CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1357

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/nsp31357L1357LL2175LsynttAttG323232120.9938126788-6790
ORF1ab/nsp31357L1357LL2175LsynTtaCta3232200.006188126788-6790
ORF1ab/nsp31357L1357delL2175deldelTTA---16716716788-6790
ORF1ab/nsp31357L1357KL2175KnonsynTTaAAa151516788-6790
ORF1ab/nsp31357L1357FL2175FnonsynttAttT740.5714296788-6790
ORF1ab/nsp31357L1357FL2175FnonsynttAttC730.4285716788-6790
ORF1ab/nsp31357L1357TL2175TnonsynTTaACa620.3333336788-6790
ORF1ab/nsp31357L1357TL2175TnonsynTTAACG620.3333336788-6790
ORF1ab/nsp31357L1357TL2175TnonsynTTAACT620.3333336788-6790
ORF1ab/nsp31357L1357del2L2175del2deltTAt--5516788-6790
ORF1ab/nsp31357L1357SL2175SnonsyntTatCa530.66788-6790
ORF1ab/nsp31357L1357SL2175SnonsynTTAAGT520.46788-6790
ORF1ab/nsp31357L1357GL2175GnonsynTTAGGT520.46788-6790
ORF1ab/nsp31357L1357GL2175GnonsynTTAGGG520.46788-6790
ORF1ab/nsp31357L1357GL2175GnonsynTTAGGC510.26788-6790
ORF1ab/nsp31357L1357VL2175VnonsynTtaGta4416788-6790
ORF1ab/nsp31357L1357AL2175AnonsynTTAGCG420.56788-6790
ORF1ab/nsp31357L1357AL2175AnonsynTTAGCT420.56788-6790
ORF1ab/nsp31357L1357IL2175InonsynTtaAta2216788-6790
ORF1ab/nsp31357L1357RL2175RnonsynTTAAGG2216788-6790
ORF1ab/nsp31357L1357XL2175XnonsyntTatGa210.56788-6790
ORF1ab/nsp31357L1357XL2175XnonsyntTatAa210.56788-6790
ORF1ab/nsp31357L1357del1L2175del1deltTAtC-210.56788-6790
ORF1ab/nsp31357L1357del1L2175del1delTta-ta210.56788-6790
ORF1ab/nsp31357L1357YL2175YnonsyntTAtAC1116788-6790

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/nsp31357L1357LttAttG32123232All0.000614
ORF1ab/nsp31357L1357LTtaCta203232All0.000004
ORF1ab/nsp31357L1357LttAttG13531359AY.40.002106
ORF1ab/nsp31357L1357LTtaCta61359AY.40.000009
ORF1ab/nsp31357L1357LttAttG537540B.1.1.70.000481
ORF1ab/nsp31357L1357LTtaCta3540B.1.1.70.000003
ORF1ab/nsp31357L1357LttAttG521521B.1.177.800.996176
ORF1ab/nsp31357L1357LttAttG270270B.1.1770.003555
ORF1ab/nsp31357L1357delTTA---167167All0.000032
ORF1ab/nsp31357L1357LttAttG8888B.1.5260.002068
ORF1ab/nsp31357L1357delTTA---7373B.1.1.70.000065
ORF1ab/nsp31357L1357LttAttG6971B.1.617.20.00026
ORF1ab/nsp31357L1357LTtaCta271B.1.617.20.000008
ORF1ab/nsp31357L1357LttAttG3131AY.1020.000822
ORF1ab/nsp31357L1357LttAttG2929AY.390.000717
ORF1ab/nsp31357L1357LttAttG2828AY.430.000124
ORF1ab/nsp31357L1357LttAttG2727B.1.20.000238
ORF1ab/nsp31357L1357LttAttG2727C.370.003134
ORF1ab/nsp31357L1357LttAttG2323AY.300.009102
ORF1ab/nsp31357L1357KTTaAAa1515All0.000003
ORF1ab/nsp31357L1357KTTaAAa1515AY.1100.00169
ORF1ab/nsp31357L1357LttAttG1515AY.360.002223
ORF1ab/nsp31357L1357delTTA---1515B.1.1770.000198
ORF1ab/nsp31357L1357LttAttG1314AY.30.000129
ORF1ab/nsp31357L1357LTtaCta114AY.30.00001
