CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 499

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
ORF1ab/nsp2499F499LF679LnonsynTttCtt4634100.8855292300-2302
ORF1ab/nsp2499F499LF679LnonsynttTttA463350.0755942300-2302
ORF1ab/nsp2499F499LF679LnonsynttTttG463130.02807782300-2302
ORF1ab/nsp2499F499LF679LnonsynTtTCtG46330.006479482300-2302
ORF1ab/nsp2499F499LF679LnonsynTtTCtA46320.004319652300-2302
ORF1ab/nsp2499F499FF679FsynttTttC11211212300-2302
ORF1ab/nsp2499F499delF679deldelTTT---747412300-2302
ORF1ab/nsp2499F499SF679SnonsyntTttCt73700.9589042300-2302
ORF1ab/nsp2499F499SF679SnonsyntTTtCC7320.02739732300-2302
ORF1ab/nsp2499F499SF679SnonsyntTTtCA7310.01369862300-2302
ORF1ab/nsp2499F499VF679VnonsynTttGtt131312300-2302
ORF1ab/nsp2499F499del1F679del1delTtt-tt12110.9166672300-2302
ORF1ab/nsp2499F499del1F679del1delttTtt-1210.08333332300-2302
ORF1ab/nsp2499F499YF679YnonsyntTttAt980.8888892300-2302
ORF1ab/nsp2499F499YF679YnonsyntTTtAC910.1111112300-2302
ORF1ab/nsp2499F499IF679InonsynTttAtt540.82300-2302
ORF1ab/nsp2499F499IF679InonsynTtTAtC510.22300-2302
ORF1ab/nsp2499F499CF679CnonsyntTttGt4412300-2302
ORF1ab/nsp2499F499PF679PnonsynTTTCCC420.52300-2302
ORF1ab/nsp2499F499PF679PnonsynTTTCCG410.252300-2302
ORF1ab/nsp2499F499PF679PnonsynTTTCCA410.252300-2302
ORF1ab/nsp2499F499TF679TnonsynTTTACC320.6666672300-2302
ORF1ab/nsp2499F499TF679TnonsynTTTACG310.3333332300-2302
ORF1ab/nsp2499F499HF679HnonsynTTTCAC1112300-2302

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp2499F499LTttCtt410463All0.000078
ORF1ab/nsp2499F499LttTttA35463All0.000007
ORF1ab/nsp2499F499LttTttG13463All0.000002
ORF1ab/nsp2499F499LTtTCtG3463All0.000001
ORF1ab/nsp2499F499LTtTCtA2463All0
ORF1ab/nsp2499F499LTttCtt134136B.10.001227
ORF1ab/nsp2499F499LttTttA2136B.10.000018
ORF1ab/nsp2499F499FttTttC112112All0.000021
ORF1ab/nsp2499F499FttTttC7777AY.1180.004824
ORF1ab/nsp2499F499delTTT---7474All0.000014
ORF1ab/nsp2499F499StTttCt7073All0.000013
ORF1ab/nsp2499F499StTTtCC273All0
ORF1ab/nsp2499F499StTTtCA173All0
ORF1ab/nsp2499F499LTttCtt6666AY.46.40.010857
ORF1ab/nsp2499F499LTttCtt5959B.1.5631
ORF1ab/nsp2499F499LttTttA2541B.1.617.20.000094
ORF1ab/nsp2499F499LTttCtt1341B.1.617.20.000049
ORF1ab/nsp2499F499LTtTCtA141B.1.617.20.000004
ORF1ab/nsp2499F499LTtTCtG141B.1.617.20.000004
ORF1ab/nsp2499F499LttTttG141B.1.617.20.000004
ORF1ab/nsp2499F499LTttCtt2323AY.40.000036
ORF1ab/nsp2499F499StTttCt2223B.1.1.70.00002
