CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1638

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/nsp31638D1638DD2456DsyngaTgaC2129212917631-7633
ORF1ab/nsp31638D1638delD2456deldelGAT---10010017631-7633
ORF1ab/nsp31638D1638ND2456NnonsynGatAat595917631-7633
ORF1ab/nsp31638D1638AD2456AnonsyngAtgCt434317631-7633
ORF1ab/nsp31638D1638GD2456GnonsyngAtgGt31290.9354847631-7633
ORF1ab/nsp31638D1638GD2456GnonsyngATgGA3120.06451617631-7633
ORF1ab/nsp31638D1638YD2456YnonsynGatTat191917631-7633
ORF1ab/nsp31638D1638ED2456EnonsyngaTgaG16120.757631-7633
ORF1ab/nsp31638D1638ED2456EnonsyngaTgaA1640.257631-7633
ORF1ab/nsp31638D1638VD2456VnonsyngAtgTt650.8333337631-7633
ORF1ab/nsp31638D1638del1D2456del1delGat-at640.6666677631-7633
ORF1ab/nsp31638D1638VD2456VnonsyngATgTA610.1666677631-7633
ORF1ab/nsp31638D1638del1D2456del1delgAtg-t610.1666677631-7633
ORF1ab/nsp31638D1638del1D2456del1delGaTAa-610.1666677631-7633
ORF1ab/nsp31638D1638HD2456HnonsynGatCat5517631-7633
ORF1ab/nsp31638D1638ID2456InonsynGAtATt430.757631-7633
ORF1ab/nsp31638D1638ID2456InonsynGATATA410.257631-7633
ORF1ab/nsp31638D1638SD2456SnonsynGAtAGt320.6666677631-7633
ORF1ab/nsp31638D1638SD2456SnonsynGATTCA310.3333337631-7633
ORF1ab/nsp31638D1638KD2456KnonsynGaTAaA2217631-7633
ORF1ab/nsp31638D1638CD2456CnonsynGAtTGt2217631-7633
ORF1ab/nsp31638D1638XD2456XnonsynGATTGA210.57631-7633
ORF1ab/nsp31638D1638XD2456XnonsynGaTTaA210.57631-7633
ORF1ab/nsp31638D1638FD2456FnonsynGAtTTt1117631-7633
ORF1ab/nsp31638D1638RD2456RnonsynGATAGA1117631-7633

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/nsp31638D1638DgaTgaC21292129All0.000407
ORF1ab/nsp31638D1638DgaTgaC691691B.1.5960.060213
ORF1ab/nsp31638D1638DgaTgaC268268B.1.1.70.00024
ORF1ab/nsp31638D1638DgaTgaC210210AY.40.000327
ORF1ab/nsp31638D1638DgaTgaC127127B.1.617.20.000478
ORF1ab/nsp31638D1638DgaTgaC107107AY.1170.009043
ORF1ab/nsp31638D1638delGAT---100100All0.000019
ORF1ab/nsp31638D1638DgaTgaC9292AY.540.008772
ORF1ab/nsp31638D1638DgaTgaC8989B.1.9.40.546012
ORF1ab/nsp31638D1638DgaTgaC8787B.10.000797
ORF1ab/nsp31638D1638NGatAat5959All0.000011
ORF1ab/nsp31638D1638delGAT---4848B.1.1.70.000043
ORF1ab/nsp31638D1638NGatAat4545AY.4.2.10.006704
ORF1ab/nsp31638D1638AgAtgCt4343All0.000008
ORF1ab/nsp31638D1638DgaTgaC3737AY.250.000223
ORF1ab/nsp31638D1638DgaTgaC3333AY.1020.000875
ORF1ab/nsp31638D1638DgaTgaC3333AY.440.000201
ORF1ab/nsp31638D1638GgAtgGt2931All0.000006
ORF1ab/nsp31638D1638GgATgGA231All0
ORF1ab/nsp31638D1638DgaTgaC2424AY.430.000106
ORF1ab/nsp31638D1638AgAtgCt2222AY.430.000097
