CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 552

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/nsp12552N552NN4944NsynaaTaaC228744228744115094-15096
ORF1ab/nsp12552N552delN4944deldelAAT---2323115094-15096
ORF1ab/nsp12552N552KN4944KnonsynaaTaaA18130.72222215094-15096
ORF1ab/nsp12552N552KN4944KnonsynaaTaaG1850.27777815094-15096
ORF1ab/nsp12552N552DN4944DnonsynAatGat1414115094-15096
ORF1ab/nsp12552N552VN4944VnonsynAAtGTt77115094-15096
ORF1ab/nsp12552N552TN4944TnonsynaAtaCt55115094-15096
ORF1ab/nsp12552N552del1N4944del1delaaTaa-430.7515094-15096
ORF1ab/nsp12552N552IN4944InonsynaAtaTt430.7515094-15096
ORF1ab/nsp12552N552IN4944InonsynaATaTC410.2515094-15096
ORF1ab/nsp12552N552del1N4944del1delAaT-aC410.2515094-15096
ORF1ab/nsp12552N552HN4944HnonsynAatCat33115094-15096
ORF1ab/nsp12552N552YN4944YnonsynAatTat33115094-15096
ORF1ab/nsp12552N552SN4944SnonsynaAtaGt22115094-15096
ORF1ab/nsp12552N552CN4944CnonsynAAtTGt11115094-15096
ORF1ab/nsp12552N552LN4944LnonsynAATCTG11115094-15096

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/nsp12552N552NaaTaaC228744228744All0.04375
ORF1ab/nsp12552N552NaaTaaC225381225381B.1.1.70.201766
ORF1ab/nsp12552N552NaaTaaC891891Q.80.146933
ORF1ab/nsp12552N552NaaTaaC881881Q.70.978889
ORF1ab/nsp12552N552NaaTaaC260260B.1.10.004717
ORF1ab/nsp12552N552NaaTaaC255255Q.10.032213
ORF1ab/nsp12552N552NaaTaaC169169B.10.001548
ORF1ab/nsp12552N552NaaTaaC148148B.1.3510.0044
ORF1ab/nsp12552N552NaaTaaC146146Q.60.966887
ORF1ab/nsp12552N552NaaTaaC144144AY.40.000224
ORF1ab/nsp12552N552NaaTaaC4444AY.30.000438
ORF1ab/nsp12552N552NaaTaaC2929B.1.351.20.008775
ORF1ab/nsp12552N552NaaTaaC2828B.1.3750.022951
ORF1ab/nsp12552N552NaaTaaC2727B.1.1770.000356
ORF1ab/nsp12552N552NaaTaaC2626B.1.177.600.005679
ORF1ab/nsp12552N552NaaTaaC2424B.1.177.730.01359
ORF1ab/nsp12552N552delAAT---2323All0.000004
ORF1ab/nsp12552N552NaaTaaC1919B.1.617.20.000072
ORF1ab/nsp12552N552KaaTaaA1318All0.000002
ORF1ab/nsp12552N552KaaTaaG518All0.000001
ORF1ab/nsp12552N552NaaTaaC1616AY.250.000096
ORF1ab/nsp12552N552NaaTaaC1616AY.34.10.008159
ORF1ab/nsp12552N552DAatGat1414All0.000003
ORF1ab/nsp12552N552NaaTaaC1212B.1.5760.010879
ORF1ab/nsp12552N552NaaTaaC88B.1.1600.00025
ORF1ab/nsp12552N552NaaTaaC88B.1.20.00007
ORF1ab/nsp12552N552NaaTaaC88P.10.000126
ORF1ab/nsp12552N552NaaTaaC88Q.40.003638
ORF1ab/nsp12552N552VAAtGTt77All0.000001
ORF1ab/nsp12552N552NaaTaaC77B0.000895
ORF1ab/nsp12552N552VAAtGTt660.333333