ORF1ab/nsp31357L1357LttAttG1212AY.1030.000075
ORF1ab/nsp31357L1357LttAttG1111P.1.140.000526
ORF1ab/nsp31357L1357delTTA---1010AY.40.000016
ORF1ab/nsp31357L1357LttAttG99B.10.000082
ORF1ab/nsp31357L1357LttAttG88A.10.002255
ORF1ab/nsp31357L1357LttAttG77A.20.004633
ORF1ab/nsp31357L1357LttAttG77A.2.50.003493
ORF1ab/nsp31357L1357FttAttT47All0.000001
ORF1ab/nsp31357L1357FttAttC37All0.000001
ORF1ab/nsp31357L1357LttAttG77B.1.4290.000165
ORF1ab/nsp31357L1357LttAttG77P.10.00011
ORF1ab/nsp31357L1357TTTAACG260.111111
ORF1ab/nsp31357L1357TTTaACa260.111111
ORF1ab/nsp31357L1357TTTAACT260.111111
ORF1ab/nsp31357L1357TTTAACT26All0
ORF1ab/nsp31357L1357TTTAACG26All0
ORF1ab/nsp31357L1357TTTaACa26All0
ORF1ab/nsp31357L1357delTTA---66AY.4.50.000645
ORF1ab/nsp31357L1357LttAttG66AY.440.000037
ORF1ab/nsp31357L1357LTtaCta55AD.20.001095
ORF1ab/nsp31357L1357del2tTAt--55All0.000001
ORF1ab/nsp31357L1357StTatCa35All0.000001
ORF1ab/nsp31357L1357STTAAGT25All0
ORF1ab/nsp31357L1357GTTAGGG25All0
ORF1ab/nsp31357L1357GTTAGGT25All0
ORF1ab/nsp31357L1357GTTAGGC15All0
ORF1ab/nsp31357L1357LttAttG55AY.250.00003
ORF1ab/nsp31357L1357LttAttG55AY.260.000142
ORF1ab/nsp31357L1357LttAttG45B.1.10.000073
ORF1ab/nsp31357L1357LTtaCta15B.1.10.000018
ORF1ab/nsp31357L1357LttAttG55B.1.214.20.002998
ORF1ab/nsp31357L1357GTTAGGT240.111111
ORF1ab/nsp31357L1357GTTAGGG240.111111
ORF1ab/nsp31357L1357ATTAGCG240.111111
ORF1ab/nsp31357L1357ATTAGCT240.111111
ORF1ab/nsp31357L1357VTtaGta44All0.000001
ORF1ab/nsp31357L1357ATTAGCT24All0
ORF1ab/nsp31357L1357ATTAGCG24All0
ORF1ab/nsp31357L1357LttAttG44AY.200.000155
ORF1ab/nsp31357L1357delTTA---44AY.430.000018
ORF1ab/nsp31357L1357delTTA---44B.1.10.000073
ORF1ab/nsp31357L1357LttAttG44B.1.1.5190.000159
ORF1ab/nsp31357L1357delTTA---44B.1.617.20.000015
ORF1ab/nsp31357L1357LttAttG33AY.1180.000188
ORF1ab/nsp31357L1357LttAttG33AY.4.20.000065
ORF1ab/nsp31357L1357delTTA---33AY.50.000062
ORF1ab/nsp31357L1357delTTA---33B.10.000027
ORF1ab/nsp31357L1357LttAttG33B.1.2180.015464
ORF1ab/nsp31357L1357LttAttG33B.1.5540.013216
ORF1ab/nsp31357L1357LttAttG33Q.40.001364
ORF1ab/nsp31357L1357RTTAAGG220.111111
ORF1ab/nsp31357L1357STTAAGT220.111111
ORF1ab/nsp31357L1357ITtaAta22All0
ORF1ab/nsp31357L1357RTTAAGG22All0
ORF1ab/nsp31357L1357XtTatAa12All0
ORF1ab/nsp31357L1357del1Tta-ta12All0
ORF1ab/nsp31357L1357del1tTAtC-12All0
ORF1ab/nsp31357L1357XtTatGa12All0
ORF1ab/nsp31357L1357LttAttG22AU.30.004219
ORF1ab/nsp31357L1357LTtaCta12AY.1170.000085
ORF1ab/nsp31357L1357LttAttG12AY.1170.000085
ORF1ab/nsp31357L1357VTtaGta22AY.850.000854
ORF1ab/nsp31357L1357delTTA---22AY.90.000135
ORF1ab/nsp31357L1357LttAttG22AY.9.20.000073
ORF1ab/nsp31357L1357LttAttG22B.1.1.250.001137
ORF1ab/nsp31357L1357LttAttG22B.1.1.3040.005618
