CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1192

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/nsp31192I1192TI2010TnonsynaTaaCa1864186416293-6295
ORF1ab/nsp31192I1192VI2010VnonsynAtaGta7347330.9986386293-6295
ORF1ab/nsp31192I1192VI2010VnonsynAtAGtG73410.00136246293-6295
ORF1ab/nsp31192I1192MI2010MnonsynatAatG62662616293-6295
ORF1ab/nsp31192I1192delI2010deldelATA---191916293-6295
ORF1ab/nsp31192I1192LI2010LnonsynAtaTta12100.8333336293-6295
ORF1ab/nsp31192I1192LI2010LnonsynAtaCta1220.1666676293-6295
ORF1ab/nsp31192I1192II2010IsynatAatT540.86293-6295
ORF1ab/nsp31192I1192II2010IsynatAatC510.26293-6295
ORF1ab/nsp31192I1192KI2010KnonsynaTaaAa1116293-6295
ORF1ab/nsp31192I1192del1I2010del1delatAat-1116293-6295

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/nsp31192I1192TaTaaCa18641864All0.000357
ORF1ab/nsp31192I1192TaTaaCa10011001AY.1030.006215
ORF1ab/nsp31192I1192VAtaGta733734All0.00014
ORF1ab/nsp31192I1192VAtAGtG1734All0
ORF1ab/nsp31192I1192MatAatG626626All0.00012
ORF1ab/nsp31192I1192VAtaGta238238AY.40.00037
ORF1ab/nsp31192I1192MatAatG207207B.1.1770.002726
ORF1ab/nsp31192I1192TaTaaCa169169AY.40.000263
ORF1ab/nsp31192I1192TaTaaCa154154B.1.617.20.00058
ORF1ab/nsp31192I1192TaTaaCa138138B.1.1821
ORF1ab/nsp31192I1192MatAatG102102B.1.1.70.000091
ORF1ab/nsp31192I1192TaTaaCa9090B.1.1.70.000081
ORF1ab/nsp31192I1192VAtaGta7070B.1.1.70.000063
ORF1ab/nsp31192I1192VAtaGta6666B.10.000605
ORF1ab/nsp31192I1192VAtaGta4747B.1.617.20.000177
ORF1ab/nsp31192I1192MatAatG4040B.1.619.10.025657
ORF1ab/nsp31192I1192MatAatG3434B.1.617.20.000128
ORF1ab/nsp31192I1192VAtaGta3333AY.430.000146
ORF1ab/nsp31192I1192VAtaGta3030B.1.1770.000395
ORF1ab/nsp31192I1192TaTaaCa2626AY.430.000115
ORF1ab/nsp31192I1192MatAatG2424AY.9.20.000882
ORF1ab/nsp31192I1192MatAatG2222AY.1190.000777
ORF1ab/nsp31192I1192VAtaGta2222AY.4.20.000477
ORF1ab/nsp31192I1192TaTaaCa2222B.1.1.2310.068111
ORF1ab/nsp31192I1192TaTaaCa2020AY.420.000805
ORF1ab/nsp31192I1192delATA---1919All0.000004
ORF1ab/nsp31192I1192MatAatG1919B.1.20.000167
ORF1ab/nsp31192I1192MatAatG1717AY.1030.000106
ORF1ab/nsp31192I1192VAtaGta1717AY.250.000102
ORF1ab/nsp31192I1192TaTaaCa1717R.10.00153
ORF1ab/nsp31192I1192TaTaaCa1616AY.540.001526
ORF1ab/nsp31192I1192TaTaaCa1515AY.250.00009
ORF1ab/nsp31192I1192TaTaaCa1515B.1.258.110.005945
ORF1ab/nsp31192I1192MatAatG1414AY.40.000022
ORF1ab/nsp31192I1192MatAatG1414B.1.177.600.003058
ORF1ab/nsp31192I1192TaTaaCa1313B.10.000119
ORF1ab/nsp31192I1192LAtaTta1012All0.000002
ORF1ab/nsp31192I1192LAtaCta212All0
