CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 592

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/nsp12592S592SS4984SsynagCagT21562156115214-15216
ORF1ab/nsp12592S592GS4984GnonsynAgcGgc5353115214-15216
ORF1ab/nsp12592S592delS4984deldelAGC---4747115214-15216
ORF1ab/nsp12592S592TS4984TnonsynaGcaCc20190.9515214-15216
ORF1ab/nsp12592S592TS4984TnonsynaGCaCA2010.0515214-15216
ORF1ab/nsp12592S592IS4984InonsynaGcaTc14130.92857115214-15216
ORF1ab/nsp12592S592IS4984InonsynaGCaTT1410.071428615214-15216
ORF1ab/nsp12592S592RS4984RnonsynagCagA1212115214-15216
ORF1ab/nsp12592S592NS4984NnonsynaGcaAc1010115214-15216
ORF1ab/nsp12592S592CS4984CnonsynAgcTgc55115214-15216
ORF1ab/nsp12592S592del2S4984del2delAGc--c320.66666715214-15216
ORF1ab/nsp12592S592del2S4984del2delaGCa--310.33333315214-15216
ORF1ab/nsp12592S592del1S4984del1delaGca-c22115214-15216

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/nsp12592S592SagCagT21562156All0.000412
ORF1ab/nsp12592S592SagCagT699699B.1.1.70.000626
ORF1ab/nsp12592S592SagCagT254254B.1.617.20.000956
ORF1ab/nsp12592S592SagCagT199199AY.40.00031
ORF1ab/nsp12592S592SagCagT9191AY.430.000403
ORF1ab/nsp12592S592SagCagT7979AY.1030.000491
ORF1ab/nsp12592S592SagCagT7575AY.1000.00345
ORF1ab/nsp12592S592SagCagT7575B.1.10.001361
ORF1ab/nsp12592S592SagCagT5454B.1.20.000475
ORF1ab/nsp12592S592GAgcGgc5353All0.00001
ORF1ab/nsp12592S592delAGC---4747All0.000009
ORF1ab/nsp12592S592SagCagT4141U.30.158301
ORF1ab/nsp12592S592SagCagT3636AY.250.000217
ORF1ab/nsp12592S592SagCagT3434B.10.000311
ORF1ab/nsp12592S592SagCagT3333AY.30.000328
ORF1ab/nsp12592S592SagCagT3232N.40.13617
ORF1ab/nsp12592S592GAgcGgc2929B.1.1.70.000026
ORF1ab/nsp12592S592delAGC---2525B.1.1.70.000022
ORF1ab/nsp12592S592TaGcaCc1920All0.000004
ORF1ab/nsp12592S592TaGCaCA120All0
ORF1ab/nsp12592S592SagCagT1717P.10.000268
ORF1ab/nsp12592S592SagCagT1515AY.440.000091
ORF1ab/nsp12592S592IaGcaTc1314All0.000002
ORF1ab/nsp12592S592IaGCaTT114All0
ORF1ab/nsp12592S592SagCagT1414AY.1020.000371
ORF1ab/nsp12592S592SagCagT1313C.370.001509
ORF1ab/nsp12592S592SagCagT1212AL.10.155844
ORF1ab/nsp12592S592RagCagA1212All0.000002
ORF1ab/nsp12592S592SagCagT1212AY.410.003527
ORF1ab/nsp12592S592SagCagT1111B.1.1770.000145
ORF1ab/nsp12592S592NaGcaAc1010All0.000002
ORF1ab/nsp12592S592SagCagT99AY.99.20.000829
ORF1ab/nsp12592S592SagCagT99B.1.466.20.003521
ORF1ab/nsp12592S592SagCagT99B.1.5640.003833
ORF1ab/nsp12592S592SagCagT99B.1.5750.002731
ORF1ab/nsp12592S592SagCagT99P.1.150.002091
ORF1ab/nsp12592S592SagCagT88AY.870.006661
ORF1ab/nsp12592S592SagCagT88B.1.110.10.8
ORF1ab/nsp12592S592SagCagT88B.1.3510.000238
ORF1ab/nsp12592S592SagCagT77AY.1190.000247
ORF1ab/nsp12592S592SagCagT77AY.200.000272
ORF1ab/nsp12592S592SagCagT77AY.260.000198
ORF1ab/nsp12592S592SagCagT77AY.290.00011
ORF1ab/nsp12592S592SagCagT77AY.340.000679
ORF1ab/nsp12592S592SagCagT77AY.39.10.000277
