CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 580

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/nsp3580I580VI1398VnonsynAtaGta2407240714457-4459
ORF1ab/nsp3580I580MI1398MnonsynatAatG27727714457-4459
ORF1ab/nsp3580I580LI1398LnonsynAtaTta1491380.9261754457-4459
ORF1ab/nsp3580I580LI1398LnonsynAtaCta14990.06040274457-4459
ORF1ab/nsp3580I580LI1398LnonsynAtACtT14910.006711414457-4459
ORF1ab/nsp3580I580LI1398LnonsynAtACtC14910.006711414457-4459
ORF1ab/nsp3580I580TI1398TnonsynaTaaCa10610614457-4459
ORF1ab/nsp3580I580delI1398deldelATA---777714457-4459
ORF1ab/nsp3580I580II1398IsynatAatC16120.754457-4459
ORF1ab/nsp3580I580II1398IsynatAatT1640.254457-4459
ORF1ab/nsp3580I580RI1398RnonsynaTaaGa4414457-4459
ORF1ab/nsp3580I580KI1398KnonsynaTaaAa4414457-4459
ORF1ab/nsp3580I580del2I1398del2delATa--a430.754457-4459
ORF1ab/nsp3580I580del2I1398del2delaTAa--410.254457-4459
ORF1ab/nsp3580I580AI1398AnonsynATaGCa2214457-4459
ORF1ab/nsp3580I580del1I1398del1delAta-ta210.54457-4459
ORF1ab/nsp3580I580del1I1398del1delatAat-210.54457-4459
ORF1ab/nsp3580I580CI1398CnonsynATATGC1114457-4459
ORF1ab/nsp3580I580EI1398EnonsynATaGAa1114457-4459
ORF1ab/nsp3580I580QI1398QnonsynATaCAa1114457-4459
ORF1ab/nsp3580I580NI1398NnonsynaTAaAT1114457-4459
ORF1ab/nsp3580I580HI1398HnonsynATACAT1114457-4459

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/nsp3580I580VAtaGta24072407All0.00046
ORF1ab/nsp3580I580VAtaGta16251625B.1.214.20.974221
ORF1ab/nsp3580I580MatAatG277277All0.000053
ORF1ab/nsp3580I580LAtaTta138149All0.000026
ORF1ab/nsp3580I580LAtaCta9149All0.000002
ORF1ab/nsp3580I580LAtACtT1149All0
ORF1ab/nsp3580I580LAtACtC1149All0
ORF1ab/nsp3580I580MatAatG137137B.1.3510.004073
ORF1ab/nsp3580I580VAtaGta134134B.1.214.30.957143
ORF1ab/nsp3580I580VAtaGta129129P.1.170.020867
ORF1ab/nsp3580I580VAtaGta110110B.1.214.41
ORF1ab/nsp3580I580TaTaaCa106106All0.00002
ORF1ab/nsp3580I580VAtaGta9090B.1.2140.32967
ORF1ab/nsp3580I580delATA---7777All0.000015
ORF1ab/nsp3580I580LAtaTta7070B.1.1.2650.22082
ORF1ab/nsp3580I580TaTaaCa6565B.1.177.210.004971
ORF1ab/nsp3580I580VAtaGta6060B.1.1.3120.114723
ORF1ab/nsp3580I580VAtaGta5050B.1.214.11
ORF1ab/nsp3580I580LAtaTta3737B.1.1.70.000033
ORF1ab/nsp3580I580MatAatG3333B.1.1.70.00003
ORF1ab/nsp3580I580VAtaGta3232B.1.1.70.000029