ORF1ab/nsp2499F499StTTtCC123B.1.1.70.000001
ORF1ab/nsp2499F499LTttCtt2222AY.1020.000583
ORF1ab/nsp2499F499delTTT---2121B.1.1.70.000019
ORF1ab/nsp2499F499VTttGtt1313All0.000002
ORF1ab/nsp2499F499del1Ttt-tt1112All0.000002
ORF1ab/nsp2499F499del1ttTtt-112All0
ORF1ab/nsp2499F499LTttCtt1111AY.30.000109
ORF1ab/nsp2499F499LTttCtt810B.1.20.00007
ORF1ab/nsp2499F499LttTttG210B.1.20.000018
ORF1ab/nsp2499F499YtTttAt89All0.000002
ORF1ab/nsp2499F499YtTTtAC19All0
ORF1ab/nsp2499F499StTttCt99AY.40.000014
ORF1ab/nsp2499F499LTttCtt69AY.440.000037
ORF1ab/nsp2499F499LttTttG39AY.440.000018
ORF1ab/nsp2499F499LTttCtt77AY.98.10.000339
ORF1ab/nsp2499F499FttTttC77B.1.1.70.000006
ORF1ab/nsp2499F499LTttCtt67B.1.1.70.000005
ORF1ab/nsp2499F499LttTttG17B.1.1.70.000001
ORF1ab/nsp2499F499delTTT---660.333333
ORF1ab/nsp2499F499LTttCtt66B.1.3620.009245
ORF1ab/nsp2499F499ITttAtt45All0.000001
ORF1ab/nsp2499F499ITtTAtC15All0
ORF1ab/nsp2499F499YtTttAt55AY.40.000008
ORF1ab/nsp2499F499LTttCtt55AY.430.000022
ORF1ab/nsp2499F499LTttCtt35AY.9.20.00011
ORF1ab/nsp2499F499LTtTCtG25AY.9.20.000073
ORF1ab/nsp2499F499StTttCt55B.10.000046
ORF1ab/nsp2499F499delTTT---55B.10.000046
ORF1ab/nsp2499F499LTttCtt55P.10.000079
ORF1ab/nsp2499F499CtTttGt44All0.000001
ORF1ab/nsp2499F499PTTTCCC24All0
ORF1ab/nsp2499F499PTTTCCG14All0
ORF1ab/nsp2499F499PTTTCCA14All0
ORF1ab/nsp2499F499ITttAtt44AY.250.000024
ORF1ab/nsp2499F499FttTttC44AY.40.000006
ORF1ab/nsp2499F499delTTT---44AY.430.000018
ORF1ab/nsp2499F499StTttCt44AY.430.000018
ORF1ab/nsp2499F499LTttCtt34B.1.10.000054
ORF1ab/nsp2499F499LttTttA14B.1.10.000018
ORF1ab/nsp2499F499StTttCt44B.1.20.000035
ORF1ab/nsp2499F499StTttCt44B.1.5610.001588
ORF1ab/nsp2499F499StTttCt44B.1.5960.000349
ORF1ab/nsp2499F499delTTT---44B.1.617.20.000015
ORF1ab/nsp2499F499TTTTACC23All0
ORF1ab/nsp2499F499TTTTACG13All0
ORF1ab/nsp2499F499LTttCtt33AY.1030.000019
ORF1ab/nsp2499F499PTTTCCG13AY.1130.000142
ORF1ab/nsp2499F499PTTTCCC13AY.1130.000142
ORF1ab/nsp2499F499PTTTCCA13AY.1130.000142
ORF1ab/nsp2499F499VTttGtt33AY.250.000018
ORF1ab/nsp2499F499LTttCtt33AY.260.000085
ORF1ab/nsp2499F499FttTttC33AY.420.000121
ORF1ab/nsp2499F499FttTttC33AY.430.000013
ORF1ab/nsp2499F499del1Ttt-tt33AY.440.000018
ORF1ab/nsp2499F499LTttCtt33AY.750.000168
ORF1ab/nsp2499F499delTTT---33B.1.1.330.001263
ORF1ab/nsp2499F499LttTttA33N.50.0053
ORF1ab/nsp2499F499FttTttC22AY.1200.000074
ORF1ab/nsp2499F499LTttCtt22AY.230.000139
ORF1ab/nsp2499F499FttTttC22AY.290.000032
