CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 434

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/nsp12434S434SS4826SsyntcTtcC367536470.99238114740-14742
ORF1ab/nsp12434S434SS4826SsyntcTtcA3675170.0046258514740-14742
ORF1ab/nsp12434S434SS4826SsyntcTtcG3675110.002993214740-14742
ORF1ab/nsp12434S434FS4826FnonsyntCttTt130513040.99923414740-14742
ORF1ab/nsp12434S434FS4826FnonsyntCTtTC130510.00076628414740-14742
ORF1ab/nsp12434S434PS4826PnonsynTctCct273273114740-14742
ORF1ab/nsp12434S434YS4826YnonsyntCttAt266266114740-14742
ORF1ab/nsp12434S434AS4826AnonsynTctGct2372360.99578114740-14742
ORF1ab/nsp12434S434AS4826AnonsynTcTGcG23710.0042194114740-14742
ORF1ab/nsp12434S434delS4826deldelTCT---5656114740-14742
ORF1ab/nsp12434S434TS4826TnonsynTctAct15140.93333314740-14742
ORF1ab/nsp12434S434TS4826TnonsynTcTAcA1510.066666714740-14742
ORF1ab/nsp12434S434CS4826CnonsyntCttGt66114740-14742
ORF1ab/nsp12434S434del1S4826del1delTct-ct11114740-14742
ORF1ab/nsp12434S434RS4826RnonsynTCtCGt11114740-14742
ORF1ab/nsp12434S434del2S4826del2delTCt--t11114740-14742

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/nsp12434S434StcTtcC36473675All0.000698
ORF1ab/nsp12434S434StcTtcA173675All0.000003
ORF1ab/nsp12434S434StcTtcG113675All0.000002
ORF1ab/nsp12434S434StcTtcC33283328AY.40.00518
ORF1ab/nsp12434S434FtCttTt13041305All0.000249
ORF1ab/nsp12434S434FtCTtTC11305All0
ORF1ab/nsp12434S434FtCttTt399399B.1.1.70.000357
ORF1ab/nsp12434S434FtCttTt340340B.1.1420.985507
ORF1ab/nsp12434S434PTctCct273273All0.000052
ORF1ab/nsp12434S434YtCttAt266266All0.000051
ORF1ab/nsp12434S434ATctGct236237All0.000045
ORF1ab/nsp12434S434ATcTGcG1237All0
ORF1ab/nsp12434S434ATctGct197197AV.10.994949
ORF1ab/nsp12434S434StcTtcC163166B.1.1.70.000146
ORF1ab/nsp12434S434StcTtcG3166B.1.1.70.000003
ORF1ab/nsp12434S434YtCttAt164164AY.40.000255
ORF1ab/nsp12434S434FtCttTt7474B.1.1770.000974
ORF1ab/nsp12434S434PTctCct6161AY.430.00027
ORF1ab/nsp12434S434delTCT---5656All0.000011
ORF1ab/nsp12434S434FtCttTt5151B.1.617.20.000192
ORF1ab/nsp12434S434PTctCct4949AY.390.001211
ORF1ab/nsp12434S434StcTtcC4848B.1.617.20.000181
ORF1ab/nsp12434S434FtCttTt4545AY.40.00007
ORF1ab/nsp12434S434FtCttTt3737AZ.20.030378
ORF1ab/nsp12434S434FtCttTt3333AY.90.002231
ORF1ab/nsp12434S434YtCttAt3333B.1.1.70.00003
ORF1ab/nsp12434S434StcTtcC3131AY.910.022644
ORF1ab/nsp12434S434YtCttAt3131B.1.617.20.000117
ORF1ab/nsp12434S434FtCttTt3030AZ.10.026019
ORF1ab/nsp12434S434PTctCct3030B.1.617.20.000113
ORF1ab/nsp12434S434FtCttTt2929B.1.20.000255
ORF1ab/nsp12434S434delTCT---2626B.1.1.70.000023
ORF1ab/nsp12434S434FtCttTt2020B.10.000183
