CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 1235

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
S1235C1235FnonsyntGctTc437543710.99908625265-25267
S1235C1235FnonsyntGCtTT437540.00091428625265-25267
S1235C1235CsyntgCtgT12261226125265-25267
S1235C1235deldelTGC---136136125265-25267
S1235C1235SnonsynTgcAgc20170.8525265-25267
S1235C1235SnonsyntGctCc2030.1525265-25267
S1235C1235GnonsynTgcGgc1190.81818225265-25267
S1235C1235GnonsynTgCGgG1110.090909125265-25267
S1235C1235GnonsynTgCGgT1110.090909125265-25267
S1235C1235XnonsyntgCtgA88125265-25267
S1235C1235RnonsynTgcCgc66125265-25267
S1235C1235YnonsyntGctAc650.83333325265-25267
S1235C1235YnonsyntGCtAT610.16666725265-25267
S1235C1235LnonsynTGcCTc430.7525265-25267
S1235C1235del2delTGc--c420.525265-25267
S1235C1235del1delTGcC-c420.525265-25267
S1235C1235del2deltGCt--420.525265-25267
S1235C1235del1delTgc-gc410.2525265-25267
S1235C1235LnonsyntGCtTA410.2525265-25267
S1235C1235del1deltGct-c410.2525265-25267
S1235C1235WnonsyntgCtgG33125265-25267
S1235C1235DnonsynTGcGAc210.525265-25267
S1235C1235DnonsynTGCGAT210.525265-25267

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S1235C1235FtGctTc43714375All0.000836
S1235C1235FtGCtTT44375All0.000001
S1235C1235CtgCtgT12261226All0.000234
S1235C1235FtGctTc762762AY.40.001186
S1235C1235FtGctTc492492B.1.1.70.00044
S1235C1235FtGctTc461461AY.430.002042
S1235C1235FtGctTc325325AY.30.003233
S1235C1235CtgCtgT292292B.1.5640.124361
S1235C1235FtGctTc214214B.1.617.20.000806
S1235C1235FtGctTc208208B.1.2430.014474
S1235C1235FtGctTc208208P.1.80.995215
S1235C1235FtGctTc186186AY.1030.001155
S1235C1235CtgCtgT183183B.1.1770.00241
S1235C1235CtgCtgT147147AY.1030.000913
S1235C1235delTGC---136136All0.000026
S1235C1235CtgCtgT121121AY.250.000728
S1235C1235FtGctTc109109AY.3.10.009293
S1235C1235CtgCtgT9595AY.40.000148
S1235C1235FtGctTc8585B.1.4290.002
S1235C1235FtGctTc6567B.1.6290.866667
S1235C1235FtGCtTT267B.1.6290.026667
S1235C1235FtGctTc5858AY.1020.001538
S1235C1235FtGctTc5555AY.70.01078
S1235C1235delTGC---5555B.1.1.70.000049
S1235C1235FtGctTc4747AY.250.000283
S1235C1235FtGctTc4445B.10.000403
S1235C1235FtGCtTT145B.10.000009
S1235C1235FtGctTc4343AY.440.000262
S1235C1235FtGctTc4343B.1.10.00078
S1235C1235FtGctTc3939P.10.000614
S1235C1235FtGctTc3838B.1.1770.0005
S1235C1235FtGctTc3333AY.530.009488
S1235C1235CtgCtgT3232B.1.1.1890.048411
S1235C1235FtGctTc2929AY.39.10.001149
S1235C1235CtgCtgT2929B.10.000266
S1235C1235FtGctTc2828B.1.2820.41791
S1235C1235FtGctTc2727B.1.1.3070.068354
S1235C1235CtgCtgT2727B.1.20.000238
