CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1244 & Codon = Ttt

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/nsp31244L1244FL2062FnonsynCttTtt8852885216449-6451

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/nsp31244L1244FCttTtt88528852All0.001693
ORF1ab/nsp31244L1244FCttTtt19861986B.1.617.20.007478
ORF1ab/nsp31244L1244FCttTtt10211021AY.610.106978
ORF1ab/nsp31244L1244FCttTtt929929B.1.1.70.000832
ORF1ab/nsp31244L1244FCttTtt567567B.1.10.010286
ORF1ab/nsp31244L1244FCttTtt542542B.1.1.2980.467241
ORF1ab/nsp31244L1244FCttTtt488488AY.40.00076
ORF1ab/nsp31244L1244FCttTtt210210AY.250.001263
ORF1ab/nsp31244L1244FCttTtt186186AY.75.10.033538
ORF1ab/nsp31244L1244FCttTtt181181B.1.1600.005645
ORF1ab/nsp31244L1244FCttTtt127127AY.1030.000789
ORF1ab/nsp31244L1244FCttTtt124124B.1.20.001092
ORF1ab/nsp31244L1244FCttTtt101101AY.430.000447
ORF1ab/nsp31244L1244FCttTtt9898B.1.4680.56
ORF1ab/nsp31244L1244FCttTtt9797B.10.000888
ORF1ab/nsp31244L1244FCttTtt7373AY.440.000444
ORF1ab/nsp31244L1244FCttTtt7373B.1.2340.009632
ORF1ab/nsp31244L1244FCttTtt7070AY.1180.004385
ORF1ab/nsp31244L1244FCttTtt7070B.1.1770.000922
ORF1ab/nsp31244L1244FCttTtt6969B.1.1260.08801
ORF1ab/nsp31244L1244FCttTtt6565AY.390.001606
ORF1ab/nsp31244L1244FCttTtt5858B.1.1.390.029562
ORF1ab/nsp31244L1244FCttTtt5555P.10.000866
ORF1ab/nsp31244L1244FCttTtt5454AY.30.000537
ORF1ab/nsp31244L1244FCttTtt4848AY.46.20.030496
ORF1ab/nsp31244L1244FCttTtt4444B.1.1.4320.055696
ORF1ab/nsp31244L1244FCttTtt4343AY.260.001217
ORF1ab/nsp31244L1244FCttTtt4141AY.1020.001087
ORF1ab/nsp31244L1244FCttTtt4141AY.470.001275
ORF1ab/nsp31244L1244FCttTtt4040B.1.2430.002783
ORF1ab/nsp31244L1244FCttTtt3939AY.16.10.018327
ORF1ab/nsp31244L1244FCttTtt3838AY.650.020256
ORF1ab/nsp31244L1244FCttTtt3737AY.1200.001376
ORF1ab/nsp31244L1244FCttTtt3636AY.660.038503
ORF1ab/nsp31244L1244FCttTtt3333AY.5.40.009131
ORF1ab/nsp31244L1244FCttTtt3030AY.1190.001059
ORF1ab/nsp31244L1244FCttTtt3030AY.710.014252
ORF1ab/nsp31244L1244FCttTtt2929AY.1160.008317
ORF1ab/nsp31244L1244FCttTtt2828B0.003579
ORF1ab/nsp31244L1244FCttTtt2727AY.200.001049
ORF1ab/nsp31244L1244FCttTtt2727AY.46.40.004442
ORF1ab/nsp31244L1244FCttTtt2626B.1.4290.000612
ORF1ab/nsp31244L1244FCttTtt2525AY.9.20.000918
ORF1ab/nsp31244L1244FCttTtt2424AY.130.003863
ORF1ab/nsp31244L1244FCttTtt2424AY.480.011163
ORF1ab/nsp31244L1244FCttTtt2424AY.750.001345
ORF1ab/nsp31244L1244FCttTtt2424AY.98.10.001162
