CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : CodonNum = 308

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/nsp4308F308YF3071YnonsyntTttAt5476547619476-9478
ORF1ab/nsp4308F308delF3071deldelTTT---24224219476-9478
ORF1ab/nsp4308F308LF3071LnonsynTttCtt76550.7236849476-9478
ORF1ab/nsp4308F308LF3071LnonsynttTttG76130.1710539476-9478
ORF1ab/nsp4308F308LF3071LnonsynttTttA7670.09210539476-9478
ORF1ab/nsp4308F308LF3071LnonsynTtTCtC7610.01315799476-9478
ORF1ab/nsp4308F308FF3071FsynttTttC444419476-9478
ORF1ab/nsp4308F308TF3071TnonsynTTtACt151519476-9478
ORF1ab/nsp4308F308VF3071VnonsynTttGtt141419476-9478
ORF1ab/nsp4308F308IF3071InonsynTttAtt13120.9230779476-9478
ORF1ab/nsp4308F308IF3071InonsynTtTAtA1310.07692319476-9478
ORF1ab/nsp4308F308SF3071SnonsyntTttCt111119476-9478
ORF1ab/nsp4308F308del1F3071del1delTtt-tt1090.99476-9478
ORF1ab/nsp4308F308del1F3071del1delttTtt-1010.19476-9478
ORF1ab/nsp4308F308CF3071CnonsyntTttGt8819476-9478
ORF1ab/nsp4308F308del2F3071del2deltTTt--530.69476-9478
ORF1ab/nsp4308F308del2F3071del2delTTt--t520.49476-9478
ORF1ab/nsp4308F308GF3071GnonsynTTtGGt2219476-9478
ORF1ab/nsp4308F308PF3071PnonsynTTtCCt1119476-9478
ORF1ab/nsp4308F308NF3071NnonsynTTtAAt1119476-9478

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/nsp4308F308YtTttAt54765476All0.001047
ORF1ab/nsp4308F308YtTttAt19341934A.2.50.96507
ORF1ab/nsp4308F308YtTttAt14751475A.20.976175
ORF1ab/nsp4308F308YtTttAt623623A.2.5.20.97956
ORF1ab/nsp4308F308YtTttAt586586A.2.20.989865
ORF1ab/nsp4308F308YtTttAt295295A.2.40.993266
ORF1ab/nsp4308F308delTTT---242242All0.000046
ORF1ab/nsp4308F308YtTttAt207207A.2.5.10.995192
ORF1ab/nsp4308F308YtTttAt205205A.2.30.971564
ORF1ab/nsp4308F308delTTT---132132B.1.1.70.000118
ORF1ab/nsp4308F308YtTttAt9090A.2.5.30.927835
ORF1ab/nsp4308F308LTttCtt5576All0.000011
ORF1ab/nsp4308F308LttTttG1376All0.000002
ORF1ab/nsp4308F308LttTttA776All0.000001
ORF1ab/nsp4308F308LTtTCtC176All0
ORF1ab/nsp4308F308FttTttC4444All0.000008
ORF1ab/nsp4308F308delTTT---2323B.1.1770.000303
ORF1ab/nsp4308F308FttTttC1919B.1.1.70.000017
ORF1ab/nsp4308F308delTTT---1818AY.40.000028
ORF1ab/nsp4308F308TTTtACt1515All0.000003
ORF1ab/nsp4308F308VTttGtt1414All0.000003
ORF1ab/nsp4308F308YtTttAt1414B0.001789
ORF1ab/nsp4308F308ITttAtt1213All0.000002
ORF1ab/nsp4308F308ITtTAtA113All0
ORF1ab/nsp4308F308LTttCtt1313B.1.1.70.000012
ORF1ab/nsp4308F308StTttCt1111All0.000002
ORF1ab/nsp4308F308del1Ttt-tt910All0.000002
ORF1ab/nsp4308F308del1ttTtt-110All0
ORF1ab/nsp4308F308CtTttGt88All0.000002
ORF1ab/nsp4308F308LTttCtt66AY.250.000036
ORF1ab/nsp4308F308delTTT---66AY.4.50.000645
ORF1ab/nsp4308F308YtTttAt66B.10.000055
ORF1ab/nsp4308F308YtTttAt55A0.001935
ORF1ab/nsp4308F308del2tTTt--35All0.000001
