CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : Mut = L54F

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
S54L54FnonsynttGttT11608101480.87422521722-21724
S54L54FnonsynttGttC1160814600.12577521722-21724

Details of the mutation L54F within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S54L54FttGttT1014811608All0.001941
S54L54FttGttC146011608All0.000279
S54L54FttGttC6811258AY.40.00106
S54L54FttGttT5771258AY.40.000898
S54L54FttGttT927927B.1.1.3330.997847
S54L54FttGttT687774B.1.1.70.000615
S54L54FttGttC87774B.1.1.70.000078
S54L54FttGttT753753AY.4.30.633838
S54L54FttGttT724724B.1.1.2140.040151
S54L54FttGttT486501B.1.10.008816
S54L54FttGttC15501B.1.10.000272
S54L54FttGttT463463B.1.3050.995699
S54L54FttGttT463463B.1.36.211
S54L54FttGttT274394B.1.20.002413
S54L54FttGttC120394B.1.20.001057
S54L54FttGttT349359B.10.003197
S54L54FttGttC10359B.10.000092
S54L54FttGttT349349B.1.36.260.997143
S54L54FttGttT268290B.1.617.20.001009
S54L54FttGttC22290B.1.617.20.000083
S54L54FttGttT280280B.1.1.3510.782123
S54L54FttGttT229251B.1.2400.049364
S54L54FttGttC22251B.1.2400.004742
S54L54FttGttT233235AY.290.003675
S54L54FttGttC2235AY.290.000032
S54L54FttGttT134216AY.430.000594
S54L54FttGttC82216AY.430.000363
S54L54FttGttT204208P.10.003214
S54L54FttGttC4208P.10.000063
S54L54FttGttC100182AY.440.000609
S54L54FttGttT82182AY.440.000499
S54L54FttGttT145162AY.250.000872
S54L54FttGttC17162AY.250.000102
S54L54FttGttT153154B.1.360.022323
S54L54FttGttC1154B.1.360.000146
S54L54FttGttT119123B.1.1770.001567
S54L54FttGttC4123B.1.1770.000053
S54L54FttGttT117118AY.420.004707
S54L54FttGttC1118AY.420.00004
S54L54FttGttT94113AY.1030.000584
S54L54FttGttC19113AY.1030.000118
S54L54FttGttT105105AS.11
S54L54FttGttT9499AY.30.000935
S54L54FttGttC599AY.30.00005
S54L54FttGttT8899B.1.1600.002745
S54L54FttGttC1199B.1.1600.000343
S54L54FttGttT9898B.1.3510.002913
S54L54FttGttT9497AY.330.006277
S54L54FttGttC397AY.330.0002
S54L54FttGttT9494AY.220.196653
S54L54FttGttT8484B.1.36.80.084
S54L54FttGttC6161B.1.3190.185976
S54L54FttGttC4756AY.1180.002944
S54L54FttGttT956AY.1180.000564
S54L54FttGttT5555B.1.1130.859375
S54L54FttGttT3750AY.4.20.000802
S54L54FttGttC1350AY.4.20.000282
S54L54FttGttT5050B.1.2430.003479
S54L54FttGttT4447AY.1020.001167
S54L54FttGttC347AY.1020.00008
S54L54FttGttT4546AY.1200.001673
S54L54FttGttC146AY.1200.000037
S54L54FttGttT3941AY.50.000805
S54L54FttGttC241AY.50.000041
S54L54FttGttT4141B.1.2340.00541
S54L54FttGttT3236AY.390.000791
S54L54FttGttC436AY.390.000099
S54L54FttGttT3232AY.540.003051
S54L54FttGttT2630AY.200.00101
S54L54FttGttC430AY.200.000155
S54L54FttGttT2727B.1.177.491
S54L54FttGttT2425B.1.1.5190.000953
S54L54FttGttC125B.1.1.5190.00004
S54L54FttGttT2124AY.140.001848
S54L54FttGttC324AY.140.000264
S54L54FttGttT1724B.1.4290.0004
S54L54FttGttC724B.1.4290.000165
S54L54FttGttT2323B.1.1.4320.029114
S54L54FttGttT2223B.1.3690.006275
S54L54FttGttC123B.1.3690.000285
S54L54FttGttT2222AY.10.008706
S54L54FttGttT1521AY.1190.00053