ORF1ab/nsp31638D1638DgaTgaC2222B.1.20.000194
ORF1ab/nsp31638D1638DgaTgaC2121AY.1100.002366
ORF1ab/nsp31638D1638DgaTgaC2121B.1.3510.000624
ORF1ab/nsp31638D1638DgaTgaC2121B.1.617.10.002708
ORF1ab/nsp31638D1638YGatTat1919All0.000004
ORF1ab/nsp31638D1638EgaTgaG1216All0.000002
ORF1ab/nsp31638D1638EgaTgaA416All0.000001
ORF1ab/nsp31638D1638DgaTgaC1313AY.990.013641
ORF1ab/nsp31638D1638GgAtgGt1212AY.40.000019
ORF1ab/nsp31638D1638DgaTgaC1111A.2.50.005489
ORF1ab/nsp31638D1638DgaTgaC99AY.1030.000056
ORF1ab/nsp31638D1638DgaTgaC99AY.30.00009
ORF1ab/nsp31638D1638DgaTgaC99Q.80.001484
ORF1ab/nsp31638D1638DgaTgaC88AY.140.000704
ORF1ab/nsp31638D1638DgaTgaC88B.1.1.10.002614
ORF1ab/nsp31638D1638delGAT---88B.1.1770.000105
ORF1ab/nsp31638D1638DgaTgaC88B.1.9.50.045455
ORF1ab/nsp31638D1638DgaTgaC77AY.1190.000247
ORF1ab/nsp31638D1638DgaTgaC66A.2.5.10.028846
ORF1ab/nsp31638D1638VgAtgTt56All0.000001
ORF1ab/nsp31638D1638del1Gat-at46All0.000001
ORF1ab/nsp31638D1638VgATgTA16All0
ORF1ab/nsp31638D1638del1GaTAa-16All0
ORF1ab/nsp31638D1638del1gAtg-t16All0
ORF1ab/nsp31638D1638DgaTgaC66AY.320.003195
ORF1ab/nsp31638D1638DgaTgaC66AY.390.000148
ORF1ab/nsp31638D1638delGAT---66AY.40.000009
ORF1ab/nsp31638D1638DgaTgaC66AY.410.001764
ORF1ab/nsp31638D1638DgaTgaC66B.1.10.000109
ORF1ab/nsp31638D1638DgaTgaC66B.1.90.037037
ORF1ab/nsp31638D1638GgAtgGt350.166667
ORF1ab/nsp31638D1638GgATgGA250.111111
ORF1ab/nsp31638D1638HGatCat55All0.000001
ORF1ab/nsp31638D1638AgAtgCt55AY.40.000008
ORF1ab/nsp31638D1638DgaTgaC55AY.930.001365
ORF1ab/nsp31638D1638EgaTgaG55B.1.20.000044
ORF1ab/nsp31638D1638IGAtATt34All0.000001
ORF1ab/nsp31638D1638IGATATA14All0
ORF1ab/nsp31638D1638DgaTgaC44AY.1000.000184
ORF1ab/nsp31638D1638AgAtgCt44AY.30.00004
ORF1ab/nsp31638D1638YGatTat44AY.40.000006
ORF1ab/nsp31638D1638DgaTgaC44AY.50.000083
ORF1ab/nsp31638D1638DgaTgaC44AY.750.000224
ORF1ab/nsp31638D1638delGAT---44B.10.000037
ORF1ab/nsp31638D1638DgaTgaC44B.1.1.2690.005413
ORF1ab/nsp31638D1638DgaTgaC44B.1.5260.000094
ORF1ab/nsp31638D1638DgaTgaC44B.1.617.30.01194
ORF1ab/nsp31638D1638DgaTgaC44C.370.000464
ORF1ab/nsp31638D1638EgaTgaA330.166667
ORF1ab/nsp31638D1638VgAtgTt230.111111
ORF1ab/nsp31638D1638VgATgTA130.055556
ORF1ab/nsp31638D1638SGAtAGt23All0
ORF1ab/nsp31638D1638SGATTCA13All0
ORF1ab/nsp31638D1638DgaTgaC33AY.1180.000188
ORF1ab/nsp31638D1638GgAtgGt33AY.50.000062
ORF1ab/nsp31638D1638DgaTgaC33AY.850.001282
ORF1ab/nsp31638D1638DgaTgaC33B.1.1.2140.000166
ORF1ab/nsp31638D1638YGatTat33B.1.1.70.000003
ORF1ab/nsp31638D1638DgaTgaC33B.1.2210.000213
