CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1813

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/nsp31813S1813PS2631PnonsynTctCct81081018156-8158
ORF1ab/nsp31813S1813FS2631FnonsyntCttTt71271218156-8158
ORF1ab/nsp31813S1813SS2631SsyntcTtcC6586390.9711258156-8158
ORF1ab/nsp31813S1813SS2631SsyntcTtcA658130.01975688156-8158
ORF1ab/nsp31813S1813SS2631SsyntcTtcG65860.009118548156-8158
ORF1ab/nsp31813S1813AS2631AnonsynTctGct1541530.9935068156-8158
ORF1ab/nsp31813S1813AS2631AnonsynTcTGcC15410.006493518156-8158
ORF1ab/nsp31813S1813delS2631deldelTCT---515118156-8158
ORF1ab/nsp31813S1813CS2631CnonsyntCttGt161618156-8158
ORF1ab/nsp31813S1813YS2631YnonsyntCttAt151518156-8158
ORF1ab/nsp31813S1813TS2631TnonsynTctAct5518156-8158
ORF1ab/nsp31813S1813del1S2631del1delTcTCc-210.58156-8158
ORF1ab/nsp31813S1813del1S2631del1delTct-ct210.58156-8158
ORF1ab/nsp31813S1813LS2631LnonsynTCtCTt1118156-8158
ORF1ab/nsp31813S1813RS2631RnonsynTCTCGA1118156-8158
ORF1ab/nsp31813S1813del2S2631del2delTCt--t1118156-8158

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/nsp31813S1813PTctCct810810All0.000155
ORF1ab/nsp31813S1813FtCttTt712712All0.000136
ORF1ab/nsp31813S1813StcTtcC639658All0.000122
ORF1ab/nsp31813S1813StcTtcA13658All0.000002
ORF1ab/nsp31813S1813StcTtcG6658All0.000001
ORF1ab/nsp31813S1813PTctCct323323P.1.170.052248
ORF1ab/nsp31813S1813FtCttTt224224B.1.1.70.000201
ORF1ab/nsp31813S1813StcTtcC176176B.1.5680.195556
ORF1ab/nsp31813S1813ATctGct153154All0.000029
ORF1ab/nsp31813S1813ATcTGcC1154All0
ORF1ab/nsp31813S1813FtCttTt127127AD.20.027808
ORF1ab/nsp31813S1813StcTtcC119119AY.410.034979
ORF1ab/nsp31813S1813FtCttTt104104AY.40.000162
ORF1ab/nsp31813S1813PTctCct8888B.1.2580.005856
ORF1ab/nsp31813S1813StcTtcC8787AY.430.000385
ORF1ab/nsp31813S1813PTctCct7575B.1.1.70.000067
ORF1ab/nsp31813S1813PTctCct6262AY.30.000617
ORF1ab/nsp31813S1813PTctCct6161B.1.258.240.655914
ORF1ab/nsp31813S1813delTCT---5151All0.00001
ORF1ab/nsp31813S1813ATctGct4646AY.430.000204
ORF1ab/nsp31813S1813StcTtcC2936AY.40.000045
ORF1ab/nsp31813S1813StcTtcA736AY.40.000011
ORF1ab/nsp31813S1813ATctGct3434B.1.1.70.00003
ORF1ab/nsp31813S1813FtCttTt3434B.1.617.20.000128
ORF1ab/nsp31813S1813StcTtcC2328B.1.1.70.000021
ORF1ab/nsp31813S1813StcTtcA328B.1.1.70.000003
ORF1ab/nsp31813S1813StcTtcG228B.1.1.70.000002
ORF1ab/nsp31813S1813PTctCct2525P.10.000394