ORF1ab/nsp12592S592TaGcaCc77B.1.1.70.000006
ORF1ab/nsp12592S592SagCagT77P.1.140.000335
ORF1ab/nsp12592S592SagCagT66AY.1130.000854
ORF1ab/nsp12592S592SagCagT66AY.230.000418
ORF1ab/nsp12592S592SagCagT66AY.470.000187
ORF1ab/nsp12592S592SagCagT66AY.50.000124
ORF1ab/nsp12592S592TaGcaCc66B.1.5250.000679
ORF1ab/nsp12592S592SagCagT66B.1.5960.000523
ORF1ab/nsp12592S592SagCagT66Q.80.000989
ORF1ab/nsp12592S592CAgcTgc55All0.000001
ORF1ab/nsp12592S592SagCagT55B.1.1600.000156
ORF1ab/nsp12592S592SagCagT55B.1.220.006588
ORF1ab/nsp12592S592SagCagT55B.1.4290.000118
ORF1ab/nsp12592S592SagCagT44AY.3.10.000341
ORF1ab/nsp12592S592SagCagT44AY.390.000099
ORF1ab/nsp12592S592GAgcGgc44AY.440.000024
ORF1ab/nsp12592S592SagCagT44AY.450.000487
ORF1ab/nsp12592S592SagCagT44AY.60.000165
ORF1ab/nsp12592S592SagCagT44AY.70.000784
ORF1ab/nsp12592S592SagCagT44AY.740.000463
ORF1ab/nsp12592S592SagCagT44AY.980.000316
ORF1ab/nsp12592S592SagCagT44B.1.1.4860.006309
ORF1ab/nsp12592S592delAGC---44B.1.1770.000053
ORF1ab/nsp12592S592SagCagT44B.1.177.570.001124
ORF1ab/nsp12592S592SagCagT44B.1.2210.000284
ORF1ab/nsp12592S592SagCagT44B.1.2400.000862
ORF1ab/nsp12592S592SagCagT44D.20.0003
ORF1ab/nsp12592S592del2AGc--c23All0
ORF1ab/nsp12592S592del2aGCa--13All0
ORF1ab/nsp12592S592SagCagT33AY.10.001187
ORF1ab/nsp12592S592SagCagT33AY.1170.000254
ORF1ab/nsp12592S592SagCagT33AY.190.003421
ORF1ab/nsp12592S592delAGC---33AY.40.000005
ORF1ab/nsp12592S592NaGcaAc33AY.40.000005
ORF1ab/nsp12592S592SagCagT33AY.4.20.000065
ORF1ab/nsp12592S592NaGcaAc33AY.440.000018
ORF1ab/nsp12592S592GAgcGgc33AY.50.000062
ORF1ab/nsp12592S592SagCagT33AY.810.005976
ORF1ab/nsp12592S592IaGcaTc33B.10.000027
ORF1ab/nsp12592S592TaGcaCc23B.10.000018
ORF1ab/nsp12592S592TaGCaCA13B.10.000009
ORF1ab/nsp12592S592SagCagT33B.1.1.2190.015
ORF1ab/nsp12592S592SagCagT33B.1.1.480.008621
ORF1ab/nsp12592S592IaGcaTc33B.1.1.70.000003
ORF1ab/nsp12592S592CAgcTgc33B.1.1.70.000003
ORF1ab/nsp12592S592del2AGc--c23B.1.1.70.000002
ORF1ab/nsp12592S592del2aGCa--13B.1.1.70.000001
ORF1ab/nsp12592S592SagCagT33B.1.2580.0002
ORF1ab/nsp12592S592SagCagT33B.1.36.290.001552
ORF1ab/nsp12592S592GAgcGgc33B.1.4290.000071
ORF1ab/nsp12592S592SagCagT33B.1.4430.014019
ORF1ab/nsp12592S592IaGcaTc33B.1.5250.000339
ORF1ab/nsp12592S592SagCagT33B.1.6210.000266
ORF1ab/nsp12592S592del1aGca-c22All0
ORF1ab/nsp12592S592SagCagT22AY.1110.000366
ORF1ab/nsp12592S592SagCagT22AY.120.000632
ORF1ab/nsp12592S592SagCagT22AY.1210.000271
ORF1ab/nsp12592S592SagCagT22AY.16.10.00094
ORF1ab/nsp12592S592GAgcGgc22AY.200.000078
ORF1ab/nsp12592S592RagCagA22AY.3.10.000171
ORF1ab/nsp12592S592SagCagT22AY.300.000791
ORF1ab/nsp12592S592SagCagT22AY.330.000134
ORF1ab/nsp12592S592SagCagT22AY.4.50.000215
ORF1ab/nsp12592S592delAGC---22AY.4.50.000215
ORF1ab/nsp12592S592SagCagT22AY.90.000135
ORF1ab/nsp12592S592SagCagT22AY.9.20.000073
ORF1ab/nsp12592S592RagCagA22B.10.000018
