CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 2

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
S2F2LnonsynttTttA5815020.86402821566-21568
S2F2LnonsynTttCtt581720.12392421566-21568
S2F2LnonsynttTttG58170.012048221566-21568
S2F2SnonsyntTttCt249249121566-21568
S2F2deldelTTT---5151121566-21568
S2F2VnonsynTttGtt3232121566-21568
S2F2FsynttTttC1010121566-21568
S2F2InonsynTttAtt55121566-21568
S2F2CnonsyntTttGt55121566-21568
S2F2YnonsyntTttAt22121566-21568
S2F2GnonsynTTTGGG11121566-21568
S2F2AnonsynTTtGCt11121566-21568
S2F2QnonsynTTTCAA11121566-21568
S2F2del1delTtt-tt11121566-21568
S2F2del2delTTT--N11121566-21568

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S2F2LttTttA502581All0.000096
S2F2LTttCtt72581All0.000014
S2F2LttTttG7581All0.000001
S2F2StTttCt249249All0.000048
S2F2StTttCt223223B.1.1.70.0002
S2F2LttTttA116128B.1.1.70.000104
S2F2LTttCtt12128B.1.1.70.000011
S2F2LttTttA5872B.1.20.000511
S2F2LTttCtt1372B.1.20.000114
S2F2LttTttG172B.1.20.000009
S2F2LttTttA5454P.50.739726
S2F2delTTT---5151All0.00001
S2F2LttTttA3333B.1.5170.014091
S2F2VTttGtt3232All0.000006
S2F2LttTttA2729B.1.2580.001797
S2F2LTttCtt229B.1.2580.000133
S2F2VTttGtt2222B.10.000202
S2F2LttTttA1921B.1.617.20.000072
S2F2LTttCtt221B.1.617.20.000008
S2F2LttTttA1719AY.430.000075
S2F2LTttCtt219AY.430.000009
S2F2LttTttA1818B.1.1600.000561
S2F2LttTttA1117AY.40.000017
S2F2LTttCtt417AY.40.000006
S2F2LttTttG217AY.40.000003
S2F2LttTttA1112B.10.000101
S2F2LTttCtt112B.10.000009
S2F2FttTttC1010All0.000002
S2F2LttTttA99AY.60.00037
S2F2LttTttA99B.1.1.5190.000357
S2F2LttTttA68B.1.10.000109
S2F2LTttCtt28B.1.10.000036
S2F2LttTttA77B0.000895
S2F2LttTttA56AY.1030.000031
S2F2LTttCtt16AY.1030.000006
S2F2delTTT---66AY.330.000401
S2F2LttTttA66AY.39.10.000238
S2F2LttTttA56B.1.4290.000118
S2F2LttTttG16B.1.4290.000024
S2F2LttTttA66B.1.5770.004124
S2F2ITttAtt55All0.000001
S2F2CtTttGt55All0.000001
S2F2LttTttA55AY.340.000485
S2F2StTttCt55AY.40.000008
S2F2LttTttA35AY.440.000018
S2F2LTttCtt15AY.440.000006
S2F2LttTttG15AY.440.000006
S2F2LttTttA55B.1.1.2940.006329
S2F2LttTttA55B.1.4480.013123
S2F2StTttCt55Q.80.000825
S2F2LTttCtt34AY.390.000074
S2F2LttTttA14AY.390.000025
S2F2LttTttA44B.1.1.2140.000222
S2F2delTTT---44B.1.617.20.000015
S2F2delTTT---33AY.250.000018
S2F2LttTttA33AY.30.00003
S2F2LttTttA33AY.330.0002
S2F2LttTttA33AY.4.20.000065
S2F2StTttCt33AY.4.20.000065
S2F2delTTT---33AY.430.000013
S2F2FttTttC33B.10.000027
S2F2delTTT---33B.10.000027
S2F2delTTT---33B.1.10.000054
S2F2LTttCtt33B.1.1.2430.012245
S2F2delTTT---33B.1.1.70.000003
S2F2LTttCtt33B.1.1390.002199
S2F2LTttCtt23B.1.1770.000026
S2F2LttTttA13B.1.1770.000013
S2F2LTttCtt33B.1.177.810.000568
S2F2StTttCt33B.1.4270.000151
S2F2delTTT---33P.10.000047
S2F2StTttCt220.111111
S2F2YtTttAt22All0
S2F2LttTttA22AY.1190.000071
S2F2LttTttA12AY.1200.000037
S2F2LTttCtt12AY.1200.000037
S2F2LTttCtt12AY.230.00007
S2F2LttTttA12AY.230.00007
S2F2LTttCtt22AY.350.000466
S2F2LttTttA12AY.420.00004
S2F2LttTttG12AY.420.00004
S2F2LttTttA22AY.90.000135
S2F2LttTttA22B.1.1.2070.002364
S2F2LttTttA22B.1.1.280.000622
S2F2VTttGtt22B.1.1.330.000842
S2F2LttTttA22B.1.1.410.012658
S2F2delTTT---22B.1.20.000018
S2F2LttTttA22B.1.3510.000059
