CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : Mut = A416A

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/nsp4416A416AA3179AsyngcGgcT998794010.9413249800-9802
ORF1ab/nsp4416A416AA3179AsyngcGgcA99875520.05527199800-9802
ORF1ab/nsp4416A416AA3179AsyngcGgcC9987340.003404439800-9802

Details of the mutation A416A within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp4416A416AgcGgcT94019987All0.001798
ORF1ab/nsp4416A416AgcGgcA5529987All0.000106
ORF1ab/nsp4416A416AgcGgcC349987All0.000007
ORF1ab/nsp4416A416AgcGgcT20072065AY.40.003124
ORF1ab/nsp4416A416AgcGgcA582065AY.40.00009
ORF1ab/nsp4416A416AgcGgcT19211925B.1.10.034849
ORF1ab/nsp4416A416AgcGgcA41925B.1.10.000073
ORF1ab/nsp4416A416AgcGgcT15671634B.1.1.70.001403
ORF1ab/nsp4416A416AgcGgcA651634B.1.1.70.000058
ORF1ab/nsp4416A416AgcGgcC21634B.1.1.70.000002
ORF1ab/nsp4416A416AgcGgcT11821182B.1.1.3480.941083
ORF1ab/nsp4416A416AgcGgcT388388B.1.1.3070.982278
ORF1ab/nsp4416A416AgcGgcT307307AY.9.20.011276
ORF1ab/nsp4416A416AgcGgcT239271B.1.617.20.0009
ORF1ab/nsp4416A416AgcGgcA31271B.1.617.20.000117
ORF1ab/nsp4416A416AgcGgcC1271B.1.617.20.000004
ORF1ab/nsp4416A416AgcGgcT248259AY.430.001099
ORF1ab/nsp4416A416AgcGgcA11259AY.430.000049
ORF1ab/nsp4416A416AgcGgcA81158AY.250.000487
ORF1ab/nsp4416A416AgcGgcT77158AY.250.000463
ORF1ab/nsp4416A416AgcGgcT95112AY.1030.00059
ORF1ab/nsp4416A416AgcGgcA17112AY.1030.000106
ORF1ab/nsp4416A416AgcGgcT9498AY.30.000935
ORF1ab/nsp4416A416AgcGgcA498AY.30.00004
ORF1ab/nsp4416A416AgcGgcT8489B.10.000769
ORF1ab/nsp4416A416AgcGgcA489B.10.000037
ORF1ab/nsp4416A416AgcGgcC189B.10.000009
ORF1ab/nsp4416A416AgcGgcT7583P.10.001182
ORF1ab/nsp4416A416AgcGgcA883P.10.000126
ORF1ab/nsp4416A416AgcGgcT8181AY.460.00843
ORF1ab/nsp4416A416AgcGgcT5581B.1.1770.000724
ORF1ab/nsp4416A416AgcGgcA2681B.1.1770.000342
ORF1ab/nsp4416A416AgcGgcT5473B.1.20.000475
ORF1ab/nsp4416A416AgcGgcA1973B.1.20.000167
ORF1ab/nsp4416A416AgcGgcT6970AY.290.001088
ORF1ab/nsp4416A416AgcGgcA170AY.290.000016
ORF1ab/nsp4416A416AgcGgcT5765AY.440.000347
ORF1ab/nsp4416A416AgcGgcA865AY.440.000049
ORF1ab/nsp4416A416AgcGgcT3539AY.1020.000928
ORF1ab/nsp4416A416AgcGgcA439AY.1020.000106
ORF1ab/nsp4416A416AgcGgcT3839AY.360.005632