ORF1ab/nsp31813S1813FtCttTt2323C.370.002669
ORF1ab/nsp31813S1813FtCttTt2020AY.560.032103
ORF1ab/nsp31813S1813delTCT---1818B.1.1.70.000016
ORF1ab/nsp31813S1813PTctCct1818B.1.1600.000561
ORF1ab/nsp31813S1813CtCttGt1616All0.000003
ORF1ab/nsp31813S1813StcTtcC1516B.1.20.000132
ORF1ab/nsp31813S1813StcTtcA116B.1.20.000009
ORF1ab/nsp31813S1813StcTtcC1616B.1.617.20.00006
ORF1ab/nsp31813S1813YtCttAt1515All0.000003
ORF1ab/nsp31813S1813StcTtcC1515AY.340.001454
ORF1ab/nsp31813S1813CtCttGt1515B.1.2340.001979
ORF1ab/nsp31813S1813StcTtcC1515B.1.5250.001697
ORF1ab/nsp31813S1813PTctCct1414AY.250.000084
ORF1ab/nsp31813S1813StcTtcC1414B.10.000128
ORF1ab/nsp31813S1813ATctGct1414B.10.000128
ORF1ab/nsp31813S1813PTctCct1313AY.1030.000081
ORF1ab/nsp31813S1813FtCttTt1212AY.39.10.000475
ORF1ab/nsp31813S1813PTctCct1212B.10.00011
ORF1ab/nsp31813S1813StcTtcC1212P.1.140.000574
ORF1ab/nsp31813S1813PTctCct1010B.1.177.540.006064
ORF1ab/nsp31813S1813PTctCct99AY.40.000014
ORF1ab/nsp31813S1813FtCttTt99B.1.6280.003171
ORF1ab/nsp31813S1813StcTtcC88AY.1020.000212
ORF1ab/nsp31813S1813FtCttTt88AY.430.000035
ORF1ab/nsp31813S1813PTctCct88B.1.20.00007
ORF1ab/nsp31813S1813PTctCct88B.1.4290.000188
ORF1ab/nsp31813S1813StcTtcC77AY.200.000272
ORF1ab/nsp31813S1813StcTtcC77AY.260.000198
ORF1ab/nsp31813S1813ATctGct77AY.330.000467
ORF1ab/nsp31813S1813StcTtcC77AY.4.20.000152
ORF1ab/nsp31813S1813FtCttTt77AY.90.000473
ORF1ab/nsp31813S1813FtCttTt77B.10.000064
ORF1ab/nsp31813S1813FtCttTt77B.1.20.000062
ORF1ab/nsp31813S1813FtCttTt66AY.1030.000037
ORF1ab/nsp31813S1813FtCttTt66AY.30.00006
ORF1ab/nsp31813S1813ATctGct66AY.40.000009
ORF1ab/nsp31813S1813PTctCct66AY.430.000027
ORF1ab/nsp31813S1813FtCttTt66AY.440.000037
ORF1ab/nsp31813S1813FtCttTt66B.1.10.000109
ORF1ab/nsp31813S1813FtCttTt66B.1.1.4340.002091
ORF1ab/nsp31813S1813PTctCct66B.1.617.20.000023
ORF1ab/nsp31813S1813PTctCct66C.160.006363
ORF1ab/nsp31813S1813FtCttTt66Q.20.003681
ORF1ab/nsp31813S1813TTctAct55All0.000001
ORF1ab/nsp31813S1813StcTtcC55AY.1030.000031
ORF1ab/nsp31813S1813delTCT---55AY.40.000008
ORF1ab/nsp31813S1813StcTtcC45AY.440.000024
ORF1ab/nsp31813S1813StcTtcG15AY.440.000006
ORF1ab/nsp31813S1813FtCttTt55AY.50.000103
ORF1ab/nsp31813S1813StcTtcC55AY.560.008026
ORF1ab/nsp31813S1813StcTtcC55AY.740.000578
ORF1ab/nsp31813S1813StcTtcC55B.1.10.000091
ORF1ab/nsp31813S1813FtCttTt55B.1.1770.000066
