CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 1781

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/nsp31781S1781SS2599SsyntcAtcG290228740.9903518060-8062
ORF1ab/nsp31781S1781SS2599SsyntcAtcT2902160.005513448060-8062
ORF1ab/nsp31781S1781SS2599SsyntcAtcC2902120.004135088060-8062
ORF1ab/nsp31781S1781delS2599deldelTCA---11811818060-8062
ORF1ab/nsp31781S1781AS2599AnonsynTcaGca616118060-8062
ORF1ab/nsp31781S1781LS2599LnonsyntCatTa343418060-8062
ORF1ab/nsp31781S1781XS2599XnonsyntCatGa28190.6785718060-8062
ORF1ab/nsp31781S1781XS2599XnonsyntCatAa2890.3214298060-8062
ORF1ab/nsp31781S1781PS2599PnonsynTcaCca650.8333338060-8062
ORF1ab/nsp31781S1781PS2599PnonsynTcACcG610.1666678060-8062
ORF1ab/nsp31781S1781TS2599TnonsynTcaAca3318060-8062
ORF1ab/nsp31781S1781VS2599VnonsynTCaGTa1118060-8062
ORF1ab/nsp31781S1781del2S2599del2delTCa--a1118060-8062
ORF1ab/nsp31781S1781del1S2599del1delTca-ca1118060-8062
ORF1ab/nsp31781S1781QS2599QnonsynTCaCAa1118060-8062

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/nsp31781S1781StcAtcG28742902All0.00055
ORF1ab/nsp31781S1781StcAtcT162902All0.000003
ORF1ab/nsp31781S1781StcAtcC122902All0.000002
ORF1ab/nsp31781S1781StcAtcG16451645AY.10.65097
ORF1ab/nsp31781S1781StcAtcG506506AY.60.020811
ORF1ab/nsp31781S1781delTCA---118118All0.000023
ORF1ab/nsp31781S1781StcAtcG9494AY.340.009115
ORF1ab/nsp31781S1781StcAtcG7576B.1.617.20.000282
ORF1ab/nsp31781S1781StcAtcC176B.1.617.20.000004
ORF1ab/nsp31781S1781StcAtcG6666B.1.3510.001962
ORF1ab/nsp31781S1781ATcaGca6161All0.000012
ORF1ab/nsp31781S1781ATcaGca5555AY.4.2.10.008194
ORF1ab/nsp31781S1781delTCA---5050B.1.1.70.000045
ORF1ab/nsp31781S1781StcAtcG4444AY.40.000068
ORF1ab/nsp31781S1781StcAtcG3643B.1.1.70.000032
ORF1ab/nsp31781S1781StcAtcT443B.1.1.70.000004
ORF1ab/nsp31781S1781StcAtcC343B.1.1.70.000003
ORF1ab/nsp31781S1781StcAtcG4141B.1.4270.00207
ORF1ab/nsp31781S1781StcAtcG3939AY.690.00728
ORF1ab/nsp31781S1781StcAtcG3737AY.1170.003127
ORF1ab/nsp31781S1781LtCatTa3434All0.000007
ORF1ab/nsp31781S1781StcAtcG3030AY.430.000133
ORF1ab/nsp31781S1781XtCatGa1928All0.000004
ORF1ab/nsp31781S1781XtCatAa928All0.000002
ORF1ab/nsp31781S1781StcAtcG2020B.1.6270.040404
ORF1ab/nsp31781S1781StcAtcG1616AY.30.000159
ORF1ab/nsp31781S1781StcAtcG1515AY.390.000371
ORF1ab/nsp31781S1781StcAtcG914P.10.000142
ORF1ab/nsp31781S1781StcAtcC514P.10.000079
ORF1ab/nsp31781S1781StcAtcG1313AY.980.001027
ORF1ab/nsp31781S1781LtCatTa1212B.1.1.70.000011
ORF1ab/nsp31781S1781delTCA---1111AY.40.000017
