CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 774

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/nsp3774Q774QQ1592QsyncaAcaG113461134615039-5041
ORF1ab/nsp3774Q774RQ1592RnonsyncAacGa136813660.9985385039-5041
ORF1ab/nsp3774Q774RQ1592RnonsyncAAcGT136810.0007309945039-5041
ORF1ab/nsp3774Q774RQ1592RnonsyncAAcGG136810.0007309945039-5041
ORF1ab/nsp3774Q774delQ1592deldelCAA---939315039-5041
ORF1ab/nsp3774Q774KQ1592KnonsynCaaAaa868615039-5041
ORF1ab/nsp3774Q774LQ1592LnonsyncAacTa575715039-5041
ORF1ab/nsp3774Q774HQ1592HnonsyncaAcaC37300.8108115039-5041
ORF1ab/nsp3774Q774HQ1592HnonsyncaAcaT3770.1891895039-5041
ORF1ab/nsp3774Q774XQ1592XnonsynCaaTaa9915039-5041
ORF1ab/nsp3774Q774PQ1592PnonsyncAacCa870.8755039-5041
ORF1ab/nsp3774Q774PQ1592PnonsyncAAcCC810.1255039-5041
ORF1ab/nsp3774Q774del1Q1592del1delCAaT-a310.3333335039-5041
ORF1ab/nsp3774Q774del1Q1592del1delCaa-aa310.3333335039-5041
ORF1ab/nsp3774Q774del1Q1592del1delcaAca-310.3333335039-5041
ORF1ab/nsp3774Q774GQ1592GnonsynCAAGGT1115039-5041
ORF1ab/nsp3774Q774TQ1592TnonsynCAaACa1115039-5041
ORF1ab/nsp3774Q774EQ1592EnonsynCaaGaa1115039-5041
ORF1ab/nsp3774Q774DQ1592DnonsynCaAGaC1115039-5041

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/nsp3774Q774QcaAcaG1134611346All0.00217
ORF1ab/nsp3774Q774QcaAcaG1107411074B.1.1.70.009914
ORF1ab/nsp3774Q774RcAacGa13661368All0.000261
ORF1ab/nsp3774Q774RcAAcGT11368All0
ORF1ab/nsp3774Q774RcAAcGG11368All0
ORF1ab/nsp3774Q774RcAacGa806806B.1.1.3160.745606
ORF1ab/nsp3774Q774RcAacGa156156B.1.6300.816754
ORF1ab/nsp3774Q774delCAA---9393All0.000018
ORF1ab/nsp3774Q774KCaaAaa8686All0.000016
ORF1ab/nsp3774Q774QcaAcaG7474B.1.6370.005407
ORF1ab/nsp3774Q774RcAacGa6868R.20.985507
ORF1ab/nsp3774Q774LcAacTa5757All0.000011
ORF1ab/nsp3774Q774QcaAcaG5454Q.80.008905
ORF1ab/nsp3774Q774RcAacGa4848B.1.10.000871
ORF1ab/nsp3774Q774RcAacGa4343B.10.000394
ORF1ab/nsp3774Q774HcaAcaC3037All0.000006
ORF1ab/nsp3774Q774HcaAcaT737All0.000001
ORF1ab/nsp3774Q774RcAacGa3636B.1.1.4081
ORF1ab/nsp3774Q774RcAacGa3434B.1.3930.971429
ORF1ab/nsp3774Q774delCAA---2929B.1.1.70.000026
ORF1ab/nsp3774Q774LcAacTa2525B.1.4270.001262
ORF1ab/nsp3774Q774LcAacTa2424B.1.1.70.000021
ORF1ab/nsp3774Q774QcaAcaG2323AY.840.010061
ORF1ab/nsp3774Q774RcAacGa1919B.1.1.4070.791667
ORF1ab/nsp3774Q774RcAacGa1819B.1.1.70.000016
ORF1ab/nsp3774Q774RcAAcGT119B.1.1.70.000001
ORF1ab/nsp3774Q774RcAacGa1717B.1.3780.116438
ORF1ab/nsp3774Q774KCaaAaa1616B.1.20.000141
ORF1ab/nsp3774Q774QcaAcaG1616B.1.3700.128
ORF1ab/nsp3774Q774delCAA---1515B.10.000137
ORF1ab/nsp3774Q774RcAacGa1414AY.250.000084
ORF1ab/nsp3774Q774KCaaAaa1313AY.470.000404