ORF1ab/nsp3580I580VAtaGta2727B.10.000247
ORF1ab/nsp3580I580delATA---2121B.1.1.70.000019
ORF1ab/nsp3580I580IatAatC1216All0.000002
ORF1ab/nsp3580I580IatAatT416All0.000001
ORF1ab/nsp3580I580VAtaGta1515AY.40.000023
ORF1ab/nsp3580I580VAtaGta1414B.1.2100.029851
ORF1ab/nsp3580I580VAtaGta1212AY.46.50.002381
ORF1ab/nsp3580I580MatAatG1111AY.280.020794
ORF1ab/nsp3580I580VAtaGta1010AY.260.000283
ORF1ab/nsp3580I580VAtaGta1010AY.4.20.000217
ORF1ab/nsp3580I580IatAatC99B.10.000082
ORF1ab/nsp3580I580MatAatG88AY.30.00008
ORF1ab/nsp3580I580TaTaaCa88B.1.1.2070.009456
ORF1ab/nsp3580I580VAtaGta88B.1.617.20.00003
ORF1ab/nsp3580I580VAtaGta77AY.250.000042
ORF1ab/nsp3580I580MatAatG77B.10.000064
ORF1ab/nsp3580I580VAtaGta77B.1.596.10.065421
ORF1ab/nsp3580I580LAtaTta77B.1.6210.00062
ORF1ab/nsp3580I580MatAatG66AY.40.000009
ORF1ab/nsp3580I580LAtaCta46AY.40.000006
ORF1ab/nsp3580I580LAtaTta26AY.40.000003
ORF1ab/nsp3580I580LAtaTta56AY.440.00003
ORF1ab/nsp3580I580LAtaCta16AY.440.000006
ORF1ab/nsp3580I580MatAatG66B.1.177.860.001101
ORF1ab/nsp3580I580VAtaGta66P.10.000095
ORF1ab/nsp3580I580MatAatG55AY.1030.000031
ORF1ab/nsp3580I580delATA---55B.1.1770.000066
ORF1ab/nsp3580I580VAtaGta44AD.20.000876
ORF1ab/nsp3580I580KaTaaAa44All0.000001
ORF1ab/nsp3580I580RaTaaGa44All0.000001
ORF1ab/nsp3580I580del2ATa--a34All0.000001
ORF1ab/nsp3580I580del2aTAa--14All0
ORF1ab/nsp3580I580VAtaGta44AY.1030.000025
ORF1ab/nsp3580I580VAtaGta44AY.1060.00134
ORF1ab/nsp3580I580delATA---44AY.40.000006
ORF1ab/nsp3580I580TaTaaCa44AY.40.000006
ORF1ab/nsp3580I580VAtaGta44AY.440.000024
ORF1ab/nsp3580I580delATA---44B.10.000037
ORF1ab/nsp3580I580MatAatG44B.1.1.3060.001754
ORF1ab/nsp3580I580MatAatG44P.1.170.000647
ORF1ab/nsp3580I580VAtaGta33AY.1170.000254
ORF1ab/nsp3580I580VAtaGta33AY.340.000291
ORF1ab/nsp3580I580MatAatG33AY.390.000074
ORF1ab/nsp3580I580MatAatG33AY.4.40.001227
ORF1ab/nsp3580I580VAtaGta33AY.470.000093
ORF1ab/nsp3580I580TaTaaCa33AY.470.000093
ORF1ab/nsp3580I580MatAatG33B.1.1.2160.002671
ORF1ab/nsp3580I580MatAatG33B.1.2580.0002
ORF1ab/nsp3580I580TaTaaCa33B.1.617.20.000011
ORF1ab/nsp3580I580MatAatG33B.1.617.20.000011
ORF1ab/nsp3580I580LAtaTta23B.1.617.20.000008
ORF1ab/nsp3580I580LAtACtC13B.1.617.20.000004
ORF1ab/nsp3580I580LAtACtT120.055556
ORF1ab/nsp3580I580LAtaCta120.055556
ORF1ab/nsp3580I580delATA---22A0.000774
