CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 87

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/nsp1287Y87YY4479YsyntaTtaC52735273113699-13701
ORF1ab/nsp1287Y87HY4479HnonsynTatCat1671660.99401213699-13701
ORF1ab/nsp1287Y87HY4479HnonsynTaTCaC16710.0059880213699-13701
ORF1ab/nsp1287Y87CY4479CnonsyntAttGt58560.96551713699-13701
ORF1ab/nsp1287Y87CY4479CnonsyntATtGC5820.034482813699-13701
ORF1ab/nsp1287Y87delY4479deldelTAT---2424113699-13701
ORF1ab/nsp1287Y87NY4479NnonsynTatAat99113699-13701
ORF1ab/nsp1287Y87XY4479XnonsyntaTtaG950.55555613699-13701
ORF1ab/nsp1287Y87XY4479XnonsyntaTtaA940.44444413699-13701
ORF1ab/nsp1287Y87FY4479FnonsyntAttTt44113699-13701
ORF1ab/nsp1287Y87SY4479SnonsyntAttCt430.7513699-13701
ORF1ab/nsp1287Y87SY4479SnonsyntATtCG410.2513699-13701
ORF1ab/nsp1287Y87del1Y4479del1deltaTta-310.33333313699-13701
ORF1ab/nsp1287Y87del1Y4479del1delTat-at310.33333313699-13701
ORF1ab/nsp1287Y87del1Y4479del1delTAt-Gt310.33333313699-13701
ORF1ab/nsp1287Y87del2Y4479del2delTAt--t22113699-13701
ORF1ab/nsp1287Y87VY4479VnonsynTATGTG210.513699-13701
ORF1ab/nsp1287Y87AY4479AnonsynTATGCA210.513699-13701
ORF1ab/nsp1287Y87VY4479VnonsynTATGTC210.513699-13701
ORF1ab/nsp1287Y87DY4479DnonsynTaTGaC210.513699-13701
ORF1ab/nsp1287Y87LY4479LnonsynTATCTG210.513699-13701
ORF1ab/nsp1287Y87LY4479LnonsynTATCTC210.513699-13701
ORF1ab/nsp1287Y87AY4479AnonsynTATGCG210.513699-13701
ORF1ab/nsp1287Y87TY4479TnonsynTATACG210.513699-13701
ORF1ab/nsp1287Y87TY4479TnonsynTATACA210.513699-13701
ORF1ab/nsp1287Y87DY4479DnonsynTatGat210.513699-13701
ORF1ab/nsp1287Y87EY4479EnonsynTaTGaG11113699-13701
ORF1ab/nsp1287Y87QY4479QnonsynTaTCaG11113699-13701

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/nsp1287Y87YtaTtaC52735273All0.001009
ORF1ab/nsp1287Y87YtaTtaC36163616AY.30.035966
ORF1ab/nsp1287Y87YtaTtaC804804AY.600.754221
ORF1ab/nsp1287Y87HTatCat166167All0.000032
ORF1ab/nsp1287Y87HTaTCaC1167All0
ORF1ab/nsp1287Y87YtaTtaC149149AY.40.000232
ORF1ab/nsp1287Y87HTatCat145145B.1.1.70.00013
ORF1ab/nsp1287Y87YtaTtaC143143AY.320.076145
ORF1ab/nsp1287Y87YtaTtaC107107AY.440.000651
ORF1ab/nsp1287Y87YtaTtaC8888B.1.617.20.000331
ORF1ab/nsp1287Y87CtAttGt5658All0.000011
ORF1ab/nsp1287Y87CtATtGC258All0
ORF1ab/nsp1287Y87YtaTtaC3333B.1.1.70.00003
ORF1ab/nsp1287Y87YtaTtaC2929B.1.10.000526
ORF1ab/nsp1287Y87delTAT---2424All0.000005
ORF1ab/nsp1287Y87YtaTtaC2222AY.250.000132
ORF1ab/nsp1287Y87YtaTtaC2020AY.430.000089
ORF1ab/nsp1287Y87YtaTtaC1818AY.1170.001521
ORF1ab/nsp1287Y87CtAttGt1818AY.40.000028
ORF1ab/nsp1287Y87YtaTtaC1717AY.420.000684
