CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1115

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/nsp31115D1115GD1933GnonsyngAtgGt5155130.9961176062-6064
ORF1ab/nsp31115D1115GD1933GnonsyngATgGC51510.001941756062-6064
ORF1ab/nsp31115D1115GD1933GnonsyngATgGG51510.001941756062-6064
ORF1ab/nsp31115D1115ND1933NnonsynGatAat3673630.9891016062-6064
ORF1ab/nsp31115D1115ND1933NnonsynGaTAaC36740.01089926062-6064
ORF1ab/nsp31115D1115DD1933DsyngaTgaC18618616062-6064
ORF1ab/nsp31115D1115AD1933AnonsyngAtgCt17717716062-6064
ORF1ab/nsp31115D1115delD1933deldelGAT---737316062-6064
ORF1ab/nsp31115D1115YD1933YnonsynGatTat32300.93756062-6064
ORF1ab/nsp31115D1115YD1933YnonsynGaTTaC3220.06256062-6064
ORF1ab/nsp31115D1115VD1933VnonsyngAtgTt27250.9259266062-6064
ORF1ab/nsp31115D1115VD1933VnonsyngATgTG2720.07407416062-6064
ORF1ab/nsp31115D1115ED1933EnonsyngaTgaA13110.8461546062-6064
ORF1ab/nsp31115D1115ED1933EnonsyngaTgaG1320.1538466062-6064
ORF1ab/nsp31115D1115HD1933HnonsynGatCat9916062-6064
ORF1ab/nsp31115D1115del1D1933del1delgaTga-750.7142866062-6064
ORF1ab/nsp31115D1115del1D1933del1delGat-at720.2857146062-6064
ORF1ab/nsp31115D1115del2D1933del2delgATg--430.756062-6064
ORF1ab/nsp31115D1115del2D1933del2delGAT--N410.256062-6064
ORF1ab/nsp31115D1115XD1933XnonsynGaTTaA1116062-6064
ORF1ab/nsp31115D1115ID1933InonsynGAtATt1116062-6064
ORF1ab/nsp31115D1115TD1933TnonsynGAtACt1116062-6064

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/nsp31115D1115GgAtgGt513515All0.000098
ORF1ab/nsp31115D1115GgATgGG1515All0
ORF1ab/nsp31115D1115GgATgGC1515All0
ORF1ab/nsp31115D1115NGatAat363367All0.000069
ORF1ab/nsp31115D1115NGaTAaC4367All0.000001
ORF1ab/nsp31115D1115NGatAat299299AY.30.002974
ORF1ab/nsp31115D1115DgaTgaC186186All0.000036
ORF1ab/nsp31115D1115AgAtgCt177177All0.000034
ORF1ab/nsp31115D1115AgAtgCt105105B.1.177.270.990566
ORF1ab/nsp31115D1115GgAtgGt103103B.1.1.70.000092
ORF1ab/nsp31115D1115delGAT---7373All0.000014
ORF1ab/nsp31115D1115DgaTgaC5959B.1.1.70.000053
ORF1ab/nsp31115D1115GgAtgGt4646AY.440.00028
ORF1ab/nsp31115D1115GgAtgGt4040AY.40.000062
ORF1ab/nsp31115D1115YGatTat3032All0.000006
ORF1ab/nsp31115D1115YGaTTaC232All0
ORF1ab/nsp31115D1115GgAtgGt3030B.1.20.000264
ORF1ab/nsp31115D1115GgAtgGt2929AY.1030.00018
ORF1ab/nsp31115D1115VgAtgTt2527All0.000005
ORF1ab/nsp31115D1115VgATgTG227All0
