CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : CodonNum = 172

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/nsp4172D172DD2935DsyngaTgaC2243224319068-9070
ORF1ab/nsp4172D172delD2935deldelGAT---686819068-9070
ORF1ab/nsp4172D172YD2935YnonsynGatTat16140.8759068-9070
ORF1ab/nsp4172D172YD2935YnonsynGaTTaC1620.1259068-9070
ORF1ab/nsp4172D172HD2935HnonsynGatCat1080.89068-9070
ORF1ab/nsp4172D172HD2935HnonsynGaTCaC1020.29068-9070
ORF1ab/nsp4172D172VD2935VnonsyngAtgTt9919068-9070
ORF1ab/nsp4172D172GD2935GnonsyngAtgGt7719068-9070
ORF1ab/nsp4172D172ND2935NnonsynGatAat7719068-9070
ORF1ab/nsp4172D172ED2935EnonsyngaTgaG3319068-9070
ORF1ab/nsp4172D172del1D2935del1delGat-at2219068-9070
ORF1ab/nsp4172D172AD2935AnonsyngAtgCt2219068-9070
ORF1ab/nsp4172D172KD2935KnonsynGaTAaA210.59068-9070
ORF1ab/nsp4172D172KD2935KnonsynGaTAaG210.59068-9070
ORF1ab/nsp4172D172del2D2935del2delgATg--1119068-9070

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/nsp4172D172DgaTgaC22432243All0.000429
ORF1ab/nsp4172D172DgaTgaC634634AY.40.000987
ORF1ab/nsp4172D172DgaTgaC178178AT.10.912821
ORF1ab/nsp4172D172DgaTgaC174174AY.1110.031868
ORF1ab/nsp4172D172DgaTgaC161161B.1.1.70.000144
ORF1ab/nsp4172D172DgaTgaC145145B.1.1.5190.005758
ORF1ab/nsp4172D172DgaTgaC138138AY.30.001373
ORF1ab/nsp4172D172DgaTgaC7777B.1.617.20.00029
ORF1ab/nsp4172D172DgaTgaC6969AY.430.000306
ORF1ab/nsp4172D172delGAT---6868All0.000013
ORF1ab/nsp4172D172DgaTgaC5656AY.440.000341
ORF1ab/nsp4172D172DgaTgaC4747B.1.3230.979167
ORF1ab/nsp4172D172DgaTgaC4545P.1.140.002151
ORF1ab/nsp4172D172DgaTgaC4343B.1.258.170.004471
ORF1ab/nsp4172D172DgaTgaC4242AY.1030.000261
ORF1ab/nsp4172D172DgaTgaC2929B.1.20.000255
ORF1ab/nsp4172D172delGAT---2828B.1.1.70.000025
ORF1ab/nsp4172D172DgaTgaC2828B.1.4290.000659
ORF1ab/nsp4172D172DgaTgaC2222AY.1210.002977
ORF1ab/nsp4172D172DgaTgaC1717AY.250.000102
ORF1ab/nsp4172D172YGatTat1416All0.000003
ORF1ab/nsp4172D172YGaTTaC216All0
ORF1ab/nsp4172D172DgaTgaC1616AY.390.000395
ORF1ab/nsp4172D172DgaTgaC1616B.1.4080.059041
ORF1ab/nsp4172D172DgaTgaC1313B.10.000119
ORF1ab/nsp4172D172DgaTgaC1212AY.50.000248
ORF1ab/nsp4172D172DgaTgaC1212P.1.160.004489
ORF1ab/nsp4172D172DgaTgaC1111B.1.10.0002
ORF1ab/nsp4172D172DgaTgaC1111B.1.1.3720.007576
ORF1ab/nsp4172D172DgaTgaC1111P.10.000173
ORF1ab/nsp4172D172HGatCat810All0.000002
ORF1ab/nsp4172D172HGaTCaC210All0
ORF1ab/nsp4172D172DgaTgaC1010B.1.1770.000132
ORF1ab/nsp4172D172DgaTgaC1010B.1.621.10.005058
ORF1ab/nsp4172D172VgAtgTt99All0.000002
ORF1ab/nsp4172D172DgaTgaC99B.1.5510.011613
ORF1ab/nsp4172D172DgaTgaC99Q.40.004093