ORF1ab/nsp2499F499FttTttC22AY.440.000012
ORF1ab/nsp2499F499StTttCt22AY.440.000012
ORF1ab/nsp2499F499StTTtCC12AY.46.60.000072
ORF1ab/nsp2499F499StTTtCA12AY.46.60.000072
ORF1ab/nsp2499F499FttTttC22AY.60.000082
ORF1ab/nsp2499F499StTttCt22AY.60.000082
ORF1ab/nsp2499F499StTttCt22AY.620.000871
ORF1ab/nsp2499F499delTTT---22AY.990.002099
ORF1ab/nsp2499F499delTTT---22B.1.10.000036
ORF1ab/nsp2499F499VTttGtt22B.1.10.000036
ORF1ab/nsp2499F499LTttCtt22B.1.1.2160.001781
ORF1ab/nsp2499F499delTTT---22B.1.1.3480.001592
ORF1ab/nsp2499F499YtTttAt22B.1.20.000018
ORF1ab/nsp2499F499VTttGtt22B.1.20.000018
ORF1ab/nsp2499F499LTttCtt12B.1.258.170.000104
ORF1ab/nsp2499F499LttTttG12B.1.258.170.000104
ORF1ab/nsp2499F499delTTT---22B.1.4240.016129
ORF1ab/nsp2499F499LTttCtt12B.1.4270.00005
ORF1ab/nsp2499F499LttTttA12B.1.4270.00005
ORF1ab/nsp2499F499delTTT---22B.1.4290.000047
ORF1ab/nsp2499F499del1Ttt-tt22B.1.617.20.000008
ORF1ab/nsp2499F499StTttCt22B.1.617.20.000008
ORF1ab/nsp2499F499FttTttC22B.1.617.20.000008
ORF1ab/nsp2499F499LTttCtt22D.20.00015
ORF1ab/nsp2499F499delTTT---22N.60.014184
ORF1ab/nsp2499F499LttTttG11A0.000387
ORF1ab/nsp2499F499LTttCtt11A.2.40.003367
ORF1ab/nsp2499F499LTtTCtA11A.23.10.000704
ORF1ab/nsp2499F499HTTTCAC11All0
ORF1ab/nsp2499F499LttTttA11AY.1000.000046
ORF1ab/nsp2499F499FttTttC11AY.1020.000027
ORF1ab/nsp2499F499StTttCt11AY.1030.000006
ORF1ab/nsp2499F499delTTT---11AY.1080.001103
ORF1ab/nsp2499F499CtTttGt11AY.1100.000113
ORF1ab/nsp2499F499LTttCtt11AY.1200.000037
ORF1ab/nsp2499F499LttTttG11AY.120.10.000321
ORF1ab/nsp2499F499StTttCt11AY.1210.000135
ORF1ab/nsp2499F499StTttCt11AY.200.000039
ORF1ab/nsp2499F499FttTttC11AY.230.00007
ORF1ab/nsp2499F499delTTT---11AY.250.000006
ORF1ab/nsp2499F499LttTttA11AY.250.000006
ORF1ab/nsp2499F499StTttCt11AY.250.000006
ORF1ab/nsp2499F499delTTT---11AY.29.10.000221
ORF1ab/nsp2499F499FttTttC11AY.30.00001
ORF1ab/nsp2499F499HTTTCAC11AY.30.00001
ORF1ab/nsp2499F499VTttGtt11AY.30.00001
ORF1ab/nsp2499F499LTttCtt11AY.320.000532
ORF1ab/nsp2499F499LTttCtt11AY.330.000067
ORF1ab/nsp2499F499LTttCtt11AY.340.000097
ORF1ab/nsp2499F499LTttCtt11AY.34.10.00051
ORF1ab/nsp2499F499VTttGtt11AY.40.000002
ORF1ab/nsp2499F499CtTttGt11AY.40.000002
ORF1ab/nsp2499F499delTTT---11AY.40.000002
ORF1ab/nsp2499F499LTttCtt11AY.420.00004
ORF1ab/nsp2499F499del1Ttt-tt11AY.430.000004
ORF1ab/nsp2499F499delTTT---11AY.440.000006
ORF1ab/nsp2499F499YtTTtAC11AY.440.000006