ORF1ab/nsp31115D1115GgAtgGt2525AY.250.00015
ORF1ab/nsp31115D1115delGAT---2424B.1.1.70.000021
ORF1ab/nsp31115D1115GgAtgGt2424B.1.5320.149068
ORF1ab/nsp31115D1115GgAtgGt2323B.1.177.120.003489
ORF1ab/nsp31115D1115AgAtgCt2020B.1.1770.000263
ORF1ab/nsp31115D1115GgAtgGt1919AY.260.000538
ORF1ab/nsp31115D1115DgaTgaC1818B.1.3510.000535
ORF1ab/nsp31115D1115NGatAat1616AY.250.000096
ORF1ab/nsp31115D1115GgAtgGt1616B.1.617.20.00006
ORF1ab/nsp31115D1115VgAtgTt1616B.1.617.20.00006
ORF1ab/nsp31115D1115AgAtgCt1515B.1.1.70.000013
ORF1ab/nsp31115D1115DgaTgaC1414AY.46.40.002303
ORF1ab/nsp31115D1115GgAtgGt1414B.10.000128
ORF1ab/nsp31115D1115EgaTgaA1113All0.000002
ORF1ab/nsp31115D1115EgaTgaG213All0
ORF1ab/nsp31115D1115DgaTgaC1111AY.40.000017
ORF1ab/nsp31115D1115NGatAat1010B.1.1.70.000009
ORF1ab/nsp31115D1115AgAtgCt1010B.1.5260.000235
ORF1ab/nsp31115D1115HGatCat99All0.000002
ORF1ab/nsp31115D1115GgAtgGt99AY.620.003922
ORF1ab/nsp31115D1115GgAtgGt99B.1.1770.000119
ORF1ab/nsp31115D1115GgAtgGt99B.1.2140.032967
ORF1ab/nsp31115D1115DgaTgaC99P.10.000142
ORF1ab/nsp31115D1115del1gaTga-57All0.000001
ORF1ab/nsp31115D1115del1Gat-at27All0
ORF1ab/nsp31115D1115GgAtgGt77AY.30.00007
ORF1ab/nsp31115D1115AgAtgCt66AY.40.000009
ORF1ab/nsp31115D1115GgAtgGt66AY.430.000027
ORF1ab/nsp31115D1115GgAtgGt66B.1.1570.01791
ORF1ab/nsp31115D1115DgaTgaC66B.1.3490.004289
ORF1ab/nsp31115D1115GgAtgGt66B.1.3510.000178
ORF1ab/nsp31115D1115DgaTgaC55A.23.10.003521
ORF1ab/nsp31115D1115DgaTgaC55AY.1000.00023
ORF1ab/nsp31115D1115GgAtgGt55AY.1020.000133
ORF1ab/nsp31115D1115DgaTgaC55AY.440.00003
ORF1ab/nsp31115D1115NGatAat55AY.50.000103
ORF1ab/nsp31115D1115DgaTgaC55B.10.000046
ORF1ab/nsp31115D1115GgAtgGt55B.1.1.250.002843
ORF1ab/nsp31115D1115GgAtgGt55B.1.360.00073
ORF1ab/nsp31115D1115NGaTAaC440.222222
ORF1ab/nsp31115D1115GgAtgGt44A0.001548
ORF1ab/nsp31115D1115del2gATg--34All0.000001
ORF1ab/nsp31115D1115del2GAT--N14All0
ORF1ab/nsp31115D1115DgaTgaC44AY.430.000018
ORF1ab/nsp31115D1115delGAT---44B.1.617.20.000015
ORF1ab/nsp31115D1115NGatAat44B.1.617.20.000015
ORF1ab/nsp31115D1115DgaTgaC33AY.1030.000019
ORF1ab/nsp31115D1115NGatAat33AY.1030.000019
ORF1ab/nsp31115D1115NGatAat33AY.1190.000106
ORF1ab/nsp31115D1115delGAT---33AY.250.000018
ORF1ab/nsp31115D1115GgAtgGt33AY.290.000047
ORF1ab/nsp31115D1115delGAT---33AY.430.000013
ORF1ab/nsp31115D1115YGatTat33AY.440.000018