ORF1ab/nsp4172D172NGatAat77All0.000001
ORF1ab/nsp4172D172GgAtgGt77All0.000001
ORF1ab/nsp4172D172delGAT---77AY.430.000031
ORF1ab/nsp4172D172DgaTgaC66AY.1200.000223
ORF1ab/nsp4172D172DgaTgaC66AY.230.000418
ORF1ab/nsp4172D172DgaTgaC66AY.550.005505
ORF1ab/nsp4172D172DgaTgaC66B.1.6210.000531
ORF1ab/nsp4172D172HGatCat350.166667
ORF1ab/nsp4172D172HGaTCaC250.111111
ORF1ab/nsp4172D172DgaTgaC55AY.290.000079
ORF1ab/nsp4172D172DgaTgaC55AY.450.000608
ORF1ab/nsp4172D172DgaTgaC440.222222
ORF1ab/nsp4172D172YGatTat240.111111
ORF1ab/nsp4172D172YGaTTaC240.111111
ORF1ab/nsp4172D172DgaTgaC44AY.1160.001147
ORF1ab/nsp4172D172DgaTgaC44AY.4.20.000087
ORF1ab/nsp4172D172DgaTgaC44AY.700.000834
ORF1ab/nsp4172D172DgaTgaC44B.1.36.10.004561
ORF1ab/nsp4172D172YGatTat44B.1.617.20.000015
ORF1ab/nsp4172D172EgaTgaG33All0.000001
ORF1ab/nsp4172D172DgaTgaC33AY.1020.00008
ORF1ab/nsp4172D172DgaTgaC33AY.1170.000254
ORF1ab/nsp4172D172DgaTgaC33AY.260.000085
ORF1ab/nsp4172D172DgaTgaC33AY.39.10.000119
ORF1ab/nsp4172D172delGAT---33AY.4.50.000322
ORF1ab/nsp4172D172DgaTgaC33AY.470.000093
ORF1ab/nsp4172D172DgaTgaC33AY.60.000123
ORF1ab/nsp4172D172YGatTat33B.1.20.000026
ORF1ab/nsp4172D172DgaTgaC33B.1.2430.000209
ORF1ab/nsp4172D172DgaTgaC33B.1.3510.000089
ORF1ab/nsp4172D172DgaTgaC33B.1.466.20.001174
ORF1ab/nsp4172D172DgaTgaC33B.1.619.10.001924
ORF1ab/nsp4172D172NGatAat220.111111
ORF1ab/nsp4172D172AgAtgCt22All0
ORF1ab/nsp4172D172del1Gat-at22All0
ORF1ab/nsp4172D172KGaTAaA12All0
ORF1ab/nsp4172D172KGaTAaG12All0
ORF1ab/nsp4172D172DgaTgaC22AY.1000.000092
ORF1ab/nsp4172D172DgaTgaC22AY.1190.000071
ORF1ab/nsp4172D172DgaTgaC22AY.120.10.000642
ORF1ab/nsp4172D172DgaTgaC22AY.120.2.10.000997
ORF1ab/nsp4172D172DgaTgaC22AY.130.000322
ORF1ab/nsp4172D172DgaTgaC22AY.200.000078
ORF1ab/nsp4172D172DgaTgaC22AY.270.000129
ORF1ab/nsp4172D172GgAtgGt22AY.40.000003
ORF1ab/nsp4172D172DgaTgaC22AY.4.50.000215
ORF1ab/nsp4172D172DgaTgaC22AY.420.00008
ORF1ab/nsp4172D172delGAT---22AY.440.000012
ORF1ab/nsp4172D172DgaTgaC22AY.460.000208
ORF1ab/nsp4172D172DgaTgaC22AY.530.000575
ORF1ab/nsp4172D172DgaTgaC22AY.580.001815
ORF1ab/nsp4172D172DgaTgaC22AY.610.00021
ORF1ab/nsp4172D172DgaTgaC22AY.670.000929
ORF1ab/nsp4172D172DgaTgaC22AY.800.002257
ORF1ab/nsp4172D172DgaTgaC22AY.980.000158
ORF1ab/nsp4172D172DgaTgaC22AY.98.10.000097
ORF1ab/nsp4172D172DgaTgaC22AY.99.20.000184
ORF1ab/nsp4172D172delGAT---22B.10.000018
ORF1ab/nsp4172D172YGatTat22B.10.000018
ORF1ab/nsp4172D172delGAT---22B.1.10.000036
ORF1ab/nsp4172D172KGaTAaG12B.1.10.000018
ORF1ab/nsp4172D172KGaTAaA12B.1.10.000018