ORF1ab/nsp3580I580LAtaTta22A.2.40.006734
ORF1ab/nsp3580I580AATaGCa22All0
ORF1ab/nsp3580I580del1atAat-12All0
ORF1ab/nsp3580I580del1Ata-ta12All0
ORF1ab/nsp3580I580MatAatG22AY.1020.000053
ORF1ab/nsp3580I580VAtaGta22AY.1020.000053
ORF1ab/nsp3580I580TaTaaCa22AY.1030.000012
ORF1ab/nsp3580I580TaTaaCa22AY.250.000012
ORF1ab/nsp3580I580MatAatG22AY.250.000012
ORF1ab/nsp3580I580MatAatG22AY.290.000032
ORF1ab/nsp3580I580VAtaGta22AY.30.00002
ORF1ab/nsp3580I580delATA---22AY.430.000009
ORF1ab/nsp3580I580VAtaGta22AY.430.000009
ORF1ab/nsp3580I580MatAatG22AY.440.000012
ORF1ab/nsp3580I580VAtaGta22AY.580.001815
ORF1ab/nsp3580I580VAtaGta22AY.610.00021
ORF1ab/nsp3580I580TaTaaCa22AY.750.000112
ORF1ab/nsp3580I580delATA---22AY.9.10.000167
ORF1ab/nsp3580I580TaTaaCa22AY.9.20.000073
ORF1ab/nsp3580I580TaTaaCa22B.10.000018
ORF1ab/nsp3580I580TaTaaCa22B.1.10.000036
ORF1ab/nsp3580I580LAtaTta22B.1.10.000036
ORF1ab/nsp3580I580MatAatG22B.1.1.3970.004505
ORF1ab/nsp3580I580VAtaGta22B.1.20.000018
ORF1ab/nsp3580I580delATA---22B.1.20.000018
ORF1ab/nsp3580I580delATA---22B.1.2140.007326
ORF1ab/nsp3580I580LAtaTta22B.1.2140.007326
ORF1ab/nsp3580I580VAtaGta22B.1.2320.001075
ORF1ab/nsp3580I580TaTaaCa22B.1.2580.000133
ORF1ab/nsp3580I580MatAatG22B.1.258.170.000208
ORF1ab/nsp3580I580VAtaGta22B.1.360.000292
ORF1ab/nsp3580I580VAtaGta22B.1.4590.008163
ORF1ab/nsp3580I580delATA---22B.1.6210.000177
ORF1ab/nsp3580I580VAtaGta22N.50.003534
ORF1ab/nsp3580I580MatAatG22P.10.000032
ORF1ab/nsp3580I580delATA---22P.10.000032
ORF1ab/nsp3580I580MatAatG22P.1.140.000096
ORF1ab/nsp3580I580QATaCAa110.055556
ORF1ab/nsp3580I580KaTaaAa110.055556
ORF1ab/nsp3580I580HATACAT110.055556
ORF1ab/nsp3580I580IatAatT110.055556
ORF1ab/nsp3580I580NaTAaAT110.055556
ORF1ab/nsp3580I580TaTaaCa11A0.000387
ORF1ab/nsp3580I580LAtaTta11A.20.000662
ORF1ab/nsp3580I580delATA---11A.2.20.001689
ORF1ab/nsp3580I580MatAatG11A.23.10.000704
ORF1ab/nsp3580I580EATaGAa11All0
ORF1ab/nsp3580I580CATATGC11All0
ORF1ab/nsp3580I580NaTAaAT11All0
ORF1ab/nsp3580I580QATaCAa11All0
ORF1ab/nsp3580I580HATACAT11All0
ORF1ab/nsp3580I580VAtaGta11AY.1110.000183
ORF1ab/nsp3580I580del2ATa--a11AY.1110.000183
ORF1ab/nsp3580I580delATA---11AY.1110.000183
ORF1ab/nsp3580I580delATA---11AY.1180.000063
ORF1ab/nsp3580I580MatAatG11AY.1190.000035