ORF1ab/nsp12552N552NaaTaaC66AY.390.000148
ORF1ab/nsp12552N552NaaTaaC66AY.430.000027
ORF1ab/nsp12552N552delAAT---66B.1.1.70.000005
ORF1ab/nsp12552N552NaaTaaC66B.1.177.70.000989
ORF1ab/nsp12552N552TaAtaCt55All0.000001
ORF1ab/nsp12552N552NaaTaaC55AY.440.00003
ORF1ab/nsp12552N552NaaTaaC55AY.7.10.000564
ORF1ab/nsp12552N552NaaTaaC55B.1.1.4090.014164
ORF1ab/nsp12552N552TaAtaCt55B.1.1.70.000004
ORF1ab/nsp12552N552NaaTaaC55C.36.30.002836
ORF1ab/nsp12552N552del1aaTaa-34All0.000001
ORF1ab/nsp12552N552IaAtaTt34All0.000001
ORF1ab/nsp12552N552IaATaTC14All0
ORF1ab/nsp12552N552del1AaT-aC14All0
ORF1ab/nsp12552N552NaaTaaC44AY.260.000113
ORF1ab/nsp12552N552KaaTaaA44AY.430.000018
ORF1ab/nsp12552N552NaaTaaC44B.1.5260.000094
ORF1ab/nsp12552N552NaaTaaC44B.1.5960.000349
ORF1ab/nsp12552N552NaaTaaC44C.370.000464
ORF1ab/nsp12552N552NaaTaaC330.166667
ORF1ab/nsp12552N552YAatTat33All0.000001
ORF1ab/nsp12552N552HAatCat33All0.000001
ORF1ab/nsp12552N552NaaTaaC33AY.1210.000406
ORF1ab/nsp12552N552NaaTaaC33AY.200.000117
ORF1ab/nsp12552N552NaaTaaC33AY.340.000291
ORF1ab/nsp12552N552NaaTaaC33AY.450.000365
ORF1ab/nsp12552N552NaaTaaC33AY.610.000314
ORF1ab/nsp12552N552KaaTaaG23B.1.10.000036
ORF1ab/nsp12552N552KaaTaaA13B.1.10.000018
ORF1ab/nsp12552N552NaaTaaC33B.1.1.2050.011152
ORF1ab/nsp12552N552NaaTaaC33B.1.177.310.034483
ORF1ab/nsp12552N552NaaTaaC33B.1.2210.000213
ORF1ab/nsp12552N552NaaTaaC33B.1.4110.011111
ORF1ab/nsp12552N552NaaTaaC33B.1.6090.001438
ORF1ab/nsp12552N552NaaTaaC33B.1.6200.002838
ORF1ab/nsp12552N552NaaTaaC33Q.50.050847
ORF1ab/nsp12552N552YAatTat220.111111
ORF1ab/nsp12552N552NaaTaaC22A0.000774
ORF1ab/nsp12552N552SaAtaGt22All0
ORF1ab/nsp12552N552NaaTaaC22AY.1030.000012
ORF1ab/nsp12552N552NaaTaaC22AY.1080.002205
ORF1ab/nsp12552N552NaaTaaC22AY.1190.000071
ORF1ab/nsp12552N552DAatGat22AY.30.00002
ORF1ab/nsp12552N552DAatGat22AY.40.000003
ORF1ab/nsp12552N552delAAT---22AY.40.000003
ORF1ab/nsp12552N552NaaTaaC22AY.750.000112
ORF1ab/nsp12552N552NaaTaaC22AY.98.10.000097
ORF1ab/nsp12552N552DAatGat22B.10.000018
ORF1ab/nsp12552N552NaaTaaC22B.1.1.1410.004024
ORF1ab/nsp12552N552NaaTaaC22B.1.1.1610.007067
ORF1ab/nsp12552N552NaaTaaC22B.1.1.280.000622
ORF1ab/nsp12552N552NaaTaaC22B.1.1.2990.02439
ORF1ab/nsp12552N552NaaTaaC22B.1.1.390.001019
ORF1ab/nsp12552N552NaaTaaC22B.1.1.5190.000079
ORF1ab/nsp12552N552NaaTaaC22B.1.2370.00995
ORF1ab/nsp12552N552NaaTaaC22B.1.2400.000431
ORF1ab/nsp12552N552NaaTaaC22B.1.5250.000226
ORF1ab/nsp12552N552NaaTaaC22B.1.6210.000177