ORF1ab/nsp4172D172DgaTgaC22B.1.1.1590.009346
ORF1ab/nsp4172D172DgaTgaC22B.1.1.2140.000111
ORF1ab/nsp4172D172DgaTgaC22B.1.1.3260.003521
ORF1ab/nsp4172D172DgaTgaC22B.1.1.3480.001592
ORF1ab/nsp4172D172DgaTgaC22B.1.1.370.000386
ORF1ab/nsp4172D172DgaTgaC22B.1.1.630.000772
ORF1ab/nsp4172D172VgAtgTt22B.1.1.70.000002
ORF1ab/nsp4172D172DgaTgaC22B.1.1600.000062
ORF1ab/nsp4172D172delGAT---22B.1.1770.000026
ORF1ab/nsp4172D172delGAT---22B.1.177.180.00232
ORF1ab/nsp4172D172delGAT---22B.1.20.000018
ORF1ab/nsp4172D172DgaTgaC22B.1.36.100.009569
ORF1ab/nsp4172D172VgAtgTt22B.1.3620.003082
ORF1ab/nsp4172D172DgaTgaC22B.1.617.10.000258
ORF1ab/nsp4172D172delGAT---22B.1.617.20.000008
ORF1ab/nsp4172D172DgaTgaC22C.370.000232
ORF1ab/nsp4172D172HGatCat22D.20.00015
ORF1ab/nsp4172D172DgaTgaC22P.1.170.000324
ORF1ab/nsp4172D172DgaTgaC22P.1.60.003891
ORF1ab/nsp4172D172DgaTgaC22Q.30.00029
ORF1ab/nsp4172D172DgaTgaC11A0.000387
ORF1ab/nsp4172D172YGatTat11A.2.20.001689
ORF1ab/nsp4172D172DgaTgaC11A.23.10.000704
ORF1ab/nsp4172D172del2gATg--11All0
ORF1ab/nsp4172D172DgaTgaC11AU.20.002421
ORF1ab/nsp4172D172DgaTgaC11AY.1060.000335
ORF1ab/nsp4172D172DgaTgaC11AY.1070.000466
ORF1ab/nsp4172D172DgaTgaC11AY.1080.001103
ORF1ab/nsp4172D172DgaTgaC11AY.1130.000142
ORF1ab/nsp4172D172DgaTgaC11AY.1180.000063
ORF1ab/nsp4172D172AgAtgCt11AY.1190.000035
ORF1ab/nsp4172D172DgaTgaC11AY.120.000316
ORF1ab/nsp4172D172delGAT---11AY.1200.000037
ORF1ab/nsp4172D172DgaTgaC11AY.170.008197
ORF1ab/nsp4172D172DgaTgaC11AY.210.001898
ORF1ab/nsp4172D172delGAT---11AY.250.000006
ORF1ab/nsp4172D172GgAtgGt11AY.30.00001
ORF1ab/nsp4172D172AgAtgCt11AY.30.00001
ORF1ab/nsp4172D172DgaTgaC11AY.300.000396
ORF1ab/nsp4172D172DgaTgaC11AY.360.000148
ORF1ab/nsp4172D172EgaTgaG11AY.40.000002
ORF1ab/nsp4172D172VgAtgTt11AY.40.000002
ORF1ab/nsp4172D172NGatAat11AY.4.20.000022
ORF1ab/nsp4172D172NGatAat11AY.430.000004
ORF1ab/nsp4172D172EgaTgaG11AY.440.000006
ORF1ab/nsp4172D172GgAtgGt11AY.440.000006
ORF1ab/nsp4172D172delGAT---11AY.46.50.000198
ORF1ab/nsp4172D172DgaTgaC11AY.46.50.000198
ORF1ab/nsp4172D172DgaTgaC11AY.7.20.000559
ORF1ab/nsp4172D172delGAT---11AY.720.001361
ORF1ab/nsp4172D172DgaTgaC11AY.750.000056
ORF1ab/nsp4172D172DgaTgaC11AY.75.10.00018
ORF1ab/nsp4172D172DgaTgaC11AY.880.000884
ORF1ab/nsp4172D172delGAT---11AY.90.000068
ORF1ab/nsp4172D172DgaTgaC11AY.9.20.000037
ORF1ab/nsp4172D172DgaTgaC11AY.930.000273
ORF1ab/nsp4172D172delGAT---11AY.950.000761
ORF1ab/nsp4172D172delGAT---11B0.000128
ORF1ab/nsp4172D172DgaTgaC11B0.000128
ORF1ab/nsp4172D172del1Gat-at11B.10.000009
ORF1ab/nsp4172D172NGatAat11B.10.000009
