CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 346

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
S346R346KnonsynaGaaAa14782147710.99925622598-22600
S346R346KnonsynaGAaAG14782110.00074414822598-22600
S346R346SnonsynagAagC249423320.93504422598-22600
S346R346SnonsynagAagT24941620.064955922598-22600
S346R346InonsynaGaaTa862862122598-22600
S346R346RsynagAagG4123910.94902922598-22600
S346R346RsynAgaCga412210.050970922598-22600
S346R346GnonsynAgaGga217217122598-22600
S346R346TnonsynaGaaCa136136122598-22600
S346R346deldelAGA---2727122598-22600
S346R346del1delaGaa-a530.622598-22600
S346R346del1delAga-ga510.222598-22600
S346R346del1delagAag-510.222598-22600
S346R346FnonsynAGATTT44122598-22600
S346R346XnonsynAgaTga44122598-22600
S346R346EnonsynAGaGAa33122598-22600
S346R346LnonsynAGATTG210.522598-22600
S346R346LnonsynAGaTTa210.522598-22600
S346R346WnonsynAgATgG11122598-22600
S346R346NnonsynaGAaAC11122598-22600
S346R346MnonsynaGAaTG11122598-22600
S346R346del2delaGAa--11122598-22600

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S346R346KaGaaAa1477114782All0.002825
S346R346KaGAaAG1114782All0.000002
S346R346KaGaaAa1108011090B.1.6210.980791
S346R346KaGAaAG1011090B.1.6210.000885
S346R346SagAagC23322494All0.000446
S346R346SagAagT1622494All0.000031
S346R346KaGaaAa19421942B.1.621.10.982296
S346R346SagAagC17281729C.36.30.980147
S346R346SagAagT11729C.36.30.000567
S346R346IaGaaTa862862All0.000165
S346R346RagAagG391412All0.000075
S346R346RAgaCga21412All0.000004
S346R346IaGaaTa380380AY.390.00939
S346R346SagAagC328328C.36.3.10.891304
S346R346KaGaaAa259259B.1.1.70.000232
S346R346GAgaGga217217All0.000042
S346R346KaGaaAa173173B.10.001585
S346R346KaGaaAa165165B.1.2320.088662
S346R346KaGaaAa154154B.1.1.3480.122611
S346R346IaGaaTa153153AY.40.000238
S346R346TaGaaCa136136All0.000026
S346R346KaGaaAa128128B.1.415.10.969697
S346R346TaGaaCa100100B.1.1.70.00009
S346R346KaGaaAa100100B.1.2210.007103
S346R346KaGaaAa7979AY.1030.000491
S346R346RagAagG7474P.10.001166
S346R346SagAagC4873AY.40.000075
S346R346SagAagT2573AY.40.000039
S346R346RagAagG7071B.1.1.70.000063
S346R346RAgaCga171B.1.1.70.000001
S346R346KaGaaAa6868AY.330.004541
S346R346RagAagG5959B.1.177.40.012453
S346R346IaGaaTa5656AY.30.000557
S346R346GAgaGga5050AY.30.000497
S346R346SagAagC4445B.10.000403
S346R346SagAagT145B.10.000009
S346R346KaGaaAa4343B.1.5260.001011
S346R346SagAagT3042B.1.1.70.000027
S346R346SagAagC1242B.1.1.70.000011
S346R346GAgaGga4141B.1.4270.00207
S346R346KaGaaAa4040B.1.258.140.039216
S346R346KaGaaAa3939B.1.617.20.000147