S54L54FttGttC621AY.1190.000212
S54L54FttGttT2121B.1.5260.000494
S54L54FttGttT1820AY.120.10.005778
S54L54FttGttC220AY.120.10.000642
S54L54FttGttT1819AY.260.00051
S54L54FttGttC119AY.260.000028
S54L54FttGttT1718AY.340.001648
S54L54FttGttC118AY.340.000097
S54L54FttGttT1317B.1.2210.000923
S54L54FttGttC417B.1.2210.000284
S54L54FttGttT1717B.1.5250.001924
S54L54FttGttT1316AY.450.001582
S54L54FttGttC316AY.450.000365
S54L54FttGttT1515AY.570.009843
S54L54FttGttT1515B.1.1.2910.011136
S54L54FttGttT1313AY.1000.000598
S54L54FttGttC1012AY.1110.001832
S54L54FttGttT212AY.1110.000366
S54L54FttGttT912AY.750.000504
S54L54FttGttC312AY.750.000168
S54L54FttGttT1212B.1.2470.179104
S54L54FttGttT1212B.1.2580.000799
S54L54FttGttT1111AY.360.00163
S54L54FttGttT1111AY.70.002156
S54L54FttGttT1111B.1.3110.00302
S54L54FttGttT1011B.1.6210.000885
S54L54FttGttC111B.1.6210.000089
S54L54FttGttT1011P.1.70.003193
S54L54FttGttC111P.1.70.000319
S54L54FttGttT611P.20.00112
S54L54FttGttC511P.20.000933
S54L54FttGttT1010AY.60.000411
S54L54FttGttT810AY.9.20.000294
S54L54FttGttC210AY.9.20.000073
S54L54FttGttT1010B.1.1.280.003112
S54L54FttGttT910B.1.4270.000454
S54L54FttGttC110B.1.4270.00005
S54L54FttGttT1010B.1.4560.03268
S54L54FttGttT79AY.1210.000947
S54L54FttGttC29AY.1210.000271
S54L54FttGttT69AY.230.000418
S54L54FttGttC39AY.230.000209
S54L54FttGttT99AY.90.000608
S54L54FttGttT68AY.470.000187
S54L54FttGttC28AY.470.000062
S54L54FttGttT88B.1.1.2070.009456
S54L54FttGttT88B.1.1.3480.006369
S54L54FttGttT88B.1.1.3720.00551
S54L54FttGttT67A.10.001691
S54L54FttGttC17A.10.000282
S54L54FttGttT67AY.980.000474
S54L54FttGttC17AY.980.000079
S54L54FttGttT77B.1.1.2320.012704
S54L54FttGttT77B.1.1.2840.000752
S54L54FttGttT77B.1.1.3050.027027
S54L54FttGttT77B.1.1.700.002387
S54L54FttGttT77B.1.177.210.000535
S54L54FttGttT77B.1.2500.101449
S54L54FttGttT77B.1.617.10.000903
S54L54FttGttC47C.370.000464
S54L54FttGttT37C.370.000348
S54L54FttGttT66A.2.50.002994
S54L54FttGttT66B0.000767
S54L54FttGttT66B.1.1.1980.008811
S54L54FttGttT56B.1.5960.000436
S54L54FttGttC16B.1.5960.000087
S54L54FttGttC36P.1.140.000143
S54L54FttGttT36P.1.140.000143
S54L54FttGttT55AY.1160.001434
S54L54FttGttC55AY.300.001979
S54L54FttGttT55AY.610.000524
S54L54FttGttT55AY.75.10.000902
S54L54FttGttT35AY.99.20.000276
S54L54FttGttC25AY.99.20.000184
S54L54FttGttT55B.1.1.3690.002231
S54L54FttGttT55B.1.1.500.003394
S54L54FttGttT55B.1.1110.005875
S54L54FttGttT55B.1.3750.004098
S54L54FttGttC55B.1.5070.05618
S54L54FttGttC24AD.20.000438
S54L54FttGttT24AD.20.000438
S54L54FttGttT44AY.1060.00134
S54L54FttGttC34AY.1100.000338
S54L54FttGttT14AY.1100.000113
S54L54FttGttT44AY.1130.00057
S54L54FttGttT24AY.39.10.000079
S54L54FttGttC24AY.39.10.000079
S54L54FttGttT44AY.4.50.00043
S54L54FttGttC24AY.7.10.000225
S54L54FttGttT24AY.7.10.000225
S54L54FttGttT44B.1.1.2220.000816
S54L54FttGttT44B.1.1.2260.023256
S54L54FttGttT44B.1.1.2770.003035
S54L54FttGttC34B.1.1.3060.001315
S54L54FttGttT14B.1.1.3060.000438
S54L54FttGttT44B.1.1.330.001684
