CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 241

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
S241L241deldelTTA---3870838708122283-22285
S241L241LsynTtaCta6615350.8093822283-22285
S241L241LsynttAttG6611260.1906222283-22285
S241L241del1delttAtt-87820.94252922283-22285
S241L241del1delTtANt-8730.034482822283-22285
S241L241del1delTTa-Ca8710.011494322283-22285
S241L241del1delTTA-NN8710.011494322283-22285
S241L241FnonsynttAttT40380.9522283-22285
S241L241FnonsynttAttC4020.0522283-22285
S241L241del2delTTa--a39260.66666722283-22285
S241L241del2delTTA--N39110.28205122283-22285
S241L241del2deltTAt--3920.051282122283-22285
S241L241VnonsynTtaGta3030122283-22285
S241L241SnonsyntTatCa1515122283-22285
S241L241XnonsyntTatAa13100.76923122283-22285
S241L241XnonsyntTatGa1320.15384622283-22285
S241L241XnonsyntTAtAG1310.076923122283-22285
S241L241InonsynTtaAta12110.91666722283-22285
S241L241InonsynTtAAtT1210.083333322283-22285
S241L241KnonsynTTaAAa320.66666722283-22285
S241L241KnonsynTTAAAG310.33333322283-22285
S241L241MnonsynTtAAtG22122283-22285
S241L241NnonsynTTAAAT11122283-22285
S241L241YnonsyntTAtAT11122283-22285
S241L241QnonsynTTaCAa11122283-22285
S241L241WnonsyntTAtGG11122283-22285

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S241L241delTTA---3870838708All0.007403
S241L241delTTA---3021130211B.1.3510.898068
S241L241delTTA---31363136B.1.351.20.948865
S241L241delTTA---13121312B.1.351.50.786571
S241L241delTTA---10401040B.1.351.30.911481
S241L241delTTA---997997B.1.6200.943236
S241L241LTtaCta535661All0.000102
S241L241LttAttG126661All0.000024
S241L241delTTA---567567AY.40.000882
S241L241delTTA---303303B.10.002775
S241L241LTtaCta283283AY.46.60.020435
S241L241delTTA---267267B.1.1.70.000239
S241L241del1ttAtt-8287All0.000016
S241L241del1TtANt-387All0.000001
S241L241del1TTa-Ca187All0
S241L241del1TTA-NN187All0
S241L241del1ttAtt-7476B.1.351.50.044365
S241L241del1TtANt-276B.1.351.50.001199
S241L241LTtaCta5967B.1.1.70.000053
S241L241LttAttG867B.1.1.70.000007
S241L241LttAttG6162AY.390.001507
S241L241LTtaCta162AY.390.000025
S241L241delTTA---5050B.1.617.20.000188
S241L241FttAttT3840All0.000007
S241L241FttAttC240All0
S241L241delTTA---4040AY.430.000177
S241L241del2TTa--a2639All0.000005
S241L241del2TTA--N1139All0.000002
S241L241del2tTAt--239All0
S241L241delTTA---3939AY.250.000235
S241L241delTTA---3737B.1.10.000671
S241L241delTTA---3333AY.440.000201
S241L241LTtaCta3031AY.30.000298
S241L241LttAttG131AY.30.00001
S241L241VTtaGta3030All0.000006
S241L241delTTA---2828AY.1030.000174
S241L241LTtaCta2828AY.39.10.001109
S241L241delTTA---2525B.1.1600.00078
S241L241delTTA---2424B.1.20.000211
S241L241delTTA---2323AY.30.000229
S241L241delTTA---2323B.1.1770.000303
S241L241delTTA---2323B.1.5260.000541
S241L241delTTA---2323P.10.000362
S241L241delTTA---2222C.370.002553
S241L241delTTA---1919AY.1190.000671
S241L241delTTA---1919P.30.030303
S241L241delTTA---1818B.1.4290.000424
S241L241LTtaCta1717AY.1030.000106
S241L241delTTA---1717B.1.6360.114094
S241L241StTatCa1515All0.000003