ORF1ab/nsp31192I1192VAtaGta1212AY.440.000073
ORF1ab/nsp31192I1192VAtaGta1212AY.60.000494
ORF1ab/nsp31192I1192VAtaGta1111AY.75.10.001983
ORF1ab/nsp31192I1192TaTaaCa1111B.1.2430.000765
ORF1ab/nsp31192I1192VAtaGta1010B.1.1.2910.007424
ORF1ab/nsp31192I1192MatAatG1010B.1.3510.000297
ORF1ab/nsp31192I1192VAtaGta99AY.30.00009
ORF1ab/nsp31192I1192VAtaGta99B.1.2430.000626
ORF1ab/nsp31192I1192VAtaGta88AY.1190.000282
ORF1ab/nsp31192I1192VAtaGta88AY.260.000226
ORF1ab/nsp31192I1192TaTaaCa88AY.440.000049
ORF1ab/nsp31192I1192TaTaaCa88B.1.1.2940.010127
ORF1ab/nsp31192I1192MatAatG88B.1.1.4320.010127
ORF1ab/nsp31192I1192TaTaaCa88B.1.6370.000585
ORF1ab/nsp31192I1192TaTaaCa77AY.1020.000186
ORF1ab/nsp31192I1192TaTaaCa77AY.1180.000439
ORF1ab/nsp31192I1192VAtaGta77AY.290.00011
ORF1ab/nsp31192I1192MatAatG77AY.30.00007
ORF1ab/nsp31192I1192VAtaGta77AY.390.000173
ORF1ab/nsp31192I1192TaTaaCa77AY.4.20.000152
ORF1ab/nsp31192I1192MatAatG77AY.430.000031
ORF1ab/nsp31192I1192VAtaGta77AY.610.000733
ORF1ab/nsp31192I1192TaTaaCa77P.1.140.000335
ORF1ab/nsp31192I1192MatAatG66AY.250.000036
ORF1ab/nsp31192I1192TaTaaCa66AY.260.00017
ORF1ab/nsp31192I1192MatAatG66AY.440.000037
ORF1ab/nsp31192I1192VAtaGta66AY.46.50.00119
ORF1ab/nsp31192I1192MatAatG66B.10.000055
ORF1ab/nsp31192I1192MatAatG66B.1.1.700.002046
ORF1ab/nsp31192I1192IatAatT45All0.000001
ORF1ab/nsp31192I1192IatAatC15All0
ORF1ab/nsp31192I1192TaTaaCa55AY.1200.000186
ORF1ab/nsp31192I1192TaTaaCa55B.1.10.000091
ORF1ab/nsp31192I1192VAtaGta55B.1.20.000044
ORF1ab/nsp31192I1192MatAatG55B.1.5260.000118
ORF1ab/nsp31192I1192MatAatG55B.280.016393
ORF1ab/nsp31192I1192VAtaGta44AY.1030.000025
ORF1ab/nsp31192I1192TaTaaCa44AY.30.00004
ORF1ab/nsp31192I1192MatAatG44AY.390.000099
ORF1ab/nsp31192I1192MatAatG44AY.880.003537
ORF1ab/nsp31192I1192VAtaGta44B.1.1.4160.00362
ORF1ab/nsp31192I1192VAtaGta44B.1.1.5190.000159
ORF1ab/nsp31192I1192TaTaaCa44B.1.1.5190.000159
ORF1ab/nsp31192I1192LAtaTta44B.1.1.70.000004
ORF1ab/nsp31192I1192TaTaaCa44B.1.1600.000125
ORF1ab/nsp31192I1192TaTaaCa44B.1.20.000035
ORF1ab/nsp31192I1192VAtaGta44B.1.2340.000528
ORF1ab/nsp31192I1192TaTaaCa44B.1.3110.001098
ORF1ab/nsp31192I1192VAtaGta44B.1.3960.002823
ORF1ab/nsp31192I1192TaTaaCa44B.1.4290.000094
ORF1ab/nsp31192I1192MatAatG44P.1.150.000929
ORF1ab/nsp31192I1192TaTaaCa33AY.1000.000138
ORF1ab/nsp31192I1192MatAatG33AY.1020.00008
ORF1ab/nsp31192I1192VAtaGta33AY.1200.000112
ORF1ab/nsp31192I1192TaTaaCa33AY.290.000047
ORF1ab/nsp31192I1192VAtaGta33AY.3.10.000256
ORF1ab/nsp31192I1192TaTaaCa33AY.470.000093