ORF1ab/nsp4416A416AgcGgcA139AY.360.000148
ORF1ab/nsp4416A416AgcGgcT3031AY.330.002003
ORF1ab/nsp4416A416AgcGgcA131AY.330.000067
ORF1ab/nsp4416A416AgcGgcA1830B.1.1.4340.006274
ORF1ab/nsp4416A416AgcGgcT1230B.1.1.4340.004183
ORF1ab/nsp4416A416AgcGgcA2728B.1.2320.014508
ORF1ab/nsp4416A416AgcGgcT128B.1.2320.000537
ORF1ab/nsp4416A416AgcGgcC2428B.1.6370.001754
ORF1ab/nsp4416A416AgcGgcT428B.1.6370.000292
ORF1ab/nsp4416A416AgcGgcT2226B.1.4290.000518
ORF1ab/nsp4416A416AgcGgcA426B.1.4290.000094
ORF1ab/nsp4416A416AgcGgcT2324AY.1000.001058
ORF1ab/nsp4416A416AgcGgcA124AY.1000.000046
ORF1ab/nsp4416A416AgcGgcT2424AY.260.000679
ORF1ab/nsp4416A416AgcGgcT1824B.1.5950.004697
ORF1ab/nsp4416A416AgcGgcA624B.1.5950.001566
ORF1ab/nsp4416A416AgcGgcA1721B.1.2580.001131
ORF1ab/nsp4416A416AgcGgcT421B.1.2580.000266
ORF1ab/nsp4416A416AgcGgcA1221B.1.3510.000357
ORF1ab/nsp4416A416AgcGgcT921B.1.3510.000268
ORF1ab/nsp4416A416AgcGgcT1821B.1.5260.000423
ORF1ab/nsp4416A416AgcGgcA321B.1.5260.000071
ORF1ab/nsp4416A416AgcGgcT1921Q.80.003133
ORF1ab/nsp4416A416AgcGgcA221Q.80.00033
ORF1ab/nsp4416A416AgcGgcA1620AY.470.000498
ORF1ab/nsp4416A416AgcGgcT420AY.470.000124
ORF1ab/nsp4416A416AgcGgcT1919AY.750.001064
ORF1ab/nsp4416A416AgcGgcT1818B.1.4270.000909
ORF1ab/nsp4416A416AgcGgcT1517AY.390.000371
ORF1ab/nsp4416A416AgcGgcA217AY.390.000049
ORF1ab/nsp4416A416AgcGgcT1717AY.5.40.004704
ORF1ab/nsp4416A416AgcGgcA1415AY.540.001335
ORF1ab/nsp4416A416AgcGgcT115AY.540.000095
ORF1ab/nsp4416A416AgcGgcA1115B.1.5960.000959
ORF1ab/nsp4416A416AgcGgcT415B.1.5960.000349
ORF1ab/nsp4416A416AgcGgcT1314AY.270.000841
ORF1ab/nsp4416A416AgcGgcA114AY.270.000065
ORF1ab/nsp4416A416AgcGgcT1414AY.50.000289
ORF1ab/nsp4416A416AgcGgcT1112AY.420.000443
ORF1ab/nsp4416A416AgcGgcA112AY.420.00004
ORF1ab/nsp4416A416AgcGgcT1212B.1.1.440.028916
ORF1ab/nsp4416A416AgcGgcT811AY.60.000329
ORF1ab/nsp4416A416AgcGgcA311AY.60.000123
ORF1ab/nsp4416A416AgcGgcT1111B.1.1600.000343
ORF1ab/nsp4416A416AgcGgcT1010P.1.150.002323
ORF1ab/nsp4416A416AgcGgcT99B.1.1.1890.013616
ORF1ab/nsp4416A416AgcGgcT89B.1.1.5190.000318
ORF1ab/nsp4416A416AgcGgcA19B.1.1.5190.00004
ORF1ab/nsp4416A416AgcGgcT88AY.10.003166
ORF1ab/nsp4416A416AgcGgcT78AY.98.10.000339
ORF1ab/nsp4416A416AgcGgcA18AY.98.10.000048