ORF1ab/nsp31638D1638DgaTgaC33B.1.4250.008982
ORF1ab/nsp31638D1638DgaTgaC33B.1.5250.000339
ORF1ab/nsp31638D1638AgAtgCt33B.1.617.20.000011
ORF1ab/nsp31638D1638DgaTgaC33R.10.00027
ORF1ab/nsp31638D1638KGaTAaA220.111111
ORF1ab/nsp31638D1638NGatAat220.111111
ORF1ab/nsp31638D1638XGaTTaA120.055556
ORF1ab/nsp31638D1638IGAtATt120.055556
ORF1ab/nsp31638D1638IGATATA120.055556
ORF1ab/nsp31638D1638XGATTGA120.055556
ORF1ab/nsp31638D1638KGaTAaA22All0
ORF1ab/nsp31638D1638CGAtTGt22All0
ORF1ab/nsp31638D1638XGaTTaA12All0
ORF1ab/nsp31638D1638XGATTGA12All0
ORF1ab/nsp31638D1638GgAtgGt22AY.1030.000012
ORF1ab/nsp31638D1638AgAtgCt22AY.1030.000012
ORF1ab/nsp31638D1638DgaTgaC22AY.1160.000574
ORF1ab/nsp31638D1638delGAT---22AY.1200.000074
ORF1ab/nsp31638D1638DgaTgaC22AY.1210.000271
ORF1ab/nsp31638D1638DgaTgaC22AY.230.000139
ORF1ab/nsp31638D1638delGAT---22AY.250.000012
ORF1ab/nsp31638D1638EgaTgaG22AY.40.000003
ORF1ab/nsp31638D1638DgaTgaC22AY.4.2.10.000298
ORF1ab/nsp31638D1638NGatAat22AY.430.000009
ORF1ab/nsp31638D1638GgAtgGt22AY.440.000012
ORF1ab/nsp31638D1638DgaTgaC22AY.610.00021
ORF1ab/nsp31638D1638DgaTgaC22AY.75.10.000361
ORF1ab/nsp31638D1638DgaTgaC22B0.000256
ORF1ab/nsp31638D1638HGatCat22B.1.10.000036
ORF1ab/nsp31638D1638NGatAat22B.1.1.70.000002
ORF1ab/nsp31638D1638EgaTgaA12B.1.1.70.000001
ORF1ab/nsp31638D1638EgaTgaG12B.1.1.70.000001
ORF1ab/nsp31638D1638delGAT---22B.1.177.540.001213
ORF1ab/nsp31638D1638delGAT---22B.1.177.570.000562
ORF1ab/nsp31638D1638DgaTgaC22B.1.177.860.000367
ORF1ab/nsp31638D1638YGatTat22B.1.2210.000142
ORF1ab/nsp31638D1638DgaTgaC22B.1.2320.001075
ORF1ab/nsp31638D1638DgaTgaC22B.1.3240.00321
ORF1ab/nsp31638D1638DgaTgaC22B.1.4290.000047
ORF1ab/nsp31638D1638del1Gat-at22B.1.617.20.000008
ORF1ab/nsp31638D1638DgaTgaC22B.6.60.001778
ORF1ab/nsp31638D1638DgaTgaC22C.310.035714
ORF1ab/nsp31638D1638DgaTgaC22P.10.000032
ORF1ab/nsp31638D1638CGAtTGt110.055556
ORF1ab/nsp31638D1638SGAtAGt110.055556
ORF1ab/nsp31638D1638YGatTat110.055556
ORF1ab/nsp31638D1638RGATAGA110.055556
ORF1ab/nsp31638D1638DgaTgaC11A.2.40.003367
ORF1ab/nsp31638D1638DgaTgaC11A.23.10.000704
ORF1ab/nsp31638D1638FGAtTTt11All0
ORF1ab/nsp31638D1638RGATAGA11All0
ORF1ab/nsp31638D1638DgaTgaC11AT.10.005128
ORF1ab/nsp31638D1638SGATTCA11AY.1000.000046
ORF1ab/nsp31638D1638HGatCat11AY.1000.000046
ORF1ab/nsp31638D1638EgaTgaG11AY.1020.000027
ORF1ab/nsp31638D1638NGatAat11AY.1030.000006
ORF1ab/nsp31638D1638VgAtgTt11AY.1030.000006
ORF1ab/nsp31638D1638EgaTgaG11AY.1030.000006
ORF1ab/nsp31638D1638YGatTat11AY.1030.000006
ORF1ab/nsp31638D1638DgaTgaC11AY.1080.001103