ORF1ab/nsp1287Y87YtaTtaC1616AY.1020.000424
ORF1ab/nsp1287Y87YtaTtaC1616AY.46.60.001155
ORF1ab/nsp1287Y87YtaTtaC1515B.1.20.000132
ORF1ab/nsp1287Y87YtaTtaC1212AY.99.20.001106
ORF1ab/nsp1287Y87YtaTtaC1111AY.920.00316
ORF1ab/nsp1287Y87NTatAat99All0.000002
ORF1ab/nsp1287Y87XtaTtaG59All0.000001
ORF1ab/nsp1287Y87XtaTtaA49All0.000001
ORF1ab/nsp1287Y87HTatCat99B.1.177.100.007902
ORF1ab/nsp1287Y87YtaTtaC77AY.470.000218
ORF1ab/nsp1287Y87YtaTtaC77P.1.140.000335
ORF1ab/nsp1287Y87delTAT---660.333333
ORF1ab/nsp1287Y87YtaTtaC66AY.1030.000037
ORF1ab/nsp1287Y87YtaTtaC66AY.390.000148
ORF1ab/nsp1287Y87YtaTtaC66AY.460.000624
ORF1ab/nsp1287Y87YtaTtaC66AY.840.002625
ORF1ab/nsp1287Y87YtaTtaC66B.1.1.3750.071429
ORF1ab/nsp1287Y87YtaTtaC66B.1.177.210.000459
ORF1ab/nsp1287Y87YtaTtaC66B.1.6280.002114
ORF1ab/nsp1287Y87YtaTtaC55AY.230.000349
ORF1ab/nsp1287Y87YtaTtaC55AY.50.000103
ORF1ab/nsp1287Y87CtAttGt55B.1.1.70.000004
ORF1ab/nsp1287Y87YtaTtaC55B.1.2430.000348
ORF1ab/nsp1287Y87FtAttTt44All0.000001
ORF1ab/nsp1287Y87StAttCt34All0.000001
ORF1ab/nsp1287Y87StATtCG14All0
ORF1ab/nsp1287Y87YtaTtaC44AY.1000.000184
ORF1ab/nsp1287Y87YtaTtaC44AY.330.000267
ORF1ab/nsp1287Y87YtaTtaC44B.10.000037
ORF1ab/nsp1287Y87CtAttGt44B.1.1.370.000771
ORF1ab/nsp1287Y87CtAttGt44B.1.2210.000284
ORF1ab/nsp1287Y87CtAttGt44B.1.4360.004115
ORF1ab/nsp1287Y87del1taTta-13All0
ORF1ab/nsp1287Y87del1Tat-at13All0
ORF1ab/nsp1287Y87del1TAt-Gt13All0
ORF1ab/nsp1287Y87YtaTtaC33AY.1190.000106
ORF1ab/nsp1287Y87YtaTtaC33AY.39.10.000119
ORF1ab/nsp1287Y87CtAttGt33B.1.3510.000089
ORF1ab/nsp1287Y87CtATtGC220.111111
ORF1ab/nsp1287Y87del2TAt--t22All0
ORF1ab/nsp1287Y87VTATGTG12All0
ORF1ab/nsp1287Y87DTatGat12All0
ORF1ab/nsp1287Y87TTATACA12All0
ORF1ab/nsp1287Y87TTATACG12All0
ORF1ab/nsp1287Y87ATATGCA12All0
ORF1ab/nsp1287Y87LTATCTC12All0
ORF1ab/nsp1287Y87LTATCTG12All0
ORF1ab/nsp1287Y87DTaTGaC12All0
ORF1ab/nsp1287Y87VTATGTC12All0
ORF1ab/nsp1287Y87ATATGCG12All0
ORF1ab/nsp1287Y87YtaTtaC22AY.10.000791
ORF1ab/nsp1287Y87YtaTtaC22AY.1050.001286
ORF1ab/nsp1287Y87YtaTtaC22AY.1200.000074
ORF1ab/nsp1287Y87YtaTtaC22AY.200.000078
ORF1ab/nsp1287Y87delTAT---22AY.250.000012
ORF1ab/nsp1287Y87YtaTtaC22AY.290.000032
ORF1ab/nsp1287Y87LTATCTG12AY.30.00001
ORF1ab/nsp1287Y87HTaTCaC12AY.30.00001
ORF1ab/nsp1287Y87LTATCTC12AY.30.00001
ORF1ab/nsp1287Y87VTATGTC12AY.30.00001
ORF1ab/nsp1287Y87HTatCat12AY.30.00001
ORF1ab/nsp1287Y87VTATGTG12AY.30.00001
ORF1ab/nsp1287Y87HTatCat22AY.40.000003
ORF1ab/nsp1287Y87YtaTtaC22AY.4.20.000043
ORF1ab/nsp1287Y87YtaTtaC22AY.550.001835
ORF1ab/nsp1287Y87YtaTtaC22AY.670.000929