ORF1ab/nsp4416A416AgcGgcA77AY.1130.000997
ORF1ab/nsp4416A416AgcGgcA57AY.1180.000313
ORF1ab/nsp4416A416AgcGgcT27AY.1180.000125
ORF1ab/nsp4416A416AgcGgcT57AY.200.000194
ORF1ab/nsp4416A416AgcGgcA17AY.200.000039
ORF1ab/nsp4416A416AgcGgcC17AY.200.000039
ORF1ab/nsp4416A416AgcGgcT47AY.340.000388
ORF1ab/nsp4416A416AgcGgcA37AY.340.000291
ORF1ab/nsp4416A416AgcGgcT57AY.46.60.000361
ORF1ab/nsp4416A416AgcGgcA27AY.46.60.000144
ORF1ab/nsp4416A416AgcGgcT77B.1.177.830.01037
ORF1ab/nsp4416A416AgcGgcT67B.1.360.000875
ORF1ab/nsp4416A416AgcGgcA17B.1.360.000146
ORF1ab/nsp4416A416AgcGgcT77B.1.617.10.000903
ORF1ab/nsp4416A416AgcGgcT67B.1.6210.000531
ORF1ab/nsp4416A416AgcGgcA17B.1.6210.000089
ORF1ab/nsp4416A416AgcGgcT57C.370.00058
ORF1ab/nsp4416A416AgcGgcA27C.370.000232
ORF1ab/nsp4416A416AgcGgcT460.222222
ORF1ab/nsp4416A416AgcGgcC260.111111
ORF1ab/nsp4416A416AgcGgcA66A.121
ORF1ab/nsp4416A416AgcGgcT66AY.1200.000223
ORF1ab/nsp4416A416AgcGgcT66B.1.1.2140.000333
ORF1ab/nsp4416A416AgcGgcT66B.1.1.330.002525
ORF1ab/nsp4416A416AgcGgcT66B.1.177.810.001136
ORF1ab/nsp4416A416AgcGgcT55AY.1170.000423
ORF1ab/nsp4416A416AgcGgcT35AY.1190.000106
ORF1ab/nsp4416A416AgcGgcA25AY.1190.000071
ORF1ab/nsp4416A416AgcGgcT55AY.1210.000677
ORF1ab/nsp4416A416AgcGgcA35AY.4.20.000065
ORF1ab/nsp4416A416AgcGgcT25AY.4.20.000043
ORF1ab/nsp4416A416AgcGgcT45AY.610.000419
ORF1ab/nsp4416A416AgcGgcA15AY.610.000105
ORF1ab/nsp4416A416AgcGgcT55B.1.1.1580.060976
ORF1ab/nsp4416A416AgcGgcT55B.1.1.2220.00102
ORF1ab/nsp4416A416AgcGgcT45B.1.1.280.001245
ORF1ab/nsp4416A416AgcGgcA15B.1.1.280.000311
ORF1ab/nsp4416A416AgcGgcT55B.1.1.370.000964
ORF1ab/nsp4416A416AgcGgcT55B.1.1.4090.014164
ORF1ab/nsp4416A416AgcGgcT55B.1.1110.005875
ORF1ab/nsp4416A416AgcGgcT55B.1.3670.003962
ORF1ab/nsp4416A416AgcGgcA55B.1.3690.001426
ORF1ab/nsp4416A416AgcGgcT44AY.1110.000733
ORF1ab/nsp4416A416AgcGgcT44AY.230.000279
ORF1ab/nsp4416A416AgcGgcT44AY.450.000487
ORF1ab/nsp4416A416AgcGgcT44AY.46.30.003735
ORF1ab/nsp4416A416AgcGgcT34AY.46.50.000595
ORF1ab/nsp4416A416AgcGgcA14AY.46.50.000198
ORF1ab/nsp4416A416AgcGgcT44AY.920.001149
ORF1ab/nsp4416A416AgcGgcT44B.1.1.1530.004381
ORF1ab/nsp4416A416AgcGgcT44B.1.1.4170.010811
ORF1ab/nsp4416A416AgcGgcT44B.1.1470.003023