S346R346RagAagG3838AY.420.001529
S346R346KaGaaAa3636AY.430.000159
S346R346SagAagC2134AY.250.000126
S346R346SagAagT1334AY.250.000078
S346R346KaGaaAa3434B.1.6230.01824
S346R346SagAagC3434C.360.030965
S346R346IaGaaTa3232B.1.1.70.000029
S346R346SagAagC2929P.40.110266
S346R346IaGaaTa2828AY.430.000124
S346R346IaGaaTa2828B.1.5260.000658
S346R346delAGA---2727All0.000005
S346R346RagAagG2627AY.40.00004
S346R346RAgaCga127AY.40.000002
S346R346RagAagG2626AY.99.20.002396
S346R346KaGaaAa2626B.1.20.000229
S346R346KaGaaAa2525AY.440.000152
S346R346IaGaaTa2222B.1.617.20.000083
S346R346SagAagT1922B.1.617.20.000072
S346R346SagAagC322B.1.617.20.000011
S346R346KaGaaAa2222P.10.000347
S346R346KaGaaAa2121B.1.1.5190.000834
S346R346SagAagC2121B.1.5760.019039
S346R346KaGaaAa2020B.1.10.000363
S346R346IaGaaTa1919B.1.177.210.001453
S346R346IaGaaTa1717AY.250.000102
S346R346GAgaGga1515B.1.1.70.000013
S346R346KaGaaAa1515B.1.4290.000353
S346R346SagAagT1414AY.730.009315
S346R346KaGaaAa1414B0.001789
S346R346KaGaaAa1414B.1.177.600.003058
S346R346GAgaGga1313AY.330.000868
S346R346GAgaGga1313AY.40.00002
S346R346GAgaGga1313AY.4.20.000282
S346R346KaGaaAa1212AY.1020.000318
S346R346RagAagG1212AY.440.000073
S346R346KaGaaAa1212B.1.177.60.011719
S346R346KaGaaAa1111AY.40.000017
S346R346KaGaaAa1010B.1.360.001459
S346R346GAgaGga1010B.1.617.20.000038
S346R346SagAagT99AQ.21
S346R346RAgaCga59AY.1030.000031
S346R346RagAagG49AY.1030.000025
S346R346KaGaaAa99AY.230.000628
S346R346KaGaaAa89AY.250.000048
S346R346KaGAaAG19AY.250.000006
S346R346GAgaGga99AY.46.60.00065
S346R346RagAagG89B.1.617.20.00003
S346R346RAgaCga19B.1.617.20.000004
S346R346GAgaGga88AY.1000.000368
S346R346SagAagC88AY.1200.000297
S346R346KaGaaAa88AY.200.000311
S346R346IaGaaTa88AY.260.000226
S346R346KaGaaAa88AY.390.000198
S346R346IaGaaTa88AY.440.000049
S346R346IaGaaTa88AY.9.20.000294
S346R346delAGA---88B.1.1.70.000007
S346R346GAgaGga77AY.1030.000043
S346R346RagAagG77AY.430.000031
S346R346TaGaaCa77AY.750.000392
S346R346SagAagC77B.1.10.000127
S346R346IaGaaTa66AY.1030.000037
S346R346RagAagG66AY.250.000036
S346R346SagAagT66AY.260.00017
S346R346GAgaGga66AY.260.00017
S346R346IaGaaTa66AY.50.000124
S346R346IaGaaTa66B.1.10.000109
S346R346RAgaCga56B.1.10.000091
S346R346RagAagG16B.1.10.000018
S346R346IaGaaTa66B.1.4290.000141
S346R346KaGaaAa66B.1.6300.031414
S346R346RagAagG66P.1.100.001617
S346R346KaGaaAa55A.300.714286
S346R346del1aGaa-a35All0.000001
S346R346del1Aga-ga15All0
S346R346del1agAag-15All0
S346R346SagAagT55AY.1190.000177
S346R346SagAagT45AY.430.000018
S346R346SagAagC15AY.430.000004