ORF1ab/nsp3774Q774RcAacGa1111B.1.1.2840.001181
ORF1ab/nsp3774Q774KCaaAaa1010B.1.617.20.000038
ORF1ab/nsp3774Q774XCaaTaa99All0.000002
ORF1ab/nsp3774Q774KCaaAaa99AY.3.10.000767
ORF1ab/nsp3774Q774KCaaAaa99AY.430.00004
ORF1ab/nsp3774Q774QcaAcaG99AY.470.00028
ORF1ab/nsp3774Q774HcaAcaC69B.1.1.70.000005
ORF1ab/nsp3774Q774HcaAcaT39B.1.1.70.000003
ORF1ab/nsp3774Q774PcAacCa78All0.000001
ORF1ab/nsp3774Q774PcAAcCC18All0
ORF1ab/nsp3774Q774QcaAcaG88B.10.000073
ORF1ab/nsp3774Q774QcaAcaG77AY.440.000043
ORF1ab/nsp3774Q774QcaAcaG77AY.60.000288
ORF1ab/nsp3774Q774RcAacGa77B.1.2580.000466
ORF1ab/nsp3774Q774RcAacGa77B.1.617.20.000026
ORF1ab/nsp3774Q774QcaAcaG66AY.1030.000037
ORF1ab/nsp3774Q774RcAacGa66AY.1180.000376
ORF1ab/nsp3774Q774QcaAcaG66AY.40.000009
ORF1ab/nsp3774Q774RcAacGa66AY.430.000027
ORF1ab/nsp3774Q774HcaAcaC66B.1.1600.000187
ORF1ab/nsp3774Q774RcAacGa66B.1.20.000053
ORF1ab/nsp3774Q774RcAacGa66B.1.5970.027778
ORF1ab/nsp3774Q774RcAacGa55A.2.30.023697
ORF1ab/nsp3774Q774QcaAcaG55AY.1210.000677
ORF1ab/nsp3774Q774KCaaAaa55AY.40.000008
ORF1ab/nsp3774Q774RcAacGa55AY.450.000608
ORF1ab/nsp3774Q774XCaaTaa55B.10.000046
ORF1ab/nsp3774Q774KCaaAaa55B.10.000046
ORF1ab/nsp3774Q774QcaAcaG55B.1.10.000091
ORF1ab/nsp3774Q774QcaAcaG55B.1.4780.058824
ORF1ab/nsp3774Q774delCAA---55B.1.617.10.000645
ORF1ab/nsp3774Q774QcaAcaG55P.10.000079
ORF1ab/nsp3774Q774delCAA---440.222222
ORF1ab/nsp3774Q774RcAacGa44AY.40.000006
ORF1ab/nsp3774Q774delCAA---44AY.430.000018
ORF1ab/nsp3774Q774HcaAcaC34B.1.36.290.001552
ORF1ab/nsp3774Q774HcaAcaT14B.1.36.290.000517
ORF1ab/nsp3774Q774QcaAcaG44Q.10.000505
ORF1ab/nsp3774Q774del1Caa-aa13All0
ORF1ab/nsp3774Q774del1CAaT-a13All0
ORF1ab/nsp3774Q774del1caAca-13All0
ORF1ab/nsp3774Q774QcaAcaG33AY.200.000117
ORF1ab/nsp3774Q774QcaAcaG33AY.250.000018
ORF1ab/nsp3774Q774RcAacGa23AY.440.000012
ORF1ab/nsp3774Q774RcAAcGG13AY.440.000006
ORF1ab/nsp3774Q774KCaaAaa33AY.60.000123
ORF1ab/nsp3774Q774RcAacGa33AY.610.000314
ORF1ab/nsp3774Q774RcAacGa33B.1.1.3180.000905
ORF1ab/nsp3774Q774KCaaAaa33B.1.1.3260.005282
ORF1ab/nsp3774Q774RcAacGa33B.1.1.500.002037
ORF1ab/nsp3774Q774QcaAcaG33B.1.177.730.001699
ORF1ab/nsp3774Q774QcaAcaG33B.1.20.000026
ORF1ab/nsp3774Q774PcAacCa33B.1.3620.004622
ORF1ab/nsp3774Q774HcaAcaC33B.1.617.20.000011
ORF1ab/nsp3774Q774RcAacGa33P.10.000047
ORF1ab/nsp3774Q774RcAacGa22AY.1130.000285
ORF1ab/nsp3774Q774HcaAcaC22AY.160.000759
ORF1ab/nsp3774Q774delCAA---22AY.250.000012
ORF1ab/nsp3774Q774KCaaAaa22AY.260.000057
ORF1ab/nsp3774Q774delCAA---22AY.40.000003
ORF1ab/nsp3774Q774LcAacTa22B.10.000018
ORF1ab/nsp3774Q774RcAacGa22B.1.1.3980.006452
ORF1ab/nsp3774Q774RcAacGa22B.1.1.4860.003155