ORF1ab/nsp31813S1813PTctCct55B.1.6210.000443
ORF1ab/nsp31813S1813ATctGct44AY.1030.000025
ORF1ab/nsp31813S1813PTctCct44AY.290.000063
ORF1ab/nsp31813S1813FtCttTt44AY.290.000063
ORF1ab/nsp31813S1813PTctCct44AY.440.000024
ORF1ab/nsp31813S1813StcTtcG34AY.750.000168
ORF1ab/nsp31813S1813StcTtcC14AY.750.000056
ORF1ab/nsp31813S1813delTCT---44B.10.000037
ORF1ab/nsp31813S1813PTctCct44B.1.10.000073
ORF1ab/nsp31813S1813FtCttTt44B.1.1600.000125
ORF1ab/nsp31813S1813PTctCct44B.1.3510.000119
ORF1ab/nsp31813S1813ATctGct44B.1.4290.000094
ORF1ab/nsp31813S1813FtCttTt44B.1.6210.000354
ORF1ab/nsp31813S1813FtCttTt44B.1.6370.000292
ORF1ab/nsp31813S1813ATctGct33AY.1020.00008
ORF1ab/nsp31813S1813PTctCct33AY.1020.00008
ORF1ab/nsp31813S1813FtCttTt33AY.1020.00008
ORF1ab/nsp31813S1813ATctGct33AY.1190.000106
ORF1ab/nsp31813S1813FtCttTt33AY.250.000018
ORF1ab/nsp31813S1813PTctCct33AY.260.000085
ORF1ab/nsp31813S1813StcTtcC33AY.290.000047
ORF1ab/nsp31813S1813ATctGct33AY.30.00003
ORF1ab/nsp31813S1813StcTtcC33AY.460.000312
ORF1ab/nsp31813S1813FtCttTt33AY.46.60.000217
ORF1ab/nsp31813S1813FtCttTt33AY.470.000093
ORF1ab/nsp31813S1813TTctAct33AY.98.10.000145
ORF1ab/nsp31813S1813PTctCct33B0.000383
ORF1ab/nsp31813S1813ATctGct33B.1.1.250.001706
ORF1ab/nsp31813S1813YtCttAt33B.1.1.70.000003
ORF1ab/nsp31813S1813StcTtcC33B.1.177.860.00055
ORF1ab/nsp31813S1813PTctCct33B.1.4230.030612
ORF1ab/nsp31813S1813StcTtcC33B.1.4290.000071
ORF1ab/nsp31813S1813PTctCct33B.1.438.10.000322
ORF1ab/nsp31813S1813FtCttTt33B.1.5960.000261
ORF1ab/nsp31813S1813StcTtcC22A.10.000564
ORF1ab/nsp31813S1813del1Tct-ct12All0
ORF1ab/nsp31813S1813del1TcTCc-12All0
ORF1ab/nsp31813S1813ATctGct22AY.1060.00067
ORF1ab/nsp31813S1813PTctCct22AY.1130.000285
ORF1ab/nsp31813S1813ATctGct22AY.1180.000125
ORF1ab/nsp31813S1813PTctCct22AY.1200.000074
ORF1ab/nsp31813S1813PTctCct22AY.20.000712
ORF1ab/nsp31813S1813StcTtcC22AY.250.000012
ORF1ab/nsp31813S1813StcTtcC22AY.380.000999
ORF1ab/nsp31813S1813PTctCct22AY.390.000049
ORF1ab/nsp31813S1813YtCttAt22AY.40.000003
ORF1ab/nsp31813S1813FtCttTt22AY.4.20.000043
ORF1ab/nsp31813S1813FtCttTt22AY.420.00008
ORF1ab/nsp31813S1813StcTtcC22AY.420.00008
ORF1ab/nsp31813S1813FtCttTt22AY.450.000243
ORF1ab/nsp31813S1813PTctCct22AY.50.000041
ORF1ab/nsp31813S1813StcTtcC22AY.610.00021
ORF1ab/nsp31813S1813FtCttTt22AY.700.000417
ORF1ab/nsp31813S1813ATctGct22B.1.1.1890.003026