S1235C1235CtgCtgT2626B.1.3510.000773
S1235C1235FtGctTc2525AY.290.000394
S1235C1235FtGctTc2525AY.4.20.000542
S1235C1235CtgCtgT2525B.1.1.70.000022
S1235C1235FtGctTc2424AY.610.002515
S1235C1235FtGctTc2323B.1.1.10.007514
S1235C1235FtGctTc2121B.1.1600.000655
S1235C1235FtGctTc2121B.1.2580.001397
S1235C1235CtgCtgT2121B.1.617.20.000079
S1235C1235STgcAgc1720All0.000003
S1235C1235StGctCc320All0.000001
S1235C1235FtGctTc2020B.1.5260.00047
S1235C1235CtgCtgT1919AY.440.000116
S1235C1235FtGctTc1818A.2.50.008982
S1235C1235CtgCtgT1818B.1.1.1530.019715
S1235C1235FtGctTc1717AY.1190.0006
S1235C1235FtGctTc1717B.1.20.00015
S1235C1235FtGctTc1616AY.360.002371
S1235C1235FtGctTc1616B.1.3510.000476
S1235C1235delTGC---1515AY.4.50.001612
S1235C1235FtGctTc1515AY.470.000467
S1235C1235FtGctTc1515B.1.1110.017626
S1235C1235FtGctTc1414AY.260.000396
S1235C1235FtGctTc1414B.1.1.2140.000776
S1235C1235FtGctTc1313AY.390.000321
S1235C1235FtGctTc1313AY.46.50.002579
S1235C1235FtGctTc1313AY.50.000268
S1235C1235FtGctTc1313P.1.140.000621
S1235C1235FtGctTc1212AY.60.000494
S1235C1235delTGC---1212B.1.1770.000158
S1235C1235GTgcGgc911All0.000002
S1235C1235GTgCGgG111All0
S1235C1235GTgCGgT111All0
S1235C1235FtGctTc1111AY.980.000869
S1235C1235CtgCtgT1010AY.1020.000265
S1235C1235CtgCtgT1010AY.3.10.000853
S1235C1235CtgCtgT1010B.1.1.4640.014728
S1235C1235CtgCtgT1010B.1.4290.000235
S1235C1235FtGctTc1010R.10.0009
S1235C1235FtGctTc99B.1.177.40.0019
S1235C1235CtgCtgT99B.1.177.810.001704
S1235C1235CtgCtgT99B.1.2210.000639
S1235C1235FtGctTc99B.1.617.10.001161
S1235C1235XtgCtgA88All0.000002
S1235C1235CtgCtgT88AY.430.000035
S1235C1235FtGctTc88B.1.3240.012841
S1235C1235FtGctTc88B.1.390.03125
S1235C1235FtGctTc88P.20.001493
S1235C1235FtGctTc77AY.200.000272
S1235C1235FtGctTc77AY.230.000488
S1235C1235CtgCtgT77AY.50.000145
S1235C1235FtGctTc77B.1.258.110.002774
S1235C1235CtgCtgT77B.1.3690.001997
S1235C1235FtGctTc77B.1.4270.000353
S1235C1235FtGctTc77B.1.5960.00061
S1235C1235RTgcCgc66All0.000001
S1235C1235YtGctAc56All0.000001
S1235C1235YtGCtAT16All0
S1235C1235FtGctTc66AY.1160.001721
S1235C1235FtGctTc66AY.1200.000223
S1235C1235FtGctTc66AY.450.00073
S1235C1235FtGctTc66AY.460.000624
S1235C1235FtGctTc66AY.46.40.000987
S1235C1235FtGctTc66AY.690.00112
S1235C1235STgcAgc66B.1.1.70.000005
S1235C1235FtGctTc66B.1.258.170.000624
S1235C1235CtgCtgT66B.1.36.180.002521
S1235C1235FtGctTc66B.1.5090.005195
S1235C1235FtGctTc66B.1.6090.002876
S1235C1235FtGctTc55AY.1100.000563
S1235C1235FtGctTc55AY.1170.000423
S1235C1235delTGC---55AY.1200.000186