ORF1ab/nsp31115D1115GgAtgGt33AY.830.005172
ORF1ab/nsp31115D1115VgAtgTt33AY.980.000237
ORF1ab/nsp31115D1115GgAtgGt33B0.000383
ORF1ab/nsp31115D1115delGAT---33B.10.000027
ORF1ab/nsp31115D1115NGatAat33B.1.10.000054
ORF1ab/nsp31115D1115delGAT---33B.1.10.000054
ORF1ab/nsp31115D1115YGatTat33B.1.1.70.000003
ORF1ab/nsp31115D1115DgaTgaC33B.1.20.000026
ORF1ab/nsp31115D1115AgAtgCt33B.1.20.000026
ORF1ab/nsp31115D1115AgAtgCt33B.1.4290.000071
ORF1ab/nsp31115D1115GgAtgGt33B.1.4290.000071
ORF1ab/nsp31115D1115NGatAat33B.1.4290.000071
ORF1ab/nsp31115D1115GgAtgGt33B.1.617.10.000387
ORF1ab/nsp31115D1115YGatTat33B.1.617.20.000011
ORF1ab/nsp31115D1115DgaTgaC33B.1.617.20.000011
ORF1ab/nsp31115D1115GgAtgGt33P.1.70.000958
ORF1ab/nsp31115D1115DgaTgaC33Q.30.000435
ORF1ab/nsp31115D1115HGatCat220.111111
ORF1ab/nsp31115D1115YGaTTaC220.111111
ORF1ab/nsp31115D1115VgAtgTt12AY.1130.000142
ORF1ab/nsp31115D1115GgAtgGt12AY.1130.000142
ORF1ab/nsp31115D1115GgATgGG12AY.1130.000142
ORF1ab/nsp31115D1115VgATgTG12AY.1130.000142
ORF1ab/nsp31115D1115GgAtgGt22AY.116.10.000623
ORF1ab/nsp31115D1115DgaTgaC22AY.1170.000169
ORF1ab/nsp31115D1115YGatTat22AY.30.00002
ORF1ab/nsp31115D1115VgATgTG12AY.30.00001
ORF1ab/nsp31115D1115VgAtgTt12AY.30.00001
ORF1ab/nsp31115D1115GgAtgGt22AY.360.000296
ORF1ab/nsp31115D1115NGatAat22AY.40.000003
ORF1ab/nsp31115D1115YGatTat22AY.40.000003
ORF1ab/nsp31115D1115delGAT---22AY.4.50.000215
ORF1ab/nsp31115D1115AgAtgCt22AY.440.000012
ORF1ab/nsp31115D1115DgaTgaC22AY.450.000243
ORF1ab/nsp31115D1115del1gaTga-22AY.530.000575
ORF1ab/nsp31115D1115AgAtgCt22AY.99.20.000184
ORF1ab/nsp31115D1115YGatTat22B.10.000018
ORF1ab/nsp31115D1115GgAtgGt22B.1.10.000036
ORF1ab/nsp31115D1115AgAtgCt22B.1.10.000036
ORF1ab/nsp31115D1115YGatTat22B.1.10.000036
ORF1ab/nsp31115D1115GgAtgGt22B.1.1.3260.003521
ORF1ab/nsp31115D1115del2gATg--12B.1.1.70.000001
ORF1ab/nsp31115D1115del2GAT--N12B.1.1.70.000001
ORF1ab/nsp31115D1115GgAtgGt22B.1.1600.000062
ORF1ab/nsp31115D1115NGatAat22B.1.1770.000026
ORF1ab/nsp31115D1115delGAT---22B.1.2580.000133
ORF1ab/nsp31115D1115GgAtgGt12B.1.2580.000067
ORF1ab/nsp31115D1115GgATgGC12B.1.2580.000067
ORF1ab/nsp31115D1115delGAT---22B.1.3510.000059
ORF1ab/nsp31115D1115NGatAat22B.1.4270.000101
ORF1ab/nsp31115D1115GgAtgGt22B.1.5370.04
ORF1ab/nsp31115D1115AgAtgCt22B.1.617.20.000008
ORF1ab/nsp31115D1115delGAT---22C.370.000232
ORF1ab/nsp31115D1115delGAT---22P.10.000032