ORF1ab/nsp3774Q774KCaaAaa22B.1.1.70.000002
ORF1ab/nsp3774Q774QcaAcaG22B.1.1600.000062
ORF1ab/nsp3774Q774KCaaAaa22B.1.1770.000026
ORF1ab/nsp3774Q774delCAA---22B.1.1770.000026
ORF1ab/nsp3774Q774delCAA---22B.1.360.000292
ORF1ab/nsp3774Q774RcAacGa22B.1.36.180.00084
ORF1ab/nsp3774Q774HcaAcaC22B.1.4530.006472
ORF1ab/nsp3774Q774QcaAcaG22B.1.617.20.000008
ORF1ab/nsp3774Q774delCAA---22B.1.617.20.000008
ORF1ab/nsp3774Q774del1caAca-12B.1.617.20.000004
ORF1ab/nsp3774Q774del1CAaT-a12B.1.617.20.000004
ORF1ab/nsp3774Q774QcaAcaG22Q.30.00029
ORF1ab/nsp3774Q774RcAacGa110.055556
ORF1ab/nsp3774Q774PcAacCa110.055556
ORF1ab/nsp3774Q774delCAA---11A.2.20.001689
ORF1ab/nsp3774Q774HcaAcaC11A.60.005128
ORF1ab/nsp3774Q774HcaAcaT11AH.30.003802
ORF1ab/nsp3774Q774GCAAGGT11All0
ORF1ab/nsp3774Q774TCAaACa11All0
ORF1ab/nsp3774Q774ECaaGaa11All0
ORF1ab/nsp3774Q774DCaAGaC11All0
ORF1ab/nsp3774Q774LcAacTa11AY.1030.000006
ORF1ab/nsp3774Q774RcAacGa11AY.1030.000006
ORF1ab/nsp3774Q774RcAacGa11AY.1090.00074
ORF1ab/nsp3774Q774QcaAcaG11AY.1130.000142
ORF1ab/nsp3774Q774delCAA---11AY.1190.000035
ORF1ab/nsp3774Q774KCaaAaa11AY.1200.000037
ORF1ab/nsp3774Q774QcaAcaG11AY.130.000161
ORF1ab/nsp3774Q774QcaAcaG11AY.16.10.00047
ORF1ab/nsp3774Q774QcaAcaG11AY.20.000356
ORF1ab/nsp3774Q774HcaAcaC11AY.250.000006
ORF1ab/nsp3774Q774RcAacGa11AY.260.000028
ORF1ab/nsp3774Q774KCaaAaa11AY.270.000065
ORF1ab/nsp3774Q774RcAacGa11AY.290.000016
ORF1ab/nsp3774Q774QcaAcaG11AY.30.00001
ORF1ab/nsp3774Q774HcaAcaC11AY.30.00001
ORF1ab/nsp3774Q774QcaAcaG11AY.3.10.000085
ORF1ab/nsp3774Q774RcAacGa11AY.340.000097
ORF1ab/nsp3774Q774HcaAcaT11AY.40.000002
ORF1ab/nsp3774Q774QcaAcaG11AY.4.20.000022
ORF1ab/nsp3774Q774delCAA---11AY.4.50.000107
ORF1ab/nsp3774Q774QcaAcaG11AY.410.000294
ORF1ab/nsp3774Q774LcAacTa11AY.430.000004
ORF1ab/nsp3774Q774QcaAcaG11AY.430.000004
ORF1ab/nsp3774Q774XCaaTaa11AY.440.000006
ORF1ab/nsp3774Q774LcAacTa11AY.440.000006
ORF1ab/nsp3774Q774del1Caa-aa11AY.440.000006
ORF1ab/nsp3774Q774QcaAcaG11AY.450.000122
ORF1ab/nsp3774Q774KCaaAaa11AY.460.000104
ORF1ab/nsp3774Q774HcaAcaC11AY.46.20.000635
ORF1ab/nsp3774Q774RcAacGa11AY.540.000095
ORF1ab/nsp3774Q774HcaAcaC11AY.550.000917
ORF1ab/nsp3774Q774LcAacTa11AY.550.000917
ORF1ab/nsp3774Q774RcAacGa11AY.590.00053
ORF1ab/nsp3774Q774delCAA---11AY.7.20.000559
ORF1ab/nsp3774Q774RcAacGa11AY.720.001361
ORF1ab/nsp3774Q774QcaAcaG11AY.750.000056
ORF1ab/nsp3774Q774delCAA---11AY.750.000056
ORF1ab/nsp3774Q774delCAA---11AY.75.10.00018
ORF1ab/nsp3774Q774RcAacGa11AY.90.000068
ORF1ab/nsp3774Q774RcAacGa11AY.9.20.000037
ORF1ab/nsp3774Q774HcaAcaC11AY.910.00073
ORF1ab/nsp3774Q774HcaAcaT11B.10.000009