ORF1ab/nsp12552N552NaaTaaC22B.1.621.10.001012
ORF1ab/nsp12552N552delAAT---22P.10.000032
ORF1ab/nsp12552N552NaaTaaC22P.1.150.000465
ORF1ab/nsp12552N552NaaTaaC22P.1.160.000748
ORF1ab/nsp12552N552NaaTaaC22P.1.170.000324
ORF1ab/nsp12552N552NaaTaaC22Q.30.00029
ORF1ab/nsp12552N552KaaTaaA11A0.000387
ORF1ab/nsp12552N552NaaTaaC11A.10.000282
ORF1ab/nsp12552N552DAatGat11A.10.000282
ORF1ab/nsp12552N552KaaTaaA11A.2.40.003367
ORF1ab/nsp12552N552HAatCat11A.2.40.003367
ORF1ab/nsp12552N552NaaTaaC11A.2.50.000499
ORF1ab/nsp12552N552NaaTaaC11A.23.10.000704
ORF1ab/nsp12552N552LAATCTG11All0
ORF1ab/nsp12552N552CAAtTGt11All0
ORF1ab/nsp12552N552NaaTaaC11AY.1000.000046
ORF1ab/nsp12552N552NaaTaaC11AY.1020.000027
ORF1ab/nsp12552N552KaaTaaA11AY.1030.000006
ORF1ab/nsp12552N552NaaTaaC11AY.1060.000335
ORF1ab/nsp12552N552delAAT---11AY.1110.000183
ORF1ab/nsp12552N552NaaTaaC11AY.230.00007
ORF1ab/nsp12552N552SaAtaGt11AY.250.000006
ORF1ab/nsp12552N552delAAT---11AY.250.000006
ORF1ab/nsp12552N552NaaTaaC11AY.29.10.000221
ORF1ab/nsp12552N552del1aaTaa-11AY.30.00001
ORF1ab/nsp12552N552IaATaTC11AY.30.00001
ORF1ab/nsp12552N552NaaTaaC11AY.330.000067
ORF1ab/nsp12552N552KaaTaaA11AY.330.000067
ORF1ab/nsp12552N552KaaTaaA11AY.390.000025
ORF1ab/nsp12552N552KaaTaaA11AY.40.000002
ORF1ab/nsp12552N552DAatGat11AY.4.20.000022
ORF1ab/nsp12552N552NaaTaaC11AY.420.00004
ORF1ab/nsp12552N552delAAT---11AY.420.00004
ORF1ab/nsp12552N552CAAtTGt11AY.430.000004
ORF1ab/nsp12552N552IaAtaTt11AY.430.000004
ORF1ab/nsp12552N552KaaTaaG11AY.440.000006
ORF1ab/nsp12552N552NaaTaaC11AY.470.000031
ORF1ab/nsp12552N552KaaTaaA11AY.490.003195
ORF1ab/nsp12552N552NaaTaaC11AY.560.001605
ORF1ab/nsp12552N552DAatGat11AY.590.00053
ORF1ab/nsp12552N552delAAT---11AY.590.00053
ORF1ab/nsp12552N552delAAT---11AY.650.000533
ORF1ab/nsp12552N552delAAT---11AY.840.000437
ORF1ab/nsp12552N552NaaTaaC11AY.900.000684
ORF1ab/nsp12552N552NaaTaaC11AY.980.000079
ORF1ab/nsp12552N552DAatGat11AY.98.10.000048
ORF1ab/nsp12552N552DAatGat11AY.990.001049
ORF1ab/nsp12552N552del1aaTaa-11B.1.10.000018
ORF1ab/nsp12552N552HAatCat11B.1.10.000018
ORF1ab/nsp12552N552delAAT---11B.1.10.000018
ORF1ab/nsp12552N552VAAtGTt11B.1.10.000018
ORF1ab/nsp12552N552NaaTaaC11B.1.1.1870.00885
ORF1ab/nsp12552N552NaaTaaC11B.1.1.2310.003096
ORF1ab/nsp12552N552NaaTaaC11B.1.1.2940.001266
ORF1ab/nsp12552N552NaaTaaC11B.1.1.3060.000438
ORF1ab/nsp12552N552NaaTaaC11B.1.1.430.014925
ORF1ab/nsp12552N552NaaTaaC11B.1.1.4330.001425