ORF1ab/nsp31244L1244FCttTtt2323B.1.2580.001531
ORF1ab/nsp31244L1244FCttTtt2020B.1.3510.000595
ORF1ab/nsp31244L1244FCttTtt1919AY.4.2.10.002831
ORF1ab/nsp31244L1244FCttTtt1818AY.100.009539
ORF1ab/nsp31244L1244FCttTtt1818AY.330.001202
ORF1ab/nsp31244L1244FCttTtt1818B.1.1.5190.000715
ORF1ab/nsp31244L1244FCttTtt1818B.1.5260.000423
ORF1ab/nsp31244L1244FCttTtt1515C.370.001741
ORF1ab/nsp31244L1244FCttTtt1313B.1.6280.004581
ORF1ab/nsp31244L1244FCttTtt1212AY.460.001249
ORF1ab/nsp31244L1244FCttTtt1212B.1.36.290.006208
ORF1ab/nsp31244L1244FCttTtt1212B.1.5950.003132
ORF1ab/nsp31244L1244FCttTtt1212B.1.617.10.001548
ORF1ab/nsp31244L1244FCttTtt1111AY.190.012543
ORF1ab/nsp31244L1244FCttTtt1111AY.46.60.000794
ORF1ab/nsp31244L1244FCttTtt1111AY.670.005107
ORF1ab/nsp31244L1244FCttTtt1111B.1.2210.000781
ORF1ab/nsp31244L1244FCttTtt1111B.1.466.20.004304
ORF1ab/nsp31244L1244FCttTtt1111B.1.5880.010009
ORF1ab/nsp31244L1244FCttTtt1111B.1.930.010271
ORF1ab/nsp31244L1244FCttTtt1010AY.1000.00046
ORF1ab/nsp31244L1244FCttTtt1010AY.160.003797
ORF1ab/nsp31244L1244FCttTtt1010B.1.1.630.003858
ORF1ab/nsp31244L1244FCttTtt1010B.1.177.210.000765
ORF1ab/nsp31244L1244FCttTtt1010C.50.909091
ORF1ab/nsp31244L1244FCttTtt99AY.290.000142
ORF1ab/nsp31244L1244FCttTtt99B.1.1.3110.003223
ORF1ab/nsp31244L1244FCttTtt99Q.10.001137
ORF1ab/nsp31244L1244FCttTtt88AY.320.00426
ORF1ab/nsp31244L1244FCttTtt88AY.4.20.000174
ORF1ab/nsp31244L1244FCttTtt88AY.980.000632
ORF1ab/nsp31244L1244FCttTtt88B.1.258.170.000832
ORF1ab/nsp31244L1244FCttTtt88B.1.5960.000697
ORF1ab/nsp31244L1244FCttTtt88C.1.10.615385
ORF1ab/nsp31244L1244FCttTtt77A.210.019391
ORF1ab/nsp31244L1244FCttTtt77AY.1100.000789
ORF1ab/nsp31244L1244FCttTtt77AY.340.000679
ORF1ab/nsp31244L1244FCttTtt77AY.550.006422
ORF1ab/nsp31244L1244FCttTtt77B.1.1.1920.016166
ORF1ab/nsp31244L1244FCttTtt77B.1.1.2220.001428
ORF1ab/nsp31244L1244FCttTtt77B.1.1.4340.00244
ORF1ab/nsp31244L1244FCttTtt66AY.1080.006615
ORF1ab/nsp31244L1244FCttTtt66AY.1170.000507
ORF1ab/nsp31244L1244FCttTtt66AY.450.00073
ORF1ab/nsp31244L1244FCttTtt66AY.5.30.002024
ORF1ab/nsp31244L1244FCttTtt66AY.520.004886
ORF1ab/nsp31244L1244FCttTtt66AY.680.001642
ORF1ab/nsp31244L1244FCttTtt66AY.7.10.000676
ORF1ab/nsp31244L1244FCttTtt66AY.700.001251
ORF1ab/nsp31244L1244FCttTtt66B.1.1.10.00196
ORF1ab/nsp31244L1244FCttTtt66B.1.1.2160.005343
ORF1ab/nsp31244L1244FCttTtt66B.1.1.700.002046
ORF1ab/nsp31244L1244FCttTtt66B.1.5250.000679
ORF1ab/nsp31244L1244FCttTtt66B.1.6210.000531