S241L241XtTatAa1013All0.000002
S241L241XtTatGa213All0
S241L241XtTAtAG113All0
S241L241LTtaCta1313AY.750.000728
S241L241VTtaGta1313B.1.1770.000171
S241L241del2TTa--a813B.1.351.30.007011
S241L241del2TTA--N513B.1.351.30.004382
S241L241ITtaAta1112All0.000002
S241L241ITtAAtT112All0
S241L241delTTA---1212B.1.177.70.001978
S241L241LTtaCta1212B.1.2210.000852
S241L241delTTA---1111AY.260.000311
S241L241delTTA---1010B.1.177.860.001835
S241L241delTTA---1010P.1.150.002323
S241L241delTTA---99AY.230.000628
S241L241LttAttG99AY.290.000142
S241L241delTTA---99B0.00115
S241L241LttAttG79B.1.10.000127
S241L241LTtaCta29B.1.10.000036
S241L241del2TTa--a99B.1.351.50.005396
S241L241delTTA---99B.1.5250.001018
S241L241delTTA---99B.1.5540.039648
S241L241delTTA---88AY.1020.000212
S241L241LTtaCta78AY.430.000031
S241L241LttAttG18AY.430.000004
S241L241delTTA---88B.1.177.730.00453
S241L241LttAttG88B.1.2400.001725
S241L241LTtaCta57AY.420.000201
S241L241LttAttG27AY.420.00008
S241L241delTTA---77AY.50.000145
S241L241delTTA---77AY.560.011236
S241L241delTTA---77AY.750.000392
S241L241delTTA---77AY.98.10.000339
S241L241FttAttT77B.1.20.000062
S241L241LTtaCta67B.1.617.20.000023
S241L241LttAttG17B.1.617.20.000004
S241L241LttAttG46AY.250.000024
S241L241LTtaCta26AY.250.000012
S241L241delTTA---66AY.330.000401
S241L241delTTA---66AY.390.000148
S241L241XtTatAa66AY.40.000009
S241L241delTTA---66AY.4.20.00013
S241L241delTTA---66B.1.5950.001566
S241L241LTtaCta55A.2.5.10.024038
S241L241LTtaCta55AY.1000.00023
S241L241LTtaCta35AY.40.000005
S241L241LttAttG25AY.40.000003
S241L241delTTA---55AY.46.60.000361
S241L241LTtaCta55AY.540.000477
S241L241delTTA---55AY.75.10.000902
S241L241LTtaCta55AY.920.001436
S241L241VTtaGta55B.1.1.70.000004
S241L241FttAttT55B.1.1.70.000004
S241L241LTtaCta45B.1.1770.000053
S241L241LttAttG15B.1.1770.000013
S241L241del2TTa--a45B.1.3510.000119
S241L241del2TTA--N15B.1.3510.00003
S241L241delTTA---44AY.1200.000149
S241L241delTTA---44AY.140.000352
S241L241delTTA---44AY.200.000155
S241L241StTatCa44AY.40.000006
S241L241LTtaCta24AY.440.000012
S241L241LttAttG24AY.440.000012
S241L241LTtaCta44B.10.000037
S241L241delTTA---44B.1.1.4320.005063
S241L241delTTA---44B.1.2580.000266
S241L241delTTA---44B.1.6090.001918
S241L241delTTA---44B.1.6210.000354
S241L241delTTA---44P.50.054795
S241L241KTTaAAa23All0
S241L241KTTAAAG13All0
S241L241delTTA---33AY.10.001187
S241L241delTTA---33AY.1000.000138
S241L241delTTA---33AY.1060.001005
S241L241delTTA---33AY.116.10.000934
S241L241LTtaCta23AY.200.000078
S241L241LttAttG13AY.200.000039
S241L241delTTA---33AY.360.000445
S241L241VTtaGta33AY.40.000005
S241L241del2TTA--N13AY.40.000002
S241L241del2tTAt--13AY.40.000002
S241L241del2TTa--a13AY.40.000002
S241L241delTTA---33AY.4.50.000322
S241L241delTTA---33AY.420.000121
S241L241delTTA---33AY.450.000365
S241L241LttAttG33AY.680.000821
S241L241delTTA---33B.1.1.3890.018182
S241L241XtTatGa23B.1.1.70.000002
S241L241XtTatAa13B.1.1.70.000001
S241L241delTTA---33B.1.1700.012931
S241L241LTtaCta33B.1.20.000026