ORF1ab/nsp31781S1781StcAtcG1111B.1.177.641
ORF1ab/nsp31781S1781StcAtcG1010AY.330.000668
ORF1ab/nsp31781S1781StcAtcG910AY.440.000055
ORF1ab/nsp31781S1781StcAtcC110AY.440.000006
ORF1ab/nsp31781S1781StcAtcG99B.1.2210.000639
ORF1ab/nsp31781S1781XtCatGa99B.1.5250.001018
ORF1ab/nsp31781S1781StcAtcG88AY.250.000048
ORF1ab/nsp31781S1781StcAtcG78B.10.000064
ORF1ab/nsp31781S1781StcAtcT18B.10.000009
ORF1ab/nsp31781S1781XtCatGa88B.1.1.70.000007
ORF1ab/nsp31781S1781StcAtcG77AY.50.000145
ORF1ab/nsp31781S1781StcAtcG77B.1.10.000127
ORF1ab/nsp31781S1781StcAtcT77B.1.1.3050.027027
ORF1ab/nsp31781S1781PTcaCca56All0.000001
ORF1ab/nsp31781S1781PTcACcG16All0
ORF1ab/nsp31781S1781StcAtcG66AY.1180.000376
ORF1ab/nsp31781S1781delTCA---66B.10.000055
ORF1ab/nsp31781S1781StcAtcG55AY.4.10.003687
ORF1ab/nsp31781S1781StcAtcG55AY.90.000338
ORF1ab/nsp31781S1781LtCatTa55B.10.000046
ORF1ab/nsp31781S1781delTCA---55B.1.10.000091
ORF1ab/nsp31781S1781StcAtcG44AY.1030.000025
ORF1ab/nsp31781S1781StcAtcG44AY.260.000113
ORF1ab/nsp31781S1781delTCA---44AY.4.50.00043
ORF1ab/nsp31781S1781StcAtcG44AY.460.000416
ORF1ab/nsp31781S1781StcAtcG44AY.620.001743
ORF1ab/nsp31781S1781delTCA---44B.1.1770.000053
ORF1ab/nsp31781S1781StcAtcG34B.1.20.000026
ORF1ab/nsp31781S1781StcAtcT14B.1.20.000009
ORF1ab/nsp31781S1781StcAtcG44C.370.000464
ORF1ab/nsp31781S1781TTcaAca33All0.000001
ORF1ab/nsp31781S1781StcAtcG23AY.1020.000053
ORF1ab/nsp31781S1781StcAtcC13AY.1020.000027
ORF1ab/nsp31781S1781StcAtcG33AY.1050.001929
ORF1ab/nsp31781S1781StcAtcG33AY.1200.000112
ORF1ab/nsp31781S1781delTCA---33AY.250.000018
ORF1ab/nsp31781S1781StcAtcG33AY.290.000047
ORF1ab/nsp31781S1781delTCA---33AY.430.000013
ORF1ab/nsp31781S1781StcAtcG33AY.9.20.00011
ORF1ab/nsp31781S1781StcAtcG33AY.920.000862
ORF1ab/nsp31781S1781StcAtcG22AY.1130.000285
ORF1ab/nsp31781S1781StcAtcG22AY.130.000322
ORF1ab/nsp31781S1781StcAtcG12AY.190.00114
ORF1ab/nsp31781S1781StcAtcT12AY.190.00114
ORF1ab/nsp31781S1781StcAtcG22AY.230.000139
ORF1ab/nsp31781S1781LtCatTa22AY.30.00002
ORF1ab/nsp31781S1781LtCatTa22AY.40.000003
ORF1ab/nsp31781S1781StcAtcG22AY.450.000243
ORF1ab/nsp31781S1781StcAtcG22AY.670.000929
ORF1ab/nsp31781S1781StcAtcG22AY.750.000112
ORF1ab/nsp31781S1781StcAtcG22AY.840.000875
ORF1ab/nsp31781S1781StcAtcG22AY.850.000854
ORF1ab/nsp31781S1781StcAtcG22AY.9.10.000167
ORF1ab/nsp31781S1781StcAtcG22B0.000256
ORF1ab/nsp31781S1781delTCA---22B.1.1.3150.016949
ORF1ab/nsp31781S1781ATcaGca22B.1.1.70.000002
ORF1ab/nsp31781S1781LtCatTa22B.1.1770.000026
ORF1ab/nsp31781S1781StcAtcG22B.1.3610.002577