S2F2LttTttA22B.1.351.20.000605
S2F2LttTttA22B.1.4270.000101
S2F2LTttCtt12B.1.466.20.000391
S2F2LttTttA12B.1.466.20.000391
S2F2delTTT---22B.1.5250.000226
S2F2LttTttG12B.1.5260.000024
S2F2LttTttA12B.1.5260.000024
S2F2LttTttA22B.1.5510.002581
S2F2LttTttA22B.1.617.10.000258
S2F2LTttCtt22B.1.6210.000177
S2F2LttTttA12P.10.000016
S2F2LTttCtt12P.10.000016
S2F2VTttGtt22P.20.000373
S2F2LTttCtt11A.2.40.003367
S2F2delTTT---11A.2.40.003367
S2F2LttTttA11A.2.50.000499
S2F2del2TTT--N11All0
S2F2ATTtGCt11All0
S2F2QTTTCAA11All0
S2F2del1Ttt-tt11All0
S2F2GTTTGGG11All0
S2F2LttTttA11AM.40.003571
S2F2LttTttA11AY.1000.000046
S2F2delTTT---11AY.1000.000046
S2F2LttTttA11AY.1020.000027
S2F2FttTttC11AY.1030.000006
S2F2delTTT---11AY.1030.000006
S2F2LttTttA11AY.116.10.000311
S2F2YtTttAt11AY.1190.000035
S2F2LttTttA11AY.1210.000135
S2F2CtTttGt11AY.130.000161
S2F2LttTttA11AY.140.000088
S2F2LTttCtt11AY.200.000039
S2F2LTttCtt11AY.23.10.000417
S2F2StTttCt11AY.260.000028
S2F2LttTttA11AY.260.000028
S2F2LttTttA11AY.290.000016
S2F2VTttGtt11AY.390.000025
S2F2FttTttC11AY.390.000025
S2F2ITttAtt11AY.40.000002
S2F2FttTttC11AY.40.000002
S2F2ITttAtt11AY.4.20.000022
S2F2LTttCtt11AY.4.2.10.000149
S2F2delTTT---11AY.4.30.000842
S2F2delTTT---11AY.420.00004
S2F2FttTttC11AY.430.000004
S2F2VTttGtt11AY.430.000004
S2F2ITttAtt11AY.440.000006
S2F2LttTttA11AY.460.000104
S2F2StTttCt11AY.46.50.000198
S2F2StTttCt11AY.46.60.000072
S2F2delTTT---11AY.540.000095
S2F2del2TTT--N11AY.590.00053
S2F2delTTT---11AY.680.000274
S2F2LttTttA11AY.680.000274
S2F2FttTttC11AY.750.000056
S2F2delTTT---11AY.850.000427
S2F2LTttCtt11AY.9.10.000084
S2F2CtTttGt11AY.910.00073
S2F2delTTT---11AY.980.000079
S2F2StTttCt11B.10.000009
S2F2YtTttAt11B.10.000009
S2F2ITttAtt11B.1.10.000018
S2F2StTttCt11B.1.10.000018
S2F2LttTttA11B.1.1.1860.003436
S2F2LTttCtt11B.1.1.250.000569
S2F2VTttGtt11B.1.1.280.000311
S2F2LTttCtt11B.1.1.2840.000107
S2F2LttTttA11B.1.1.3060.000438
S2F2delTTT---11B.1.1.3150.008475
S2F2LttTttA11B.1.1.3180.000302
S2F2LttTttA11B.1.1.3980.003226
S2F2delTTT---11B.1.1.460.004367
S2F2StTttCt11B.1.1570.002985
S2F2CtTttGt11B.1.1600.000031
S2F2LttTttA11B.1.160.80.001289
S2F2CtTttGt11B.1.1770.000013
S2F2LttTttA11B.1.177.40.000211
S2F2LttTttA11B.1.177.510.004566
S2F2LttTttA11B.1.177.540.000606
S2F2delTTT---11B.1.177.680.015152
S2F2delTTT---11B.1.177.830.001481
S2F2LttTttA11B.1.177.870.000728
S2F2FttTttC11B.1.20.000009
S2F2CtTttGt11B.1.20.000009
S2F2LttTttA11B.1.2210.000071
S2F2LttTttA11B.1.2430.00007
S2F2delTTT---11B.1.258.160.001637
S2F2LttTttA11B.1.2680.010417
S2F2LttTttA11B.1.3320.003497
S2F2LttTttA11B.1.360.000146
S2F2LttTttA11B.1.36.180.00042
S2F2LTttCtt11B.1.3960.000706
S2F2LTttCtt11B.1.3970.004854
S2F2ATTtGCt11B.1.4160.001269
S2F2FttTttC11B.1.4260.001009
S2F2delTTT---11B.1.4530.003236
S2F2VTttGtt11B.1.5280.047619
S2F2VTttGtt11B.1.5740.002151
S2F2del1Ttt-tt11B.1.5960.000087
S2F2LTttCtt11B.1.6090.000479
S2F2StTttCt11B.1.617.20.000004
S2F2ITttAtt11B.1.617.20.000004
S2F2GTTTGGG11B.1.617.30.002985
S2F2delTTT---11B.1.6200.000946
S2F2StTttCt11B.1.6370.000073
S2F2VTttGtt11P.10.000016
S2F2QTTTCAA11P.10.000016
S2F2delTTT---11P.1.10.000318
S2F2delTTT---11P.1.100.000269
S2F2delTTT---11Q.80.000165