacTac11AY.750.000056
ORF1ab/nsp1048H48HcaCcaT11AY.80.000606
ORF1ab/nsp1048H48YCacTac11AY.840.000437
ORF1ab/nsp1048H48NCacAac11AY.850.000427
ORF1ab/nsp1048H48YCacTac11AY.90.000068
ORF1ab/nsp1048H48YCacTac11AY.920.000287
ORF1ab/nsp1048H48HcaCcaT11AY.960.002075
ORF1ab/nsp1048H48HcaCcaT11AY.99.10.001553
ORF1ab/nsp1048H48YCacTac11AY.99.20.000092
ORF1ab/nsp1048H48NCacAac11B.10.000009
ORF1ab/nsp1048H48QcaCcaG11B.10.000009
ORF1ab/nsp1048H48delCAC---11B.1.1.10.000327
ORF1ab/nsp1048H48HcaCcaT11B.1.1.2220.000204
ORF1ab/nsp1048H48HcaCcaT11B.1.1.2310.003096
ORF1ab/nsp1048H48HcaCcaT11B.1.1.2430.004082
ORF1ab/nsp1048H48HcaCcaT11B.1.1.2690.001353
ORF1ab/nsp1048H48HcaCcaT11B.1.1.280.000311
ORF1ab/nsp1048H48HcaCcaT11B.1.1.2840.000107
ORF1ab/nsp1048H48YCacTac11B.1.1.2840.000107
ORF1ab/nsp1048H48YCacTac11B.1.1.3170.000412
ORF1ab/nsp1048H48delCAC---11B.1.1.3480.000796
ORF1ab/nsp1048H48RcAccGc11B.1.1.3720.000689
ORF1ab/nsp1048H48HcaCcaT11B.1.1.390.00051
ORF1ab/nsp1048H48RcAccGc11B.1.1.470.005348
ORF1ab/nsp1048H48YCacTac11B.1.1.5190.00004
ORF1ab/nsp1048H48HcaCcaT11B.1.1.700.000341
ORF1ab/nsp1048H48YCacTac11B.1.1.890.006061
ORF1ab/nsp1048H48HcaCcaT11B.1.1110.001175
ORF1ab/nsp1048H48YCacTac11B.1.1180.006711
ORF1ab/nsp1048H48HcaCcaT11B.1.1570.002985
ORF1ab/nsp1048H48HcaCcaT11B.1.160.320.004292
ORF1ab/nsp1048H48QcaCcaA11B.1.1770.000013
ORF1ab/nsp1048H48RcAccGc11B.1.1770.000013
ORF1ab/nsp1048H48HcaCcaT11B.1.177.40.000211
ORF1ab/nsp1048H48HcaCcaT11B.1.177.810.000189
ORF1ab/nsp1048H48delCAC---11B.1.177.830.001481
ORF1ab/nsp1048H48delCAC---11B.1.20.000009
ORF1ab/nsp1048H48HcaCcaT11B.1.2060.000816
ORF1ab/nsp1048H48HcaCcaT11B.1.2100.002132
ORF1ab/nsp1048H48HcaCcaT11B.1.214.20.0006
ORF1ab/nsp1048H48HcaCcaT11B.1.2340.000132
ORF1ab/nsp1048H48HcaCcaT11B.1.2390.001221
ORF1ab/nsp1048H48HcaCcaT11B.1.2400.000216
ORF1ab/nsp1048H48HcaCcaT11B.1.2410.000812
ORF1ab/nsp1048H48YCacTac11B.1.258.110.000396
ORF1ab/nsp1048H48YCacTac11B.1.2650.001271
ORF1ab/nsp1048H48HcaCcaT11B.1.2840.013158
ORF1ab/nsp1048H48HcaCcaT11B.1.3010.005917
ORF1ab/nsp1048H48YCacTac11B.1.3510.00003
ORF1ab/nsp1048H48HcaCcaT11B.1.351.30.000876
ORF1ab/nsp1048H48HcaCcaT11B.1.36.160.001425
ORF1ab/nsp1048H48RcAccGc11B.1.3890.001002
ORF1ab/nsp1048H48YCacTac11B.1.438.10.000107
ORF1ab/nsp1048H48HcaCcaT11B.1.4560.003268
ORF1ab/nsp1048H48YCacTac11B.1.5250.000113
ORF1ab/nsp1048H48RcAccGc11B.1.5260.000024
ORF1ab/nsp1048H48HcaCcaT11B.1.5760.000907
ORF1ab/nsp1048H48YCacTac11B.1.5950.000261
ORF1ab/nsp1048H48HcaCcaT11B.1.6120.002653
ORF1ab/nsp1048H48RcAccGc11B.1.617.20.000004
ORF1ab/nsp1048H48YCacTac11B.1.6210.000089
ORF1ab/nsp1048H48HcaCcaT11B.1.6210.000089
ORF1ab/nsp1048H48HcaCcaT11B.290.003509
ORF1ab/nsp1048H48HcaCcaT11B.3.10.001658
ORF1ab/nsp1048H48YCacTac11B.400.000364
ORF1ab/nsp1048H48HcaCcaT11C.180.002591
ORF1ab/nsp1048H48HcaCcaT11N.50.001767
ORF1ab/nsp1048H48delCAC---11P.10.000016
ORF1ab/nsp1048H48HcaCcaT11P.1.10.000318
ORF1ab/nsp1048H48HcaCcaT11P.1.20.001156
ORF1ab/nsp1048H48HcaCcaT11P.1.70.000319
ORF1ab/nsp1048H48YCacTac11P.20.000187
ORF1ab/nsp1048H48YCacTac11Q.30.000145
ORF1ab/nsp1048H48HcaCcaT11Q.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.