ORF1ab/nsp4308F308del2TTt--t25All0
ORF1ab/nsp4308F308FttTttC55AY.250.00003
ORF1ab/nsp4308F308LTttCtt45B.10.000037
ORF1ab/nsp4308F308LttTttG15B.10.000009
ORF1ab/nsp4308F308YtTttAt55B.1.10.000091
ORF1ab/nsp4308F308YtTttAt44AY.250.000024
ORF1ab/nsp4308F308delTTT---44AY.430.000018
ORF1ab/nsp4308F308del1Ttt-tt34B.1.1.70.000003
ORF1ab/nsp4308F308del1ttTtt-14B.1.1.70.000001
ORF1ab/nsp4308F308delTTT---44B.1.617.20.000015
ORF1ab/nsp4308F308FttTttC33AY.1030.000019
ORF1ab/nsp4308F308LttTttA33AY.700.000626
ORF1ab/nsp4308F308FttTttC33AY.740.000347
ORF1ab/nsp4308F308LTttCtt23B.1.10.000036
ORF1ab/nsp4308F308LttTttA13B.1.10.000018
ORF1ab/nsp4308F308LTttCtt33B.1.1.330.001263
ORF1ab/nsp4308F308TTTtACt33B.1.1.70.000003
ORF1ab/nsp4308F308del2TTt--t23B.1.1.70.000002
ORF1ab/nsp4308F308del2tTTt--13B.1.1.70.000001
ORF1ab/nsp4308F308LTttCtt33B.1.1600.000094
ORF1ab/nsp4308F308delTTT---33B.1.177.40.000633
ORF1ab/nsp4308F308LTttCtt33B.1.177.440.001557
ORF1ab/nsp4308F308delTTT---33B.1.177.870.002183
ORF1ab/nsp4308F308YtTttAt33B.1.2390.003663
ORF1ab/nsp4308F308LTttCtt23B.1.3510.000059
ORF1ab/nsp4308F308LttTttG13B.1.3510.00003
ORF1ab/nsp4308F308TTTtACt33B.1.5250.000339
ORF1ab/nsp4308F308ITttAtt23B.1.617.20.000008
ORF1ab/nsp4308F308LttTttG23B.1.617.20.000008
ORF1ab/nsp4308F308LTttCtt13B.1.617.20.000004
ORF1ab/nsp4308F308ITtTAtA13B.1.617.20.000004
ORF1ab/nsp4308F308GTTtGGt22All0
ORF1ab/nsp4308F308CtTttGt22AY.1000.000092
ORF1ab/nsp4308F308delTTT---22AY.1110.000366
ORF1ab/nsp4308F308delTTT---22AY.1200.000074
ORF1ab/nsp4308F308delTTT---22AY.190.002281
ORF1ab/nsp4308F308FttTttC22AY.30.00002
ORF1ab/nsp4308F308TTTtACt22AY.430.000009
ORF1ab/nsp4308F308ITttAtt22AY.430.000009
ORF1ab/nsp4308F308StTttCt22AY.430.000009
ORF1ab/nsp4308F308FttTttC22AY.440.000012
ORF1ab/nsp4308F308LttTttG22AY.440.000012
ORF1ab/nsp4308F308delTTT---22AY.46.20.001271
ORF1ab/nsp4308F308YtTttAt22AY.7.10.000225
ORF1ab/nsp4308F308TTTtACt22AY.840.000875
ORF1ab/nsp4308F308delTTT---22AY.90.000135
ORF1ab/nsp4308F308del1Ttt-tt22B.10.000018
ORF1ab/nsp4308F308VTttGtt22B.10.000018
ORF1ab/nsp4308F308VTttGtt22B.1.10.000036
ORF1ab/nsp4308F308delTTT---22B.1.1.3110.000716
ORF1ab/nsp4308F308delTTT---22B.1.1.3120.003824
ORF1ab/nsp4308F308LttTttG22B.1.1.630.000772
ORF1ab/nsp4308F308StTttCt22B.1.1.70.000002
ORF1ab/nsp4308F308YtTttAt22B.1.1570.00597
ORF1ab/nsp4308F308LTttCtt22B.1.1770.000026
ORF1ab/nsp4308F308delTTT---22B.1.177.160.001329
ORF1ab/nsp4308F308delTTT---22B.1.177.180.00232
ORF1ab/nsp4308F308delTTT---22B.1.20.000018
ORF1ab/nsp4308F308FttTttC22B.1.20.000018
ORF1ab/nsp4308F308LTttCtt22B.1.20.000018
ORF1ab/nsp4308F308LTttCtt12B.1.258.170.000104
ORF1ab/nsp4308F308LttTttA12B.1.258.170.000104