S54L54FttGttT44B.1.1630.097561
S54L54FttGttT44B.1.2320.002149
S54L54FttGttT34B.1.3620.004622
S54L54FttGttC14B.1.3620.001541
S54L54FttGttT44B.1.5170.001708
S54L54FttGttT34D.20.000225
S54L54FttGttC14D.20.000075
S54L54FttGttT44Q.10.000505
S54L54FttGttC44W.10.034783
S54L54FttGttT33AY.1080.003308
S54L54FttGttT33AY.1090.002219
S54L54FttGttT33AY.1170.000254
S54L54FttGttT33AY.130.000483
S54L54FttGttT33AY.160.001139
S54L54FttGttT33AY.29.10.000662
S54L54FttGttT33AY.3.10.000256
S54L54FttGttT33AY.4.2.10.000447
S54L54FttGttT23AY.46.60.000144
S54L54FttGttC13AY.46.60.000072
S54L54FttGttT33AY.690.00056
S54L54FttGttT33AY.710.001425
S54L54FttGttT23AY.98.10.000097
S54L54FttGttC13AY.98.10.000048
S54L54FttGttT33B.1.1.10.00098
S54L54FttGttT23B.1.177.580.002663
S54L54FttGttC13B.1.177.580.001332
S54L54FttGttT33B.1.1840.176471
S54L54FttGttT33B.1.2100.006397
S54L54FttGttT33B.1.3360.007317
S54L54FttGttT33B.1.4040.003906
S54L54FttGttT33B.1.4280.003061
S54L54FttGttT33B.1.4650.011407
S54L54FttGttT33B.1.5510.003871
S54L54FttGttT33B.1.5680.003333
S54L54FttGttT33B.1.5770.002062
S54L54FttGttT33B.1.6190.002613
S54L54FttGttT33B.1.6270.006061
S54L54FttGttT33B.1.6370.000219
S54L54FttGttT33B.400.001093
S54L54FttGttT33C.160.003181
S54L54FttGttT33P.1.100.000808
S54L54FttGttT33P.1.120.001452
S54L54FttGttT33P.1.150.000697
S54L54FttGttT33R.10.00027
S54L54FttGttT220.111111
S54L54FttGttT22AY.1050.001286
S54L54FttGttT12AY.20.000356
S54L54FttGttC12AY.20.000356
S54L54FttGttT22AY.460.000208
S54L54FttGttT22AY.46.50.000397
S54L54FttGttT22AY.5.40.000553
S54L54FttGttT22AY.530.000575
S54L54FttGttT22AY.740.000231
S54L54FttGttT12AY.880.000884
S54L54FttGttC12AY.880.000884
S54L54FttGttT22AY.9.10.000167
S54L54FttGttT22AY.920.000575
S54L54FttGttT22AZ.30.00304
S54L54FttGttT22B.1.1.1010.02
S54L54FttGttT22B.1.1.1890.003026
S54L54FttGttT22B.1.1.2160.001781
S54L54FttGttT22B.1.1.2200.003717
S54L54FttGttT22B.1.1.3120.003824
S54L54FttGttT22B.1.1.3180.000604
S54L54FttGttT22B.1.1.3980.006452
S54L54FttGttT22B.1.177.120.000303
S54L54FttGttT22B.1.177.330.003289
S54L54FttGttT22B.1.177.560.001335
S54L54FttGttT22B.1.177.70.00033
S54L54FttGttT22B.1.177.730.001133
S54L54FttGttT22B.1.221.10.005814
S54L54FttGttT22B.1.2650.002541
S54L54FttGttC12B.1.3320.003497
S54L54FttGttT12B.1.3320.003497
S54L54FttGttT22B.1.36.290.001035
S54L54FttGttT22B.1.3720.021978
S54L54FttGttT22B.1.4530.006472
S54L54FttGttT22B.1.4710.005464
S54L54FttGttT22B.1.5610.000794
S54L54FttGttT22B.1.6090.000959
S54L54FttGttC22B.1.6100.007092
S54L54FttGttT22B.1.6280.000705
S54L54FttGttT22B.4.80.142857
S54L54FttGttT22B.490.1
S54L54FttGttC12C.360.000911
S54L54FttGttT12C.360.000911
S54L54FttGttT22C.36.30.001134
S54L54FttGttT22P.1.170.000324
S54L54FttGttT22P.1.20.002312
S54L54FttGttT11A0.000387
S54L54FttGttT11AE.80.000489
S54L54FttGttC11AY.1010.00049
S54L54FttGttT11AY.110.001339
S54L54FttGttT11AY.1150.005208
S54L54FttGttC11AY.120.000316
S54L54FttGttT11AY.16.10.00047
S54L54FttGttT11AY.210.001898
S54L54FttGttT11AY.350.000233