S1235C1235delTGC---55AY.40.000008
S1235C1235FtGctTc55AY.5.40.001384
S1235C1235FtGctTc55AY.750.00028
S1235C1235FtGctTc55AY.9.10.000419
S1235C1235FtGctTc55AY.98.10.000242
S1235C1235FtGctTc55B.1.1.5210.026738
S1235C1235FtGctTc45B.1.3690.001141
S1235C1235FtGCtTT15B.1.3690.000285
S1235C1235CtgCtgT55B.1.617.10.000645
S1235C1235FtGctTc55P.1.160.001871
S1235C1235LTGcCTc34All0.000001
S1235C1235del2TGc--c24All0
S1235C1235del1TGcC-c24All0
S1235C1235del2tGCt--24All0
S1235C1235del1tGct-c14All0
S1235C1235del1Tgc-gc14All0
S1235C1235LtGCtTA14All0
S1235C1235FtGctTc44AY.330.000267
S1235C1235FtGctTc44AY.410.001176
S1235C1235FtGctTc44AY.420.000161
S1235C1235FtGctTc44AY.46.20.002541
S1235C1235STgcAgc44AY.540.000381
S1235C1235FtGctTc44AY.740.000463
S1235C1235FtGctTc44B.1.1.2070.004728
S1235C1235FtGctTc44B.1.1.500.002716
S1235C1235FtGctTc44B.1.1.5190.000159
S1235C1235CtgCtgT44B.1.1.5190.000159
S1235C1235FtGctTc44B.1.1510.044444
S1235C1235CtgCtgT44B.1.1600.000125
S1235C1235FtGctTc44B.1.177.770.002905
S1235C1235FtGctTc44B.1.3110.001098
S1235C1235FtGctTc44B.1.466.20.001565
S1235C1235CtgCtgT44B.1.5260.000094
S1235C1235CtgCtgT44P.10.000063
S1235C1235CtgCtgT44P.1.70.001277
S1235C1235WtgCtgG33All0.000001
S1235C1235FtGctTc33AY.1000.000138
S1235C1235CtgCtgT33AY.1000.000138
S1235C1235FtGctTc33AY.1060.001005
S1235C1235FtGctTc33AY.1090.002219
S1235C1235FtGctTc33AY.16.10.00141
S1235C1235FtGctTc33AY.270.000194
S1235C1235CtgCtgT33AY.30.00003
S1235C1235CtgCtgT33AY.330.0002
S1235C1235FtGctTc33AY.34.10.00153
S1235C1235FtGctTc33AY.370.000948
S1235C1235CtgCtgT33AY.4.20.000065
S1235C1235FtGctTc33AY.46.60.000217
S1235C1235FtGctTc33AY.910.002191
S1235C1235CtgCtgT33B.1.10.000054
S1235C1235FtGctTc33B.1.177.330.004934
S1235C1235CtgCtgT33B.1.177.530.007177
S1235C1235CtgCtgT33B.1.5960.000261
S1235C1235delTGC---33B.1.617.20.000011
S1235C1235FtGctTc33B.1.6210.000266
S1235C1235FtGctTc33B.1.621.10.001517
S1235C1235CtgCtgT220.111111
S1235C1235YtGCtAT120.055556
S1235C1235GTgcGgc120.055556
S1235C1235YtGctAc120.055556
S1235C1235GTgCGgT120.055556
S1235C1235DTGCGAT120.055556
S1235C1235DTGcGAc120.055556
S1235C1235FtGctTc22A0.000774
S1235C1235DTGcGAc12All0
S1235C1235DTGCGAT12All0
S1235C1235CtgCtgT22AU.20.004843
S1235C1235CtgCtgT22AW.10.006098
S1235C1235FtGctTc22AY.1050.001286
S1235C1235CtgCtgT22AY.1130.000285
S1235C1235FtGctTc22AY.1130.000285
S1235C1235FtGctTc22AY.1180.000125
S1235C1235delTGC---22AY.250.000012
S1235C1235CtgCtgT22AY.260.000057
S1235C1235FtGctTc22AY.4.50.000215
S1235C1235FtGctTc22AY.400.001929
S1235C1235StGctCc12AY.430.000004