ORF1ab/nsp31813S1813ATctGct22B.1.1.5190.000079
ORF1ab/nsp31813S1813StcTtcC22B.1.1.5190.000079
ORF1ab/nsp31813S1813ATctGct22B.1.1770.000026
ORF1ab/nsp31813S1813delTCT---22B.1.1770.000026
ORF1ab/nsp31813S1813StcTtcC22B.1.1770.000026
ORF1ab/nsp31813S1813delTCT---22B.1.177.160.001329
ORF1ab/nsp31813S1813StcTtcC22B.1.177.600.000437
ORF1ab/nsp31813S1813ATctGct22B.1.20.000018
ORF1ab/nsp31813S1813StcTtcC22B.1.2580.000133
ORF1ab/nsp31813S1813StcTtcC22B.1.360.000292
ORF1ab/nsp31813S1813FtCttTt22B.1.4290.000047
ORF1ab/nsp31813S1813FtCttTt22B.1.4500.022727
ORF1ab/nsp31813S1813PTctCct22B.1.5260.000047
ORF1ab/nsp31813S1813FtCttTt22B.1.5650.001621
ORF1ab/nsp31813S1813ATctGct22B.1.617.20.000008
ORF1ab/nsp31813S1813FtCttTt22P.60.006289
ORF1ab/nsp31813S1813StcTtcC22R.10.00018
ORF1ab/nsp31813S1813PTctCct22R.10.00018
ORF1ab/nsp31813S1813StcTtcC11A0.000387
ORF1ab/nsp31813S1813FtCttTt11A.20.000662
ORF1ab/nsp31813S1813RTCTCGA11All0
ORF1ab/nsp31813S1813del2TCt--t11All0
ORF1ab/nsp31813S1813LTCtCTt11All0
ORF1ab/nsp31813S1813PTctCct11AY.1000.000046
ORF1ab/nsp31813S1813StcTtcC11AY.1000.000046
ORF1ab/nsp31813S1813TTctAct11AY.1030.000006
ORF1ab/nsp31813S1813FtCttTt11AY.1060.000335
ORF1ab/nsp31813S1813FtCttTt11AY.1090.00074
ORF1ab/nsp31813S1813ATctGct11AY.1140.000231
ORF1ab/nsp31813S1813FtCttTt11AY.1170.000085
ORF1ab/nsp31813S1813StcTtcC11AY.1170.000085
ORF1ab/nsp31813S1813StcTtcC11AY.1180.000063
ORF1ab/nsp31813S1813FtCttTt11AY.1180.000063
ORF1ab/nsp31813S1813PTctCct11AY.1190.000035
ORF1ab/nsp31813S1813FtCttTt11AY.1190.000035
ORF1ab/nsp31813S1813ATctGct11AY.120.000316
ORF1ab/nsp31813S1813StcTtcC11AY.1200.000037
ORF1ab/nsp31813S1813delTCT---11AY.190.00114
ORF1ab/nsp31813S1813FtCttTt11AY.200.000039
ORF1ab/nsp31813S1813YtCttAt11AY.230.00007
ORF1ab/nsp31813S1813FtCttTt11AY.260.000028
ORF1ab/nsp31813S1813StcTtcC11AY.270.000065
ORF1ab/nsp31813S1813PTctCct11AY.3.10.000085
ORF1ab/nsp31813S1813PTctCct11AY.330.000067
ORF1ab/nsp31813S1813FtCttTt11AY.34.10.00051
ORF1ab/nsp31813S1813StcTtcC11AY.370.000316
ORF1ab/nsp31813S1813YtCttAt11AY.390.000025
ORF1ab/nsp31813S1813FtCttTt11AY.390.000025
ORF1ab/nsp31813S1813StcTtcA11AY.39.10.00004
ORF1ab/nsp31813S1813RTCTCGA11AY.40.000002
ORF1ab/nsp31813S1813del1Tct-ct11AY.40.000002
ORF1ab/nsp31813S1813delTCT---11AY.4.50.000107
ORF1ab/nsp31813S1813delTCT---11AY.430.000004