ORF1ab/nsp31244L1244FCttTtt55AY.1060.001674
ORF1ab/nsp31244L1244FCttTtt55AY.230.000349
ORF1ab/nsp31244L1244FCttTtt55AY.50.000103
ORF1ab/nsp31244L1244FCttTtt55AY.590.002648
ORF1ab/nsp31244L1244FCttTtt55AY.730.003327
ORF1ab/nsp31244L1244FCttTtt55AY.740.000578
ORF1ab/nsp31244L1244FCttTtt55AY.770.005637
ORF1ab/nsp31244L1244FCttTtt55AY.90.000338
ORF1ab/nsp31244L1244FCttTtt55AY.9.10.000419
ORF1ab/nsp31244L1244FCttTtt55B.1.2270.238095
ORF1ab/nsp31244L1244FCttTtt55D.20.000375
ORF1ab/nsp31244L1244FCttTtt44AY.1210.000541
ORF1ab/nsp31244L1244FCttTtt44AY.39.10.000158
ORF1ab/nsp31244L1244FCttTtt44AY.570.002625
ORF1ab/nsp31244L1244FCttTtt44AY.690.000747
ORF1ab/nsp31244L1244FCttTtt44AY.840.00175
ORF1ab/nsp31244L1244FCttTtt44B.1.1.280.001245
ORF1ab/nsp31244L1244FCttTtt44B.1.1.3970.009009
ORF1ab/nsp31244L1244FCttTtt44B.1.177.560.00267
ORF1ab/nsp31244L1244FCttTtt44B.1.177.600.000874
ORF1ab/nsp31244L1244FCttTtt44B.1.2670.074074
ORF1ab/nsp31244L1244FCttTtt44B.1.5820.001963
ORF1ab/nsp31244L1244FCttTtt44B.1.6370.000292
ORF1ab/nsp31244L1244FCttTtt44W.40.005405
ORF1ab/nsp31244L1244FCttTtt33AY.10.001187
ORF1ab/nsp31244L1244FCttTtt33AY.1110.000549
ORF1ab/nsp31244L1244FCttTtt33AY.360.000445
ORF1ab/nsp31244L1244FCttTtt33AY.4.50.000322
ORF1ab/nsp31244L1244FCttTtt33AY.410.000882
ORF1ab/nsp31244L1244FCttTtt33AY.420.000121
ORF1ab/nsp31244L1244FCttTtt33AY.540.000286
ORF1ab/nsp31244L1244FCttTtt33AY.620.001307
ORF1ab/nsp31244L1244FCttTtt33B.1.1.330.001263
ORF1ab/nsp31244L1244FCttTtt33B.1.1.4480.006098
ORF1ab/nsp31244L1244FCttTtt33B.1.177.520.005272
ORF1ab/nsp31244L1244FCttTtt33B.1.3600.037975
ORF1ab/nsp31244L1244FCttTtt33B.1.4700.004213
ORF1ab/nsp31244L1244FCttTtt33B.1.6090.001438
ORF1ab/nsp31244L1244FCttTtt33B.1.6250.007059
ORF1ab/nsp31244L1244FCttTtt33C.37.10.007853
ORF1ab/nsp31244L1244FCttTtt33P.1.140.000143
ORF1ab/nsp31244L1244FCttTtt33P.20.00056
ORF1ab/nsp31244L1244FCttTtt33Q.80.000495
ORF1ab/nsp31244L1244FCttTtt22A0.000774
ORF1ab/nsp31244L1244FCttTtt22A.30.004193
ORF1ab/nsp31244L1244FCttTtt22AE.80.000978
ORF1ab/nsp31244L1244FCttTtt22AY.1130.000285
ORF1ab/nsp31244L1244FCttTtt22AY.140.000176
ORF1ab/nsp31244L1244FCttTtt22AY.270.000129
ORF1ab/nsp31244L1244FCttTtt22AY.500.001599
ORF1ab/nsp31244L1244FCttTtt22AY.70.000392
ORF1ab/nsp31244L1244FCttTtt22AY.920.000575
ORF1ab/nsp31244L1244FCttTtt22B.1.1.2690.002706
ORF1ab/nsp31244L1244FCttTtt22B.1.1.2720.010417
ORF1ab/nsp31244L1244FCttTtt22B.1.1.4160.00181
