CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 549

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
S549T549InonsynaCaaTa116111140.95951823207-23209
S549T549InonsynaCAaTT1161460.03962123207-23209
S549T549InonsynaCAaTC116110.00086132623207-23209
S549T549TsynacAacG2451440.58775523207-23209
S549T549TsynacAacT245540.22040823207-23209
S549T549TsynacAacC245470.19183723207-23209
S549T549SnonsynAcaTca1941740.89690723207-23209
S549T549SnonsynaCAaGT194170.087628923207-23209
S549T549SnonsynaCAaGC19420.010309323207-23209
S549T549SnonsynAcATcT19410.0051546423207-23209
S549T549AnonsynAcaGca180180123207-23209
S549T549LnonsynACaTTa62380.61290323207-23209
S549T549LnonsynACATTG62160.25806523207-23209
S549T549LnonsynACaCTa6230.048387123207-23209
S549T549LnonsynACACTG6220.032258123207-23209
S549T549LnonsynACACTT6220.032258123207-23209
S549T549LnonsynACACTC6210.01612923207-23209
S549T549FnonsynACATTT48460.95833323207-23209
S549T549KnonsynaCaaAa48410.85416723207-23209
S549T549KnonsynaCAaAG4870.14583323207-23209
S549T549FnonsynACATTC4820.041666723207-23209
S549T549XnonsynACaTAa47270.57446823207-23209
S549T549XnonsynACaTGa47120.25531923207-23209
S549T549XnonsynACATAG4780.17021323207-23209
S549T549YnonsynACATAT37340.91891923207-23209
S549T549YnonsynACATAC3730.081081123207-23209
S549T549VnonsynACAGTT35160.45714323207-23209
S549T549VnonsynACaGTa35100.28571423207-23209
S549T549VnonsynACAGTG3580.22857123207-23209
S549T549VnonsynACAGTC3510.028571423207-23209
S549T549NnonsynaCAaAT34320.94117623207-23209
S549T549NnonsynaCAaAC3420.058823523207-23209
S549T549GnonsynACAGGT33160.48484823207-23209
S549T549GnonsynACaGGa3390.27272723207-23209
S549T549GnonsynACAGGG3370.21212123207-23209
S549T549GnonsynACAGGC3310.03030323207-23209
S549T549RnonsynaCaaGa21120.57142923207-23209
S549T549RnonsynaCAaGG2170.33333323207-23209
S549T549RnonsynACACGT2110.04761923207-23209
S549T549RnonsynACaCGa2110.04761923207-23209
S549T549CnonsynACATGT19170.89473723207-23209
S549T549CnonsynACATGC1920.10526323207-23209
S549T549deldelACA---1515123207-23209
S549T549MnonsynaCAaTG1414123207-23209
S549T549WnonsynACATGG88123207-23209
S549T549EnonsynACaGAa540.823207-23209
S549T549DnonsynACAGAT540.823207-23209
S549T549QnonsynACaCAa530.623207-23209
S549T549QnonsynACACAG520.423207-23209
S549T549DnonsynACAGAC510.223207-23209
S549T549EnonsynACAGAG510.223207-23209
S549T549HnonsynACACAT320.66666723207-23209
S549T549HnonsynACACAC310.33333323207-23209
S549T549del1delAca-ca210.523207-23209
S549T549del1delacAac-210.523207-23209
S549T549PnonsynAcaCca11123207-23209
S549T549del2delaCAa--11123207-23209

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S549T549IaCaaTa11141161All0.000213
S549T549IaCAaTT461161All0.000009
S549T549IaCAaTC11161All0
S549T549IaCaaTa854897B.1.1.70.000765
S549T549IaCAaTT42897B.1.1.70.000038
S549T549IaCAaTC1897B.1.1.70.000001
S549T549TacAacG144245All0.000028
S549T549TacAacT54245All0.00001
S549T549TacAacC47245All0.000009
S549T549SAcaTca174194All0.000033
S549T549SaCAaGT17194All0.000003
S549T549SaCAaGC2194All0
S549T549SAcATcT1194All0
S549T549AAcaGca180180All0.000034
S549T549SAcaTca80100B.1.1.70.000072
