CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 269

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/nsp12269D269GD4661GnonsyngAtgGt431043090.99976814245-14247
ORF1ab/nsp12269D269GD4661GnonsyngATgGG431010.00023201914245-14247
ORF1ab/nsp12269D269ND4661NnonsynGatAat14561456114245-14247
ORF1ab/nsp12269D269DD4661DsyngaTgaC357357114245-14247
ORF1ab/nsp12269D269YD4661YnonsynGatTat3737114245-14247
ORF1ab/nsp12269D269AD4661AnonsyngAtgCt2626114245-14247
ORF1ab/nsp12269D269VD4661VnonsyngAtgTt18130.72222214245-14247
ORF1ab/nsp12269D269VD4661VnonsyngATgTC1850.27777814245-14247
ORF1ab/nsp12269D269ED4661EnonsyngaTgaG970.77777814245-14247
ORF1ab/nsp12269D269ED4661EnonsyngaTgaA920.22222214245-14247
ORF1ab/nsp12269D269delD4661deldelGAT---88114245-14247
ORF1ab/nsp12269D269del1D4661del1delgaTga-88114245-14247
ORF1ab/nsp12269D269HD4661HnonsynGatCat22114245-14247
ORF1ab/nsp12269D269del2D4661del2delgATg--11114245-14247
ORF1ab/nsp12269D269KD4661KnonsynGaTAaG11114245-14247
ORF1ab/nsp12269D269RD4661RnonsynGATAGG11114245-14247
ORF1ab/nsp12269D269SD4661SnonsynGAtAGt11114245-14247

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/nsp12269D269GgAtgGt43094310All0.000824
ORF1ab/nsp12269D269GgATgGG14310All0
ORF1ab/nsp12269D269GgAtgGt24542454AY.630.949323
ORF1ab/nsp12269D269NGatAat14561456All0.000278
ORF1ab/nsp12269D269NGatAat10111011B.1.1.70.000905
ORF1ab/nsp12269D269GgAtgGt813813B.1.617.20.003061
ORF1ab/nsp12269D269GgAtgGt390390AY.390.009637
ORF1ab/nsp12269D269DgaTgaC357357All0.000068
ORF1ab/nsp12269D269NGatAat218218B.1.6180.879032
ORF1ab/nsp12269D269GgAtgGt162162AY.610.016974
ORF1ab/nsp12269D269DgaTgaC115115B.1.1.70.000103
ORF1ab/nsp12269D269NGatAat7777AY.40.00012
ORF1ab/nsp12269D269GgAtgGt5050B.1.6280.017618
ORF1ab/nsp12269D269GgAtgGt4747AY.40.000073
ORF1ab/nsp12269D269DgaTgaC4646B.1.1600.001435
ORF1ab/nsp12269D269GgAtgGt4141AY.430.000182
ORF1ab/nsp12269D269GgAtgGt3838AY.440.000231
ORF1ab/nsp12269D269DgaTgaC3838B.1.416.10.059375
ORF1ab/nsp12269D269YGatTat3737All0.000007
ORF1ab/nsp12269D269GgAtgGt3232B.1.1.70.000029
ORF1ab/nsp12269D269DgaTgaC3131B.1.617.20.000117
ORF1ab/nsp12269D269NGatAat3030B.1.617.20.000113
ORF1ab/nsp12269D269GgAtgGt2828AY.30.000278
ORF1ab/nsp12269D269AgAtgCt2626All0.000005
ORF1ab/nsp12269D269GgAtgGt2525B.1.1.5190.000993
ORF1ab/nsp12269D269YGatTat2222AY.40.000034
ORF1ab/nsp12269D269GgAtgGt2020AY.1200.000744
ORF1ab/nsp12269D269NGatAat1919B.10.000174
ORF1ab/nsp12269D269VgAtgTt1318All0.000002
ORF1ab/nsp12269D269VgATgTC518All0.000001
ORF1ab/nsp12269D269GgAtgGt1818AY.250.000108
ORF1ab/nsp12269D269DgaTgaC1616B.1.5250.001811