S1235C1235STgcAgc12AY.430.000004
S1235C1235CtgCtgT22AY.46.60.000144
S1235C1235FtGctTc22AY.510.001818
S1235C1235FtGctTc22AY.590.001059
S1235C1235FtGctTc22AY.840.000875
S1235C1235FtGctTc22AY.860.00166
S1235C1235FtGctTc22AY.90.000135
S1235C1235FtGctTc22AY.9.20.000073
S1235C1235FtGctTc22AY.920.000575
S1235C1235CtgCtgT22AY.980.000158
S1235C1235FtGctTc22AY.99.20.000184
S1235C1235STgcAgc22B.10.000018
S1235C1235delTGC---22B.10.000018
S1235C1235XtgCtgA22B.10.000018
S1235C1235delTGC---22B.1.10.000036
S1235C1235FtGctTc22B.1.1.1700.002494
S1235C1235delTGC---22B.1.1.370.000386
S1235C1235FtGctTc22B.1.1.390.001019
S1235C1235GTgcGgc12B.1.1.70.000001
S1235C1235GTgCGgG12B.1.1.70.000001
S1235C1235FtGctTc22B.1.1.700.000682
S1235C1235delTGC---22B.1.1600.000062
S1235C1235FtGctTc22B.1.160.70.004158
S1235C1235FtGctTc22B.1.1640.029851
S1235C1235delTGC---22B.1.177.40.000422
S1235C1235FtGctTc22B.1.177.70.00033
S1235C1235FtGctTc22B.1.1990.008264
S1235C1235STgcAgc22B.1.20.000018
S1235C1235FtGctTc22B.1.2140.007326
S1235C1235FtGctTc22B.1.2320.001075
S1235C1235FtGctTc22B.1.4920.014085
S1235C1235FtGctTc22B.1.5250.000226
S1235C1235FtGctTc22B.1.5750.000607
S1235C1235CtgCtgT22B.1.5820.000981
S1235C1235FtGctTc22B.1.5950.000522
S1235C1235RTgcCgc22B.1.617.20.000008
S1235C1235LTGcCTc22B.1.617.20.000008
S1235C1235CtgCtgT22B.1.6190.001742
S1235C1235CtgCtgT22B.1.6210.000177
S1235C1235FtGctTc22B.1.6300.010471
S1235C1235FtGctTc22B.6.60.001778
S1235C1235delTGC---22P.1.150.000465
S1235C1235CtgCtgT22Q.10.000253
S1235C1235WtgCtgG110.055556
S1235C1235XtgCtgA110.055556
S1235C1235CtgCtgT11AE.80.000489
S1235C1235del1TGcC-c11AY.1030.000006
S1235C1235CtgCtgT11AY.110.001339
S1235C1235FtGctTc11AY.1110.000183
S1235C1235delTGC---11AY.1110.000183
S1235C1235CtgCtgT11AY.1140.000231
S1235C1235CtgCtgT11AY.1160.000287
S1235C1235CtgCtgT11AY.1190.000035
S1235C1235FtGctTc11AY.120.000316
S1235C1235FtGctTc11AY.120.10.000321
S1235C1235FtGctTc11AY.1210.000135
S1235C1235FtGctTc11AY.150.002222
S1235C1235FtGctTc11AY.160.00038
S1235C1235CtgCtgT11AY.200.000039
S1235C1235FtGctTc11AY.210.001898
S1235C1235CtgCtgT11AY.230.00007
S1235C1235delTGC---11AY.230.00007
S1235C1235delTGC---11AY.240.000431
S1235C1235CtgCtgT11AY.290.000016
S1235C1235delTGC---11AY.30.00001
S1235C1235FtGctTc11AY.340.000097
S1235C1235CtgCtgT11AY.39.10.00004
S1235C1235del2TGc--c11AY.40.000002
S1235C1235STgcAgc11AY.40.000002
S1235C1235del2tGCt--11AY.4.50.000107
S1235C1235YtGctAc11AY.420.00004
S1235C1235CtgCtgT11AY.420.00004
S1235C1235LTGcCTc11AY.430.000004