ORF1ab/nsp31638D1638DgaTgaC11AY.1130.000142
ORF1ab/nsp31638D1638AgAtgCt11AY.1130.000142
ORF1ab/nsp31638D1638DgaTgaC11AY.1140.000231
ORF1ab/nsp31638D1638AgAtgCt11AY.1150.005208
ORF1ab/nsp31638D1638DgaTgaC11AY.120.000316
ORF1ab/nsp31638D1638NGatAat11AY.120.10.000321
ORF1ab/nsp31638D1638delGAT---11AY.190.00114
ORF1ab/nsp31638D1638GgAtgGt11AY.200.000039
ORF1ab/nsp31638D1638NGatAat11AY.250.000006
ORF1ab/nsp31638D1638GgAtgGt11AY.250.000006
ORF1ab/nsp31638D1638GgAtgGt11AY.290.000016
ORF1ab/nsp31638D1638delGAT---11AY.30.00001
ORF1ab/nsp31638D1638NGatAat11AY.30.00001
ORF1ab/nsp31638D1638GgAtgGt11AY.330.000067
ORF1ab/nsp31638D1638HGatCat11AY.330.000067
ORF1ab/nsp31638D1638delGAT---11AY.330.000067
ORF1ab/nsp31638D1638AgAtgCt11AY.340.000097
ORF1ab/nsp31638D1638DgaTgaC11AY.360.000148
ORF1ab/nsp31638D1638NGatAat11AY.40.000002
ORF1ab/nsp31638D1638GgAtgGt11AY.4.20.000022
ORF1ab/nsp31638D1638DgaTgaC11AY.4.20.000022
ORF1ab/nsp31638D1638delGAT---11AY.4.50.000107
ORF1ab/nsp31638D1638AgAtgCt11AY.440.000006
ORF1ab/nsp31638D1638IGAtATt11AY.440.000006
ORF1ab/nsp31638D1638DgaTgaC11AY.450.000122
ORF1ab/nsp31638D1638delGAT---11AY.46.20.000635
ORF1ab/nsp31638D1638DgaTgaC11AY.5.30.000337
ORF1ab/nsp31638D1638DgaTgaC11AY.60.000041
ORF1ab/nsp31638D1638AgAtgCt11AY.60.000041
ORF1ab/nsp31638D1638delGAT---11AY.60.000041
ORF1ab/nsp31638D1638DgaTgaC11AY.620.000436
ORF1ab/nsp31638D1638delGAT---11AY.660.00107
ORF1ab/nsp31638D1638DgaTgaC11AY.680.000274
ORF1ab/nsp31638D1638delGAT---11AY.720.001361
ORF1ab/nsp31638D1638DgaTgaC11AY.790.001211
ORF1ab/nsp31638D1638delGAT---11AY.810.001992
ORF1ab/nsp31638D1638YGatTat11AY.880.000884
ORF1ab/nsp31638D1638DgaTgaC11AY.9.10.000084
ORF1ab/nsp31638D1638DgaTgaC11AY.98.10.000048
ORF1ab/nsp31638D1638YGatTat11AY.99.20.000092
ORF1ab/nsp31638D1638DgaTgaC11AZ.10.000867
ORF1ab/nsp31638D1638HGatCat11B.10.000009
ORF1ab/nsp31638D1638NGatAat11B.10.000009
ORF1ab/nsp31638D1638EgaTgaG11B.10.000009
ORF1ab/nsp31638D1638IGAtATt11B.10.000009
ORF1ab/nsp31638D1638YGatTat11B.10.000009
ORF1ab/nsp31638D1638AgAtgCt11B.10.000009
ORF1ab/nsp31638D1638VgAtgTt11B.10.000009
ORF1ab/nsp31638D1638FGAtTTt11B.1.10.000018
ORF1ab/nsp31638D1638delGAT---11B.1.1.2360.006897
ORF1ab/nsp31638D1638DgaTgaC11B.1.1.3060.000438
ORF1ab/nsp31638D1638VgAtgTt11B.1.1.3260.001761
ORF1ab/nsp31638D1638DgaTgaC11B.1.1.3480.000796
ORF1ab/nsp31638D1638delGAT---11B.1.1.370.000193
ORF1ab/nsp31638D1638del1gAtg-t11B.1.1.4160.000905
ORF1ab/nsp31638D1638EgaTgaG11B.1.1.4200.001006
ORF1ab/nsp31638D1638delGAT---11B.1.1.460.004367
ORF1ab/nsp31638D1638delGAT---11B.1.1.700.000341