ORF1ab/nsp12592S592SagCagT22B.1.1.10.000653
ORF1ab/nsp12592S592SagCagT22B.1.1.2030.033898
ORF1ab/nsp12592S592SagCagT22B.1.1.2160.001781
ORF1ab/nsp12592S592SagCagT22B.1.1.4130.013793
ORF1ab/nsp12592S592SagCagT22B.1.177.540.001213
ORF1ab/nsp12592S592NaGcaAc22B.1.3950.014085
ORF1ab/nsp12592S592GAgcGgc22B.1.466.20.000782
ORF1ab/nsp12592S592SagCagT22B.1.5060.047619
ORF1ab/nsp12592S592SagCagT22B.1.5950.000522
ORF1ab/nsp12592S592SagCagT22B.60.00182
ORF1ab/nsp12592S592SagCagT22C.1.20.008511
ORF1ab/nsp12592S592SagCagT22Q.30.00029
ORF1ab/nsp12592S592SagCagT11A0.000387
ORF1ab/nsp12592S592SagCagT11A.10.000282
ORF1ab/nsp12592S592SagCagT11A.2.50.000499
ORF1ab/nsp12592S592SagCagT11A.23.10.000704
ORF1ab/nsp12592S592SagCagT11A.50.001923
ORF1ab/nsp12592S592SagCagT11AD.10.004115
ORF1ab/nsp12592S592delAGC---11AD.20.000219
ORF1ab/nsp12592S592SagCagT11AY.1010.00049
ORF1ab/nsp12592S592RagCagA11AY.1030.000006
ORF1ab/nsp12592S592SagCagT11AY.1060.000335
ORF1ab/nsp12592S592SagCagT11AY.1070.000466
ORF1ab/nsp12592S592SagCagT11AY.1180.000063
ORF1ab/nsp12592S592SagCagT11AY.1200.000037
ORF1ab/nsp12592S592SagCagT11AY.140.000088
ORF1ab/nsp12592S592SagCagT11AY.160.00038
ORF1ab/nsp12592S592SagCagT11AY.240.000431
ORF1ab/nsp12592S592TaGcaCc11AY.240.000431
ORF1ab/nsp12592S592GAgcGgc11AY.250.000006
ORF1ab/nsp12592S592RagCagA11AY.260.000028
ORF1ab/nsp12592S592GAgcGgc11AY.30.00001
ORF1ab/nsp12592S592SagCagT11AY.360.000148
ORF1ab/nsp12592S592RagCagA11AY.40.000002
ORF1ab/nsp12592S592SagCagT11AY.4.30.000842
ORF1ab/nsp12592S592SagCagT11AY.420.00004
ORF1ab/nsp12592S592delAGC---11AY.430.000004
ORF1ab/nsp12592S592NaGcaAc11AY.430.000004
ORF1ab/nsp12592S592del1aGca-c11AY.440.000006
ORF1ab/nsp12592S592SagCagT11AY.460.000104
ORF1ab/nsp12592S592SagCagT11AY.46.40.000165
ORF1ab/nsp12592S592SagCagT11AY.510.000909
ORF1ab/nsp12592S592delAGC---11AY.520.000814
ORF1ab/nsp12592S592SagCagT11AY.540.000095
ORF1ab/nsp12592S592SagCagT11AY.550.000917
ORF1ab/nsp12592S592SagCagT11AY.620.000436
ORF1ab/nsp12592S592NaGcaAc11AY.670.000464
ORF1ab/nsp12592S592SagCagT11AY.700.000209
ORF1ab/nsp12592S592SagCagT11AY.750.000056
ORF1ab/nsp12592S592SagCagT11AY.75.10.00018
ORF1ab/nsp12592S592SagCagT11AY.9.10.000084
ORF1ab/nsp12592S592GAgcGgc11AY.9.20.000037
ORF1ab/nsp12592S592RagCagA11AY.910.00073
ORF1ab/nsp12592S592SagCagT11AY.910.00073
ORF1ab/nsp12592S592SagCagT11AY.950.000761
ORF1ab/nsp12592S592delAGC---11AY.99.10.001553
ORF1ab/nsp12592S592RagCagA11B0.000128
ORF1ab/nsp12592S592GAgcGgc11B.10.000009
ORF1ab/nsp12592S592SagCagT11B.1.1.100.001115
ORF1ab/nsp12592S592SagCagT11B.1.1.1010.01
ORF1ab/nsp12592S592SagCagT11B.1.1.1610.003534
ORF1ab/nsp12592S592IaGcaTc11B.1.1.1610.003534
ORF1ab/nsp12592S592CAgcTgc11B.1.1.1610.003534
ORF1ab/nsp12592S592SagCagT11B.1.1.1640.005155
ORF1ab/nsp12592S592SagCagT11B.1.1.2140.000055
ORF1ab/nsp12592S592SagCagT11B.1.1.2220.000204
ORF1ab/nsp12592S592GAgcGgc11B.1.1.250.000569