S1235C1235delTGC---11AY.430.000004
S1235C1235del2TGc--c11AY.440.000006
S1235C1235XtgCtgA11AY.460.000104
S1235C1235delTGC---11AY.50.000021
S1235C1235WtgCtgG11AY.50.000021
S1235C1235FtGctTc11AY.5.30.000337
S1235C1235delTGC---11AY.520.000814
S1235C1235FtGctTc11AY.550.000917
S1235C1235CtgCtgT11AY.590.00053
S1235C1235delTGC---11AY.60.000041
S1235C1235FtGctTc11AY.620.000436
S1235C1235FtGctTc11AY.650.000533
S1235C1235RTgcCgc11AY.680.000274
S1235C1235delTGC---11AY.680.000274
S1235C1235CtgCtgT11AY.690.000187
S1235C1235FtGctTc11AY.7.10.000113
S1235C1235CtgCtgT11AY.720.001361
S1235C1235CtgCtgT11AY.740.000116
S1235C1235delTGC---11AY.810.001992
S1235C1235FtGctTc11AY.820.001357
S1235C1235GTgcGgc11AY.850.000427
S1235C1235CtgCtgT11AY.9.20.000037
S1235C1235FtGctTc11AY.900.000684
S1235C1235FtGctTc11AY.950.000761
S1235C1235FtGctTc11AZ.30.00152
S1235C1235CtgCtgT11B0.000128
S1235C1235del1TGcC-c11B.10.000009
S1235C1235GTgcGgc11B.10.000009
S1235C1235FtGctTc11B.1.1.1740.003378
S1235C1235FtGctTc11B.1.1.2000.007463
S1235C1235FtGctTc11B.1.1.2220.000204
S1235C1235CtgCtgT11B.1.1.2310.003096
S1235C1235FtGctTc11B.1.1.2730.006757
S1235C1235FtGctTc11B.1.1.280.000311
S1235C1235CtgCtgT11B.1.1.280.000311
S1235C1235FtGctTc11B.1.1.2840.000107
S1235C1235FtGctTc11B.1.1.2910.000742
S1235C1235FtGctTc11B.1.1.3110.000358
S1235C1235FtGctTc11B.1.1.3170.000412
S1235C1235FtGctTc11B.1.1.3180.000302
S1235C1235YtGctAc11B.1.1.3290.003846
S1235C1235FtGctTc11B.1.1.330.000421
S1235C1235CtgCtgT11B.1.1.3540.004386
S1235C1235FtGctTc11B.1.1.3650.005587
S1235C1235FtGctTc11B.1.1.3690.000446
S1235C1235FtGctTc11B.1.1.370.000193
S1235C1235CtgCtgT11B.1.1.4090.002833
S1235C1235delTGC---11B.1.1.4340.000349
S1235C1235FtGctTc11B.1.1.4840.1
S1235C1235FtGctTc11B.1.1.4870.005587
S1235C1235STgcAgc11B.1.1.5190.00004
S1235C1235RTgcCgc11B.1.1.5230.001563
S1235C1235CtgCtgT11B.1.1.630.000386
S1235C1235FtGctTc11B.1.1.630.000386
S1235C1235del1Tgc-gc11B.1.1.70.000001
S1235C1235YtGctAc11B.1.1.70.000001
S1235C1235FtGctTc11B.1.1260.001276
S1235C1235XtgCtgA11B.1.1390.000733
S1235C1235FtGctTc11B.1.1470.000756
S1235C1235CtgCtgT11B.1.160.160.000929
S1235C1235delTGC---11B.1.160.230.004831
S1235C1235CtgCtgT11B.1.1650.011905
S1235C1235GTgcGgc11B.1.1770.000013
S1235C1235XtgCtgA11B.1.1770.000013
S1235C1235delTGC---11B.1.177.100.000878
S1235C1235FtGctTc11B.1.177.140.006098
S1235C1235delTGC---11B.1.177.170.000821
S1235C1235XtgCtgA11B.1.177.180.00116
S1235C1235delTGC---11B.1.177.190.001431
S1235C1235CtgCtgT11B.1.177.210.000076
S1235C1235FtGctTc11B.1.177.420.000894