S346R346SagAagT45AY.920.001149
S346R346SagAagC15AY.920.000287
S346R346IaGaaTa55B.10.000046
S346R346SagAagT35B.1.20.000026
S346R346SagAagC25B.1.20.000018
S346R346KaGaaAa55B.1.2400.001078
S346R346KaGaaAa55B.1.2430.000348
S346R346KaGaaAa55B.1.3670.003962
S346R346KaGaaAa55B.1.5960.000436
S346R346KaGaaAa55B.1.6370.000365
S346R346KaGaaAa55P.1.150.001162
S346R346XAgaTga44All0.000001
S346R346FAGATTT44All0.000001
S346R346KaGaaAa44AY.1160.001147
S346R346KaGaaAa44AY.1190.000141
S346R346GAgaGga44AY.420.000161
S346R346IaGaaTa44AY.420.000161
S346R346IaGaaTa44AY.540.000381
S346R346RagAagG44B.10.000037
S346R346SagAagC44B.1.1.2940.005063
S346R346RagAagG44B.1.1.3740.009501
S346R346SagAagT44B.1.1080.023256
S346R346RagAagG44B.1.20.000035
S346R346KaGaaAa44B.1.2580.000266
S346R346KaGaaAa44B.1.3510.000119
S346R346KaGaaAa44C.1.20.017021
S346R346IaGaaTa44P.10.000063
S346R346IaGaaTa44P.1.140.000191
S346R346KaGaaAa44P.1.170.000647
S346R346KaGaaAa44Q.80.00066
S346R346IaGaaTa33A.270.004967
S346R346EAGaGAa33All0.000001
S346R346SagAagC33AY.1000.000138
S346R346TaGaaCa33AY.1030.000019
S346R346SagAagT33AY.1030.000019
S346R346KaGaaAa33AY.20.001068
S346R346IaGaaTa33AY.200.000117
S346R346KaGaaAa33AY.260.000085
S346R346IaGaaTa33AY.330.0002
S346R346RAgaCga33AY.4.20.000065
S346R346IaGaaTa33AY.450.000365
S346R346SagAagC23AY.450.000243
S346R346SagAagT13AY.450.000122
S346R346KaGaaAa33AY.46.60.000217
S346R346SagAagC23AY.750.000112
S346R346SagAagT13AY.750.000056
S346R346IaGaaTa33AY.800.003386
S346R346KaGaaAa33AY.99.20.000276
S346R346TaGaaCa33B.10.000027
S346R346RagAagG33B.1.1.1340.034091
S346R346KaGaaAa33B.1.1.3060.001315
S346R346KaGaaAa33B.1.1.5230.004687
S346R346FAGATTT33B.1.1.70.000003
S346R346KaGaaAa33B.1.1770.00004
S346R346IaGaaTa33B.1.20.000026
S346R346GAgaGga33B.1.20.000026
S346R346GAgaGga33B.1.3150.018182
S346R346RagAagG33B.1.36.270.00229
S346R346GAgaGga33B.1.4290.000071
S346R346SagAagC23B.1.5170.000854
S346R346SagAagT13B.1.5170.000427
S346R346KaGaaAa33B.1.5640.001278
S346R346delAGA---33B.1.617.20.000011
S346R346del1aGaa-a33B.1.6210.000266
S346R346KaGaaAa33P.1.120.001452
S346R346KaGaaAa33P.1.140.000143
S346R346RagAagG33Q.80.000495
S346R346EAGaGAa220.111111
S346R346LAGATTG120.055556
S346R346LAGaTTa120.055556
S346R346KaGaaAa22A0.000774
S346R346IaGaaTa22A0.000774
S346R346SagAagT22A.2.50.000998
S346R346LAGATTG12All0
S346R346LAGaTTa12All0
S346R346TaGaaCa22AY.1020.000053
S346R346IaGaaTa22AY.1130.000285
S346R346SagAagC22AY.1160.000574
S346R346KaGaaAa22AY.160.000759
S346R346IaGaaTa22AY.230.000139
S346R346IaGaaTa22AY.290.000032