ORF1ab/nsp3580I580IatAatT11AY.1190.000035
ORF1ab/nsp3580I580AATaGCa11AY.120.10.000321
ORF1ab/nsp3580I580del2ATa--a11AY.120.10.000321
ORF1ab/nsp3580I580MatAatG11AY.140.000088
ORF1ab/nsp3580I580VAtaGta11AY.140.000088
ORF1ab/nsp3580I580LAtaTta11AY.260.000028
ORF1ab/nsp3580I580LAtaTta11AY.270.000065
ORF1ab/nsp3580I580TaTaaCa11AY.30.00001
ORF1ab/nsp3580I580LAtaCta11AY.320.000532
ORF1ab/nsp3580I580MatAatG11AY.330.000067
ORF1ab/nsp3580I580LAtaTta11AY.340.000097
ORF1ab/nsp3580I580TaTaaCa11AY.380.000499
ORF1ab/nsp3580I580VAtaGta11AY.39.10.00004
ORF1ab/nsp3580I580delATA---11AY.4.50.000107
ORF1ab/nsp3580I580MatAatG11AY.420.00004
ORF1ab/nsp3580I580MatAatG11AY.430.000004
ORF1ab/nsp3580I580AATaGCa11AY.440.000006
ORF1ab/nsp3580I580CATATGC11AY.440.000006
ORF1ab/nsp3580I580TaTaaCa11AY.440.000006
ORF1ab/nsp3580I580TaTaaCa11AY.450.000122
ORF1ab/nsp3580I580TaTaaCa11AY.46.20.000635
ORF1ab/nsp3580I580MatAatG11AY.50.000021
ORF1ab/nsp3580I580delATA---11AY.520.000814
ORF1ab/nsp3580I580VAtaGta11AY.590.00053
ORF1ab/nsp3580I580MatAatG11AY.650.000533
ORF1ab/nsp3580I580delATA---11AY.670.000464
ORF1ab/nsp3580I580delATA---11AY.750.000056
ORF1ab/nsp3580I580VAtaGta11AY.75.10.00018
ORF1ab/nsp3580I580TaTaaCa11AY.790.001211
ORF1ab/nsp3580I580VAtaGta11AY.850.000427
ORF1ab/nsp3580I580MatAatG11AY.9.20.000037
ORF1ab/nsp3580I580delATA---11AY.950.000761
ORF1ab/nsp3580I580RaTaaGa11AY.990.001049
ORF1ab/nsp3580I580VAtaGta11B0.000128
ORF1ab/nsp3580I580delATA---11B0.000128
ORF1ab/nsp3580I580EATaGAa11B.10.000009
ORF1ab/nsp3580I580LAtaTta11B.10.000009
ORF1ab/nsp3580I580RaTaaGa11B.1.10.000018
ORF1ab/nsp3580I580delATA---11B.1.10.000018
ORF1ab/nsp3580I580MatAatG11B.1.10.000018
ORF1ab/nsp3580I580delATA---11B.1.1.100.001115
ORF1ab/nsp3580I580delATA---11B.1.1.1420.017544
ORF1ab/nsp3580I580VAtaGta11B.1.1.2220.000204
ORF1ab/nsp3580I580MatAatG11B.1.1.250.000569
ORF1ab/nsp3580I580VAtaGta11B.1.1.2840.000107
ORF1ab/nsp3580I580TaTaaCa11B.1.1.3040.002809
ORF1ab/nsp3580I580delATA---11B.1.1.3150.008475
ORF1ab/nsp3580I580LAtaTta11B.1.1.3260.001761
ORF1ab/nsp3580I580KaTaaAa11B.1.1.3680.003086
ORF1ab/nsp3580I580delATA---11B.1.1.390.00051
ORF1ab/nsp3580I580delATA---11B.1.1.4090.002833
ORF1ab/nsp3580I580MatAatG11B.1.1.500.000679
ORF1ab/nsp3580I580MatAatG11B.1.1.5000.02
ORF1ab/nsp3580I580delATA---11B.1.1.5190.00004