ORF1ab/nsp12269D269NGatAat1515B.1.5820.00736
ORF1ab/nsp12269D269GgAtgGt1212AY.260.00034
ORF1ab/nsp12269D269DgaTgaC1111B.10.000101
ORF1ab/nsp12269D269GgAtgGt1111B.1.3110.00302
ORF1ab/nsp12269D269GgAtgGt1010AY.10.003957
ORF1ab/nsp12269D269DgaTgaC1010AY.440.000061
ORF1ab/nsp12269D269GgAtgGt1010AY.75.10.001803
ORF1ab/nsp12269D269EgaTgaG79All0.000001
ORF1ab/nsp12269D269EgaTgaA29All0
ORF1ab/nsp12269D269GgAtgGt99AY.1020.000239
ORF1ab/nsp12269D269NGatAat99AY.250.000054
ORF1ab/nsp12269D269DgaTgaC99AY.40.000014
ORF1ab/nsp12269D269NGatAat99AY.440.000055
ORF1ab/nsp12269D269del1gaTga-88All0.000002
ORF1ab/nsp12269D269delGAT---88All0.000002
ORF1ab/nsp12269D269NGatAat88AY.430.000035
ORF1ab/nsp12269D269GgAtgGt77AY.1030.000043
ORF1ab/nsp12269D269GgAtgGt77AY.710.003325
ORF1ab/nsp12269D269GgAtgGt77B.10.000064
ORF1ab/nsp12269D269DgaTgaC66AY.160.002278
ORF1ab/nsp12269D269NGatAat66AY.260.00017
ORF1ab/nsp12269D269DgaTgaC66AY.390.000148
ORF1ab/nsp12269D269AgAtgCt55A.2.50.002495
ORF1ab/nsp12269D269NGatAat55AY.1030.000031
ORF1ab/nsp12269D269NGatAat55AY.30.00005
ORF1ab/nsp12269D269DgaTgaC55AY.430.000022
ORF1ab/nsp12269D269DgaTgaC55B.1.20.000044
ORF1ab/nsp12269D269GgAtgGt44AY.1170.000338
ORF1ab/nsp12269D269GgAtgGt44AY.1190.000141
ORF1ab/nsp12269D269GgAtgGt44AY.190.004561
ORF1ab/nsp12269D269GgAtgGt44AY.230.000279
ORF1ab/nsp12269D269GgAtgGt44AY.290.000063
ORF1ab/nsp12269D269GgAtgGt44AY.39.10.000158
ORF1ab/nsp12269D269NGatAat44B.1.10.000073
ORF1ab/nsp12269D269delGAT---44B.1.1.70.000004
ORF1ab/nsp12269D269AgAtgCt44B.1.1.70.000004
ORF1ab/nsp12269D269DgaTgaC44B.1.1770.000053
ORF1ab/nsp12269D269GgAtgGt44B.1.5260.000094
ORF1ab/nsp12269D269DgaTgaC33AY.1030.000019
ORF1ab/nsp12269D269GgAtgGt33AY.1180.000188
ORF1ab/nsp12269D269GgAtgGt33AY.120.000948
ORF1ab/nsp12269D269GgAtgGt33AY.130.000483
ORF1ab/nsp12269D269DgaTgaC33AY.230.000209
ORF1ab/nsp12269D269DgaTgaC33AY.250.000018
ORF1ab/nsp12269D269VgAtgTt33AY.440.000018
ORF1ab/nsp12269D269GgAtgGt33AY.450.000365
ORF1ab/nsp12269D269DgaTgaC33AY.46.20.001906
ORF1ab/nsp12269D269GgAtgGt33AY.980.000237
ORF1ab/nsp12269D269NGatAat33B.1.1.2160.002671
ORF1ab/nsp12269D269YGatTat33B.1.177.210.000229
ORF1ab/nsp12269D269DgaTgaC33B.1.2400.000647
ORF1ab/nsp12269D269DgaTgaC33B.1.3510.000089
ORF1ab/nsp12269D269GgAtgGt33B.1.3510.000089
ORF1ab/nsp12269D269AgAtgCt33B.1.36.10.003421
ORF1ab/nsp12269D269GgATgGG120.055556
ORF1ab/nsp12269D269GgAtgGt120.055556
ORF1ab/nsp12269D269HGatCat22All0
ORF1ab/nsp12269D269DgaTgaC22AY.1160.000574
ORF1ab/nsp12269D269NGatAat22AY.130.000322
ORF1ab/nsp12269D269GgAtgGt22AY.160.000759
ORF1ab/nsp12269D269DgaTgaC22AY.30.00002