ORF1ab/nsp31781S1781StcAtcG22B.1.5460.007407
ORF1ab/nsp31781S1781ATcaGca22B.1.617.20.000008
ORF1ab/nsp31781S1781LtCatTa22B.1.617.20.000008
ORF1ab/nsp31781S1781delTCA---22B.1.617.20.000008
ORF1ab/nsp31781S1781StcAtcG22B.1.6370.000146
ORF1ab/nsp31781S1781delTCA---22D.20.00015
ORF1ab/nsp31781S1781StcAtcG22P.1.10.10.01626
ORF1ab/nsp31781S1781LtCatTa110.055556
ORF1ab/nsp31781S1781XtCatAa11A0.000387
ORF1ab/nsp31781S1781VTCaGTa11All0
ORF1ab/nsp31781S1781del1Tca-ca11All0
ORF1ab/nsp31781S1781del2TCa--a11All0
ORF1ab/nsp31781S1781QTCaCAa11All0
ORF1ab/nsp31781S1781PTcaCca11AW.10.003049
ORF1ab/nsp31781S1781StcAtcG11AY.1000.000046
ORF1ab/nsp31781S1781LtCatTa11AY.1030.000006
ORF1ab/nsp31781S1781StcAtcG11AY.1040.001984
ORF1ab/nsp31781S1781delTCA---11AY.1110.000183
ORF1ab/nsp31781S1781StcAtcG11AY.1160.000287
ORF1ab/nsp31781S1781PTcaCca11AY.1180.000063
ORF1ab/nsp31781S1781StcAtcG11AY.1190.000035
ORF1ab/nsp31781S1781delTCA---11AY.1190.000035
ORF1ab/nsp31781S1781StcAtcG11AY.120.000316
ORF1ab/nsp31781S1781delTCA---11AY.1200.000037
ORF1ab/nsp31781S1781StcAtcG11AY.1210.000135
ORF1ab/nsp31781S1781StcAtcG11AY.160.00038
ORF1ab/nsp31781S1781StcAtcG11AY.200.000039
ORF1ab/nsp31781S1781StcAtcG11AY.220.002092
ORF1ab/nsp31781S1781PTcaCca11AY.230.00007
ORF1ab/nsp31781S1781TTcaAca11AY.250.000006
ORF1ab/nsp31781S1781delTCA---11AY.330.000067
ORF1ab/nsp31781S1781StcAtcG11AY.34.10.00051
ORF1ab/nsp31781S1781ATcaGca11AY.4.20.000022
ORF1ab/nsp31781S1781StcAtcG11AY.4.50.000107
ORF1ab/nsp31781S1781XtCatAa11AY.430.000004
ORF1ab/nsp31781S1781LtCatTa11AY.430.000004
ORF1ab/nsp31781S1781del2TCa--a11AY.440.000006
ORF1ab/nsp31781S1781delTCA---11AY.46.20.000635
ORF1ab/nsp31781S1781StcAtcG11AY.46.40.000165
ORF1ab/nsp31781S1781StcAtcG11AY.46.50.000198
ORF1ab/nsp31781S1781StcAtcG11AY.46.60.000072
ORF1ab/nsp31781S1781StcAtcG11AY.470.000031
ORF1ab/nsp31781S1781StcAtcG11AY.5.30.000337
ORF1ab/nsp31781S1781XtCatAa11AY.520.000814
ORF1ab/nsp31781S1781StcAtcG11AY.650.000533
ORF1ab/nsp31781S1781delTCA---11AY.720.001361
ORF1ab/nsp31781S1781StcAtcG11AY.730.000665
ORF1ab/nsp31781S1781delTCA---11AY.750.000056
ORF1ab/nsp31781S1781StcAtcG11AY.770.001127
ORF1ab/nsp31781S1781StcAtcG11AY.780.001541
ORF1ab/nsp31781S1781StcAtcG11AY.820.001357
ORF1ab/nsp31781S1781StcAtcG11AY.870.000833
ORF1ab/nsp31781S1781StcAtcG11AY.950.000761
ORF1ab/nsp31781S1781LtCatTa11AY.980.000079
ORF1ab/nsp31781S1781XtCatAa11B0.000128
ORF1ab/nsp31781S1781XtCatAa11B.10.000009
ORF1ab/nsp31781S1781PTcaCca11B.1.10.000018