S549T549SaCAaGT17100B.1.1.70.000015
S549T549SaCAaGC2100B.1.1.70.000002
S549T549SAcATcT1100B.1.1.70.000001
S549T549AAcaGca8080B.1.1.2990.97561
S549T549LACaTTa3862All0.000007
S549T549LACATTG1662All0.000003
S549T549LACaCTa362All0.000001
S549T549LACACTT262All0
S549T549LACACTG262All0
S549T549LACACTC162All0
S549T549LACaTTa3458B.1.1.70.00003
S549T549LACATTG1658B.1.1.70.000014
S549T549LACaCTa358B.1.1.70.000003
S549T549LACACTG258B.1.1.70.000002
S549T549LACACTT258B.1.1.70.000002
S549T549LACACTC158B.1.1.70.000001
S549T549TacAacG5356AY.440.000323
S549T549TacAacC356AY.440.000018
S549T549FACATTT4648All0.000009
S549T549KaCaaAa4148All0.000008
S549T549KaCAaAG748All0.000001
S549T549FACATTC248All0
S549T549XACaTAa2747All0.000005
S549T549XACaTGa1247All0.000002
S549T549XACATAG847All0.000002
S549T549IaCaaTa4545XA1
S549T549FACATTT4244B.1.1.70.000038
S549T549FACATTC244B.1.1.70.000002
S549T549XACaTAa2241B.1.1.70.00002
S549T549XACaTGa1141B.1.1.70.00001
S549T549XACATAG841B.1.1.70.000007
S549T549YACATAT3437All0.000007
S549T549YACATAC337All0.000001
S549T549IaCaaTa3637AY.250.000217
S549T549IaCAaTT137AY.250.000006
S549T549VACAGTT1635All0.000003
S549T549VACaGTa1035All0.000002
S549T549VACAGTG835All0.000002
S549T549VACAGTC135All0
S549T549VACAGTT1635B.1.1.70.000014
S549T549VACaGTa1035B.1.1.70.000009
S549T549VACAGTG835B.1.1.70.000007
S549T549VACAGTC135B.1.1.70.000001
S549T549NaCAaAT3234All0.000006
S549T549NaCAaAC234All0
S549T549AAcaGca3434B.1.1.70.00003
S549T549SAcaTca3434B.1.617.20.000128
S549T549GACAGGT1633All0.000003
S549T549GACaGGa933All0.000002
S549T549GACAGGG733All0.000001
S549T549GACAGGC133All0
S549T549YACATAT2932B.1.1.70.000026
S549T549YACATAC332B.1.1.70.000003
S549T549GACAGGT1531B.1.1.70.000013
S549T549GACaGGa831B.1.1.70.000007
S549T549GACAGGG731B.1.1.70.000006
S549T549GACAGGC131B.1.1.70.000001
S549T549NaCAaAT2830B.1.1.70.000025
S549T549NaCAaAC230B.1.1.70.000002
S549T549IaCaaTa2929AY.430.000128
S549T549KaCaaAa2229B.1.1.70.00002
S549T549KaCAaAG729B.1.1.70.000006
S549T549IaCaaTa2828AY.40.000044
S549T549TacAacG2627AY.40.00004
S549T549TacAacT127AY.40.000002
S549T549SAcaTca2323AY.250.000138
S549T549RaCaaGa1221All0.000002
S549T549RaCAaGG721All0.000001
S549T549RACaCGa121All0
S549T549RACACGT121All0
S549T549TacAacG2121AY.250.000126
S549T549RaCaaGa1221B.1.1.70.000011
S549T549RaCAaGG721B.1.1.70.000006
S549T549RACACGT121B.1.1.70.000001
S549T549RACaCGa121B.1.1.70.000001
S549T549CACATGT1719All0.000003
S549T549CACATGC219All0
S549T549TacAacC1119B.1.617.20.000041
S549T549TacAacG819B.1.617.20.00003
S549T549CACATGT1618B.1.1.70.000014
S549T549CACATGC218B.1.1.70.000002
S549T549delACA---1515All0.000003
S549T549TacAacT1515AY.1130.002136
S549T549TacAacC815AY.430.000035
S549T549TacAacT715AY.430.000031
S549T549MaCAaTG1414All0.000003
S549T549AAcaGca1414AY.1110.002564
S549T549MaCAaTG1414B.1.1.70.000013
S549T549TacAacG813B.1.1.70.000007
S549T549TacAacT413B.1.1.70.000004
S549T549TacAacC113B.1.1.70.000001
S549T549IaCaaTa1212B.1.10.000218
S549T549KaCaaAa99AY.240.003879
S549T549TacAacC99B.1.177.860.001651
S549T549WACATGG88All0.000002
S549T549TacAacT78AY.340.000679
S549T549TacAacC18AY.340.000097