ORF1ab/nsp31192I1192MatAatG33AY.470.000093
ORF1ab/nsp31192I1192VAtaGta33AY.50.000062
ORF1ab/nsp31192I1192TaTaaCa33AY.610.000314
ORF1ab/nsp31192I1192MatAatG33AY.7.10.000338
ORF1ab/nsp31192I1192delATA---33B.1.1.70.000003
ORF1ab/nsp31192I1192TaTaaCa33B.1.1770.00004
ORF1ab/nsp31192I1192VAtaGta33B.1.5260.000071
ORF1ab/nsp31192I1192VAtaGta22A.23.10.001408
ORF1ab/nsp31192I1192VAtaGta22AY.350.000466
ORF1ab/nsp31192I1192TaTaaCa22AY.390.000049
ORF1ab/nsp31192I1192VAtaGta22AY.420.00008
ORF1ab/nsp31192I1192TaTaaCa22AY.460.000208
ORF1ab/nsp31192I1192VAtaGta22AY.460.000208
ORF1ab/nsp31192I1192MatAatG22AY.46.20.001271
ORF1ab/nsp31192I1192MatAatG22AY.50.000041
ORF1ab/nsp31192I1192MatAatG22AY.60.000082
ORF1ab/nsp31192I1192MatAatG22AY.700.000417
ORF1ab/nsp31192I1192VAtaGta22AY.740.000231
ORF1ab/nsp31192I1192TaTaaCa22AY.740.000231
ORF1ab/nsp31192I1192VAtaGta22AY.9.10.000167
ORF1ab/nsp31192I1192MatAatG22AY.98.10.000097
ORF1ab/nsp31192I1192VAtaGta22AY.98.10.000097
ORF1ab/nsp31192I1192TaTaaCa22AY.99.20.000184
ORF1ab/nsp31192I1192delATA---22B.10.000018
ORF1ab/nsp31192I1192VAtaGta22B.1.10.000036
ORF1ab/nsp31192I1192VAtaGta22B.1.1.2220.000408
ORF1ab/nsp31192I1192MatAatG22B.1.1.280.000622
ORF1ab/nsp31192I1192delATA---22B.1.1.3150.016949
ORF1ab/nsp31192I1192TaTaaCa22B.1.1.3260.003521
ORF1ab/nsp31192I1192VAtaGta22B.1.1600.000062
ORF1ab/nsp31192I1192MatAatG22B.1.177.730.001133
ORF1ab/nsp31192I1192MatAatG22B.1.3690.00057
ORF1ab/nsp31192I1192VAtaGta22B.1.4290.000047
ORF1ab/nsp31192I1192MatAatG22B.1.4290.000047
ORF1ab/nsp31192I1192VAtaGta22B.1.5270.007407
ORF1ab/nsp31192I1192VAtaGta22B.1.5870.003795
ORF1ab/nsp31192I1192VAtaGta22B.1.6230.001073
ORF1ab/nsp31192I1192MatAatG22B.1.6370.000146
ORF1ab/nsp31192I1192VAtaGta22P.10.000032
ORF1ab/nsp31192I1192TaTaaCa22P.10.000032
ORF1ab/nsp31192I1192VAtaGta22P.1.150.000465
ORF1ab/nsp31192I1192TaTaaCa11A.2.50.000499
ORF1ab/nsp31192I1192TaTaaCa11A.2.5.20.001572
ORF1ab/nsp31192I1192TaTaaCa11A.50.001923
ORF1ab/nsp31192I1192VAtaGta11AA.40.009091
ORF1ab/nsp31192I1192TaTaaCa11AD.20.000219
ORF1ab/nsp31192I1192VAtaGta11AE.80.000489
ORF1ab/nsp31192I1192del1atAat-11All0
ORF1ab/nsp31192I1192KaTaaAa11All0
ORF1ab/nsp31192I1192TaTaaCa11AM.40.003571
ORF1ab/nsp31192I1192TaTaaCa11AY.100.00053
ORF1ab/nsp31192I1192MatAatG11AY.1000.000046
ORF1ab/nsp31192I1192delATA---11AY.1010.00049
ORF1ab/nsp31192I1192VAtaGta11AY.1020.000027
ORF1ab/nsp31192I1192VAtaGta11AY.1170.000085
ORF1ab/nsp31192I1192TaTaaCa11AY.1170.000085
ORF1ab/nsp31192I1192VAtaGta11AY.1210.000135
ORF1ab/nsp31192I1192VAtaGta11AY.130.000161