ORF1ab/nsp12434S434FtCttTt2020B.1.1.2770.015175
ORF1ab/nsp12434S434FtCttTt2020B.1.6210.00177
ORF1ab/nsp12434S434PTctCct1919AY.440.000116
ORF1ab/nsp12434S434StcTtcC1818AY.430.00008
ORF1ab/nsp12434S434PTctCct1818B.1.1.70.000016
ORF1ab/nsp12434S434FtCttTt1818B.1.6280.006342
ORF1ab/nsp12434S434FtCttTt1616AY.250.000096
ORF1ab/nsp12434S434TTctAct1415All0.000003
ORF1ab/nsp12434S434TTcTAcA115All0
ORF1ab/nsp12434S434FtCttTt1414AY.1020.000371
ORF1ab/nsp12434S434PTctCct1212B.1.2210.000852
ORF1ab/nsp12434S434PTctCct1111B.10.000101
ORF1ab/nsp12434S434FtCttTt1111B.1.4290.000259
ORF1ab/nsp12434S434FtCttTt99AY.440.000055
ORF1ab/nsp12434S434FtCttTt99B.1.10.000163
ORF1ab/nsp12434S434ATctGct99B.1.1.70.000008
ORF1ab/nsp12434S434FtCttTt99B.1.5260.000212
ORF1ab/nsp12434S434StcTtcA99B.1.930.008403
ORF1ab/nsp12434S434PTctCct88B.1.5230.019608
ORF1ab/nsp12434S434TTctAct77AY.40.000011
ORF1ab/nsp12434S434FtCttTt77AY.430.000031
ORF1ab/nsp12434S434CtCttGt66All0.000001
ORF1ab/nsp12434S434StcTtcC66AY.1200.000223
ORF1ab/nsp12434S434PTctCct66AY.250.000036
ORF1ab/nsp12434S434FtCttTt66AY.390.000148
ORF1ab/nsp12434S434StcTtcC66AY.39.10.000238
ORF1ab/nsp12434S434PTctCct66AY.40.000009
ORF1ab/nsp12434S434PTctCct66AY.750.000336
ORF1ab/nsp12434S434PTctCct66B.1.2580.000399
ORF1ab/nsp12434S434YtCttAt66B.1.258.170.000624
ORF1ab/nsp12434S434StcTtcA66P.10.000095
ORF1ab/nsp12434S434FtCttTt55AY.30.00005
ORF1ab/nsp12434S434ATctGct55AY.40.000008
ORF1ab/nsp12434S434ATctGct55AY.4.20.000108
ORF1ab/nsp12434S434FtCttTt55AY.450.000608
ORF1ab/nsp12434S434StcTtcG55B.1.2400.001078
ORF1ab/nsp12434S434FtCttTt55C.160.005302
ORF1ab/nsp12434S434ATctGct55P.10.000079
ORF1ab/nsp12434S434StcTtcC34AY.1030.000019
ORF1ab/nsp12434S434StcTtcA14AY.1030.000006
ORF1ab/nsp12434S434PTctCct44AY.260.000113
ORF1ab/nsp12434S434PTctCct44AY.30.00004
ORF1ab/nsp12434S434delTCT---44AY.4.50.00043
ORF1ab/nsp12434S434StcTtcC44AY.420.000161
ORF1ab/nsp12434S434FtCttTt44AY.50.000083
ORF1ab/nsp12434S434YtCttAt44B.1.1420.011594
ORF1ab/nsp12434S434StcTtcC44B.1.20.000035
ORF1ab/nsp12434S434FtCttTt44B.1.4590.016327
ORF1ab/nsp12434S434PTctCct33AY.1060.001005
ORF1ab/nsp12434S434FtCttTt33AY.1180.000188
ORF1ab/nsp12434S434StcTtcC23AY.30.00002
ORF1ab/nsp12434S434StcTtcA13AY.30.00001
ORF1ab/nsp12434S434StcTtcC33AY.390.000074
ORF1ab/nsp12434S434delTCT---33AY.40.000005
ORF1ab/nsp12434S434FtCttTt33AY.4.20.000065
ORF1ab/nsp12434S434StcTtcC33AY.4.2.10.000447
ORF1ab/nsp12434S434YtCttAt33AY.430.000013
ORF1ab/nsp12434S434StcTtcC33AY.440.000018
ORF1ab/nsp12434S434YtCttAt33B.10.000027
ORF1ab/nsp12434S434FtCttTt33B.1.1.2220.000612
ORF1ab/nsp12434S434YtCttAt33B.1.3510.000089