S346R346KaGaaAa22AY.30.00002
S346R346RagAagG22AY.330.000134
S346R346IaGaaTa22AY.340.000194
S346R346GAgaGga22AY.340.000194
S346R346IaGaaTa22AY.360.000296
S346R346RagAagG22AY.4.2.10.000298
S346R346TaGaaCa22AY.430.000009
S346R346TaGaaCa22AY.440.000012
S346R346SagAagC12AY.440.000006
S346R346SagAagT12AY.440.000006
S346R346IaGaaTa22AY.470.000062
S346R346KaGaaAa22AY.50.000041
S346R346GAgaGga22AY.50.000041
S346R346SagAagC12AY.550.000917
S346R346SagAagT12AY.550.000917
S346R346KaGaaAa22AY.680.000547
S346R346RagAagG22B0.000256
S346R346delAGA---22B.10.000018
S346R346IaGaaTa22B.1.1.2320.00363
S346R346KaGaaAa22B.1.1.2670.020202
S346R346KaGaaAa22B.1.1.280.000622
S346R346KaGaaAa22B.1.1.3180.000604
S346R346SagAagC22B.1.1.3720.001377
S346R346RagAagG22B.1.1770.000026
S346R346GAgaGga22B.1.1770.000026
S346R346IaGaaTa22B.1.177.40.000422
S346R346KaGaaAa22B.1.177.730.001133
S346R346delAGA---22B.1.20.000018
S346R346KaGaaAa22B.1.2340.000264
S346R346RAgaCga22B.1.2430.000139
S346R346KaGaaAa22B.1.258.30.00335
S346R346KaGaaAa22B.1.3110.000549
S346R346KaGaaAa22B.1.3240.00321
S346R346IaGaaTa22B.1.3510.000059
S346R346KaGaaAa22B.1.4800.004975
S346R346KaGaaAa22B.1.5330.019231
S346R346KaGaaAa22B.1.564.10.003155
S346R346RagAagG22B.1.5750.000607
S346R346KaGaaAa22B.1.5950.000522
S346R346IaGaaTa22B.1.5960.000174
S346R346TaGaaCa22B.1.617.20.000008
S346R346KaGaaAa22B.1.6330.083333
S346R346SagAagC22B.1.810.042553
S346R346KaGaaAa22C.370.000232
S346R346SagAagT22D.20.00015
S346R346SagAagT22P.10.000032
S346R346KaGaaAa22Q.30.00029
S346R346KaGaaAa22R.10.00018
S346R346XAgaTga110.055556
S346R346RagAagG110.055556
S346R346MaGAaTG110.055556
S346R346WAgATgG110.055556
S346R346IaGaaTa110.055556
S346R346KaGaaAa11A.10.000282
S346R346SagAagC11A.20.000662
S346R346KaGaaAa11A.2.40.003367
S346R346SagAagT11AD.20.000219
S346R346MaGAaTG11All0
S346R346WAgATgG11All0
S346R346NaGAaAC11All0
S346R346del2aGAa--11All0
S346R346SagAagT11AY.1020.000027
S346R346GAgaGga11AY.1020.000027
S346R346del1agAag-11AY.1030.000006
S346R346delAGA---11AY.1080.001103
S346R346KaGaaAa11AY.1130.000142
S346R346RagAagG11AY.1130.000142
S346R346RagAagG11AY.1140.000231
S346R346RagAagG11AY.1160.000287
S346R346GAgaGga11AY.1170.000085
S346R346SagAagT11AY.1170.000085
S346R346IaGaaTa11AY.1180.000063
S346R346IaGaaTa11AY.1190.000035
S346R346GAgaGga11AY.1190.000035
S346R346TaGaaCa11AY.1190.000035
S346R346SagAagC11AY.120.000316
S346R346IaGaaTa11AY.1200.000037
S346R346RagAagG11AY.1200.000037
S346R346IaGaaTa11AY.140.000088
S346R346IaGaaTa11AY.16.10.00047
S346R346RagAagG11AY.200.000039