ORF1ab/nsp31115D1115GgAtgGt22P.10.000032
ORF1ab/nsp31115D1115HGatCat22P.1.10.000635
ORF1ab/nsp31115D1115GgAtgGt22P.1.140.000096
ORF1ab/nsp31115D1115GgAtgGt22Q.10.000253
ORF1ab/nsp31115D1115EgaTgaA110.055556
ORF1ab/nsp31115D1115DgaTgaC110.055556
ORF1ab/nsp31115D1115DgaTgaC11A0.000387
ORF1ab/nsp31115D1115GgAtgGt11A.20.000662
ORF1ab/nsp31115D1115DgaTgaC11A.2.40.003367
ORF1ab/nsp31115D1115DgaTgaC11A.50.001923
ORF1ab/nsp31115D1115TGAtACt11All0
ORF1ab/nsp31115D1115IGAtATt11All0
ORF1ab/nsp31115D1115XGaTTaA11All0
ORF1ab/nsp31115D1115GgAtgGt11AY.1000.000046
ORF1ab/nsp31115D1115DgaTgaC11AY.1020.000027
ORF1ab/nsp31115D1115NGatAat11AY.1020.000027
ORF1ab/nsp31115D1115delGAT---11AY.1030.000006
ORF1ab/nsp31115D1115DgaTgaC11AY.1090.00074
ORF1ab/nsp31115D1115EgaTgaG11AY.1130.000142
ORF1ab/nsp31115D1115AgAtgCt11AY.116.10.000311
ORF1ab/nsp31115D1115GgAtgGt11AY.1170.000085
ORF1ab/nsp31115D1115GgAtgGt11AY.1210.000135
ORF1ab/nsp31115D1115GgAtgGt11AY.200.000039
ORF1ab/nsp31115D1115DgaTgaC11AY.23.10.000417
ORF1ab/nsp31115D1115EgaTgaA11AY.240.000431
ORF1ab/nsp31115D1115YGatTat11AY.250.000006
ORF1ab/nsp31115D1115NGatAat11AY.290.000016
ORF1ab/nsp31115D1115DgaTgaC11AY.290.000016
ORF1ab/nsp31115D1115AgAtgCt11AY.29.10.000221
ORF1ab/nsp31115D1115DgaTgaC11AY.30.00001
ORF1ab/nsp31115D1115GgAtgGt11AY.3.10.000085
ORF1ab/nsp31115D1115NGatAat11AY.320.000532
ORF1ab/nsp31115D1115DgaTgaC11AY.330.000067
ORF1ab/nsp31115D1115EgaTgaA11AY.390.000025
ORF1ab/nsp31115D1115DgaTgaC11AY.390.000025
ORF1ab/nsp31115D1115VgAtgTt11AY.40.000002
ORF1ab/nsp31115D1115delGAT---11AY.40.000002
ORF1ab/nsp31115D1115HGatCat11AY.40.000002
ORF1ab/nsp31115D1115del2gATg--11AY.40.000002
ORF1ab/nsp31115D1115GgAtgGt11AY.4.20.000022
ORF1ab/nsp31115D1115GgAtgGt11AY.410.000294
ORF1ab/nsp31115D1115NGatAat11AY.420.00004
ORF1ab/nsp31115D1115AgAtgCt11AY.430.000004
ORF1ab/nsp31115D1115YGatTat11AY.430.000004
ORF1ab/nsp31115D1115VgAtgTt11AY.430.000004
ORF1ab/nsp31115D1115NGatAat11AY.440.000006
ORF1ab/nsp31115D1115IGAtATt11AY.440.000006
ORF1ab/nsp31115D1115TGAtACt11AY.440.000006
ORF1ab/nsp31115D1115EgaTgaA11AY.440.000006
ORF1ab/nsp31115D1115delGAT---11AY.440.000006
ORF1ab/nsp31115D1115YGatTat11AY.450.000122
ORF1ab/nsp31115D1115DgaTgaC11AY.460.000104
ORF1ab/nsp31115D1115DgaTgaC11AY.46.60.000072
ORF1ab/nsp31115D1115NGatAat11AY.470.000031