ORF1ab/nsp12434S434FtCttTt33P.10.000047
ORF1ab/nsp12434S434FtCttTt22AY.1030.000012
ORF1ab/nsp12434S434ATctGct22AY.1050.001286
ORF1ab/nsp12434S434PTctCct22AY.1190.000071
ORF1ab/nsp12434S434StcTtcC22AY.1190.000071
ORF1ab/nsp12434S434PTctCct22AY.230.000139
ORF1ab/nsp12434S434StcTtcC22AY.290.000032
ORF1ab/nsp12434S434ATctGct22AY.30.00002
ORF1ab/nsp12434S434FtCttTt22AY.330.000134
ORF1ab/nsp12434S434FtCttTt22AY.340.000194
ORF1ab/nsp12434S434FtCttTt22AY.39.10.000079
ORF1ab/nsp12434S434FtCttTt22AY.420.00008
ORF1ab/nsp12434S434StcTtcC22AY.450.000243
ORF1ab/nsp12434S434StcTtcC22AY.46.60.000144
ORF1ab/nsp12434S434PTctCct22AY.50.000041
ORF1ab/nsp12434S434FtCttTt22AY.630.000774
ORF1ab/nsp12434S434FtCttTt22AY.670.000929
ORF1ab/nsp12434S434PTctCct22B.1.1.10.000653
ORF1ab/nsp12434S434YtCttAt22B.1.1.3550.030769
ORF1ab/nsp12434S434PTctCct22B.1.1.410.012658
ORF1ab/nsp12434S434FtCttTt22B.1.1.4640.002946
ORF1ab/nsp12434S434FtCttTt22B.1.1.5190.000079
ORF1ab/nsp12434S434YtCttAt22B.1.1.5190.000079
ORF1ab/nsp12434S434CtCttGt22B.1.1.70.000002
ORF1ab/nsp12434S434delTCT---22B.1.1770.000026
ORF1ab/nsp12434S434FtCttTt22B.1.177.40.000422
ORF1ab/nsp12434S434FtCttTt22B.1.177.730.001133
ORF1ab/nsp12434S434FtCttTt22B.1.2430.000139
ORF1ab/nsp12434S434FtCttTt22B.1.4270.000101
ORF1ab/nsp12434S434FtCttTt22B.1.5960.000174
ORF1ab/nsp12434S434delTCT---22B.1.617.20.000008
ORF1ab/nsp12434S434ATctGct22B.1.617.20.000008
ORF1ab/nsp12434S434PTctCct22P.10.000032
ORF1ab/nsp12434S434FtCttTt110.055556
ORF1ab/nsp12434S434YtCttAt11A0.000387
ORF1ab/nsp12434S434StcTtcC11A.2.40.003367
ORF1ab/nsp12434S434del1Tct-ct11All0
ORF1ab/nsp12434S434RTCtCGt11All0
ORF1ab/nsp12434S434del2TCt--t11All0
ORF1ab/nsp12434S434PTctCct11AY.1020.000027
ORF1ab/nsp12434S434YtCttAt11AY.1020.000027
ORF1ab/nsp12434S434PTctCct11AY.1030.000006
ORF1ab/nsp12434S434StcTtcC11AY.1040.001984
ORF1ab/nsp12434S434PTctCct11AY.1090.00074
ORF1ab/nsp12434S434FtCttTt11AY.1170.000085
ORF1ab/nsp12434S434PTctCct11AY.1170.000085
ORF1ab/nsp12434S434StcTtcC11AY.1180.000063
ORF1ab/nsp12434S434FtCttTt11AY.1190.000035
ORF1ab/nsp12434S434FtCttTt11AY.1210.000135
ORF1ab/nsp12434S434CtCttGt11AY.130.000161
ORF1ab/nsp12434S434FtCttTt11AY.130.000161
ORF1ab/nsp12434S434StcTtcC11AY.130.000161
ORF1ab/nsp12434S434ATctGct11AY.20.000356
ORF1ab/nsp12434S434FtCttTt11AY.200.000039
ORF1ab/nsp12434S434CtCttGt11AY.200.000039
ORF1ab/nsp12434S434FtCttTt11AY.230.00007
ORF1ab/nsp12434S434ATctGct11AY.230.00007
ORF1ab/nsp12434S434delTCT---11AY.250.000006
ORF1ab/nsp12434S434StcTtcC11AY.250.000006
ORF1ab/nsp12434S434FtCttTt11AY.260.000028
ORF1ab/nsp12434S434FtCttTt11AY.290.000016