S346R346SagAagT11AY.230.00007
S346R346TaGaaCa11AY.250.000006
S346R346delAGA---11AY.260.000028
S346R346SagAagC11AY.270.000065
S346R346RagAagG11AY.290.000016
S346R346KaGaaAa11AY.290.000016
S346R346GAgaGga11AY.290.000016
S346R346TaGaaCa11AY.30.00001
S346R346delAGA---11AY.30.00001
S346R346RagAagG11AY.30.00001
S346R346IaGaaTa11AY.320.000532
S346R346NaGAaAC11AY.330.000067
S346R346KaGaaAa11AY.34.10.00051
S346R346KaGaaAa11AY.360.000148
S346R346SagAagC11AY.390.000025
S346R346RagAagG11AY.390.000025
S346R346GAgaGga11AY.390.000025
S346R346IaGaaTa11AY.39.10.00004
S346R346TaGaaCa11AY.40.000002
S346R346delAGA---11AY.40.000002
S346R346SagAagT11AY.4.20.000022
S346R346KaGaaAa11AY.4.2.10.000149
S346R346KaGaaAa11AY.4.30.000842
S346R346IaGaaTa11AY.4.50.000107
S346R346GAgaGga11AY.410.000294
S346R346TaGaaCa11AY.420.00004
S346R346delAGA---11AY.430.000004
S346R346TaGaaCa11AY.460.000104
S346R346KaGaaAa11AY.460.000104
S346R346IaGaaTa11AY.46.10.001027
S346R346KaGaaAa11AY.46.10.001027
S346R346GAgaGga11AY.46.30.000934
S346R346SagAagT11AY.46.50.000198
S346R346del1Aga-ga11AY.50.000021
S346R346KaGaaAa11AY.530.000288
S346R346KaGaaAa11AY.580.000907
S346R346SagAagT11AY.590.00053
S346R346SagAagC11AY.60.000041
S346R346GAgaGga11AY.610.000105
S346R346delAGA---11AY.660.00107
S346R346RagAagG11AY.680.000274
S346R346SagAagC11AY.690.000187
S346R346SagAagC11AY.700.000209
S346R346delAGA---11AY.720.001361
S346R346IaGaaTa11AY.740.000116
S346R346SagAagC11AY.75.10.00018
S346R346SagAagC11AY.90.000068
S346R346KaGaaAa11AY.90.000068
S346R346IaGaaTa11AY.90.000068
S346R346IaGaaTa11AY.9.10.000084
S346R346RagAagG11AY.9.10.000084
S346R346KaGaaAa11AY.9.20.000037
S346R346RagAagG11AY.9.20.000037
S346R346SagAagC11AY.910.00073
S346R346KaGaaAa11AY.920.000287
S346R346IaGaaTa11AY.920.000287
S346R346KaGaaAa11AY.940.000443
S346R346IaGaaTa11AY.970.001701
S346R346IaGaaTa11AY.99.20.000092
S346R346SagAagC11B0.000128
S346R346IaGaaTa11B0.000128
S346R346GAgaGga11B.10.000009
S346R346del2aGAa--11B.10.000009
S346R346delAGA---11B.1.10.000018
S346R346KaGaaAa11B.1.1.10.000327
S346R346SagAagC11B.1.1.10.000327
S346R346SagAagC11B.1.1.1740.003378
S346R346KaGaaAa11B.1.1.1890.001513
S346R346KaGaaAa11B.1.1.2140.000055
S346R346RagAagG11B.1.1.2160.00089
S346R346KaGaaAa11B.1.1.2360.006897
S346R346KaGaaAa11B.1.1.2840.000107
S346R346XAgaTga11B.1.1.3110.000358
S346R346SagAagC11B.1.1.3120.001912
S346R346XAgaTga11B.1.1.3260.001761
S346R346RagAagG11B.1.1.330.000421
S346R346KaGaaAa11B.1.1.3540.004386
S346R346KaGaaAa11B.1.1.370.000193
S346R346KaGaaAa11B.1.1.4480.002033