S54L54FttGttT11AY.380.000499
S54L54FttGttT11AY.4.10.000737
S54L54FttGttT11AY.4.40.000409
S54L54FttGttT11AY.400.000964
S54L54FttGttT11AY.410.000294
S54L54FttGttT11AY.46.20.000635
S54L54FttGttT11AY.490.003195
S54L54FttGttT11AY.5.30.000337
S54L54FttGttT11AY.550.000917
S54L54FttGttT11AY.600.000938
S54L54FttGttT11AY.620.000436
S54L54FttGttT11AY.640.000595
S54L54FttGttT11AY.650.000533
S54L54FttGttT11AY.670.000464
S54L54FttGttT11AY.700.000209
S54L54FttGttT11AY.720.001361
S54L54FttGttT11AY.730.000665
S54L54FttGttT11AY.760.004831
S54L54FttGttC11AY.790.001211
S54L54FttGttT11AY.840.000437
S54L54FttGttT11AY.870.000833
S54L54FttGttT11AY.930.000273
S54L54FttGttC11AY.940.000443
S54L54FttGttT11AY.950.000761
S54L54FttGttT11B.1.1.1610.003534
S54L54FttGttT11B.1.1.1860.003436
S54L54FttGttT11B.1.1.1920.002309
S54L54FttGttT11B.1.1.1960.005714
S54L54FttGttT11B.1.1.2280.003049
S54L54FttGttT11B.1.1.2440.015385
S54L54FttGttT11B.1.1.250.000569
S54L54FttGttT11B.1.1.2540.011236
S54L54FttGttT11B.1.1.2940.001266
S54L54FttGttC11B.1.1.3290.003846
S54L54FttGttT11B.1.1.3450.043478
S54L54FttGttT11B.1.1.3680.003086
S54L54FttGttT11B.1.1.390.00051
S54L54FttGttT11B.1.1.4090.002833
S54L54FttGttT11B.1.1.4340.000349
S54L54FttGttT11B.1.1.4480.002033
S54L54FttGttT11B.1.1.4620.008621
S54L54FttGttC11B.1.1.4860.001577
S54L54FttGttC11B.1.1.5230.001563
S54L54FttGttT11B.1.1.5260.003546
S54L54FttGttT11B.1.1.5280.004808
S54L54FttGttT11B.1.1.540.003021
S54L54FttGttT11B.1.1.930.025641
S54L54FttGttT11B.1.1340.005464
S54L54FttGttT11B.1.1470.000756
S54L54FttGttC11B.1.160.150.00495
S54L54FttGttT11B.1.177.440.000519
S54L54FttGttT11B.1.177.760.002494
S54L54FttGttT11B.1.2120.016667
S54L54FttGttT11B.1.2370.004975
S54L54FttGttT11B.1.258.170.000104
S54L54FttGttT11B.1.258.30.001675
S54L54FttGttT11B.1.2600.003344
S54L54FttGttT11B.1.2630.047619
S54L54FttGttT11B.1.2730.012987
S54L54FttGttT11B.1.2760.016949
S54L54FttGttT11B.1.3010.005917
S54L54FttGttT11B.1.351.30.000876
S54L54FttGttT11B.1.36.100.004785
S54L54FttGttT11B.1.36.160.001425
S54L54FttGttT11B.1.36.70.004
S54L54FttGttT11B.1.3670.000792
S54L54FttGttT11B.1.3890.001002
S54L54FttGttT11B.1.3980.002976
S54L54FttGttT11B.1.416.10.001563
S54L54FttGttT11B.1.4260.001009
S54L54FttGttT11B.1.438.10.000107
S54L54FttGttT11B.1.440.008333
S54L54FttGttT11B.1.4410.009615
S54L54FttGttT11B.1.4680.005714
S54L54FttGttT11B.1.5030.002488
S54L54FttGttT11B.1.5490.007194
S54L54FttGttT11B.1.5500.013699
S54L54FttGttT11B.1.5540.004405
S54L54FttGttT11B.1.5700.002941
S54L54FttGttT11B.1.5950.000261
S54L54FttGttT11B.1.5980.016949
S54L54FttGttC11B.1.6120.002653
S54L54FttGttT11B.1.6230.000536
S54L54FttGttT11B.1.700.02439
S54L54FttGttT11B.1.9.50.005682
S54L54FttGttT11B.100.008264
S54L54FttGttT11B.110.005128
S54L54FttGttT11B.230.002924
S54L54FttGttT11B.40.002208
S54L54FttGttT11C.1.20.004255
S54L54FttGttC11N.90.005952
S54L54FttGttT11P.1.10.000318
S54L54FttGttC11Q.30.000145
S54L54FttGttT11Q.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.