ORF1ab/nsp12434S434FtCttTt11AY.3.10.000085
ORF1ab/nsp12434S434FtCttTt11AY.320.000532
ORF1ab/nsp12434S434StcTtcC11AY.340.000097
ORF1ab/nsp12434S434PTctCct11AY.360.000148
ORF1ab/nsp12434S434ATctGct11AY.390.000025
ORF1ab/nsp12434S434CtCttGt11AY.40.000002
ORF1ab/nsp12434S434StcTtcC11AY.4.20.000022
ORF1ab/nsp12434S434YtCttAt11AY.4.2.10.000149
ORF1ab/nsp12434S434YtCttAt11AY.420.00004
ORF1ab/nsp12434S434PTctCct11AY.420.00004
ORF1ab/nsp12434S434delTCT---11AY.430.000004
ORF1ab/nsp12434S434YtCttAt11AY.440.000006
ORF1ab/nsp12434S434FtCttTt11AY.460.000104
ORF1ab/nsp12434S434FtCttTt11AY.470.000031
ORF1ab/nsp12434S434StcTtcC11AY.50.000021
ORF1ab/nsp12434S434StcTtcC11AY.5.40.000277
ORF1ab/nsp12434S434YtCttAt11AY.520.000814
ORF1ab/nsp12434S434FtCttTt11AY.580.000907
ORF1ab/nsp12434S434FtCttTt11AY.610.000105
ORF1ab/nsp12434S434FtCttTt11AY.640.000595
ORF1ab/nsp12434S434StcTtcC11AY.680.000274
ORF1ab/nsp12434S434FtCttTt11AY.750.000056
ORF1ab/nsp12434S434FtCttTt11AY.820.001357
ORF1ab/nsp12434S434FtCttTt11AY.9.10.000084
ORF1ab/nsp12434S434StcTtcC11AY.9.10.000084
ORF1ab/nsp12434S434delTCT---11AY.9.20.000037
ORF1ab/nsp12434S434PTctCct11AY.9.20.000037
ORF1ab/nsp12434S434delTCT---11AY.980.000079
ORF1ab/nsp12434S434TTctAct11AY.99.20.000092
ORF1ab/nsp12434S434StcTtcC11AZ.30.00152
ORF1ab/nsp12434S434YtCttAt11B0.000128
ORF1ab/nsp12434S434StcTtcG11B0.000128
ORF1ab/nsp12434S434TTcTAcA11B.10.000009
ORF1ab/nsp12434S434ATctGct11B.10.000009
ORF1ab/nsp12434S434CtCttGt11B.10.000009
ORF1ab/nsp12434S434delTCT---11B.10.000009
ORF1ab/nsp12434S434delTCT---11B.1.10.000018
ORF1ab/nsp12434S434PTctCct11B.1.10.000018
ORF1ab/nsp12434S434FtCttTt11B.1.1.1130.006993
ORF1ab/nsp12434S434delTCT---11B.1.1.1390.022727
ORF1ab/nsp12434S434TTctAct11B.1.1.1530.001095
ORF1ab/nsp12434S434FtCttTt11B.1.1.1890.001513
ORF1ab/nsp12434S434delTCT---11B.1.1.1920.002309
ORF1ab/nsp12434S434TTctAct11B.1.1.2140.000055
ORF1ab/nsp12434S434ATctGct11B.1.1.2220.000204
ORF1ab/nsp12434S434YtCttAt11B.1.1.2410.00207
ORF1ab/nsp12434S434FtCttTt11B.1.1.2790.001121
ORF1ab/nsp12434S434FtCttTt11B.1.1.2860.002899
ORF1ab/nsp12434S434delTCT---11B.1.1.3060.000438
ORF1ab/nsp12434S434StcTtcC11B.1.1.3060.000438
ORF1ab/nsp12434S434delTCT---11B.1.1.3110.000358
ORF1ab/nsp12434S434StcTtcC11B.1.1.3160.000925
ORF1ab/nsp12434S434FtCttTt11B.1.1.3180.000302
ORF1ab/nsp12434S434FtCttTt11B.1.1.330.000421
ORF1ab/nsp12434S434FtCttTt11B.1.1.3690.000446
ORF1ab/nsp12434S434PTctCct11B.1.1.3720.000689
ORF1ab/nsp12434S434delTCT---11B.1.1.460.004367
ORF1ab/nsp12434S434RTCtCGt11B.1.1.70.000001
ORF1ab/nsp12434S434del1Tct-ct11B.1.1.70.000001