S1235C1235FtGctTc11B.1.177.520.001757
S1235C1235delTGC---11B.1.177.540.000606
S1235C1235CtgCtgT11B.1.177.60.000977
S1235C1235FtGctTc11B.1.177.600.000218
S1235C1235FtGctTc11B.1.177.730.000566
S1235C1235delTGC---11B.1.177.760.002494
S1235C1235FtGctTc11B.1.177.860.000183
S1235C1235YtGctAc11B.1.20.000009
S1235C1235del1tGct-c11B.1.20.000009
S1235C1235RTgcCgc11B.1.2060.000816
S1235C1235FtGctTc11B.1.2130.014925
S1235C1235delTGC---11B.1.2180.005155
S1235C1235FtGctTc11B.1.2210.000071
S1235C1235del2tGCt--11B.1.221.10.002907
S1235C1235FtGctTc11B.1.2230.002778
S1235C1235delTGC---11B.1.230.006061
S1235C1235CtgCtgT11B.1.2400.000216
S1235C1235CtgCtgT11B.1.2430.00007
S1235C1235CtgCtgT11B.1.258.170.000104
S1235C1235FtGctTc11B.1.2650.001271
S1235C1235FtGctTc11B.1.2770.02381
S1235C1235FtGctTc11B.1.2790.000514
S1235C1235CtgCtgT11B.1.3460.001311
S1235C1235GTgcGgc11B.1.3510.00003
S1235C1235GTgcGgc11B.1.351.20.000303
S1235C1235GTgcGgc11B.1.360.000146
S1235C1235FtGctTc11B.1.360.000146
S1235C1235delTGC---11B.1.36.170.000494
S1235C1235delTGC---11B.1.36.180.00042
S1235C1235GTgcGgc11B.1.36.220.001208
S1235C1235delTGC---11B.1.3890.001002
S1235C1235FtGctTc11B.1.3900.010638
S1235C1235FtGctTc11B.1.3960.000706
S1235C1235FtGctTc11B.1.4020.009804
S1235C1235delTGC---11B.1.4090.000781
S1235C1235StGctCc11B.1.4270.00005
S1235C1235CtgCtgT11B.1.4270.00005
S1235C1235XtgCtgA11B.1.4620.007246
S1235C1235FtGctTc11B.1.4620.007246
S1235C1235CtgCtgT11B.1.5090.000866
S1235C1235FtGctTc11B.1.5230.002451
S1235C1235FtGctTc11B.1.5270.003704
S1235C1235CtgCtgT11B.1.5460.003704
S1235C1235FtGctTc11B.1.5640.000426
S1235C1235CtgCtgT11B.1.5760.000907
S1235C1235FtGctTc11B.1.5800.004065
S1235C1235FtGctTc11B.1.5880.00091
S1235C1235RTgcCgc11B.1.5960.000087
S1235C1235delTGC---11B.1.5960.000087
S1235C1235FtGctTc11B.1.596.10.009346
S1235C1235CtgCtgT11B.1.6060.006024
S1235C1235WtgCtgG11B.1.617.20.000004
S1235C1235FtGctTc11B.1.6270.00202
S1235C1235FtGctTc11B.1.6370.000073
S1235C1235CtgCtgT11B.1.88.10.004808
S1235C1235FtGctTc11B.400.000364
S1235C1235FtGctTc11B.60.00091
S1235C1235CtgCtgT11B.60.00091
S1235C1235delTGC---11C.170.055556
S1235C1235FtGctTc11C.350.000774
S1235C1235FtGctTc11C.370.000116
S1235C1235FtGctTc11N.50.001767
S1235C1235delTGC---11P.10.000016
S1235C1235StGctCc11P.1.140.000048
S1235C1235LtGCtTA11P.1.160.000374
S1235C1235FtGctTc11P.1.170.000162
S1235C1235CtgCtgT11P.1.170.000162
S1235C1235FtGctTc11P.1.70.000319
S1235C1235FtGctTc11Q.10.000126
S1235C1235delTGC---11U.30.003861

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.