ORF1ab/nsp4172D172NGatAat11B.1.10.000018
ORF1ab/nsp4172D172VgAtgTt11B.1.10.000018
ORF1ab/nsp4172D172del1Gat-at11B.1.10.000018
ORF1ab/nsp4172D172DgaTgaC11B.1.1.1530.001095
ORF1ab/nsp4172D172YGatTat11B.1.1.1680.026316
ORF1ab/nsp4172D172DgaTgaC11B.1.1.1980.001468
ORF1ab/nsp4172D172DgaTgaC11B.1.1.2550.00303
ORF1ab/nsp4172D172DgaTgaC11B.1.1.280.000311
ORF1ab/nsp4172D172delGAT---11B.1.1.280.000311
ORF1ab/nsp4172D172DgaTgaC11B.1.1.3540.004386
ORF1ab/nsp4172D172DgaTgaC11B.1.1.3680.003086
ORF1ab/nsp4172D172DgaTgaC11B.1.1.3700.012658
ORF1ab/nsp4172D172DgaTgaC11B.1.1.390.00051
ORF1ab/nsp4172D172DgaTgaC11B.1.1.3970.002252
ORF1ab/nsp4172D172DgaTgaC11B.1.1.4340.000349
ORF1ab/nsp4172D172DgaTgaC11B.1.1.5210.005348
ORF1ab/nsp4172D172del2gATg--11B.1.1.70.000001
ORF1ab/nsp4172D172DgaTgaC11B.1.1.980.018519
ORF1ab/nsp4172D172NGatAat11B.1.1130.015625
ORF1ab/nsp4172D172HGatCat11B.1.1470.000756
ORF1ab/nsp4172D172DgaTgaC11B.1.1570.002985
ORF1ab/nsp4172D172VgAtgTt11B.1.177.200.001517
ORF1ab/nsp4172D172delGAT---11B.1.177.40.000211
ORF1ab/nsp4172D172delGAT---11B.1.177.480.003125
ORF1ab/nsp4172D172DgaTgaC11B.1.177.50.001242
ORF1ab/nsp4172D172delGAT---11B.1.177.630.002703
ORF1ab/nsp4172D172delGAT---11B.1.177.870.000728
ORF1ab/nsp4172D172DgaTgaC11B.1.1820.007246
ORF1ab/nsp4172D172HGatCat11B.1.2210.000071
ORF1ab/nsp4172D172delGAT---11B.1.2420.018868
ORF1ab/nsp4172D172DgaTgaC11B.1.2580.000067
ORF1ab/nsp4172D172DgaTgaC11B.1.2640.012346
ORF1ab/nsp4172D172DgaTgaC11B.1.2810.021739
ORF1ab/nsp4172D172DgaTgaC11B.1.3330.010526
ORF1ab/nsp4172D172YGatTat11B.1.351.50.0006
ORF1ab/nsp4172D172DgaTgaC11B.1.360.000146
ORF1ab/nsp4172D172delGAT---11B.1.36.180.00042
ORF1ab/nsp4172D172delGAT---11B.1.36.380.001642
ORF1ab/nsp4172D172GgAtgGt11B.1.4000.000429
ORF1ab/nsp4172D172GgAtgGt11B.1.4150.014286
ORF1ab/nsp4172D172DgaTgaC11B.1.4220.000812
ORF1ab/nsp4172D172DgaTgaC11B.1.5240.001406
ORF1ab/nsp4172D172VgAtgTt11B.1.5250.000113
ORF1ab/nsp4172D172EgaTgaG11B.1.5250.000113
ORF1ab/nsp4172D172HGatCat11B.1.5260.000024
ORF1ab/nsp4172D172DgaTgaC11B.1.5860.010989
ORF1ab/nsp4172D172DgaTgaC11B.1.5950.000261
ORF1ab/nsp4172D172VgAtgTt11B.1.617.20.000004
ORF1ab/nsp4172D172GgAtgGt11B.1.617.20.000004
ORF1ab/nsp4172D172DgaTgaC11B.1.6190.000871
ORF1ab/nsp4172D172delGAT---11B.150.017544
ORF1ab/nsp4172D172DgaTgaC11C.350.000774
ORF1ab/nsp4172D172DgaTgaC11D.20.000075
ORF1ab/nsp4172D172DgaTgaC11P.1.100.000269
ORF1ab/nsp4172D172DgaTgaC11P.1.150.000232
ORF1ab/nsp4172D172DgaTgaC11P.1.70.000319
ORF1ab/nsp4172D172DgaTgaC11R.10.00009

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.