ORF1ab/nsp31192I1192TaTaaCa11AY.160.00038
ORF1ab/nsp31192I1192MatAatG11AY.160.00038
ORF1ab/nsp31192I1192MatAatG11AY.230.00007
ORF1ab/nsp31192I1192VAtaGta11AY.230.00007
ORF1ab/nsp31192I1192VAtaGta11AY.23.10.000417
ORF1ab/nsp31192I1192delATA---11AY.250.000006
ORF1ab/nsp31192I1192MatAatG11AY.270.000065
ORF1ab/nsp31192I1192TaTaaCa11AY.29.10.000221
ORF1ab/nsp31192I1192TaTaaCa11AY.330.000067
ORF1ab/nsp31192I1192VAtaGta11AY.330.000067
ORF1ab/nsp31192I1192TaTaaCa11AY.340.000097
ORF1ab/nsp31192I1192VAtaGta11AY.34.10.00051
ORF1ab/nsp31192I1192MatAatG11AY.39.10.00004
ORF1ab/nsp31192I1192IatAatT11AY.40.000002
ORF1ab/nsp31192I1192LAtaTta11AY.40.000002
ORF1ab/nsp31192I1192delATA---11AY.430.000004
ORF1ab/nsp31192I1192TaTaaCa11AY.450.000122
ORF1ab/nsp31192I1192TaTaaCa11AY.46.20.000635
ORF1ab/nsp31192I1192MatAatG11AY.46.40.000165
ORF1ab/nsp31192I1192TaTaaCa11AY.46.40.000165
ORF1ab/nsp31192I1192VAtaGta11AY.5.30.000337
ORF1ab/nsp31192I1192VAtaGta11AY.540.000095
ORF1ab/nsp31192I1192TaTaaCa11AY.590.00053
ORF1ab/nsp31192I1192delATA---11AY.660.00107
ORF1ab/nsp31192I1192LAtaTta11AY.670.000464
ORF1ab/nsp31192I1192VAtaGta11AY.70.000196
ORF1ab/nsp31192I1192TaTaaCa11AY.75.10.00018
ORF1ab/nsp31192I1192delATA---11AY.850.000427
ORF1ab/nsp31192I1192TaTaaCa11AY.90.000068
ORF1ab/nsp31192I1192VAtAGtG11AY.9.20.000037
ORF1ab/nsp31192I1192TaTaaCa11AY.9.20.000037
ORF1ab/nsp31192I1192TaTaaCa11AY.920.000287
ORF1ab/nsp31192I1192LAtaTta11AY.930.000273
ORF1ab/nsp31192I1192MatAatG11AY.950.000761
ORF1ab/nsp31192I1192VAtaGta11AY.980.000079
ORF1ab/nsp31192I1192MatAatG11B0.000128
ORF1ab/nsp31192I1192IatAatT11B.10.000009
ORF1ab/nsp31192I1192LAtaTta11B.10.000009
ORF1ab/nsp31192I1192delATA---11B.1.10.000018
ORF1ab/nsp31192I1192MatAatG11B.1.1.2160.00089
ORF1ab/nsp31192I1192VAtaGta11B.1.1.3060.000438
ORF1ab/nsp31192I1192VAtaGta11B.1.1.3170.000412
ORF1ab/nsp31192I1192delATA---11B.1.1.3480.000796
ORF1ab/nsp31192I1192VAtaGta11B.1.1.3620.005618
ORF1ab/nsp31192I1192IatAatC11B.1.1.70.000001
ORF1ab/nsp31192I1192TaTaaCa11B.1.1.80.003584
ORF1ab/nsp31192I1192MatAatG11B.1.1600.000031
ORF1ab/nsp31192I1192TaTaaCa11B.1.160.120.00641
ORF1ab/nsp31192I1192delATA---11B.1.1770.000013
ORF1ab/nsp31192I1192TaTaaCa11B.1.177.120.000152
ORF1ab/nsp31192I1192LAtaCta11B.1.177.40.000211
ORF1ab/nsp31192I1192LAtaTta11B.1.177.620.001192
ORF1ab/nsp31192I1192TaTaaCa11B.1.177.620.001192
ORF1ab/nsp31192I1192delATA---11B.1.177.620.001192
ORF1ab/nsp31192I1192MatAatG11B.1.177.690.001484
ORF1ab/nsp31192I1192MatAatG11B.1.177.790.002342