ORF1ab/nsp12269D269VgATgTC22AY.300.000791
ORF1ab/nsp12269D269YGatTat22AY.330.000134
ORF1ab/nsp12269D269GgAtgGt22AY.360.000296
ORF1ab/nsp12269D269NGatAat22AY.390.000049
ORF1ab/nsp12269D269DgaTgaC22AY.4.50.000215
ORF1ab/nsp12269D269GgAtgGt22AY.420.00008
ORF1ab/nsp12269D269GgAtgGt22AY.480.00093
ORF1ab/nsp12269D269GgAtgGt22AY.60.000082
ORF1ab/nsp12269D269GgAtgGt22AY.750.000112
ORF1ab/nsp12269D269VgATgTC12AY.850.000427
ORF1ab/nsp12269D269VgAtgTt12AY.850.000427
ORF1ab/nsp12269D269DgaTgaC22AY.950.001522
ORF1ab/nsp12269D269NGatAat22AY.99.20.000184
ORF1ab/nsp12269D269GgAtgGt22B0.000256
ORF1ab/nsp12269D269DgaTgaC22B.1.10.000036
ORF1ab/nsp12269D269DgaTgaC22B.1.1.2840.000215
ORF1ab/nsp12269D269VgAtgTt22B.1.1.70.000002
ORF1ab/nsp12269D269GgAtgGt22B.1.177.790.004684
ORF1ab/nsp12269D269NGatAat22B.1.20.000018
ORF1ab/nsp12269D269NGatAat22B.1.2210.000142
ORF1ab/nsp12269D269GgAtgGt22B.1.2580.000133
ORF1ab/nsp12269D269DgaTgaC22B.1.5610.000794
ORF1ab/nsp12269D269GgAtgGt22B.1.575.10.004878
ORF1ab/nsp12269D269GgAtgGt22B.1.5770.001375
ORF1ab/nsp12269D269YGatTat22B.1.617.20.000008
ORF1ab/nsp12269D269AgAtgCt22B.1.617.20.000008
ORF1ab/nsp12269D269GgAtgGt22B.1.6190.001742
ORF1ab/nsp12269D269GgAtgGt22P.10.000032
ORF1ab/nsp12269D269DgaTgaC22P.1.150.000465
ORF1ab/nsp12269D269VgAtgTt12P.1.20.001156
ORF1ab/nsp12269D269VgATgTC12P.1.20.001156
ORF1ab/nsp12269D269GgAtgGt22Q.30.00029
ORF1ab/nsp12269D269NGatAat22Q.80.00033
ORF1ab/nsp12269D269KGaTAaG110.055556
ORF1ab/nsp12269D269RGATAGG110.055556
ORF1ab/nsp12269D269EgaTgaG110.055556
ORF1ab/nsp12269D269NGatAat110.055556
ORF1ab/nsp12269D269SGAtAGt110.055556
ORF1ab/nsp12269D269del1gaTga-11A.10.000282
ORF1ab/nsp12269D269YGatTat11A.23.10.000704
ORF1ab/nsp12269D269NGatAat11AH.20.012048
ORF1ab/nsp12269D269del2gATg--11All0
ORF1ab/nsp12269D269KGaTAaG11All0
ORF1ab/nsp12269D269SGAtAGt11All0
ORF1ab/nsp12269D269RGATAGG11All0
ORF1ab/nsp12269D269GgAtgGt11AY.1000.000046
ORF1ab/nsp12269D269AgAtgCt11AY.1020.000027
ORF1ab/nsp12269D269GgAtgGt11AY.1080.001103
ORF1ab/nsp12269D269GgAtgGt11AY.1100.000113
ORF1ab/nsp12269D269DgaTgaC11AY.1110.000183
ORF1ab/nsp12269D269YGatTat11AY.1130.000142
ORF1ab/nsp12269D269NGatAat11AY.1140.000231
ORF1ab/nsp12269D269VgATgTC11AY.1170.000085
ORF1ab/nsp12269D269YGatTat11AY.1180.000063
ORF1ab/nsp12269D269NGatAat11AY.1180.000063
ORF1ab/nsp12269D269GgAtgGt11AY.16.10.00047
ORF1ab/nsp12269D269DgaTgaC11AY.200.000039
ORF1ab/nsp12269D269EgaTgaG11AY.200.000039
ORF1ab/nsp12269D269GgAtgGt11AY.220.002092
ORF1ab/nsp12269D269NGatAat11AY.230.00007
ORF1ab/nsp12269D269del1gaTga-11AY.250.000006
ORF1ab/nsp12269D269DgaTgaC11AY.260.000028