ORF1ab/nsp4416A416AgcGgcT34B.1.2430.000209
ORF1ab/nsp4416A416AgcGgcA14B.1.2430.00007
ORF1ab/nsp4416A416AgcGgcT44C.36.30.002269
ORF1ab/nsp4416A416AgcGgcT33AY.1080.003308
ORF1ab/nsp4416A416AgcGgcT33AY.140.000264
ORF1ab/nsp4416A416AgcGgcT33AY.23.10.001252
ORF1ab/nsp4416A416AgcGgcT33AY.39.10.000119
ORF1ab/nsp4416A416AgcGgcT33AY.480.001395
ORF1ab/nsp4416A416AgcGgcT23AY.70.000392
ORF1ab/nsp4416A416AgcGgcA13AY.70.000196
ORF1ab/nsp4416A416AgcGgcT33AY.840.001312
ORF1ab/nsp4416A416AgcGgcT33AY.90.000203
ORF1ab/nsp4416A416AgcGgcT33B0.000383
ORF1ab/nsp4416A416AgcGgcT33B.1.1.1800.032258
ORF1ab/nsp4416A416AgcGgcT33B.1.1.2690.00406
ORF1ab/nsp4416A416AgcGgcT33B.1.1.390.001529
ORF1ab/nsp4416A416AgcGgcT33B.1.1.4640.004418
ORF1ab/nsp4416A416AgcGgcT33B.1.1.4860.004732
ORF1ab/nsp4416A416AgcGgcT33B.1.177.40.000633
ORF1ab/nsp4416A416AgcGgcT33B.1.2210.000213
ORF1ab/nsp4416A416AgcGgcT33B.1.5010.022059
ORF1ab/nsp4416A416AgcGgcT33B.1.5700.008824
ORF1ab/nsp4416A416AgcGgcT33B.1.6260.017143
ORF1ab/nsp4416A416AgcGgcT22A0.000774
ORF1ab/nsp4416A416AgcGgcT22AY.1060.00067
ORF1ab/nsp4416A416AgcGgcT12AY.1160.000287
ORF1ab/nsp4416A416AgcGgcA12AY.1160.000287
ORF1ab/nsp4416A416AgcGgcT22AY.210.003795
ORF1ab/nsp4416A416AgcGgcC22AY.34.10.00102
ORF1ab/nsp4416A416AgcGgcT22AY.5.30.000675
ORF1ab/nsp4416A416AgcGgcA12AY.75.10.00018
ORF1ab/nsp4416A416AgcGgcT12AY.75.10.00018
ORF1ab/nsp4416A416AgcGgcT22AY.9.2.10.003953
ORF1ab/nsp4416A416AgcGgcT22B.1.1.1740.006757
ORF1ab/nsp4416A416AgcGgcT22B.1.1.3050.007722
ORF1ab/nsp4416A416AgcGgcT22B.1.1.3260.003521
ORF1ab/nsp4416A416AgcGgcT22B.1.1.3540.008772
ORF1ab/nsp4416A416AgcGgcT22B.1.1.3920.105263
ORF1ab/nsp4416A416AgcGgcT22B.1.1.4160.00181
ORF1ab/nsp4416A416AgcGgcT22B.1.1.4480.004065
ORF1ab/nsp4416A416AgcGgcT22B.1.1.4620.017241
ORF1ab/nsp4416A416AgcGgcT22B.1.177.600.000437
ORF1ab/nsp4416A416AgcGgcT22B.1.2340.000264
ORF1ab/nsp4416A416AgcGgcA12B.1.258.170.000104
ORF1ab/nsp4416A416AgcGgcT12B.1.258.170.000104
ORF1ab/nsp4416A416AgcGgcT12B.1.2790.000514
ORF1ab/nsp4416A416AgcGgcA12B.1.2790.000514
ORF1ab/nsp4416A416AgcGgcT22B.1.2930.025
ORF1ab/nsp4416A416AgcGgcT22B.1.3500.005865
ORF1ab/nsp4416A416AgcGgcT22B.1.4050.024691
ORF1ab/nsp4416A416AgcGgcT22B.1.4530.006472