ORF1ab/nsp12592S592SagCagT11B.1.1.2730.006757
ORF1ab/nsp12592S592SagCagT11B.1.1.2940.001266
ORF1ab/nsp12592S592SagCagT11B.1.1.3060.000438
ORF1ab/nsp12592S592SagCagT11B.1.1.330.000421
ORF1ab/nsp12592S592SagCagT11B.1.1.3480.000796
ORF1ab/nsp12592S592SagCagT11B.1.1.390.00051
ORF1ab/nsp12592S592IaGcaTc11B.1.1.4000.05
ORF1ab/nsp12592S592SagCagT11B.1.1.4090.002833
ORF1ab/nsp12592S592SagCagT11B.1.1.460.004367
ORF1ab/nsp12592S592SagCagT11B.1.1.5190.00004
ORF1ab/nsp12592S592SagCagT11B.1.1.5230.001563
ORF1ab/nsp12592S592RagCagA11B.1.1.70.000001
ORF1ab/nsp12592S592delAGC---11B.1.1.700.000341
ORF1ab/nsp12592S592SagCagT11B.1.1.700.000341
ORF1ab/nsp12592S592delAGC---11B.1.1600.000031
ORF1ab/nsp12592S592delAGC---11B.1.160.230.004831
ORF1ab/nsp12592S592SagCagT11B.1.160.280.002924
ORF1ab/nsp12592S592TaGcaCc11B.1.1770.000013
ORF1ab/nsp12592S592SagCagT11B.1.177.150.000631
ORF1ab/nsp12592S592delAGC---11B.1.177.160.000664
ORF1ab/nsp12592S592SagCagT11B.1.177.320.00135
ORF1ab/nsp12592S592SagCagT11B.1.177.350.000691
ORF1ab/nsp12592S592delAGC---11B.1.177.540.000606
ORF1ab/nsp12592S592delAGC---11B.1.177.600.000218
ORF1ab/nsp12592S592delAGC---11B.1.177.810.000189
ORF1ab/nsp12592S592SagCagT11B.1.214.20.0006
ORF1ab/nsp12592S592SagCagT11B.1.221.10.002907
ORF1ab/nsp12592S592SagCagT11B.1.2290.009709
ORF1ab/nsp12592S592SagCagT11B.1.2320.000537
ORF1ab/nsp12592S592SagCagT11B.1.2340.000132
ORF1ab/nsp12592S592GAgcGgc11B.1.2580.000067
ORF1ab/nsp12592S592delAGC---11B.1.258.100.011364
ORF1ab/nsp12592S592SagCagT11B.1.258.170.000104
ORF1ab/nsp12592S592IaGCaTT11B.1.3110.000275
ORF1ab/nsp12592S592SagCagT11B.1.36.10.00114
ORF1ab/nsp12592S592TaGcaCc11B.1.36.170.000494
ORF1ab/nsp12592S592SagCagT11B.1.36.310.001751
ORF1ab/nsp12592S592SagCagT11B.1.36.80.001
ORF1ab/nsp12592S592RagCagA11B.1.36.80.001
ORF1ab/nsp12592S592SagCagT11B.1.3750.00082
ORF1ab/nsp12592S592SagCagT11B.1.4270.00005
ORF1ab/nsp12592S592IaGcaTc11B.1.4290.000024
ORF1ab/nsp12592S592SagCagT11B.1.4700.001404
ORF1ab/nsp12592S592del1aGca-c11B.1.5170.000427
ORF1ab/nsp12592S592SagCagT11B.1.5260.000024
ORF1ab/nsp12592S592SagCagT11B.1.5770.000687
ORF1ab/nsp12592S592IaGcaTc11B.1.5820.000491
ORF1ab/nsp12592S592RagCagA11B.1.5950.000261
ORF1ab/nsp12592S592GAgcGgc11B.1.5950.000261
ORF1ab/nsp12592S592SagCagT11B.1.5980.016949
ORF1ab/nsp12592S592GAgcGgc11B.1.617.20.000004
ORF1ab/nsp12592S592TaGcaCc11B.1.6360.006711
ORF1ab/nsp12592S592SagCagT11B.1.6370.000073
ORF1ab/nsp12592S592GAgcGgc11B.30.000831
ORF1ab/nsp12592S592SagCagT11B.410.008
ORF1ab/nsp12592S592SagCagT11B.610.005747
ORF1ab/nsp12592S592SagCagT11C.160.00106
ORF1ab/nsp12592S592SagCagT11C.36.30.000567
ORF1ab/nsp12592S592CAgcTgc11D.20.000075
ORF1ab/nsp12592S592GAgcGgc11P.10.000016
ORF1ab/nsp12592S592SagCagT11P.1.120.000484
ORF1ab/nsp12592S592SagCagT11P.1.70.000319
ORF1ab/nsp12592S592delAGC---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.