ORF1ab/nsp31244L1244FCttTtt22B.1.1.4200.002012
ORF1ab/nsp31244L1244FCttTtt22B.1.1690.029851
ORF1ab/nsp31244L1244FCttTtt22B.1.177.580.002663
ORF1ab/nsp31244L1244FCttTtt22B.1.177.810.000379
ORF1ab/nsp31244L1244FCttTtt22B.1.214.20.001199
ORF1ab/nsp31244L1244FCttTtt22B.1.2370.00995
ORF1ab/nsp31244L1244FCttTtt22B.1.30.005236
ORF1ab/nsp31244L1244FCttTtt22B.1.360.000292
ORF1ab/nsp31244L1244FCttTtt22B.1.36.180.00084
ORF1ab/nsp31244L1244FCttTtt22B.1.4090.001563
ORF1ab/nsp31244L1244FCttTtt22B.1.438.10.000215
ORF1ab/nsp31244L1244FCttTtt22B.1.438.20.038462
ORF1ab/nsp31244L1244FCttTtt22B.1.5650.001621
ORF1ab/nsp31244L1244FCttTtt22P.1.170.000324
ORF1ab/nsp31244L1244FCttTtt22Q.30.00029
ORF1ab/nsp31244L1244FCttTtt22R.10.00018
ORF1ab/nsp31244L1244FCttTtt11A.2.20.001689
ORF1ab/nsp31244L1244FCttTtt11A.50.001923
ORF1ab/nsp31244L1244FCttTtt11AY.1010.00049
ORF1ab/nsp31244L1244FCttTtt11AY.1040.001984
ORF1ab/nsp31244L1244FCttTtt11AY.1050.000643
ORF1ab/nsp31244L1244FCttTtt11AY.1150.005208
ORF1ab/nsp31244L1244FCttTtt11AY.116.10.000311
ORF1ab/nsp31244L1244FCttTtt11AY.120.000316
ORF1ab/nsp31244L1244FCttTtt11AY.120.10.000321
ORF1ab/nsp31244L1244FCttTtt11AY.120.20.001285
ORF1ab/nsp31244L1244FCttTtt11AY.210.001898
ORF1ab/nsp31244L1244FCttTtt11AY.220.002092
ORF1ab/nsp31244L1244FCttTtt11AY.3.10.000085
ORF1ab/nsp31244L1244FCttTtt11AY.370.000316
ORF1ab/nsp31244L1244FCttTtt11AY.380.000499
ORF1ab/nsp31244L1244FCttTtt11AY.46.10.001027
ORF1ab/nsp31244L1244FCttTtt11AY.490.003195
ORF1ab/nsp31244L1244FCttTtt11AY.510.000909
ORF1ab/nsp31244L1244FCttTtt11AY.560.001605
ORF1ab/nsp31244L1244FCttTtt11AY.60.000041
ORF1ab/nsp31244L1244FCttTtt11AY.7.20.000559
ORF1ab/nsp31244L1244FCttTtt11AY.720.001361
ORF1ab/nsp31244L1244FCttTtt11AY.830.001724
ORF1ab/nsp31244L1244FCttTtt11AY.850.000427
ORF1ab/nsp31244L1244FCttTtt11AY.880.000884
ORF1ab/nsp31244L1244FCttTtt11AY.99.20.000092
ORF1ab/nsp31244L1244FCttTtt11B.1.1.130.035714
ORF1ab/nsp31244L1244FCttTtt11B.1.1.1570.000913
ORF1ab/nsp31244L1244FCttTtt11B.1.1.1640.005155
ORF1ab/nsp31244L1244FCttTtt11B.1.1.1700.001247
ORF1ab/nsp31244L1244FCttTtt11B.1.1.1720.018182
ORF1ab/nsp31244L1244FCttTtt11B.1.1.1740.003378
ORF1ab/nsp31244L1244FCttTtt11B.1.1.1860.003436
ORF1ab/nsp31244L1244FCttTtt11B.1.1.2140.000055
ORF1ab/nsp31244L1244FCttTtt11B.1.1.250.000569
ORF1ab/nsp31244L1244FCttTtt11B.1.1.2840.000107
ORF1ab/nsp31244L1244FCttTtt11B.1.1.3510.002793
ORF1ab/nsp31244L1244FCttTtt11B.1.1.3540.004386
ORF1ab/nsp31244L1244FCttTtt11B.1.1.3690.000446