ORF1ab/nsp1287Y87YtaTtaC22AY.730.001331
ORF1ab/nsp1287Y87YtaTtaC22AY.740.000231
ORF1ab/nsp1287Y87YtaTtaC22AY.75.10.000361
ORF1ab/nsp1287Y87YtaTtaC22AY.880.001768
ORF1ab/nsp1287Y87YtaTtaC22AY.930.000546
ORF1ab/nsp1287Y87YtaTtaC22AY.950.001522
ORF1ab/nsp1287Y87HTatCat22B.10.000018
ORF1ab/nsp1287Y87XtaTtaG12B.10.000009
ORF1ab/nsp1287Y87XtaTtaA12B.10.000009
ORF1ab/nsp1287Y87NTatAat22B.1.1.70.000002
ORF1ab/nsp1287Y87TTATACA12B.1.1.70.000001
ORF1ab/nsp1287Y87ATATGCG12B.1.1.70.000001
ORF1ab/nsp1287Y87TTATACG12B.1.1.70.000001
ORF1ab/nsp1287Y87ATATGCA12B.1.1.70.000001
ORF1ab/nsp1287Y87XtaTtaG22B.1.1600.000062
ORF1ab/nsp1287Y87YtaTtaC22B.1.1640.029851
ORF1ab/nsp1287Y87YtaTtaC22B.1.1770.000026
ORF1ab/nsp1287Y87CtAttGt22B.1.20.000018
ORF1ab/nsp1287Y87YtaTtaC22B.1.5960.000174
ORF1ab/nsp1287Y87FtAttTt22P.10.000032
ORF1ab/nsp1287Y87CtAttGt11A.23.10.000704
ORF1ab/nsp1287Y87ETaTGaG11All0
ORF1ab/nsp1287Y87QTaTCaG11All0
ORF1ab/nsp1287Y87HTatCat11AY.1020.000027
ORF1ab/nsp1287Y87StAttCt11AY.1030.000006
ORF1ab/nsp1287Y87YtaTtaC11AY.1060.000335
ORF1ab/nsp1287Y87delTAT---11AY.1080.001103
ORF1ab/nsp1287Y87YtaTtaC11AY.1100.000113
ORF1ab/nsp1287Y87YtaTtaC11AY.1110.000183
ORF1ab/nsp1287Y87YtaTtaC11AY.1160.000287
ORF1ab/nsp1287Y87StATtCG11AY.1190.000035
ORF1ab/nsp1287Y87delTAT---11AY.1200.000037
ORF1ab/nsp1287Y87del1Tat-at11AY.120.10.000321
ORF1ab/nsp1287Y87YtaTtaC11AY.130.000161
ORF1ab/nsp1287Y87CtAttGt11AY.230.00007
ORF1ab/nsp1287Y87YtaTtaC11AY.270.000065
ORF1ab/nsp1287Y87CtAttGt11AY.30.00001
ORF1ab/nsp1287Y87ETaTGaG11AY.30.00001
ORF1ab/nsp1287Y87DTaTGaC11AY.30.00001
ORF1ab/nsp1287Y87QTaTCaG11AY.30.00001
ORF1ab/nsp1287Y87YtaTtaC11AY.340.000097
ORF1ab/nsp1287Y87YtaTtaC11AY.350.000233
ORF1ab/nsp1287Y87YtaTtaC11AY.370.000316
ORF1ab/nsp1287Y87HTatCat11AY.390.000025
ORF1ab/nsp1287Y87del2TAt--t11AY.39.10.00004
ORF1ab/nsp1287Y87delTAT---11AY.40.000002
ORF1ab/nsp1287Y87del2TAt--t11AY.430.000004
ORF1ab/nsp1287Y87StAttCt11AY.430.000004
ORF1ab/nsp1287Y87CtAttGt11AY.430.000004
ORF1ab/nsp1287Y87HTatCat11AY.440.000006
ORF1ab/nsp1287Y87NTatAat11AY.440.000006
ORF1ab/nsp1287Y87YtaTtaC11AY.450.000122
ORF1ab/nsp1287Y87YtaTtaC11AY.46.10.001027
ORF1ab/nsp1287Y87YtaTtaC11AY.46.40.000165
ORF1ab/nsp1287Y87YtaTtaC11AY.5.30.000337
ORF1ab/nsp1287Y87YtaTtaC11AY.520.000814
ORF1ab/nsp1287Y87YtaTtaC11AY.580.000907
ORF1ab/nsp1287Y87YtaTtaC11AY.610.000105
ORF1ab/nsp1287Y87delTAT---11AY.670.000464
ORF1ab/nsp1287Y87YtaTtaC11AY.70.000196
ORF1ab/nsp1287Y87XtaTtaA11AY.7.20.000559
ORF1ab/nsp1287Y87YtaTtaC11AY.700.000209
ORF1ab/nsp1287Y87YtaTtaC11AY.750.000056