ORF1ab/nsp31357L1357LttAttG22B.1.1.3170.000823
ORF1ab/nsp31357L1357del2tTAt--22B.1.1.70.000002
ORF1ab/nsp31357L1357LttAttG22B.1.1470.001512
ORF1ab/nsp31357L1357LttAttG22B.1.177.150.001262
ORF1ab/nsp31357L1357delTTA---22B.1.177.160.001329
ORF1ab/nsp31357L1357delTTA---22B.1.177.180.00232
ORF1ab/nsp31357L1357delTTA---22B.1.177.560.001335
ORF1ab/nsp31357L1357LttAttG22B.1.2580.000133
ORF1ab/nsp31357L1357LttAttG12B.1.3510.00003
ORF1ab/nsp31357L1357LTtaCta12B.1.3510.00003
ORF1ab/nsp31357L1357LttAttG22B.1.5960.000174
ORF1ab/nsp31357L1357LttAttG11A.210.00277
ORF1ab/nsp31357L1357YtTAtAC11All0
ORF1ab/nsp31357L1357delTTA---11AY.1000.000046
ORF1ab/nsp31357L1357LttAttG11AY.1000.000046
ORF1ab/nsp31357L1357LttAttG11AY.1010.00049
ORF1ab/nsp31357L1357LttAttG11AY.1060.000335
ORF1ab/nsp31357L1357LttAttG11AY.1070.000466
ORF1ab/nsp31357L1357LttAttG11AY.1110.000183
ORF1ab/nsp31357L1357LttAttG11AY.1130.000142
ORF1ab/nsp31357L1357delTTA---11AY.1200.000037
ORF1ab/nsp31357L1357StTatCa11AY.230.00007
ORF1ab/nsp31357L1357LttAttG11AY.29.10.000221
ORF1ab/nsp31357L1357LttAttG11AY.330.000067
ORF1ab/nsp31357L1357delTTA---11AY.360.000148
ORF1ab/nsp31357L1357delTTA---11AY.390.000025
ORF1ab/nsp31357L1357ITtaAta11AY.40.000002
ORF1ab/nsp31357L1357FttAttT11AY.40.000002
ORF1ab/nsp31357L1357LttAttG11AY.420.00004
ORF1ab/nsp31357L1357VTtaGta11AY.430.000004
ORF1ab/nsp31357L1357del2tTAt--11AY.440.000006
ORF1ab/nsp31357L1357delTTA---11AY.46.20.000635
ORF1ab/nsp31357L1357LttAttG11AY.470.000031
ORF1ab/nsp31357L1357LttAttG11AY.50.000021
ORF1ab/nsp31357L1357delTTA---11AY.520.000814
ORF1ab/nsp31357L1357LttAttG11AY.540.000095
ORF1ab/nsp31357L1357LttAttG11AY.590.00053
ORF1ab/nsp31357L1357delTTA---11AY.60.000041
ORF1ab/nsp31357L1357delTTA---11AY.600.000938
ORF1ab/nsp31357L1357delTTA---11AY.650.000533
ORF1ab/nsp31357L1357delTTA---11AY.730.000665
ORF1ab/nsp31357L1357LttAttG11AY.740.000116
ORF1ab/nsp31357L1357delTTA---11AY.750.000056
ORF1ab/nsp31357L1357LttAttG11AY.750.000056
ORF1ab/nsp31357L1357LttAttG11AY.790.001211
ORF1ab/nsp31357L1357delTTA---11AY.9.20.000037
ORF1ab/nsp31357L1357LttAttG11AY.980.000079
ORF1ab/nsp31357L1357LttAttG11AY.98.10.000048
ORF1ab/nsp31357L1357delTTA---11AY.99.10.001553
ORF1ab/nsp31357L1357LttAttG11AY.99.20.000092
ORF1ab/nsp31357L1357del1tTAtC-11B0.000128
ORF1ab/nsp31357L1357FttAttC11B.10.000009
ORF1ab/nsp31357L1357StTatCa11B.1.10.000018
ORF1ab/nsp31357L1357del2tTAt--11B.1.10.000018
ORF1ab/nsp31357L1357LttAttG11B.1.1.1590.004673
ORF1ab/nsp31357L1357LttAttG11B.1.1.1700.001247
ORF1ab/nsp31357L1357YtTAtAC11B.1.1.1740.003378
ORF1ab/nsp31357L1357FttAttC11B.1.1.1740.003378
ORF1ab/nsp31357L1357XtTatAa11B.1.1.1740.003378
ORF1ab/nsp31357L1357LttAttG11B.1.1.1890.001513