ORF1ab/nsp12552N552NaaTaaC11B.1.1.5150.02
ORF1ab/nsp12552N552NaaTaaC11B.1.1.5230.001563
ORF1ab/nsp12552N552NaaTaaC11B.1.1.5250.005464
ORF1ab/nsp12552N552NaaTaaC11B.1.1.630.000386
ORF1ab/nsp12552N552IaAtaTt11B.1.1.70.000001
ORF1ab/nsp12552N552HAatCat11B.1.1.70.000001
ORF1ab/nsp12552N552delAAT---11B.1.160.230.004831
ORF1ab/nsp12552N552NaaTaaC11B.1.1700.00431
ORF1ab/nsp12552N552KaaTaaG11B.1.1770.000013
ORF1ab/nsp12552N552DAatGat11B.1.177.440.000519
ORF1ab/nsp12552N552delAAT---11B.1.177.540.000606
ORF1ab/nsp12552N552delAAT---11B.1.177.680.015152
ORF1ab/nsp12552N552SaAtaGt11B.1.20.000009
ORF1ab/nsp12552N552DAatGat11B.1.20.000009
ORF1ab/nsp12552N552NaaTaaC11B.1.220.001318
ORF1ab/nsp12552N552NaaTaaC11B.1.2580.000067
ORF1ab/nsp12552N552NaaTaaC11B.1.2600.003344
ORF1ab/nsp12552N552NaaTaaC11B.1.3110.000275
ORF1ab/nsp12552N552DAatGat11B.1.3510.00003
ORF1ab/nsp12552N552NaaTaaC11B.1.351.50.0006
ORF1ab/nsp12552N552NaaTaaC11B.1.360.000146
ORF1ab/nsp12552N552NaaTaaC11B.1.36.10.00114
ORF1ab/nsp12552N552NaaTaaC11B.1.3610.001289
ORF1ab/nsp12552N552NaaTaaC11B.1.3900.010638
ORF1ab/nsp12552N552IaAtaTt11B.1.3980.002976
ORF1ab/nsp12552N552NaaTaaC11B.1.415.10.007576
ORF1ab/nsp12552N552YAatTat11B.1.4160.001269
ORF1ab/nsp12552N552NaaTaaC11B.1.4270.00005
ORF1ab/nsp12552N552NaaTaaC11B.1.4290.000024
ORF1ab/nsp12552N552NaaTaaC11B.1.4320.011236
ORF1ab/nsp12552N552NaaTaaC11B.1.4970.000315
ORF1ab/nsp12552N552NaaTaaC11B.1.5160.001957
ORF1ab/nsp12552N552NaaTaaC11B.1.5330.009615
ORF1ab/nsp12552N552NaaTaaC11B.1.5610.000397
ORF1ab/nsp12552N552NaaTaaC11B.1.5750.000303
ORF1ab/nsp12552N552NaaTaaC11B.1.5800.004065
ORF1ab/nsp12552N552del1AaT-aC11B.1.5960.000087
ORF1ab/nsp12552N552delAAT---11B.1.5960.000087
ORF1ab/nsp12552N552NaaTaaC11B.1.596.10.009346
ORF1ab/nsp12552N552del1aaTaa-11B.1.617.10.000129
ORF1ab/nsp12552N552delAAT---11B.1.617.20.000004
ORF1ab/nsp12552N552KaaTaaA11B.1.617.20.000004
ORF1ab/nsp12552N552LAATCTG11B.1.6210.000089
ORF1ab/nsp12552N552NaaTaaC11B.1.6230.000536
ORF1ab/nsp12552N552NaaTaaC11B.1.6330.041667
ORF1ab/nsp12552N552NaaTaaC11B.1.6360.006711
ORF1ab/nsp12552N552NaaTaaC11B.1.6370.000073
ORF1ab/nsp12552N552NaaTaaC11B.350.007812
ORF1ab/nsp12552N552KaaTaaG11C.290.0625
ORF1ab/nsp12552N552NaaTaaC11P.1.10.000318
ORF1ab/nsp12552N552NaaTaaC11P.1.140.000048
ORF1ab/nsp12552N552delAAT---11P.1.40.000977
ORF1ab/nsp12552N552NaaTaaC11P.30.001595
ORF1ab/nsp12552N552NaaTaaC11R.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.