ORF1ab/nsp3774Q774TCAaACa11B.1.10.000018
ORF1ab/nsp3774Q774delCAA---11B.1.10.000018
ORF1ab/nsp3774Q774KCaaAaa11B.1.10.000018
ORF1ab/nsp3774Q774PcAacCa11B.1.10.000018
ORF1ab/nsp3774Q774RcAacGa11B.1.1.10.000327
ORF1ab/nsp3774Q774RcAacGa11B.1.1.100.001115
ORF1ab/nsp3774Q774delCAA---11B.1.1.1390.022727
ORF1ab/nsp3774Q774delCAA---11B.1.1.1420.017544
ORF1ab/nsp3774Q774RcAacGa11B.1.1.1710.003676
ORF1ab/nsp3774Q774delCAA---11B.1.1.2180.007692
ORF1ab/nsp3774Q774delCAA---11B.1.1.3150.008475
ORF1ab/nsp3774Q774RcAacGa11B.1.1.3400.045455
ORF1ab/nsp3774Q774delCAA---11B.1.1.370.000193
ORF1ab/nsp3774Q774delCAA---11B.1.1.5190.00004
ORF1ab/nsp3774Q774QcaAcaG11B.1.1.5240.020833
ORF1ab/nsp3774Q774PcAAcCC11B.1.1.70.000001
ORF1ab/nsp3774Q774DCaAGaC11B.1.1.70.000001
ORF1ab/nsp3774Q774GCAAGGT11B.1.1.70.000001
ORF1ab/nsp3774Q774delCAA---11B.1.1400.018868
ORF1ab/nsp3774Q774PcAacCa11B.1.1770.000013
ORF1ab/nsp3774Q774RcAacGa11B.1.1770.000013
ORF1ab/nsp3774Q774QcaAcaG11B.1.1770.000013
ORF1ab/nsp3774Q774QcaAcaG11B.1.177.40.000211
ORF1ab/nsp3774Q774delCAA---11B.1.177.620.001192
ORF1ab/nsp3774Q774delCAA---11B.1.177.680.015152
ORF1ab/nsp3774Q774QcaAcaG11B.1.2210.000071
ORF1ab/nsp3774Q774XCaaTaa11B.1.221.10.002907
ORF1ab/nsp3774Q774RcAacGa11B.1.2410.000812
ORF1ab/nsp3774Q774RcAacGa11B.1.2930.0125
ORF1ab/nsp3774Q774delCAA---11B.1.3190.003049
ORF1ab/nsp3774Q774QcaAcaG11B.1.3510.00003
ORF1ab/nsp3774Q774delCAA---11B.1.3750.00082
ORF1ab/nsp3774Q774delCAA---11B.1.4150.014286
ORF1ab/nsp3774Q774delCAA---11B.1.416.10.001563
ORF1ab/nsp3774Q774RcAacGa11B.1.4270.00005
ORF1ab/nsp3774Q774XCaaTaa11B.1.4270.00005
ORF1ab/nsp3774Q774RcAacGa11B.1.5170.000427
ORF1ab/nsp3774Q774RcAacGa11B.1.5250.000113
ORF1ab/nsp3774Q774KCaaAaa11B.1.5460.003704
ORF1ab/nsp3774Q774delCAA---11B.1.5600.00463
ORF1ab/nsp3774Q774delCAA---11B.1.5760.000907
ORF1ab/nsp3774Q774RcAacGa11B.1.5960.000087
ORF1ab/nsp3774Q774LcAacTa11B.1.5960.000087
ORF1ab/nsp3774Q774QcaAcaG11B.1.617.10.000129
ORF1ab/nsp3774Q774PcAacCa11B.1.617.20.000004
ORF1ab/nsp3774Q774QcaAcaG11B.1.6190.000871
ORF1ab/nsp3774Q774QcaAcaG11B.1.6210.000089
ORF1ab/nsp3774Q774delCAA---11B.1.6210.000089
ORF1ab/nsp3774Q774KCaaAaa11B.1.930.000934
ORF1ab/nsp3774Q774delCAA---11B.150.017544
ORF1ab/nsp3774Q774KCaaAaa11B.550.00295
ORF1ab/nsp3774Q774delCAA---11C.370.000116
ORF1ab/nsp3774Q774XCaaTaa11C.37.10.002618
ORF1ab/nsp3774Q774QcaAcaG11D.20.000075
ORF1ab/nsp3774Q774HcaAcaC11D.20.000075
ORF1ab/nsp3774Q774LcAacTa11P.10.000016
ORF1ab/nsp3774Q774HcaAcaC11P.1.140.000048
ORF1ab/nsp3774Q774ECaaGaa11Q.10.000126
ORF1ab/nsp3774Q774delCAA---11Q.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.