ORF1ab/nsp12269D269NGatAat11AY.290.000016
ORF1ab/nsp12269D269NGatAat11AY.300.000396
ORF1ab/nsp12269D269GgAtgGt11AY.330.000067
ORF1ab/nsp12269D269NGatAat11AY.330.000067
ORF1ab/nsp12269D269GgAtgGt11AY.340.000097
ORF1ab/nsp12269D269GgAtgGt11AY.380.000499
ORF1ab/nsp12269D269NGatAat11AY.380.000499
ORF1ab/nsp12269D269GgAtgGt11AY.4.20.000022
ORF1ab/nsp12269D269GgAtgGt11AY.4.50.000107
ORF1ab/nsp12269D269AgAtgCt11AY.430.000004
ORF1ab/nsp12269D269EgaTgaG11AY.440.000006
ORF1ab/nsp12269D269DgaTgaC11AY.450.000122
ORF1ab/nsp12269D269NGatAat11AY.460.000104
ORF1ab/nsp12269D269GgAtgGt11AY.460.000104
ORF1ab/nsp12269D269NGatAat11AY.46.10.001027
ORF1ab/nsp12269D269NGatAat11AY.46.60.000072
ORF1ab/nsp12269D269GgAtgGt11AY.46.60.000072
ORF1ab/nsp12269D269GgAtgGt11AY.50.000021
ORF1ab/nsp12269D269GgAtgGt11AY.5.30.000337
ORF1ab/nsp12269D269GgAtgGt11AY.500.000799
ORF1ab/nsp12269D269GgAtgGt11AY.540.000095
ORF1ab/nsp12269D269GgAtgGt11AY.580.000907
ORF1ab/nsp12269D269GgAtgGt11AY.590.00053
ORF1ab/nsp12269D269DgaTgaC11AY.60.000041
ORF1ab/nsp12269D269GgAtgGt11AY.600.000938
ORF1ab/nsp12269D269GgAtgGt11AY.620.000436
ORF1ab/nsp12269D269GgAtgGt11AY.670.000464
ORF1ab/nsp12269D269NGatAat11AY.720.001361
ORF1ab/nsp12269D269GgAtgGt11AY.730.000665
ORF1ab/nsp12269D269NGatAat11AY.730.000665
ORF1ab/nsp12269D269GgAtgGt11AY.770.001127
ORF1ab/nsp12269D269GgAtgGt11AY.840.000437
ORF1ab/nsp12269D269GgAtgGt11AY.870.000833
ORF1ab/nsp12269D269GgAtgGt11AY.9.20.000037
ORF1ab/nsp12269D269del2gATg--11AY.9.20.000037
ORF1ab/nsp12269D269DgaTgaC11AY.9.20.000037
ORF1ab/nsp12269D269GgAtgGt11AY.920.000287
ORF1ab/nsp12269D269DgaTgaC11AY.980.000079
ORF1ab/nsp12269D269NGatAat11AY.98.10.000048
ORF1ab/nsp12269D269DgaTgaC11AY.98.10.000048
ORF1ab/nsp12269D269GgAtgGt11AY.98.10.000048
ORF1ab/nsp12269D269AgAtgCt11B0.000128
ORF1ab/nsp12269D269del1gaTga-11B.10.000009
ORF1ab/nsp12269D269YGatTat11B.10.000009
ORF1ab/nsp12269D269VgAtgTt11B.10.000009
ORF1ab/nsp12269D269AgAtgCt11B.1.10.000018
ORF1ab/nsp12269D269delGAT---11B.1.10.000018
ORF1ab/nsp12269D269DgaTgaC11B.1.1.10.000327
ORF1ab/nsp12269D269delGAT---11B.1.1.10.000327
ORF1ab/nsp12269D269NGatAat11B.1.1.1610.003534
ORF1ab/nsp12269D269HGatCat11B.1.1.2050.003717
ORF1ab/nsp12269D269NGatAat11B.1.1.2140.000055
ORF1ab/nsp12269D269DgaTgaC11B.1.1.2140.000055
ORF1ab/nsp12269D269DgaTgaC11B.1.1.2160.00089
ORF1ab/nsp12269D269EgaTgaA11B.1.1.2220.000204
ORF1ab/nsp12269D269AgAtgCt11B.1.1.250.000569
ORF1ab/nsp12269D269GgAtgGt11B.1.1.3060.000438
ORF1ab/nsp12269D269GgAtgGt11B.1.1.3160.000925
ORF1ab/nsp12269D269YGatTat11B.1.1.3220.008772
ORF1ab/nsp12269D269GgAtgGt11B.1.1.330.000421