ORF1ab/nsp4416A416AgcGgcT22B.1.466.20.000782
ORF1ab/nsp4416A416AgcGgcT22B.1.4700.002809
ORF1ab/nsp4416A416AgcGgcT22B.1.5400.019417
ORF1ab/nsp4416A416AgcGgcT22B.1.5750.000607
ORF1ab/nsp4416A416AgcGgcT22B.1.6090.000959
ORF1ab/nsp4416A416AgcGgcT22B.1.621.10.001012
ORF1ab/nsp4416A416AgcGgcT22C.350.001548
ORF1ab/nsp4416A416AgcGgcT22N.50.003534
ORF1ab/nsp4416A416AgcGgcT12P.1.140.000048
ORF1ab/nsp4416A416AgcGgcA12P.1.140.000048
ORF1ab/nsp4416A416AgcGgcT22P.20.000373
ORF1ab/nsp4416A416AgcGgcT11A.2.50.000499
ORF1ab/nsp4416A416AgcGgcT11AD.20.000219
ORF1ab/nsp4416A416AgcGgcT11AY.1010.00049
ORF1ab/nsp4416A416AgcGgcA11AY.1050.000643
ORF1ab/nsp4416A416AgcGgcT11AY.1100.000113
ORF1ab/nsp4416A416AgcGgcA11AY.120.2.10.000498
ORF1ab/nsp4416A416AgcGgcT11AY.130.000161
ORF1ab/nsp4416A416AgcGgcT11AY.160.00038
ORF1ab/nsp4416A416AgcGgcA11AY.29.10.000221
ORF1ab/nsp4416A416AgcGgcT11AY.350.000233
ORF1ab/nsp4416A416AgcGgcA11AY.400.000964
ORF1ab/nsp4416A416AgcGgcT11AY.410.000294
ORF1ab/nsp4416A416AgcGgcT11AY.46.20.000635
ORF1ab/nsp4416A416AgcGgcT11AY.46.40.000165
ORF1ab/nsp4416A416AgcGgcT11AY.550.000917
ORF1ab/nsp4416A416AgcGgcT11AY.640.000595
ORF1ab/nsp4416A416AgcGgcT11AY.680.000274
ORF1ab/nsp4416A416AgcGgcT11AY.7.10.000113
ORF1ab/nsp4416A416AgcGgcT11AY.7.20.000559
ORF1ab/nsp4416A416AgcGgcT11AY.710.000475
ORF1ab/nsp4416A416AgcGgcT11AY.730.000665
ORF1ab/nsp4416A416AgcGgcT11AY.860.00083
ORF1ab/nsp4416A416AgcGgcT11AY.880.000884
ORF1ab/nsp4416A416AgcGgcT11AY.890.004902
ORF1ab/nsp4416A416AgcGgcT11AY.9.10.000084
ORF1ab/nsp4416A416AgcGgcT11AY.980.000079
ORF1ab/nsp4416A416AgcGgcT11B.1.1.10.000327
ORF1ab/nsp4416A416AgcGgcT11B.1.1.100.001115
ORF1ab/nsp4416A416AgcGgcT11B.1.1.1980.001468
ORF1ab/nsp4416A416AgcGgcT11B.1.1.2000.007463
ORF1ab/nsp4416A416AgcGgcA11B.1.1.2160.00089
ORF1ab/nsp4416A416AgcGgcT11B.1.1.2200.001859
ORF1ab/nsp4416A416AgcGgcT11B.1.1.2320.001815
ORF1ab/nsp4416A416AgcGgcA11B.1.1.2410.00207
ORF1ab/nsp4416A416AgcGgcT11B.1.1.2530.002506
ORF1ab/nsp4416A416AgcGgcT11B.1.1.2970.002237
ORF1ab/nsp4416A416AgcGgcT11B.1.1.3010.001179
ORF1ab/nsp4416A416AgcGgcT11B.1.1.3180.000302
ORF1ab/nsp4416A416AgcGgcA11B.1.1.3490.010309
ORF1ab/nsp4416A416AgcGgcT11B.1.1.3750.011905
ORF1ab/nsp4416A416AgcGgcT11B.1.1.3980.003226