S346R346RagAagG11B.1.1.5190.00004
S346R346KaGaaAa11B.1.1.5260.003546
S346R346XAgaTga11B.1.1.70.000001
S346R346TaGaaCa11B.1.1600.000031
S346R346RagAagG11B.1.160.170.001701
S346R346KaGaaAa11B.1.160.70.002079
S346R346SagAagT11B.1.1770.000013
S346R346delAGA---11B.1.177.180.00116
S346R346TaGaaCa11B.1.177.450.000381
S346R346KaGaaAa11B.1.177.510.004566
S346R346KaGaaAa11B.1.177.520.001757
S346R346RAgaCga11B.1.177.570.000281
S346R346KaGaaAa11B.1.177.570.000281
S346R346RagAagG11B.1.177.600.000218
S346R346FAGATTT11B.1.177.650.000665
S346R346TaGaaCa11B.1.1840.058824
S346R346KaGaaAa11B.1.214.20.0006
S346R346SagAagC11B.1.2210.000071
S346R346KaGaaAa11B.1.2360.002053
S346R346KaGaaAa11B.1.2370.004975
S346R346RagAagG11B.1.2580.000067
S346R346EAGaGAa11B.1.2580.000067
S346R346SagAagC11B.1.2580.000067
S346R346SagAagT11B.1.3490.000715
S346R346SagAagC11B.1.3510.00003
S346R346RAgaCga11B.1.3510.00003
S346R346GAgaGga11B.1.3510.00003
S346R346GAgaGga11B.1.351.50.0006
S346R346KaGaaAa11B.1.351.50.0006
S346R346GAgaGga11B.1.36.180.00042
S346R346TaGaaCa11B.1.36.80.001
S346R346RagAagG11B.1.3690.000285
S346R346SagAagC11B.1.3750.00082
S346R346KaGaaAa11B.1.3750.00082
S346R346KaGaaAa11B.1.3960.000706
S346R346KaGaaAa11B.1.3990.001934
S346R346KaGaaAa11B.1.4090.000781
S346R346delAGA---11B.1.4090.000781
S346R346KaGaaAa11B.1.4270.00005
S346R346TaGaaCa11B.1.4290.000024
S346R346SagAagC11B.1.4290.000024
S346R346RagAagG11B.1.438.10.000107
S346R346TaGaaCa11B.1.438.10.000107
S346R346TaGaaCa11B.1.4460.02
S346R346KaGaaAa11B.1.4630.008065
S346R346KaGaaAa11B.1.5250.000113
S346R346SagAagC11B.1.5260.000024
S346R346GAgaGga11B.1.5610.000397
S346R346KaGaaAa11B.1.5610.000397
S346R346RagAagG11B.1.5610.000397
S346R346KaGaaAa11B.1.5760.000907
S346R346KaGaaAa11B.1.5820.000491
S346R346RAgaCga11B.1.5950.000261
S346R346KaGaaAa11B.1.617.10.000129
S346R346IaGaaTa11B.1.617.10.000129
S346R346SagAagC11B.1.617.10.000129
S346R346delAGA---11B.1.6200.000946
S346R346KaGaaAa11B.1.6270.00202
S346R346TaGaaCa11B.1.6320.006711
S346R346KaGaaAa11B.1.6360.006711
S346R346KaGaaAa11B.1.6380.052632
S346R346KaGaaAa11B.1.960.018868
S346R346KaGaaAa11B.40.002208
S346R346SagAagC11C.160.00106
S346R346KaGaaAa11C.36.3.10.002717
S346R346RagAagG11C.370.000116
S346R346SagAagC11C.370.000116
S346R346KaGaaAa11C.37.10.002618
S346R346SagAagC11C.390.018868
S346R346KaGaaAa11P.1.100.000269
S346R346RagAagG11P.1.120.000484
S346R346TaGaaCa11P.1.150.000232
S346R346KaGaaAa11P.20.000187
S346R346SagAagT11Q.10.000126
S346R346KaGaaAa11Q.40.000455
S346R346KaGaaAa11Q.60.006623
S346R346delAGA---11Q.80.000165