S241L241delTTA---33B.1.2210.000213
S241L241delTTA---33B.1.2400.000647
S241L241LTtaCta33B.1.2410.002435
S241L241del2TTa--a23B.1.351.20.000605
S241L241del2TTA--N13B.1.351.20.000303
S241L241ITtaAta33B.1.360.000438
S241L241delTTA---33B.1.4160.003807
S241L241delTTA---33B.1.4270.000151
S241L241LttAttG33B.1.4800.007463
S241L241delTTA---33B.1.5960.000261
S241L241LTtaCta33P.10.000047
S241L241delTTA---220.111111
S241L241ITtaAta120.055556
S241L241KTTaAAa120.055556
S241L241ITtAAtT120.055556
S241L241XtTAtAG120.055556
S241L241XtTatAa120.055556
S241L241KTTAAAG120.055556
S241L241MTtAAtG22All0
S241L241delTTA---22AY.1050.001286
S241L241delTTA---22AY.1140.000462
S241L241delTTA---22AY.1180.000125
S241L241delTTA---22AY.130.000322
S241L241del1TTA-NN12AY.250.000006
S241L241del1ttAtt-12AY.250.000006
S241L241LTtaCta12AY.260.000028
S241L241LttAttG12AY.260.000028
S241L241del1ttAtt-22AY.290.000032
S241L241FttAttT22AY.30.00002
S241L241delTTA---22AY.3.10.000171
S241L241ITtaAta22AY.360.000296
S241L241LttAttG12AY.4.20.000022
S241L241LTtaCta12AY.4.20.000022
S241L241StTatCa22AY.430.000009
S241L241VTtaGta22AY.430.000009
S241L241delTTA---22AY.460.000208
S241L241delTTA---22AY.470.000062
S241L241LTtaCta22AY.50.000041
S241L241delTTA---22AY.5.30.000675
S241L241LTtaCta22AY.60.000082
S241L241LTtaCta22AY.630.000774
S241L241delTTA---22AY.630.000774
S241L241delTTA---22AY.700.000417
S241L241delTTA---22AY.950.001522
S241L241delTTA---22AY.980.000158
S241L241delTTA---22AY.99.20.000184
S241L241ITtaAta22B.10.000018
S241L241FttAttT22B.10.000018
S241L241delTTA---22B.1.1.2220.000408
S241L241delTTA---22B.1.1.280.000622
S241L241delTTA---22B.1.1.3180.000604
S241L241delTTA---22B.1.1.3750.02381
S241L241FttAttT22B.1.1.4320.002532
S241L241delTTA---22B.1.1.5070.017391
S241L241delTTA---22B.1.1.5190.000079
S241L241FttAttT22B.1.1.5190.000079
S241L241delTTA---22B.1.1.5280.009615
S241L241LTtaCta12B.1.1600.000031
S241L241LttAttG12B.1.1600.000031
S241L241delTTA---22B.1.177.20.009091
S241L241delTTA---22B.1.177.310.022989
S241L241delTTA---22B.1.177.540.001213
S241L241LTtaCta22B.1.177.600.000437
S241L241delTTA---22B.1.177.810.000379
S241L241delTTA---22B.1.258.110.000793
S241L241delTTA---22B.1.258.30.00335
S241L241delTTA---22B.1.3360.004878
S241L241del1ttAtt-22B.1.3510.000059
S241L241delTTA---22B.1.351.10.076923
S241L241LTtaCta22B.1.5260.000047
S241L241delTTA---22B.1.617.10.000258
S241L241FttAttC12B.1.617.20.000004
S241L241FttAttT12B.1.617.20.000004
S241L241delTTA---22B.1.6230.001073
S241L241delTTA---22B.1.6370.000146
S241L241delTTA---22C.160.002121
S241L241delTTA---22C.36.30.001134
S241L241delTTA---22P.1.120.000968
S241L241delTTA---22Q.10.000253
S241L241LttAttG110.055556
S241L241YtTAtAT110.055556
S241L241MTtAAtG110.055556
S241L241NTTAAAT110.055556
S241L241FttAttT110.055556
S241L241delTTA---11A0.000387
S241L241delTTA---11A.20.000662
S241L241LttAttG11A.20.000662
S241L241delTTA---11A.2.50.000499
S241L241LttAttG11A.2.5.20.001572
S241L241delTTA---11A.230.010526
S241L241delTTA---11A.270.001656
S241L241delTTA---11A.290.005319