ORF1ab/nsp2499F499CtTttGt11AY.440.000006
ORF1ab/nsp2499F499LttTttG11AY.460.000104
ORF1ab/nsp2499F499FttTttC11AY.46.60.000072
ORF1ab/nsp2499F499del1Ttt-tt11AY.540.000095
ORF1ab/nsp2499F499delTTT---11AY.670.000464
ORF1ab/nsp2499F499delTTT---11AY.750.000056
ORF1ab/nsp2499F499StTttCt11AY.770.001127
ORF1ab/nsp2499F499delTTT---11AY.840.000437
ORF1ab/nsp2499F499delTTT---11AY.98.10.000048
ORF1ab/nsp2499F499del1ttTtt-11B0.000128
ORF1ab/nsp2499F499TTTTACG11B.10.000009
ORF1ab/nsp2499F499VTttGtt11B.10.000009
ORF1ab/nsp2499F499del1Ttt-tt11B.10.000009
ORF1ab/nsp2499F499del1Ttt-tt11B.1.10.000018
ORF1ab/nsp2499F499FttTttC11B.1.1.1330.008475
ORF1ab/nsp2499F499LTttCtt11B.1.1.1980.001468
ORF1ab/nsp2499F499LTttCtt11B.1.1.390.00051
ORF1ab/nsp2499F499delTTT---11B.1.1.4160.000905
ORF1ab/nsp2499F499StTttCt11B.1.1.5190.00004
ORF1ab/nsp2499F499delTTT---11B.1.1.5230.001563
ORF1ab/nsp2499F499CtTttGt11B.1.1.70.000001
ORF1ab/nsp2499F499del1Ttt-tt11B.1.1.70.000001
ORF1ab/nsp2499F499VTttGtt11B.1.1.70.000001
ORF1ab/nsp2499F499TTTTACC11B.1.1.70.000001
ORF1ab/nsp2499F499LTttCtt11B.1.110.30.000718
ORF1ab/nsp2499F499ITtTAtC11B.1.1600.000031
ORF1ab/nsp2499F499delTTT---11B.1.1770.000013
ORF1ab/nsp2499F499VTttGtt11B.1.1770.000013
ORF1ab/nsp2499F499LttTttG11B.1.177.230.003236
ORF1ab/nsp2499F499LttTttG11B.1.177.430.001477
ORF1ab/nsp2499F499StTttCt11B.1.177.440.000519
ORF1ab/nsp2499F499StTttCt11B.1.177.650.000665
ORF1ab/nsp2499F499LTttCtt11B.1.177.90.001332
ORF1ab/nsp2499F499delTTT---11B.1.1790.003759
ORF1ab/nsp2499F499FttTttC11B.1.2580.000067
ORF1ab/nsp2499F499VTttGtt11B.1.3510.00003
ORF1ab/nsp2499F499StTttCt11B.1.36.180.00042
ORF1ab/nsp2499F499FttTttC11B.1.36.290.000517
ORF1ab/nsp2499F499LTttCtt11B.1.4040.001302
ORF1ab/nsp2499F499delTTT---11B.1.416.10.001563
ORF1ab/nsp2499F499LttTttA11B.1.4290.000024
ORF1ab/nsp2499F499FttTttC11B.1.438.10.000107
ORF1ab/nsp2499F499LTttCtt11B.1.438.10.000107
ORF1ab/nsp2499F499LTttCtt11B.1.5200.021739
ORF1ab/nsp2499F499delTTT---11B.1.5610.000397
ORF1ab/nsp2499F499del1Ttt-tt11B.1.5960.000087
ORF1ab/nsp2499F499TTTTACC11B.1.617.20.000004
ORF1ab/nsp2499F499PTTTCCC11B.1.617.20.000004
ORF1ab/nsp2499F499LTttCtt11B.1.6200.000946
ORF1ab/nsp2499F499delTTT---11B.340.013699
ORF1ab/nsp2499F499delTTT---11B.570.015152
ORF1ab/nsp2499F499LTttCtt11C.230.005814
ORF1ab/nsp2499F499YtTttAt11P.10.000016
ORF1ab/nsp2499F499delTTT---11P.10.000016
ORF1ab/nsp2499F499StTttCt11P.1.150.000232
ORF1ab/nsp2499F499delTTT---11P.20.000187