ORF1ab/nsp31115D1115YGatTat11AY.50.000021
ORF1ab/nsp31115D1115delGAT---11AY.520.000814
ORF1ab/nsp31115D1115GgAtgGt11AY.530.000288
ORF1ab/nsp31115D1115delGAT---11AY.540.000095
ORF1ab/nsp31115D1115delGAT---11AY.610.000105
ORF1ab/nsp31115D1115delGAT---11AY.660.00107
ORF1ab/nsp31115D1115EgaTgaA11AY.670.000464
ORF1ab/nsp31115D1115GgAtgGt11AY.680.000274
ORF1ab/nsp31115D1115EgaTgaA11AY.690.000187
ORF1ab/nsp31115D1115YGatTat11AY.70.000196
ORF1ab/nsp31115D1115delGAT---11AY.710.000475
ORF1ab/nsp31115D1115delGAT---11AY.720.001361
ORF1ab/nsp31115D1115DgaTgaC11AY.740.000116
ORF1ab/nsp31115D1115delGAT---11AY.840.000437
ORF1ab/nsp31115D1115NGatAat11AY.840.000437
ORF1ab/nsp31115D1115delGAT---11AY.850.000427
ORF1ab/nsp31115D1115GgAtgGt11AY.860.00083
ORF1ab/nsp31115D1115DgaTgaC11AY.870.000833
ORF1ab/nsp31115D1115delGAT---11AY.9.20.000037
ORF1ab/nsp31115D1115DgaTgaC11AY.9.20.000037
ORF1ab/nsp31115D1115del1gaTga-11AY.9.20.000037
ORF1ab/nsp31115D1115NGatAat11AY.930.000273
ORF1ab/nsp31115D1115delGAT---11AY.990.001049
ORF1ab/nsp31115D1115VgAtgTt11B.10.000009
ORF1ab/nsp31115D1115AgAtgCt11B.10.000009
ORF1ab/nsp31115D1115EgaTgaA11B.10.000009
ORF1ab/nsp31115D1115NGatAat11B.10.000009
ORF1ab/nsp31115D1115EgaTgaA11B.1.10.000018
ORF1ab/nsp31115D1115YGatTat11B.1.1.1570.000913
ORF1ab/nsp31115D1115DgaTgaC11B.1.1.2140.000055
ORF1ab/nsp31115D1115GgAtgGt11B.1.1.2160.00089
ORF1ab/nsp31115D1115AgAtgCt11B.1.1.2200.001859
ORF1ab/nsp31115D1115VgAtgTt11B.1.1.2210.010101
ORF1ab/nsp31115D1115del2gATg--11B.1.1.2360.006897
ORF1ab/nsp31115D1115GgAtgGt11B.1.1.2400.004695
ORF1ab/nsp31115D1115GgAtgGt11B.1.1.3370.003597
ORF1ab/nsp31115D1115delGAT---11B.1.1.3480.000796
ORF1ab/nsp31115D1115NGatAat11B.1.1.370.000193
ORF1ab/nsp31115D1115DgaTgaC11B.1.1.390.00051
ORF1ab/nsp31115D1115GgAtgGt11B.1.1.4090.002833
ORF1ab/nsp31115D1115delGAT---11B.1.1.4090.002833
ORF1ab/nsp31115D1115NGatAat11B.1.1.4320.001266
ORF1ab/nsp31115D1115GgAtgGt11B.1.1.4320.001266
ORF1ab/nsp31115D1115AgAtgCt11B.1.1.4340.000349
ORF1ab/nsp31115D1115DgaTgaC11B.1.1.5260.003546
ORF1ab/nsp31115D1115HGatCat11B.1.1.70.000001
ORF1ab/nsp31115D1115delGAT---11B.1.1600.000031
ORF1ab/nsp31115D1115DgaTgaC11B.1.160.160.000929
ORF1ab/nsp31115D1115YGatTat11B.1.160.320.004292
ORF1ab/nsp31115D1115GgAtgGt11B.1.160.70.002079
ORF1ab/nsp31115D1115delGAT---11B.1.1770.000013
ORF1ab/nsp31115D1115delGAT---11B.1.177.510.004566