ORF1ab/nsp4308F308StTttCt22B.1.617.20.000008
ORF1ab/nsp4308F308YtTttAt110.055556
ORF1ab/nsp4308F308YtTttAt11A.30.002096
ORF1ab/nsp4308F308delTTT---11AD.20.000219
ORF1ab/nsp4308F308NTTtAAt11All0
ORF1ab/nsp4308F308PTTtCCt11All0
ORF1ab/nsp4308F308CtTttGt11AY.10.000396
ORF1ab/nsp4308F308ITttAtt11AY.1020.000027
ORF1ab/nsp4308F308YtTttAt11AY.1030.000006
ORF1ab/nsp4308F308VTttGtt11AY.1110.000183
ORF1ab/nsp4308F308VTttGtt11AY.1200.000037
ORF1ab/nsp4308F308LTttCtt11AY.160.00038
ORF1ab/nsp4308F308LTttCtt11AY.230.00007
ORF1ab/nsp4308F308TTTtACt11AY.230.00007
ORF1ab/nsp4308F308del1Ttt-tt11AY.250.000006
ORF1ab/nsp4308F308del2tTTt--11AY.260.000028
ORF1ab/nsp4308F308FttTttC11AY.270.000065
ORF1ab/nsp4308F308ITttAtt11AY.330.000067
ORF1ab/nsp4308F308StTttCt11AY.330.000067
ORF1ab/nsp4308F308TTTtACt11AY.330.000067
ORF1ab/nsp4308F308TTTtACt11AY.340.000097
ORF1ab/nsp4308F308LTttCtt11AY.340.000097
ORF1ab/nsp4308F308ITttAtt11AY.340.000097
ORF1ab/nsp4308F308StTttCt11AY.340.000097
ORF1ab/nsp4308F308StTttCt11AY.40.000002
ORF1ab/nsp4308F308VTttGtt11AY.40.000002
ORF1ab/nsp4308F308LTttCtt11AY.40.000002
ORF1ab/nsp4308F308TTTtACt11AY.420.00004
ORF1ab/nsp4308F308VTttGtt11AY.430.000004
ORF1ab/nsp4308F308LttTttG11AY.430.000004
ORF1ab/nsp4308F308del2tTTt--11AY.440.000006
ORF1ab/nsp4308F308YtTttAt11AY.440.000006
ORF1ab/nsp4308F308YtTttAt11AY.46.20.000635
ORF1ab/nsp4308F308FttTttC11AY.470.000031
ORF1ab/nsp4308F308delTTT---11AY.520.000814
ORF1ab/nsp4308F308delTTT---11AY.60.000041
ORF1ab/nsp4308F308FttTttC11AY.60.000041
ORF1ab/nsp4308F308delTTT---11AY.600.000938
ORF1ab/nsp4308F308delTTT---11AY.720.001361
ORF1ab/nsp4308F308delTTT---11AY.99.10.001553
ORF1ab/nsp4308F308VTttGtt11B0.000128
ORF1ab/nsp4308F308TTTtACt11B0.000128
ORF1ab/nsp4308F308ITttAtt11B.10.000009
ORF1ab/nsp4308F308GTTtGGt11B.10.000009
ORF1ab/nsp4308F308CtTttGt11B.10.000009
ORF1ab/nsp4308F308NTTtAAt11B.10.000009
ORF1ab/nsp4308F308delTTT---11B.1.10.000018
ORF1ab/nsp4308F308CtTttGt11B.1.10.000018
ORF1ab/nsp4308F308ITttAtt11B.1.10.000018
ORF1ab/nsp4308F308VTttGtt11B.1.1.1640.005155
ORF1ab/nsp4308F308YtTttAt11B.1.1.1760.000439
ORF1ab/nsp4308F308FttTttC11B.1.1.1980.001468
ORF1ab/nsp4308F308LttTttG11B.1.1.2630.001558
ORF1ab/nsp4308F308YtTttAt11B.1.1.2650.003155
ORF1ab/nsp4308F308StTttCt11B.1.1.280.000311
ORF1ab/nsp4308F308YtTttAt11B.1.1.3180.000302
ORF1ab/nsp4308F308delTTT---11B.1.1.3610.045455
ORF1ab/nsp4308F308delTTT---11B.1.1.370.000193
ORF1ab/nsp4308F308LttTttG11B.1.1.3720.000689
ORF1ab/nsp4308F308delTTT---11B.1.1.390.00051
ORF1ab/nsp4308F308YtTttAt11B.1.1.70.000001
ORF1ab/nsp4308F308VTttGtt11B.1.1.70.000001
ORF1ab/nsp4308F308ITttAtt11B.1.1.70.000001
ORF1ab/nsp4308F308delTTT---11B.1.1.700.000341
ORF1ab/nsp4308F308YtTttAt11B.1.1390.000733