ORF1ab/nsp31813S1813CtCttGt11AY.440.000006
ORF1ab/nsp31813S1813YtCttAt11AY.440.000006
ORF1ab/nsp31813S1813StcTtcC11AY.450.000122
ORF1ab/nsp31813S1813delTCT---11AY.46.20.000635
ORF1ab/nsp31813S1813StcTtcC11AY.46.40.000165
ORF1ab/nsp31813S1813ATctGct11AY.470.000031
ORF1ab/nsp31813S1813StcTtcC11AY.60.000041
ORF1ab/nsp31813S1813PTctCct11AY.60.000041
ORF1ab/nsp31813S1813StcTtcC11AY.620.000436
ORF1ab/nsp31813S1813ATctGct11AY.650.000533
ORF1ab/nsp31813S1813FtCttTt11AY.670.000464
ORF1ab/nsp31813S1813StcTtcC11AY.7.10.000113
ORF1ab/nsp31813S1813StcTtcC11AY.700.000209
ORF1ab/nsp31813S1813PTctCct11AY.740.000116
ORF1ab/nsp31813S1813FtCttTt11AY.750.000056
ORF1ab/nsp31813S1813StcTtcC11AY.75.10.00018
ORF1ab/nsp31813S1813StcTtcC11AY.790.001211
ORF1ab/nsp31813S1813FtCttTt11AY.870.000833
ORF1ab/nsp31813S1813StcTtcC11AY.90.000068
ORF1ab/nsp31813S1813StcTtcC11AY.9.10.000084
ORF1ab/nsp31813S1813ATctGct11AY.9.10.000084
ORF1ab/nsp31813S1813PTctCct11AY.9.20.000037
ORF1ab/nsp31813S1813StcTtcC11AY.9.20.000037
ORF1ab/nsp31813S1813StcTtcC11AY.980.000079
ORF1ab/nsp31813S1813del2TCt--t11B0.000128
ORF1ab/nsp31813S1813FtCttTt11B0.000128
ORF1ab/nsp31813S1813ATctGct11B.1.10.000018
ORF1ab/nsp31813S1813YtCttAt11B.1.10.000018
ORF1ab/nsp31813S1813delTCT---11B.1.10.000018
ORF1ab/nsp31813S1813FtCttTt11B.1.1.2070.001182
ORF1ab/nsp31813S1813FtCttTt11B.1.1.2580.003257
ORF1ab/nsp31813S1813PTctCct11B.1.1.280.000311
ORF1ab/nsp31813S1813delTCT---11B.1.1.3060.000438
ORF1ab/nsp31813S1813delTCT---11B.1.1.3150.008475
ORF1ab/nsp31813S1813StcTtcC11B.1.1.3170.000412
ORF1ab/nsp31813S1813StcTtcA11B.1.1.3260.001761
ORF1ab/nsp31813S1813StcTtcC11B.1.1.330.000421
ORF1ab/nsp31813S1813StcTtcC11B.1.1.3690.000446
ORF1ab/nsp31813S1813FtCttTt11B.1.1.40.002976
ORF1ab/nsp31813S1813StcTtcC11B.1.1.4320.001266
ORF1ab/nsp31813S1813YtCttAt11B.1.1.4330.001425
ORF1ab/nsp31813S1813YtCttAt11B.1.1.460.004367
ORF1ab/nsp31813S1813FtCttTt11B.1.1.4640.001473
ORF1ab/nsp31813S1813PTctCct11B.1.1.500.000679
ORF1ab/nsp31813S1813PTctCct11B.1.1.740.00431
ORF1ab/nsp31813S1813StcTtcC11B.1.1600.000031
ORF1ab/nsp31813S1813delTCT---11B.1.177.180.00116
ORF1ab/nsp31813S1813delTCT---11B.1.177.540.000606
ORF1ab/nsp31813S1813FtCttTt11B.1.177.60.000977
ORF1ab/nsp31813S1813delTCT---11B.1.177.60.000977
ORF1ab/nsp31813S1813FtCttTt11B.1.177.600.000218
ORF1ab/nsp31813S1813delTCT---11B.1.177.620.001192