ORF1ab/nsp31244L1244FCttTtt11B.1.1.3720.000689
ORF1ab/nsp31244L1244FCttTtt11B.1.1.4090.002833
ORF1ab/nsp31244L1244FCttTtt11B.1.1.5170.006803
ORF1ab/nsp31244L1244FCttTtt11B.1.1.540.003021
ORF1ab/nsp31244L1244FCttTtt11B.1.160.160.000929
ORF1ab/nsp31244L1244FCttTtt11B.1.177.150.000631
ORF1ab/nsp31244L1244FCttTtt11B.1.177.200.001517
ORF1ab/nsp31244L1244FCttTtt11B.1.177.230.003236
ORF1ab/nsp31244L1244FCttTtt11B.1.177.460.000918
ORF1ab/nsp31244L1244FCttTtt11B.1.177.470.012987
ORF1ab/nsp31244L1244FCttTtt11B.1.177.630.002703
ORF1ab/nsp31244L1244FCttTtt11B.1.177.70.000165
ORF1ab/nsp31244L1244FCttTtt11B.1.177.80.000752
ORF1ab/nsp31244L1244FCttTtt11B.1.2060.000816
ORF1ab/nsp31244L1244FCttTtt11B.1.221.30.000833
ORF1ab/nsp31244L1244FCttTtt11B.1.2400.000216
ORF1ab/nsp31244L1244FCttTtt11B.1.2500.014493
ORF1ab/nsp31244L1244FCttTtt11B.1.258.70.001912
ORF1ab/nsp31244L1244FCttTtt11B.1.351.20.000303
ORF1ab/nsp31244L1244FCttTtt11B.1.36.10.00114
ORF1ab/nsp31244L1244FCttTtt11B.1.36.160.001425
ORF1ab/nsp31244L1244FCttTtt11B.1.36.170.000494
ORF1ab/nsp31244L1244FCttTtt11B.1.36.220.001208
ORF1ab/nsp31244L1244FCttTtt11B.1.3670.000792
ORF1ab/nsp31244L1244FCttTtt11B.1.3690.000285
ORF1ab/nsp31244L1244FCttTtt11B.1.3780.006849
ORF1ab/nsp31244L1244FCttTtt11B.1.4000.000429
ORF1ab/nsp31244L1244FCttTtt11B.1.4160.001269
ORF1ab/nsp31244L1244FCttTtt11B.1.4280.00102
ORF1ab/nsp31244L1244FCttTtt11B.1.4330.003195
ORF1ab/nsp31244L1244FCttTtt11B.1.4620.007246
ORF1ab/nsp31244L1244FCttTtt11B.1.4800.002488
ORF1ab/nsp31244L1244FCttTtt11B.1.4970.000315
ORF1ab/nsp31244L1244FCttTtt11B.1.5090.000866
ORF1ab/nsp31244L1244FCttTtt11B.1.5170.000427
ORF1ab/nsp31244L1244FCttTtt11B.1.5230.002451
ORF1ab/nsp31244L1244FCttTtt11B.1.5440.006024
ORF1ab/nsp31244L1244FCttTtt11B.1.5510.00129
ORF1ab/nsp31244L1244FCttTtt11B.1.5600.00463
ORF1ab/nsp31244L1244FCttTtt11B.1.5680.001111
ORF1ab/nsp31244L1244FCttTtt11B.1.5890.007576
ORF1ab/nsp31244L1244FCttTtt11B.1.6010.030303
ORF1ab/nsp31244L1244FCttTtt11B.1.6030.010638
ORF1ab/nsp31244L1244FCttTtt11B.1.90.006173
ORF1ab/nsp31244L1244FCttTtt11B.350.007812
ORF1ab/nsp31244L1244FCttTtt11C.350.000774
ORF1ab/nsp31244L1244FCttTtt11C.360.000911
ORF1ab/nsp31244L1244FCttTtt11N.30.005814
ORF1ab/nsp31244L1244FCttTtt11N.40.004255
ORF1ab/nsp31244L1244FCttTtt11P.1.150.000232
ORF1ab/nsp31244L1244FCttTtt11P.1.70.000319
ORF1ab/nsp31244L1244FCttTtt11Q.20.000613

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.