ORF1ab/nsp4308F308delTTT---11B.1.160.230.004831
ORF1ab/nsp4308F308delTTT---11B.1.160.70.002079
ORF1ab/nsp4308F308YtTttAt11B.1.1770.000013
ORF1ab/nsp4308F308delTTT---11B.1.177.100.000878
ORF1ab/nsp4308F308delTTT---11B.1.177.110.001698
ORF1ab/nsp4308F308delTTT---11B.1.177.150.000631
ORF1ab/nsp4308F308delTTT---11B.1.177.190.001431
ORF1ab/nsp4308F308delTTT---11B.1.177.20.004545
ORF1ab/nsp4308F308LTttCtt11B.1.177.310.011494
ORF1ab/nsp4308F308CtTttGt11B.1.177.40.000211
ORF1ab/nsp4308F308delTTT---11B.1.177.540.000606
ORF1ab/nsp4308F308delTTT---11B.1.177.580.001332
ORF1ab/nsp4308F308delTTT---11B.1.177.60.000977
ORF1ab/nsp4308F308delTTT---11B.1.177.690.001484
ORF1ab/nsp4308F308LTttCtt11B.1.177.730.000566
ORF1ab/nsp4308F308VTttGtt11B.1.177.810.000189
ORF1ab/nsp4308F308delTTT---11B.1.177.90.001332
ORF1ab/nsp4308F308YtTttAt11B.1.20.000009
ORF1ab/nsp4308F308FttTttC11B.1.2210.000071
ORF1ab/nsp4308F308YtTttAt11B.1.2340.000132
ORF1ab/nsp4308F308LTttCtt11B.1.2430.00007
ORF1ab/nsp4308F308LTttCtt11B.1.2580.000067
ORF1ab/nsp4308F308ITttAtt11B.1.3510.00003
ORF1ab/nsp4308F308delTTT---11B.1.360.000146
ORF1ab/nsp4308F308YtTttAt11B.1.36.100.004785
ORF1ab/nsp4308F308VTttGtt11B.1.36.170.000494
ORF1ab/nsp4308F308delTTT---11B.1.36.180.00042
ORF1ab/nsp4308F308CtTttGt11B.1.3620.001541
ORF1ab/nsp4308F308LTttCtt11B.1.4290.000024
ORF1ab/nsp4308F308ITttAtt11B.1.5250.000113
ORF1ab/nsp4308F308StTttCt11B.1.5250.000113
ORF1ab/nsp4308F308FttTttC11B.1.5260.000024
ORF1ab/nsp4308F308YtTttAt11B.1.5770.000687
ORF1ab/nsp4308F308LttTttG11B.1.5960.000087
ORF1ab/nsp4308F308del1Ttt-tt11B.1.5960.000087
ORF1ab/nsp4308F308YtTttAt11B.1.5960.000087
ORF1ab/nsp4308F308LTttCtt11B.1.6060.006024
ORF1ab/nsp4308F308GTTtGGt11B.1.617.20.000004
ORF1ab/nsp4308F308FttTttC11B.1.617.20.000004
ORF1ab/nsp4308F308CtTttGt11B.1.617.20.000004
ORF1ab/nsp4308F308del1Ttt-tt11B.1.617.20.000004
ORF1ab/nsp4308F308PTTtCCt11B.1.617.20.000004
ORF1ab/nsp4308F308LttTttA11B.1.6200.000946
ORF1ab/nsp4308F308LTttCtt11B.1.6210.000089
ORF1ab/nsp4308F308YtTttAt11B.1.6230.000536
ORF1ab/nsp4308F308delTTT---11B.150.017544
ORF1ab/nsp4308F308YtTttAt11B.400.000364
ORF1ab/nsp4308F308LttTttA11B.550.00295
ORF1ab/nsp4308F308YtTttAt11B.60.00091
ORF1ab/nsp4308F308LTtTCtC11C.350.000774
ORF1ab/nsp4308F308YtTttAt11C.370.000116
ORF1ab/nsp4308F308del1Ttt-tt11D.20.000075
ORF1ab/nsp4308F308LTttCtt11D.20.000075
ORF1ab/nsp4308F308delTTT---11P.10.000016
ORF1ab/nsp4308F308VTttGtt11P.10.000016
ORF1ab/nsp4308F308delTTT---11P.1.100.000269
ORF1ab/nsp4308F308LTttCtt11P.1.140.000048
ORF1ab/nsp4308F308LttTttG11P.30.001595
ORF1ab/nsp4308F308delTTT---11Q.10.000126
ORF1ab/nsp4308F308FttTttC11Q.30.000145

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.