ORF1ab/nsp31638D1638DgaTgaC11B.1.1180.006711
ORF1ab/nsp31638D1638DgaTgaC11B.1.1390.000733
ORF1ab/nsp31638D1638DgaTgaC11B.1.1600.000031
ORF1ab/nsp31638D1638delGAT---11B.1.1610.017241
ORF1ab/nsp31638D1638del1Gat-at11B.1.1770.000013
ORF1ab/nsp31638D1638DgaTgaC11B.1.1770.000013
ORF1ab/nsp31638D1638delGAT---11B.1.177.160.000664
ORF1ab/nsp31638D1638delGAT---11B.1.177.180.00116
ORF1ab/nsp31638D1638delGAT---11B.1.177.190.001431
ORF1ab/nsp31638D1638delGAT---11B.1.177.560.000668
ORF1ab/nsp31638D1638DgaTgaC11B.1.177.730.000566
ORF1ab/nsp31638D1638DgaTgaC11B.1.177.820.000477
ORF1ab/nsp31638D1638del1Gat-at11B.1.20.000009
ORF1ab/nsp31638D1638NGatAat11B.1.20.000009
ORF1ab/nsp31638D1638YGatTat11B.1.20.000009
ORF1ab/nsp31638D1638GgAtgGt11B.1.2210.000071
ORF1ab/nsp31638D1638CGAtTGt11B.1.2210.000071
ORF1ab/nsp31638D1638del1GaTAa-11B.1.2580.000067
ORF1ab/nsp31638D1638DgaTgaC11B.1.2580.000067
ORF1ab/nsp31638D1638DgaTgaC11B.1.258.40.003448
ORF1ab/nsp31638D1638delGAT---11B.1.351.30.000876
ORF1ab/nsp31638D1638DgaTgaC11B.1.360.000146
ORF1ab/nsp31638D1638YGatTat11B.1.360.000146
ORF1ab/nsp31638D1638delGAT---11B.1.360.000146
ORF1ab/nsp31638D1638DgaTgaC11B.1.36.10.00114
ORF1ab/nsp31638D1638delGAT---11B.1.36.380.001642
ORF1ab/nsp31638D1638DgaTgaC11B.1.36.80.001
ORF1ab/nsp31638D1638DgaTgaC11B.1.3750.00082
ORF1ab/nsp31638D1638DgaTgaC11B.1.3980.002976
ORF1ab/nsp31638D1638DgaTgaC11B.1.438.10.000107
ORF1ab/nsp31638D1638DgaTgaC11B.1.5360.02381
ORF1ab/nsp31638D1638delGAT---11B.1.5610.000397
ORF1ab/nsp31638D1638DgaTgaC11B.1.5680.001111
ORF1ab/nsp31638D1638DgaTgaC11B.1.5880.00091
ORF1ab/nsp31638D1638YGatTat11B.1.5950.000261
ORF1ab/nsp31638D1638DgaTgaC11B.1.6090.000479
ORF1ab/nsp31638D1638YGatTat11B.1.617.20.000004
ORF1ab/nsp31638D1638delGAT---11B.1.617.20.000004
ORF1ab/nsp31638D1638DgaTgaC11B.1.6210.000089
ORF1ab/nsp31638D1638delGAT---11B.1.6210.000089
ORF1ab/nsp31638D1638DgaTgaC11B.1.621.10.000506
ORF1ab/nsp31638D1638DgaTgaC11B.1.6270.00202
ORF1ab/nsp31638D1638DgaTgaC11B.6.30.026316
ORF1ab/nsp31638D1638SGAtAGt11C.350.000774
ORF1ab/nsp31638D1638YGatTat11D.20.000075
ORF1ab/nsp31638D1638NGatAat11P.10.000016
ORF1ab/nsp31638D1638delGAT---11P.1.100.000269
ORF1ab/nsp31638D1638DgaTgaC11P.1.120.000484
ORF1ab/nsp31638D1638GgAtgGt11P.1.120.000484
ORF1ab/nsp31638D1638DgaTgaC11P.1.140.000048
ORF1ab/nsp31638D1638DgaTgaC11P.1.40.000977
ORF1ab/nsp31638D1638AgAtgCt11Q.10.000126
ORF1ab/nsp31638D1638delGAT---11Q.10.000126
ORF1ab/nsp31638D1638DgaTgaC11Q.10.000126

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.