ORF1ab/nsp1287Y87CtAttGt11AY.75.10.00018
ORF1ab/nsp1287Y87YtaTtaC11AY.780.001541
ORF1ab/nsp1287Y87YtaTtaC11AY.98.10.000048
ORF1ab/nsp1287Y87delTAT---11AY.990.001049
ORF1ab/nsp1287Y87YtaTtaC11B0.000128
ORF1ab/nsp1287Y87CtAttGt11B.10.000009
ORF1ab/nsp1287Y87NTatAat11B.10.000009
ORF1ab/nsp1287Y87del1TAt-Gt11B.1.10.000018
ORF1ab/nsp1287Y87CtAttGt11B.1.10.000018
ORF1ab/nsp1287Y87delTAT---11B.1.1.10.000327
ORF1ab/nsp1287Y87delTAT---11B.1.1.1390.022727
ORF1ab/nsp1287Y87del1taTta-11B.1.1.1480.008772
ORF1ab/nsp1287Y87CtAttGt11B.1.1.2220.000204
ORF1ab/nsp1287Y87delTAT---11B.1.1.2360.006897
ORF1ab/nsp1287Y87NTatAat11B.1.1.280.000311
ORF1ab/nsp1287Y87CtAttGt11B.1.1.2840.000107
ORF1ab/nsp1287Y87DTatGat11B.1.1.3180.000302
ORF1ab/nsp1287Y87delTAT---11B.1.1.3480.000796
ORF1ab/nsp1287Y87YtaTtaC11B.1.1.370.000193
ORF1ab/nsp1287Y87YtaTtaC11B.1.1.3720.000689
ORF1ab/nsp1287Y87HTatCat11B.1.1.390.00051
ORF1ab/nsp1287Y87CtAttGt11B.1.1.4200.001006
ORF1ab/nsp1287Y87YtaTtaC11B.1.1.5190.00004
ORF1ab/nsp1287Y87CtAttGt11B.1.1.560.017857
ORF1ab/nsp1287Y87FtAttTt11B.1.1.70.000001
ORF1ab/nsp1287Y87StAttCt11B.1.1.70.000001
ORF1ab/nsp1287Y87XtaTtaA11B.1.1.70.000001
ORF1ab/nsp1287Y87XtaTtaA11B.1.1110.001175
ORF1ab/nsp1287Y87NTatAat11B.1.1390.000733
ORF1ab/nsp1287Y87delTAT---11B.1.1610.017241
ORF1ab/nsp1287Y87XtaTtaG11B.1.1770.000013
ORF1ab/nsp1287Y87delTAT---11B.1.177.570.000281
ORF1ab/nsp1287Y87HTatCat11B.1.20.000009
ORF1ab/nsp1287Y87CtAttGt11B.1.2100.002132
ORF1ab/nsp1287Y87YtaTtaC11B.1.2100.002132
ORF1ab/nsp1287Y87FtAttTt11B.1.2360.002053
ORF1ab/nsp1287Y87YtaTtaC11B.1.2360.002053
ORF1ab/nsp1287Y87YtaTtaC11B.1.2400.000216
ORF1ab/nsp1287Y87YtaTtaC11B.1.360.000146
ORF1ab/nsp1287Y87HTatCat11B.1.3690.000285
ORF1ab/nsp1287Y87delTAT---11B.1.3750.00082
ORF1ab/nsp1287Y87delTAT---11B.1.4150.014286
ORF1ab/nsp1287Y87CtAttGt11B.1.4250.002994
ORF1ab/nsp1287Y87NTatAat11B.1.4620.007246
ORF1ab/nsp1287Y87YtaTtaC11B.1.466.20.000391
ORF1ab/nsp1287Y87NTatAat11B.1.5260.000024
ORF1ab/nsp1287Y87YtaTtaC11B.1.5260.000024
ORF1ab/nsp1287Y87NTatAat11B.1.5610.000397
ORF1ab/nsp1287Y87HTatCat11B.1.5640.000426
ORF1ab/nsp1287Y87CtAttGt11B.1.617.20.000004
ORF1ab/nsp1287Y87delTAT---11B.1.617.20.000004
ORF1ab/nsp1287Y87delTAT---11B.1.6300.005236
ORF1ab/nsp1287Y87YtaTtaC11B.290.003509
ORF1ab/nsp1287Y87delTAT---11C.170.055556
ORF1ab/nsp1287Y87YtaTtaC11D.20.000075
ORF1ab/nsp1287Y87CtAttGt11D.20.000075
ORF1ab/nsp1287Y87CtAttGt11P.10.000016
ORF1ab/nsp1287Y87YtaTtaC11P.1.170.000162
ORF1ab/nsp1287Y87XtaTtaG11Q.70.001111

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.