ORF1ab/nsp31813S1813FtCttTt11B.1.177.650.000665
ORF1ab/nsp31813S1813delTCT---11B.1.177.70.000165
ORF1ab/nsp31813S1813YtCttAt11B.1.177.810.000189
ORF1ab/nsp31813S1813FtCttTt11B.1.177.820.000477
ORF1ab/nsp31813S1813YtCttAt11B.1.20.000009
ORF1ab/nsp31813S1813FtCttTt11B.1.2060.000816
ORF1ab/nsp31813S1813StcTtcC11B.1.2410.000812
ORF1ab/nsp31813S1813delTCT---11B.1.2420.018868
ORF1ab/nsp31813S1813FtCttTt11B.1.2430.00007
ORF1ab/nsp31813S1813PTctCct11B.1.2430.00007
ORF1ab/nsp31813S1813FtCttTt11B.1.2580.000067
ORF1ab/nsp31813S1813FtCttTt11B.1.258.170.000104
ORF1ab/nsp31813S1813FtCttTt11B.1.3500.002933
ORF1ab/nsp31813S1813ATctGct11B.1.351.20.000303
ORF1ab/nsp31813S1813LTCtCTt11B.1.3550.011111
ORF1ab/nsp31813S1813delTCT---11B.1.36.180.00042
ORF1ab/nsp31813S1813FtCttTt11B.1.3610.001289
ORF1ab/nsp31813S1813FtCttTt11B.1.3810.007812
ORF1ab/nsp31813S1813PTctCct11B.1.3960.000706
ORF1ab/nsp31813S1813ATctGct11B.1.4270.00005
ORF1ab/nsp31813S1813FtCttTt11B.1.5260.000024
ORF1ab/nsp31813S1813StcTtcC11B.1.5950.000261
ORF1ab/nsp31813S1813YtCttAt11B.1.617.20.000004
ORF1ab/nsp31813S1813delTCT---11B.1.617.20.000004
ORF1ab/nsp31813S1813del1TcTCc-11B.1.617.20.000004
ORF1ab/nsp31813S1813ATctGct11B.1.6190.000871
ORF1ab/nsp31813S1813StcTtcC11B.1.6280.000352
ORF1ab/nsp31813S1813StcTtcC11B.1.6330.041667
ORF1ab/nsp31813S1813delTCT---11B.1.6380.052632
ORF1ab/nsp31813S1813FtCttTt11B.450.003831
ORF1ab/nsp31813S1813YtCttAt11B.60.00091
ORF1ab/nsp31813S1813delTCT---11C.170.055556
ORF1ab/nsp31813S1813ATcTGcC11C.350.000774
ORF1ab/nsp31813S1813ATctGct11C.370.000116
ORF1ab/nsp31813S1813FtCttTt11C.37.10.002618
ORF1ab/nsp31813S1813ATctGct11D.20.000075
ORF1ab/nsp31813S1813FtCttTt11D.20.000075
ORF1ab/nsp31813S1813PTctCct11D.20.000075
ORF1ab/nsp31813S1813StcTtcC11D.20.000075
ORF1ab/nsp31813S1813StcTtcC11P.10.000016
ORF1ab/nsp31813S1813FtCttTt11P.10.000016
ORF1ab/nsp31813S1813FtCttTt11P.1.140.000048
ORF1ab/nsp31813S1813PTctCct11P.1.17.10.000875
ORF1ab/nsp31813S1813FtCttTt11P.20.000187
ORF1ab/nsp31813S1813TTctAct11P.30.001595
ORF1ab/nsp31813S1813ATctGct11Q.10.000126
ORF1ab/nsp31813S1813delTCT---11Q.10.000126
ORF1ab/nsp31813S1813PTctCct11Q.10.000126
ORF1ab/nsp31813S1813FtCttTt11Q.60.006623
ORF1ab/nsp31813S1813PTctCct11Q.80.000165
ORF1ab/nsp31813S1813delTCT---11Q.80.000165
ORF1ab/nsp31813S1813delTCT---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.