S549T549IaCaaTa88AY.390.000198
S549T549WACATGG88B.1.1.70.000007
S549T549AAcaGca88P.10.000126
S549T549TacAacT77AY.260.000198
S549T549SAcaTca77AY.390.000173
S549T549IaCaaTa77AY.4.30.005892
S549T549AAcaGca77B.1.1600.000218
S549T549IaCaaTa56B.10.000046
S549T549IaCAaTT16B.10.000009
S549T549TacAacG66B.1.177.50.007453
S549T549IaCaaTa66B.1.177.520.010545
S549T549IaCaaTa66B.1.2340.000792
S549T549AAcaGca66B.1.617.20.000023
S549T549EACaGAa45All0.000001
S549T549DACAGAT45All0.000001
S549T549QACaCAa35All0.000001
S549T549QACACAG25All0
S549T549EACAGAG15All0
S549T549DACAGAC15All0
S549T549SAcaTca55AY.40.000008
S549T549IaCaaTa55AY.46.60.000361
S549T549QACaCAa35B.1.1.70.000003
S549T549QACACAG25B.1.1.70.000002
S549T549IaCaaTa45P.10.000063
S549T549IaCAaTT15P.10.000016
S549T549IaCaaTa44AY.1030.000025
S549T549delACA---44AY.250.000024
S549T549AAcaGca44AY.40.000006
S549T549IaCaaTa44AY.440.000024
S549T549TacAacC44AY.60.000165
S549T549IaCaaTa44AY.720.005442
S549T549IaCaaTa44B.1.1.2650.012618
S549T549TacAacG44B.1.1.4120.030534
S549T549EACaGAa34B.1.1.70.000003
S549T549DACAGAT34B.1.1.70.000003
S549T549DACAGAC14B.1.1.70.000001
S549T549EACAGAG14B.1.1.70.000001
S549T549TacAacC44B.1.1770.000053
S549T549IaCaaTa44B.1.617.20.000015
S549T549HACACAT23All0
S549T549HACACAC13All0
S549T549AAcaGca33AY.260.000085
S549T549IaCaaTa33AY.30.00003
S549T549SAcaTca33AY.430.000013
S549T549IaCaaTa33AY.470.000093
S549T549IaCaaTa33AY.50.000062
S549T549SAcaTca33AY.510.002727
S549T549IaCaaTa33B.1.1.390.001529
S549T549HACACAT23B.1.1.70.000002
S549T549HACACAC13B.1.1.70.000001
S549T549IaCaaTa33B.1.20.000026
S549T549AAcaGca33B.1.20.000026
S549T549TacAacG33B.1.3510.000089
S549T549TacAacG33B.1.36.350.007812
S549T549del1Aca-ca12All0
S549T549del1acAac-12All0
S549T549SAcaTca22AY.1020.000053
S549T549IaCaaTa22AY.1110.000366
S549T549KaCaaAa22AY.260.000057
S549T549IaCaaTa22AY.340.000194
S549T549SAcaTca22AY.360.000296
S549T549AAcaGca22AY.430.000009
S549T549SAcaTca22AY.50.000041
S549T549AAcaGca22AY.640.00119
S549T549IaCaaTa22AY.920.000575
S549T549KaCaaAa22B.10.000018
S549T549AAcaGca22B.10.000018
S549T549GACAGGT12B.1.10.000018
S549T549XACaTAa12B.1.10.000018
S549T549GACaGGa12B.1.10.000018
S549T549XACaTGa12B.1.10.000018
S549T549TacAacT22B.1.1.250.001137
S549T549SAcaTca22B.1.1.2990.02439
S549T549IaCaaTa22B.1.1770.000026
S549T549SAcaTca22B.1.20.000018
S549T549TacAacC22B.1.2430.000139
S549T549AAcaGca22B.1.2430.000139
S549T549TacAacC22B.1.2580.000133
S549T549IaCAaTT12B.1.5760.000907
S549T549IaCaaTa12B.1.5760.000907
S549T549IaCaaTa22D.20.00015
S549T549TacAacT22P.10.000032
S549T549PAcaCca11All0
S549T549del2aCAa--11All0
S549T549SAcaTca11AY.1000.000046
S549T549AAcaGca11AY.1020.000027
S549T549SAcaTca11AY.1030.000006
S549T549AAcaGca11AY.1030.000006
S549T549TacAacT11AY.1030.000006
S549T549IaCaaTa11AY.1060.000335
S549T549IaCaaTa11AY.1150.005208
S549T549del2aCAa--11AY.1170.000085
S549T549IaCaaTa11AY.1170.000085
S549T549TacAacG11AY.1190.000035
S549T549TacAacG11AY.130.000161
S549T549TacAacG11AY.16.10.00047
S549T549IaCaaTa11AY.200.000039
S549T549TacAacG11AY.23.10.000417
S549T549AAcaGca11AY.250.000006
S549T549XACaTAa11AY.250.000006