ORF1ab/nsp31115D1115GgAtgGt11B.1.177.820.000477
ORF1ab/nsp31115D1115GgAtgGt11B.1.1800.05
ORF1ab/nsp31115D1115YGatTat11B.1.20.000009
ORF1ab/nsp31115D1115delGAT---11B.1.20.000009
ORF1ab/nsp31115D1115del1Gat-at11B.1.20.000009
ORF1ab/nsp31115D1115DgaTgaC11B.1.2210.000071
ORF1ab/nsp31115D1115YGatTat11B.1.258.110.000396
ORF1ab/nsp31115D1115GgAtgGt11B.1.2600.003344
ORF1ab/nsp31115D1115GgAtgGt11B.1.30.002618
ORF1ab/nsp31115D1115EgaTgaA11B.1.3110.000275
ORF1ab/nsp31115D1115YGatTat11B.1.36.170.000494
ORF1ab/nsp31115D1115DgaTgaC11B.1.36.290.000517
ORF1ab/nsp31115D1115GgAtgGt11B.1.3690.000285
ORF1ab/nsp31115D1115YGatTat11B.1.4000.000429
ORF1ab/nsp31115D1115DgaTgaC11B.1.4160.001269
ORF1ab/nsp31115D1115delGAT---11B.1.416.10.001563
ORF1ab/nsp31115D1115GgAtgGt11B.1.4280.00102
ORF1ab/nsp31115D1115EgaTgaA11B.1.4290.000024
ORF1ab/nsp31115D1115YGatTat11B.1.4320.011236
ORF1ab/nsp31115D1115DgaTgaC11B.1.4360.001029
ORF1ab/nsp31115D1115YGatTat11B.1.4590.004082
ORF1ab/nsp31115D1115GgAtgGt11B.1.4970.000315
ORF1ab/nsp31115D1115DgaTgaC11B.1.4990.00105
ORF1ab/nsp31115D1115GgAtgGt11B.1.5090.000866
ORF1ab/nsp31115D1115DgaTgaC11B.1.5250.000113
ORF1ab/nsp31115D1115delGAT---11B.1.5260.000024
ORF1ab/nsp31115D1115HGatCat11B.1.5260.000024
ORF1ab/nsp31115D1115GgAtgGt11B.1.5260.000024
ORF1ab/nsp31115D1115del1gaTga-11B.1.5260.000024
ORF1ab/nsp31115D1115GgAtgGt11B.1.5610.000397
ORF1ab/nsp31115D1115DgaTgaC11B.1.5640.000426
ORF1ab/nsp31115D1115GgAtgGt11B.1.5950.000261
ORF1ab/nsp31115D1115del1gaTga-11B.1.5960.000087
ORF1ab/nsp31115D1115GgAtgGt11B.1.6090.000479
ORF1ab/nsp31115D1115GgAtgGt11B.1.619.10.000641
ORF1ab/nsp31115D1115EgaTgaG11B.1.619.10.000641
ORF1ab/nsp31115D1115GgAtgGt11B.1.6210.000089
ORF1ab/nsp31115D1115GgAtgGt11B.1.6370.000073
ORF1ab/nsp31115D1115HGatCat11B.1.9.40.006135
ORF1ab/nsp31115D1115delGAT---11B.150.017544
ORF1ab/nsp31115D1115HGatCat11B.400.000364
ORF1ab/nsp31115D1115XGaTTaA11C.350.000774
ORF1ab/nsp31115D1115EgaTgaA11D.20.000075
ORF1ab/nsp31115D1115del1Gat-at11P.1.10.000318
ORF1ab/nsp31115D1115DgaTgaC11P.1.20.001156
ORF1ab/nsp31115D1115DgaTgaC11P.20.000187
ORF1ab/nsp31115D1115delGAT---11Q.10.000126
ORF1ab/nsp31115D1115GgAtgGt11Q.40.000455
ORF1ab/nsp31115D1115GgAtgGt11Q.60.006623
ORF1ab/nsp31115D1115GgAtgGt11Q.80.000165
ORF1ab/nsp31115D1115AgAtgCt11Q.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.