ORF1ab/nsp12269D269NGatAat11B.1.1.3480.000796
ORF1ab/nsp12269D269VgAtgTt11B.1.1.390.00051
ORF1ab/nsp12269D269del1gaTga-11B.1.1.70.000001
ORF1ab/nsp12269D269EgaTgaG11B.1.1.70.000001
ORF1ab/nsp12269D269VgAtgTt11B.1.1280.000635
ORF1ab/nsp12269D269EgaTgaA11B.1.1420.002899
ORF1ab/nsp12269D269NGatAat11B.1.1600.000031
ORF1ab/nsp12269D269NGatAat11B.1.1770.000013
ORF1ab/nsp12269D269AgAtgCt11B.1.1770.000013
ORF1ab/nsp12269D269del1gaTga-11B.1.1770.000013
ORF1ab/nsp12269D269YGatTat11B.1.1770.000013
ORF1ab/nsp12269D269EgaTgaG11B.1.177.40.000211
ORF1ab/nsp12269D269AgAtgCt11B.1.177.450.000381
ORF1ab/nsp12269D269GgAtgGt11B.1.177.570.000281
ORF1ab/nsp12269D269DgaTgaC11B.1.177.60.000977
ORF1ab/nsp12269D269AgAtgCt11B.1.177.600.000218
ORF1ab/nsp12269D269DgaTgaC11B.1.177.80.000752
ORF1ab/nsp12269D269YGatTat11B.1.20.000009
ORF1ab/nsp12269D269GgAtgGt11B.1.20.000009
ORF1ab/nsp12269D269GgAtgGt11B.1.2340.000132
ORF1ab/nsp12269D269EgaTgaG11B.1.2430.00007
ORF1ab/nsp12269D269NGatAat11B.1.2580.000067
ORF1ab/nsp12269D269GgAtgGt11B.1.3560.001727
ORF1ab/nsp12269D269DgaTgaC11B.1.360.000146
ORF1ab/nsp12269D269DgaTgaC11B.1.36.100.004785
ORF1ab/nsp12269D269EgaTgaG11B.1.3690.000285
ORF1ab/nsp12269D269NGatAat11B.1.3910.001127
ORF1ab/nsp12269D269GgAtgGt11B.1.4270.00005
ORF1ab/nsp12269D269GgAtgGt11B.1.4970.000315
ORF1ab/nsp12269D269GgAtgGt11B.1.5170.000427
ORF1ab/nsp12269D269del1gaTga-11B.1.5260.000024
ORF1ab/nsp12269D269AgAtgCt11B.1.5260.000024
ORF1ab/nsp12269D269GgAtgGt11B.1.5510.00129
ORF1ab/nsp12269D269VgAtgTt11B.1.5960.000087
ORF1ab/nsp12269D269del1gaTga-11B.1.5960.000087
ORF1ab/nsp12269D269GgAtgGt11B.1.5960.000087
ORF1ab/nsp12269D269NGatAat11B.1.5960.000087
ORF1ab/nsp12269D269VgAtgTt11B.1.6090.000479
ORF1ab/nsp12269D269GgAtgGt11B.1.617.10.000129
ORF1ab/nsp12269D269AgAtgCt11B.1.617.10.000129
ORF1ab/nsp12269D269DgaTgaC11B.1.617.10.000129
ORF1ab/nsp12269D269del1gaTga-11B.1.617.20.000004
ORF1ab/nsp12269D269VgAtgTt11B.1.617.20.000004
ORF1ab/nsp12269D269delGAT---11B.1.617.20.000004
ORF1ab/nsp12269D269DgaTgaC11B.1.621.10.000506
ORF1ab/nsp12269D269YGatTat11B.550.00295
ORF1ab/nsp12269D269GgAtgGt11B.60.00091
ORF1ab/nsp12269D269delGAT---11C.360.000911
ORF1ab/nsp12269D269HGatCat11D.20.000075
ORF1ab/nsp12269D269GgAtgGt11D.20.000075
ORF1ab/nsp12269D269DgaTgaC11D.20.000075
ORF1ab/nsp12269D269NGatAat11P.10.000016
ORF1ab/nsp12269D269AgAtgCt11P.10.000016
ORF1ab/nsp12269D269DgaTgaC11P.1.20.001156
ORF1ab/nsp12269D269NGatAat11P.20.000187
ORF1ab/nsp12269D269DgaTgaC11Q.80.000165
ORF1ab/nsp12269D269AgAtgCt11Q.80.000165
ORF1ab/nsp12269D269DgaTgaC11R.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.