ORF1ab/nsp31781S1781LtCatTa11B.1.10.000018
ORF1ab/nsp31781S1781delTCA---11B.1.1.2360.006897
ORF1ab/nsp31781S1781LtCatTa11B.1.1.2990.012195
ORF1ab/nsp31781S1781delTCA---11B.1.1.3060.000438
ORF1ab/nsp31781S1781delTCA---11B.1.1.3110.000358
ORF1ab/nsp31781S1781StcAtcG11B.1.1.3260.001761
ORF1ab/nsp31781S1781StcAtcG11B.1.1.330.000421
ORF1ab/nsp31781S1781StcAtcT11B.1.1.370.000193
ORF1ab/nsp31781S1781PTcACcG11B.1.1.460.004367
ORF1ab/nsp31781S1781delTCA---11B.1.1.460.004367
ORF1ab/nsp31781S1781StcAtcG11B.1.1.5190.00004
ORF1ab/nsp31781S1781PTcaCca11B.1.1.70.000001
ORF1ab/nsp31781S1781del1Tca-ca11B.1.1.70.000001
ORF1ab/nsp31781S1781delTCA---11B.1.1.700.000341
ORF1ab/nsp31781S1781StcAtcG11B.1.1390.000733
ORF1ab/nsp31781S1781delTCA---11B.1.1400.018868
ORF1ab/nsp31781S1781StcAtcG11B.1.1570.002985
ORF1ab/nsp31781S1781StcAtcG11B.1.1600.000031
ORF1ab/nsp31781S1781LtCatTa11B.1.160.160.000929
ORF1ab/nsp31781S1781StcAtcG11B.1.160.260.002421
ORF1ab/nsp31781S1781ATcaGca11B.1.1620.005025
ORF1ab/nsp31781S1781delTCA---11B.1.177.160.000664
ORF1ab/nsp31781S1781delTCA---11B.1.177.180.00116
ORF1ab/nsp31781S1781delTCA---11B.1.177.60.000977
ORF1ab/nsp31781S1781delTCA---11B.1.177.620.001192
ORF1ab/nsp31781S1781LtCatTa11B.1.20.000009
ORF1ab/nsp31781S1781delTCA---11B.1.2420.018868
ORF1ab/nsp31781S1781delTCA---11B.1.258.110.000396
ORF1ab/nsp31781S1781XtCatAa11B.1.3010.005917
ORF1ab/nsp31781S1781XtCatGa11B.1.3110.000275
ORF1ab/nsp31781S1781StcAtcG11B.1.351.20.000303
ORF1ab/nsp31781S1781delTCA---11B.1.36.180.00042
ORF1ab/nsp31781S1781StcAtcG11B.1.4090.000781
ORF1ab/nsp31781S1781StcAtcG11B.1.5250.000113
ORF1ab/nsp31781S1781QTCaCAa11B.1.617.10.000129
ORF1ab/nsp31781S1781TTcaAca11B.1.617.20.000004
ORF1ab/nsp31781S1781XtCatAa11B.1.617.20.000004
ORF1ab/nsp31781S1781XtCatAa11B.1.6230.000536
ORF1ab/nsp31781S1781TTcaAca11B.1.6270.00202
ORF1ab/nsp31781S1781StcAtcG11B.1.6280.000352
ORF1ab/nsp31781S1781XtCatGa11B.1.6360.006711
ORF1ab/nsp31781S1781delTCA---11B.1.6380.052632
ORF1ab/nsp31781S1781StcAtcT11B.40.002208
ORF1ab/nsp31781S1781StcAtcG11B.6.60.000889
ORF1ab/nsp31781S1781XtCatAa11B.6.60.000889
ORF1ab/nsp31781S1781VTCaGTa11C.350.000774
ORF1ab/nsp31781S1781delTCA---11C.370.000116
ORF1ab/nsp31781S1781LtCatTa11D.20.000075
ORF1ab/nsp31781S1781delTCA---11P.1.150.000232
ORF1ab/nsp31781S1781StcAtcC11P.1.170.000162
ORF1ab/nsp31781S1781delTCA---11Q.10.000126
ORF1ab/nsp31781S1781delTCA---11Q.20.000613
ORF1ab/nsp31781S1781delTCA---11U.30.003861

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.