ORF1ab/nsp31192I1192MatAatG11B.1.177.810.000189
ORF1ab/nsp31192I1192MatAatG11B.1.177.830.001481
ORF1ab/nsp31192I1192TaTaaCa11B.1.1990.004132
ORF1ab/nsp31192I1192del1atAat-11B.1.20.000009
ORF1ab/nsp31192I1192VAtaGta11B.1.2210.000071
ORF1ab/nsp31192I1192TaTaaCa11B.1.2370.004975
ORF1ab/nsp31192I1192IatAatT11B.1.2410.000812
ORF1ab/nsp31192I1192LAtaCta11B.1.2430.00007
ORF1ab/nsp31192I1192TaTaaCa11B.1.2580.000067
ORF1ab/nsp31192I1192MatAatG11B.1.258.110.000396
ORF1ab/nsp31192I1192VAtaGta11B.1.3110.000275
ORF1ab/nsp31192I1192MatAatG11B.1.3400.004292
ORF1ab/nsp31192I1192VAtaGta11B.1.3460.001311
ORF1ab/nsp31192I1192VAtaGta11B.1.3510.00003
ORF1ab/nsp31192I1192TaTaaCa11B.1.3510.00003
ORF1ab/nsp31192I1192TaTaaCa11B.1.351.20.000303
ORF1ab/nsp31192I1192TaTaaCa11B.1.360.000146
ORF1ab/nsp31192I1192MatAatG11B.1.36.290.000517
ORF1ab/nsp31192I1192VAtaGta11B.1.3690.000285
ORF1ab/nsp31192I1192MatAatG11B.1.3770.004566
ORF1ab/nsp31192I1192MatAatG11B.1.3960.000706
ORF1ab/nsp31192I1192VAtaGta11B.1.4220.000812
ORF1ab/nsp31192I1192MatAatG11B.1.4270.00005
ORF1ab/nsp31192I1192TaTaaCa11B.1.4270.00005
ORF1ab/nsp31192I1192VAtaGta11B.1.4280.00102
ORF1ab/nsp31192I1192VAtaGta11B.1.5170.000427
ORF1ab/nsp31192I1192MatAatG11B.1.5760.000907
ORF1ab/nsp31192I1192VAtaGta11B.1.5760.000907
ORF1ab/nsp31192I1192IatAatT11B.1.5770.000687
ORF1ab/nsp31192I1192VAtaGta11B.1.5950.000261
ORF1ab/nsp31192I1192LAtaTta11B.1.617.20.000004
ORF1ab/nsp31192I1192MatAatG11B.1.6210.000089
ORF1ab/nsp31192I1192TaTaaCa11B.1.6210.000089
ORF1ab/nsp31192I1192VAtaGta11B.1.6210.000089
ORF1ab/nsp31192I1192delATA---11B.1.6300.005236
ORF1ab/nsp31192I1192VAtaGta11B.1.6370.000073
ORF1ab/nsp31192I1192MatAatG11C.1.20.004255
ORF1ab/nsp31192I1192TaTaaCa11C.2.10.006667
ORF1ab/nsp31192I1192KaTaaAa11C.350.000774
ORF1ab/nsp31192I1192TaTaaCa11C.360.000911
ORF1ab/nsp31192I1192delATA---11C.370.000116
ORF1ab/nsp31192I1192TaTaaCa11D.20.000075
ORF1ab/nsp31192I1192TaTaaCa11N.50.001767
ORF1ab/nsp31192I1192MatAatG11P.10.000016
ORF1ab/nsp31192I1192delATA---11P.10.000016
ORF1ab/nsp31192I1192VAtaGta11P.1.120.000484
ORF1ab/nsp31192I1192VAtaGta11P.1.140.000048
ORF1ab/nsp31192I1192VAtaGta11P.1.20.001156
ORF1ab/nsp31192I1192TaTaaCa11P.1.40.000977
ORF1ab/nsp31192I1192TaTaaCa11P.1.80.004785
ORF1ab/nsp31192I1192VAtaGta11P.70.004367
ORF1ab/nsp31192I1192TaTaaCa11Q.10.000126
ORF1ab/nsp31192I1192VAtaGta11Q.10.000126
ORF1ab/nsp31192I1192MatAatG11Q.30.000145
ORF1ab/nsp31192I1192VAtaGta11R.10.00009
ORF1ab/nsp31192I1192MatAatG11R.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.