ORF1ab/nsp12434S434FtCttTt11B.1.1.700.000341
ORF1ab/nsp12434S434FtCttTt11B.1.1600.000031
ORF1ab/nsp12434S434delTCT---11B.1.160.230.004831
ORF1ab/nsp12434S434StcTtcC11B.1.1660.008475
ORF1ab/nsp12434S434PTctCct11B.1.1770.000013
ORF1ab/nsp12434S434ATcTGcG11B.1.1770.000013
ORF1ab/nsp12434S434delTCT---11B.1.177.160.000664
ORF1ab/nsp12434S434delTCT---11B.1.177.180.00116
ORF1ab/nsp12434S434delTCT---11B.1.177.40.000211
ORF1ab/nsp12434S434delTCT---11B.1.177.510.004566
ORF1ab/nsp12434S434delTCT---11B.1.177.540.000606
ORF1ab/nsp12434S434PTctCct11B.1.177.770.000726
ORF1ab/nsp12434S434PTctCct11B.1.20.000009
ORF1ab/nsp12434S434del2TCt--t11B.1.20.000009
ORF1ab/nsp12434S434YtCttAt11B.1.20.000009
ORF1ab/nsp12434S434ATctGct11B.1.20.000009
ORF1ab/nsp12434S434FtCttTt11B.1.220.001318
ORF1ab/nsp12434S434FtCttTt11B.1.2210.000071
ORF1ab/nsp12434S434StcTtcC11B.1.2410.000812
ORF1ab/nsp12434S434PTctCct11B.1.258.30.001675
ORF1ab/nsp12434S434YtCttAt11B.1.3010.005917
ORF1ab/nsp12434S434StcTtcG11B.1.3510.00003
ORF1ab/nsp12434S434FtCttTt11B.1.3510.00003
ORF1ab/nsp12434S434FtCttTt11B.1.351.20.000303
ORF1ab/nsp12434S434TTctAct11B.1.351.30.000876
ORF1ab/nsp12434S434FtCttTt11B.1.360.000146
ORF1ab/nsp12434S434YtCttAt11B.1.3690.000285
ORF1ab/nsp12434S434FtCTtTC11B.1.3770.004566
ORF1ab/nsp12434S434FtCttTt11B.1.3830.009009
ORF1ab/nsp12434S434YtCttAt11B.1.3960.000706
ORF1ab/nsp12434S434FtCttTt11B.1.4000.000429
ORF1ab/nsp12434S434ATctGct11B.1.4270.00005
ORF1ab/nsp12434S434ATctGct11B.1.4290.000024
ORF1ab/nsp12434S434YtCttAt11B.1.4290.000024
ORF1ab/nsp12434S434StcTtcG11B.1.438.10.000107
ORF1ab/nsp12434S434TTctAct11B.1.4590.004082
ORF1ab/nsp12434S434StcTtcC11B.1.4680.005714
ORF1ab/nsp12434S434delTCT---11B.1.5250.000113
ORF1ab/nsp12434S434TTctAct11B.1.5260.000024
ORF1ab/nsp12434S434FtCttTt11B.1.5570.05
ORF1ab/nsp12434S434YtCttAt11B.1.5640.000426
ORF1ab/nsp12434S434FtCttTt11B.1.5770.000687
ORF1ab/nsp12434S434FtCttTt11B.1.5880.00091
ORF1ab/nsp12434S434PTctCct11B.1.5960.000087
ORF1ab/nsp12434S434ATctGct11B.1.6090.000479
ORF1ab/nsp12434S434FtCttTt11B.1.617.10.000129
ORF1ab/nsp12434S434TTctAct11B.1.617.20.000004
ORF1ab/nsp12434S434YtCttAt11B.1.6230.000536
ORF1ab/nsp12434S434delTCT---11B.1.6300.005236
ORF1ab/nsp12434S434PTctCct11B.40.002208
ORF1ab/nsp12434S434PTctCct11C.1.10.076923
ORF1ab/nsp12434S434PTctCct11C.370.000116
ORF1ab/nsp12434S434FtCttTt11K.10.02381
ORF1ab/nsp12434S434FtCttTt11N.90.005952
ORF1ab/nsp12434S434FtCttTt11P.1.140.000048
ORF1ab/nsp12434S434FtCttTt11P.20.000187
ORF1ab/nsp12434S434PTctCct11Q.10.000126
ORF1ab/nsp12434S434FtCttTt11Q.80.000165

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.