S241L241FttAttT11A.30.002096
S241L241delTTA---11AD.20.000219
S241L241QTTaCAa11All0
S241L241YtTAtAT11All0
S241L241NTTAAAT11All0
S241L241WtTAtGG11All0
S241L241delTTA---11AU.30.00211
S241L241del2TTA--N11AY.1000.000046
S241L241delTTA---11AY.1010.00049
S241L241LttAttG11AY.1020.000027
S241L241StTatCa11AY.1030.000006
S241L241delTTA---11AY.1110.000183
S241L241delTTA---11AY.1130.000142
S241L241delTTA---11AY.1170.000085
S241L241delTTA---11AY.1210.000135
S241L241delTTA---11AY.20.000356
S241L241StTatCa11AY.23.10.000417
S241L241delTTA---11AY.240.000431
S241L241ITtaAta11AY.250.000006
S241L241del2tTAt--11AY.250.000006
S241L241LTtaCta11AY.280.00189
S241L241delTTA---11AY.290.000016
S241L241LttAttG11AY.29.10.000221
S241L241delTTA---11AY.300.000396
S241L241LTtaCta11AY.350.000233
S241L241delTTA---11AY.370.000316
S241L241FttAttT11AY.390.000025
S241L241delTTA---11AY.39.10.00004
S241L241FttAttT11AY.40.000002
S241L241delTTA---11AY.4.2.10.000149
S241L241delTTA---11AY.400.000964
S241L241XtTatAa11AY.420.00004
S241L241KTTaAAa11AY.420.00004
S241L241del1TTa-Ca11AY.430.000004
S241L241QTTaCAa11AY.430.000004
S241L241FttAttT11AY.440.000006
S241L241StTatCa11AY.440.000006
S241L241delTTA---11AY.46.10.001027
S241L241StTatCa11AY.46.50.000198
S241L241FttAttT11AY.470.000031
S241L241XtTatAa11AY.50.000021
S241L241delTTA---11AY.5.40.000277
S241L241delTTA---11AY.500.000799
S241L241delTTA---11AY.510.000909
S241L241delTTA---11AY.540.000095
S241L241LTtaCta11AY.580.000907
S241L241delTTA---11AY.580.000907
S241L241LttAttG11AY.590.00053
S241L241delTTA---11AY.590.00053
S241L241delTTA---11AY.60.000041
S241L241LTtaCta11AY.610.000105
S241L241delTTA---11AY.610.000105
S241L241delTTA---11AY.650.000533
S241L241FttAttT11AY.680.000274
S241L241LTtaCta11AY.7.10.000113
S241L241delTTA---11AY.7.20.000559
S241L241delTTA---11AY.730.000665
S241L241delTTA---11AY.740.000116
S241L241delTTA---11AY.780.001541
S241L241delTTA---11AY.890.004902
S241L241delTTA---11AY.90.000068
S241L241LTtaCta11AY.9.20.000037
S241L241delTTA---11AY.910.00073
S241L241StTatCa11AY.98.10.000048
S241L241del2TTA--N11B.10.000009
S241L241StTatCa11B.10.000009
S241L241VTtaGta11B.10.000009
S241L241ITtaAta11B.1.10.000018
S241L241delTTA---11B.1.1.1480.008772
S241L241delTTA---11B.1.1.1590.004673
S241L241delTTA---11B.1.1.1920.002309
S241L241LTtaCta11B.1.1.1940.00495
S241L241delTTA---11B.1.1.2140.000055
S241L241delTTA---11B.1.1.2170.003636
S241L241LTtaCta11B.1.1.2200.001859
S241L241delTTA---11B.1.1.2360.006897
S241L241delTTA---11B.1.1.2840.000107
S241L241delTTA---11B.1.1.2980.000862
S241L241delTTA---11B.1.1.3230.014085
S241L241FttAttT11B.1.1.3520.03125
S241L241delTTA---11B.1.1.3560.008547
S241L241delTTA---11B.1.1.3690.000446
S241L241delTTA---11B.1.1.3720.000689
S241L241FttAttT11B.1.1.3890.006061
S241L241delTTA---11B.1.1.390.00051
S241L241delTTA---11B.1.1.4090.002833
S241L241del1ttAtt-11B.1.1.4320.001266
S241L241delTTA---11B.1.1.4480.002033
S241L241delTTA---11B.1.1.4640.001473
S241L241delTTA---11B.1.1.4860.001577