S549T549NaCAaAT11AY.250.000006
S549T549FACATTT11AY.250.000006
S549T549LACaTTa11AY.250.000006
S549T549YACATAT11AY.250.000006
S549T549KaCaaAa11AY.250.000006
S549T549IaCaaTa11AY.260.000028
S549T549SAcaTca11AY.290.000016
S549T549AAcaGca11AY.290.000016
S549T549KaCaaAa11AY.30.00001
S549T549TacAacG11AY.30.00001
S549T549delACA---11AY.330.000067
S549T549delACA---11AY.350.000233
S549T549delACA---11AY.380.000499
S549T549delACA---11AY.40.000002
S549T549IaCaaTa11AY.4.20.000022
S549T549AAcaGca11AY.4.20.000022
S549T549SAcaTca11AY.400.000964
S549T549delACA---11AY.430.000004
S549T549AAcaGca11AY.440.000006
S549T549SAcaTca11AY.440.000006
S549T549delACA---11AY.46.40.000165
S549T549AAcaGca11AY.5.40.000277
S549T549TacAacT11AY.550.000917
S549T549TacAacT11AY.560.001605
S549T549IaCaaTa11AY.750.000056
S549T549TacAacG11AY.75.10.00018
S549T549delACA---11AY.75.10.00018
S549T549AAcaGca11AY.790.001211
S549T549IaCaaTa11AY.960.002075
S549T549TacAacC11AY.980.000079
S549T549IaCaaTa11AY.98.10.000048
S549T549SAcaTca11AY.98.10.000048
S549T549delACA---11AY.990.001049
S549T549TacAacT11AY.99.20.000092
S549T549LACaTTa11B.10.000009
S549T549NaCAaAT11B.10.000009
S549T549YACATAT11B.10.000009
S549T549XACaTAa11B.10.000009
S549T549FACATTT11B.10.000009
S549T549PAcaCca11B.10.000009
S549T549TacAacG11B.10.000009
S549T549SAcaTca11B.10.000009
S549T549del1acAac-11B.10.000009
S549T549CACATGT11B.1.10.000018
S549T549SAcaTca11B.1.10.000018
S549T549EACaGAa11B.1.10.000018
S549T549DACAGAT11B.1.10.000018
S549T549YACATAT11B.1.10.000018
S549T549IaCaaTa11B.1.1.2220.000204
S549T549TacAacT11B.1.1.2770.000759
S549T549IaCaaTa11B.1.1.2800.003086
S549T549TacAacG11B.1.1.2840.000107
S549T549IaCaaTa11B.1.1.2840.000107
S549T549IaCaaTa11B.1.1.330.000421
S549T549KaCaaAa11B.1.1.4090.002833
S549T549IaCaaTa11B.1.1.470.005348
S549T549TacAacG11B.1.1.5190.00004
S549T549IaCaaTa11B.1.1600.000031
S549T549TacAacG11B.1.1600.000031
S549T549AAcaGca11B.1.177.760.002494
S549T549TacAacT11B.1.20.000009
S549T549IaCaaTa11B.1.2580.000067
S549T549IaCaaTa11B.1.3360.002439
S549T549AAcaGca11B.1.360.000146
S549T549IaCaaTa11B.1.3620.001541
S549T549delACA---11B.1.4150.014286
S549T549IaCaaTa11B.1.4290.000024
S549T549TacAacT11B.1.4290.000024
S549T549AAcaGca11B.1.5250.000113
S549T549IaCaaTa11B.1.5250.000113
S549T549SAcaTca11B.1.5260.000024
S549T549IaCaaTa11B.1.5270.003704
S549T549YACATAT11B.1.5760.000907
S549T549FACATTT11B.1.5760.000907
S549T549NaCAaAT11B.1.5760.000907
S549T549XACaTAa11B.1.5760.000907
S549T549LACaTTa11B.1.5760.000907
S549T549KaCaaAa11B.1.5760.000907
S549T549TacAacG11B.1.5800.004065
S549T549KaCaaAa11B.1.5820.000491
S549T549IaCaaTa11B.1.5960.000087
S549T549TacAacC11B.1.5960.000087
S549T549TacAacG11B.1.6000.005848
S549T549AAcaGca11B.1.617.10.000129
S549T549delACA---11B.1.617.20.000004
S549T549delACA---11B.1.6200.000946
S549T549TacAacT11B.1.6210.000089
S549T549del1Aca-ca11D.20.000075
S549T549KaCaaAa11P.10.000016
S549T549FACATTT11P.10.000016
S549T549YACATAT11P.10.000016
S549T549XACaTAa11P.10.000016
S549T549LACaTTa11P.10.000016
S549T549NaCAaAT11P.10.000016
S549T549TacAacT11P.1.150.000232
S549T549IaCaaTa11Q.30.000145
S549T549AAcaGca11R.20.014493