ORF1ab/nsp3580I580VAtaGta11B.1.1.5280.004808
ORF1ab/nsp3580I580del2aTAa--11B.1.1.70.000001
ORF1ab/nsp3580I580IatAatC11B.1.1.70.000001
ORF1ab/nsp3580I580RaTaaGa11B.1.1.70.000001
ORF1ab/nsp3580I580delATA---11B.1.1570.002985
ORF1ab/nsp3580I580LAtaTta11B.1.1600.000031
ORF1ab/nsp3580I580LAtaTta11B.1.1770.000013
ORF1ab/nsp3580I580delATA---11B.1.177.170.000821
ORF1ab/nsp3580I580delATA---11B.1.177.40.000211
ORF1ab/nsp3580I580delATA---11B.1.177.560.000668
ORF1ab/nsp3580I580delATA---11B.1.177.870.000728
ORF1ab/nsp3580I580IatAatC11B.1.20.000009
ORF1ab/nsp3580I580MatAatG11B.1.20.000009
ORF1ab/nsp3580I580del1Ata-ta11B.1.20.000009
ORF1ab/nsp3580I580LAtaCta11B.1.20.000009
ORF1ab/nsp3580I580delATA---11B.1.2210.000071
ORF1ab/nsp3580I580LAtaCta11B.1.2430.00007
ORF1ab/nsp3580I580VAtaGta11B.1.2580.000067
ORF1ab/nsp3580I580VAtaGta11B.1.258.110.000396
ORF1ab/nsp3580I580KaTaaAa11B.1.2980.002114
ORF1ab/nsp3580I580MatAatG11B.1.3110.000275
ORF1ab/nsp3580I580delATA---11B.1.3190.003049
ORF1ab/nsp3580I580del2ATa--a11B.1.3510.00003
ORF1ab/nsp3580I580delATA---11B.1.360.000146
ORF1ab/nsp3580I580MatAatG11B.1.360.000146
ORF1ab/nsp3580I580IatAatT11B.1.4270.00005
ORF1ab/nsp3580I580VAtaGta11B.1.4290.000024
ORF1ab/nsp3580I580MatAatG11B.1.4290.000024
ORF1ab/nsp3580I580MatAatG11B.1.4620.007246
ORF1ab/nsp3580I580MatAatG11B.1.5090.000866
ORF1ab/nsp3580I580MatAatG11B.1.5260.000024
ORF1ab/nsp3580I580LAtaTta11B.1.5260.000024
ORF1ab/nsp3580I580MatAatG11B.1.5610.000397
ORF1ab/nsp3580I580del1atAat-11B.1.5760.000907
ORF1ab/nsp3580I580delATA---11B.1.5760.000907
ORF1ab/nsp3580I580MatAatG11B.1.5960.000087
ORF1ab/nsp3580I580IatAatT11B.1.5960.000087
ORF1ab/nsp3580I580VAtaGta11B.1.6060.006024
ORF1ab/nsp3580I580delATA---11B.1.617.20.000004
ORF1ab/nsp3580I580RaTaaGa11B.1.617.20.000004
ORF1ab/nsp3580I580KaTaaAa11B.1.617.20.000004
ORF1ab/nsp3580I580delATA---11B.1.617.30.002985
ORF1ab/nsp3580I580MatAatG11B.1.6200.000946
ORF1ab/nsp3580I580VAtaGta11B.1.910.002075
ORF1ab/nsp3580I580delATA---11B.150.017544
ORF1ab/nsp3580I580MatAatG11P.1.130.000898
ORF1ab/nsp3580I580MatAatG11P.1.150.000232
ORF1ab/nsp3580I580delATA---11P.1.40.000977
ORF1ab/nsp3580I580VAtaGta11P.1.70.000319
ORF1ab/nsp3580I580IatAatC11P.1.70.000319
ORF1ab/nsp3580I580TaTaaCa11Q.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.