ORF1ab/nsp4416A416AgcGgcT11B.1.1.4040.015873
ORF1ab/nsp4416A416AgcGgcT11B.1.1.4420.018519
ORF1ab/nsp4416A416AgcGgcA11B.1.1.460.004367
ORF1ab/nsp4416A416AgcGgcT11B.1.1.480.002874
ORF1ab/nsp4416A416AgcGgcA11B.1.1.500.000679
ORF1ab/nsp4416A416AgcGgcT11B.1.1.510.001718
ORF1ab/nsp4416A416AgcGgcT11B.1.1.5140.038462
ORF1ab/nsp4416A416AgcGgcA11B.1.1.700.000341
ORF1ab/nsp4416A416AgcGgcT11B.1.1.710.006061
ORF1ab/nsp4416A416AgcGgcT11B.1.1.890.006061
ORF1ab/nsp4416A416AgcGgcT11B.1.160.160.000929
ORF1ab/nsp4416A416AgcGgcT11B.1.177.190.001431
ORF1ab/nsp4416A416AgcGgcT11B.1.177.210.000076
ORF1ab/nsp4416A416AgcGgcA11B.1.177.350.000691
ORF1ab/nsp4416A416AgcGgcA11B.1.177.440.000519
ORF1ab/nsp4416A416AgcGgcT11B.1.177.570.000281
ORF1ab/nsp4416A416AgcGgcT11B.1.177.820.000477
ORF1ab/nsp4416A416AgcGgcA11B.1.2140.003663
ORF1ab/nsp4416A416AgcGgcA11B.1.2400.000216
ORF1ab/nsp4416A416AgcGgcT11B.1.2640.012346
ORF1ab/nsp4416A416AgcGgcT11B.1.2980.002114
ORF1ab/nsp4416A416AgcGgcT11B.1.3050.002151
ORF1ab/nsp4416A416AgcGgcT11B.1.3490.000715
ORF1ab/nsp4416A416AgcGgcT11B.1.351.50.0006
ORF1ab/nsp4416A416AgcGgcA11B.1.36.10.00114
ORF1ab/nsp4416A416AgcGgcT11B.1.36.180.00042
ORF1ab/nsp4416A416AgcGgcT11B.1.36.80.001
ORF1ab/nsp4416A416AgcGgcA11B.1.3770.004566
ORF1ab/nsp4416A416AgcGgcT11B.1.3960.000706
ORF1ab/nsp4416A416AgcGgcT11B.1.3990.001934
ORF1ab/nsp4416A416AgcGgcT11B.1.400.019608
ORF1ab/nsp4416A416AgcGgcT11B.1.4110.003704
ORF1ab/nsp4416A416AgcGgcT11B.1.4150.014286
ORF1ab/nsp4416A416AgcGgcT11B.1.4200.010417
ORF1ab/nsp4416A416AgcGgcT11B.1.4330.003195
ORF1ab/nsp4416A416AgcGgcT11B.1.4560.003268
ORF1ab/nsp4416A416AgcGgcA11B.1.5550.022222
ORF1ab/nsp4416A416AgcGgcA11B.1.5880.00091
ORF1ab/nsp4416A416AgcGgcT11B.1.5900.004545
ORF1ab/nsp4416A416AgcGgcT11B.1.596.10.009346
ORF1ab/nsp4416A416AgcGgcT11B.1.5970.00463
ORF1ab/nsp4416A416AgcGgcA11B.1.6280.000352
ORF1ab/nsp4416A416AgcGgcA11B.30.000831
ORF1ab/nsp4416A416AgcGgcT11C.1.20.004255
ORF1ab/nsp4416A416AgcGgcC11D.20.000075
ORF1ab/nsp4416A416AgcGgcT11P.1.160.000374
ORF1ab/nsp4416A416AgcGgcA11P.1.170.000162
ORF1ab/nsp4416A416AgcGgcT11P.1.70.000319
ORF1ab/nsp4416A416AgcGgcT11Q.10.000126

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.