S241L241LttAttG11B.1.1.50.008333
S241L241LTtaCta11B.1.1.5190.00004
S241L241ITtaAta11B.1.1.70.000001
S241L241del1ttAtt-11B.1.1.70.000001
S241L241VTtaGta11B.1.1.700.000341
S241L241delTTA---11B.1.110.30.000718
S241L241delTTA---11B.1.1110.001175
S241L241delTTA---11B.1.1390.000733
S241L241WtTAtGG11B.1.1570.002985
S241L241FttAttT11B.1.1600.000031
S241L241delTTA---11B.1.160.230.004831
S241L241delTTA---11B.1.160.70.002079
S241L241delTTA---11B.1.177.160.000664
S241L241delTTA---11B.1.177.180.00116
S241L241StTatCa11B.1.177.40.000211
S241L241delTTA---11B.1.177.40.000211
S241L241delTTA---11B.1.177.510.004566
S241L241delTTA---11B.1.177.600.000218
S241L241delTTA---11B.1.177.620.001192
S241L241delTTA---11B.1.177.690.001484
S241L241delTTA---11B.1.177.770.000726
S241L241delTTA---11B.1.177.820.000477
S241L241delTTA---11B.1.177.850.005435
S241L241delTTA---11B.1.177.870.000728
S241L241del2TTa--a11B.1.20.000009
S241L241StTatCa11B.1.2060.000816
S241L241delTTA---11B.1.220.001318
S241L241delTTA---11B.1.2370.004975
S241L241delTTA---11B.1.2430.00007
S241L241delTTA---11B.1.258.140.00098
S241L241delTTA---11B.1.258.170.000104
S241L241FttAttT11B.1.3110.000275
S241L241VTtaGta11B.1.3110.000275
S241L241VTtaGta11B.1.3320.003497
S241L241FttAttT11B.1.3510.00003
S241L241MTtAAtG11B.1.351.10.038462
S241L241delTTA---11B.1.360.000146
S241L241FttAttT11B.1.360.000146
S241L241delTTA---11B.1.36.200.016949
S241L241VTtaGta11B.1.36.290.000517
S241L241delTTA---11B.1.36.370.002778
S241L241delTTA---11B.1.3670.000792
S241L241delTTA---11B.1.3690.000285
S241L241delTTA---11B.1.3750.00082
S241L241delTTA---11B.1.3990.001934
S241L241FttAttT11B.1.3990.001934
S241L241delTTA---11B.1.4000.000429
S241L241delTTA---11B.1.4090.000781
S241L241del2TTa--a11B.1.4090.000781
S241L241delTTA---11B.1.416.10.001563
S241L241delTTA---11B.1.4170.028571
S241L241LttAttG11B.1.4290.000024
S241L241delTTA---11B.1.438.10.000107
S241L241delTTA---11B.1.4410.009615
S241L241StTatCa11B.1.4560.003268
S241L241delTTA---11B.1.4970.000315
S241L241delTTA---11B.1.5170.000427
S241L241FttAttT11B.1.5250.000113
S241L241delTTA---11B.1.5610.000397
S241L241FttAttT11B.1.5760.000907
S241L241delTTA---11B.1.5760.000907
S241L241LTtaCta11B.1.5820.000491
S241L241delTTA---11B.1.5820.000491
S241L241delTTA---11B.1.5990.00365
S241L241LTtaCta11B.1.6090.000479
S241L241del2TTA--N11B.1.6200.000946
S241L241del1TtANt-11B.1.6200.000946
S241L241LTtaCta11B.1.6210.000089
S241L241LTtaCta11B.1.6370.000073
S241L241delTTA---11B.1.80.001972
S241L241VTtaGta11B.400.000364
S241L241LttAttG11B.400.000364
S241L241delTTA---11B.60.00091
S241L241FttAttC11B.600.015873
S241L241delTTA---11C.1.10.076923
S241L241delTTA---11C.1.20.004255
S241L241delTTA---11C.360.000911
S241L241VTtaGta11P.10.000016
S241L241del1ttAtt-11P.10.000016
S241L241delTTA---11P.1.10.000318
S241L241delTTA---11P.1.140.000048
S241L241delTTA---11P.1.60.001946
S241L241delTTA---11Q.20.000613
S241L241delTTA---11Q.30.000145
S241L241delTTA---11Q.80.000165
S241L241FttAttT11Q.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.