ORF1ab/nsp31357L1357LttAttG11B.1.1.2070.001182
ORF1ab/nsp31357L1357delTTA---11B.1.1.3110.000358
ORF1ab/nsp31357L1357delTTA---11B.1.1.3120.001912
ORF1ab/nsp31357L1357LttAttG11B.1.1.3180.000302
ORF1ab/nsp31357L1357delTTA---11B.1.1.3480.000796
ORF1ab/nsp31357L1357delTTA---11B.1.1.3610.045455
ORF1ab/nsp31357L1357delTTA---11B.1.1.370.000193
ORF1ab/nsp31357L1357delTTA---11B.1.1.3720.000689
ORF1ab/nsp31357L1357delTTA---11B.1.1.4090.002833
ORF1ab/nsp31357L1357LttAttG11B.1.1.4200.001006
ORF1ab/nsp31357L1357FttAttC11B.1.1.4320.001266
ORF1ab/nsp31357L1357LttAttG11B.1.1.460.004367
ORF1ab/nsp31357L1357LttAttG11B.1.1.4640.001473
ORF1ab/nsp31357L1357StTatCa11B.1.1.5190.00004
ORF1ab/nsp31357L1357FttAttT11B.1.1.5190.00004
ORF1ab/nsp31357L1357ITtaAta11B.1.1.70.000001
ORF1ab/nsp31357L1357LttAttG11B.1.1490.003425
ORF1ab/nsp31357L1357delTTA---11B.1.1600.000031
ORF1ab/nsp31357L1357del2tTAt--11B.1.1770.000013
ORF1ab/nsp31357L1357delTTA---11B.1.177.150.000631
ORF1ab/nsp31357L1357LttAttG11B.1.177.210.000076
ORF1ab/nsp31357L1357LttAttG11B.1.177.330.001645
ORF1ab/nsp31357L1357delTTA---11B.1.177.40.000211
ORF1ab/nsp31357L1357delTTA---11B.1.177.540.000606
ORF1ab/nsp31357L1357delTTA---11B.1.177.60.000977
ORF1ab/nsp31357L1357delTTA---11B.1.177.70.000165
ORF1ab/nsp31357L1357LttAttG11B.1.177.730.000566
ORF1ab/nsp31357L1357LttAttG11B.1.177.80.000752
ORF1ab/nsp31357L1357delTTA---11B.1.177.810.000189
ORF1ab/nsp31357L1357delTTA---11B.1.177.870.000728
ORF1ab/nsp31357L1357FttAttT11B.1.20.000009
ORF1ab/nsp31357L1357delTTA---11B.1.2210.000071
ORF1ab/nsp31357L1357LttAttG11B.1.2210.000071
ORF1ab/nsp31357L1357LttAttG11B.1.2340.000132
ORF1ab/nsp31357L1357delTTA---11B.1.258.30.001675
ORF1ab/nsp31357L1357FttAttT11B.1.3510.00003
ORF1ab/nsp31357L1357LttAttG11B.1.351.20.000303
ORF1ab/nsp31357L1357delTTA---11B.1.360.000146
ORF1ab/nsp31357L1357delTTA---11B.1.36.170.000494
ORF1ab/nsp31357L1357LttAttG11B.1.36.310.001751
ORF1ab/nsp31357L1357LttAttG11B.1.3750.00082
ORF1ab/nsp31357L1357LttAttG11B.1.3910.001127
ORF1ab/nsp31357L1357LttAttG11B.1.4280.00102
ORF1ab/nsp31357L1357VTtaGta11B.1.5260.000024
ORF1ab/nsp31357L1357LttAttG11B.1.5820.000491
ORF1ab/nsp31357L1357LttAttG11B.1.5950.000261
ORF1ab/nsp31357L1357del1Tta-ta11B.1.617.20.000004
ORF1ab/nsp31357L1357GTTAGGC11B.1.617.20.000004
ORF1ab/nsp31357L1357delTTA---11B.1.6210.000089
ORF1ab/nsp31357L1357delTTA---11B.1.6300.005236
ORF1ab/nsp31357L1357delTTA---11B.4.40.018868
ORF1ab/nsp31357L1357delTTA---11B.400.000364
ORF1ab/nsp31357L1357XtTatGa11C.350.000774
ORF1ab/nsp31357L1357LttAttG11N.60.007092
ORF1ab/nsp31357L1357delTTA---11P.10.000016
ORF1ab/nsp31357L1357LttAttG11P.1.170.000162
ORF1ab/nsp31357L1357LttAttG11Q.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.