CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 442

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/nsp2442E442AE622AnonsyngAagCa46946912129-2131
ORF1ab/nsp2442E442GE622GnonsyngAagGa3273260.9969422129-2131
ORF1ab/nsp2442E442GE622GnonsyngAAgGC32710.00305812129-2131
ORF1ab/nsp2442E442EE622EsyngaAgaG19619612129-2131
ORF1ab/nsp2442E442KE622KnonsynGaaAaa19419412129-2131
ORF1ab/nsp2442E442DE622DnonsyngaAgaC35270.7714292129-2131
ORF1ab/nsp2442E442DE622DnonsyngaAgaT3580.2285712129-2131
ORF1ab/nsp2442E442VE622VnonsyngAagTa333312129-2131
ORF1ab/nsp2442E442delE622deldelGAA---323212129-2131
ORF1ab/nsp2442E442del1E622del1delgAag-a27250.9259262129-2131
ORF1ab/nsp2442E442del1E622del1delGaa-aa2720.07407412129-2131
ORF1ab/nsp2442E442XE622XnonsynGaaTaa13110.8461542129-2131
ORF1ab/nsp2442E442XE622XnonsynGAaTGa1320.1538462129-2131
ORF1ab/nsp2442E442QE622QnonsynGaaCaa4412129-2131
ORF1ab/nsp2442E442del2E622del2delgAAg--2212129-2131
ORF1ab/nsp2442E442LE622LnonsynGAaTTa1112129-2131
ORF1ab/nsp2442E442RE622RnonsynGAaAGa1112129-2131
ORF1ab/nsp2442E442TE622TnonsynGAaACa1112129-2131

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/nsp2442E442AgAagCa469469All0.00009
ORF1ab/nsp2442E442GgAagGa326327All0.000062
ORF1ab/nsp2442E442GgAAgGC1327All0
ORF1ab/nsp2442E442AgAagCa281281AY.370.088812
ORF1ab/nsp2442E442EgaAgaG196196All0.000037
ORF1ab/nsp2442E442KGaaAaa194194All0.000037
ORF1ab/nsp2442E442AgAagCa158158B.1.1.70.000141
ORF1ab/nsp2442E442EgaAgaG140140AY.430.00062
ORF1ab/nsp2442E442GgAagGa131131B.1.1.70.000117
ORF1ab/nsp2442E442GgAagGa7676B.1.20.000669
ORF1ab/nsp2442E442KGaaAaa3939B.1.10.000707
ORF1ab/nsp2442E442DgaAgaC2735All0.000005
ORF1ab/nsp2442E442DgaAgaT835All0.000002
ORF1ab/nsp2442E442VgAagTa3333All0.000006
ORF1ab/nsp2442E442delGAA---3232All0.000006
ORF1ab/nsp2442E442GgAagGa3131AY.1030.000192
ORF1ab/nsp2442E442GgAagGa2828AY.40.000044
ORF1ab/nsp2442E442del1gAag-a2527All0.000005
ORF1ab/nsp2442E442del1Gaa-aa227All0
ORF1ab/nsp2442E442KGaaAaa2323AY.40.000036
ORF1ab/nsp2442E442VgAagTa1919B.1.1.1450.703704
ORF1ab/nsp2442E442KGaaAaa1919B.1.1.70.000017
ORF1ab/nsp2442E442KGaaAaa1515AY.250.00009
ORF1ab/nsp2442E442XGaaTaa1113All0.000002
ORF1ab/nsp2442E442XGAaTGa213All0
ORF1ab/nsp2442E442AgAagCa1212AY.250.000072
ORF1ab/nsp2442E442KGaaAaa99B.10.000082
ORF1ab/nsp2442E442EgaAgaG99B.1.20.000079
ORF1ab/nsp2442E442KGaaAaa88AY.1030.00005
ORF1ab/nsp2442E442GgAagGa88B.1.10.000145
ORF1ab/nsp2442E442EgaAgaG77AY.30.00007
ORF1ab/nsp2442E442GgAagGa77B.10.000064
ORF1ab/nsp2442E442DgaAgaC77B.1.1.70.000006
ORF1ab/nsp2442E442del1gAag-a77B.1.20.000062
ORF1ab/nsp2442E442KGaaAaa66AY.4.2.10.000894
ORF1ab/nsp2442E442del1gAag-a66B.1.1.70.000005
ORF1ab/nsp2442E442GgAagGa66B.1.617.20.000023
ORF1ab/nsp2442E442AgAagCa66B.1.617.20.000023
ORF1ab/nsp2442E442VgAagTa55AY.3.10.000426
ORF1ab/nsp2442E442EgaAgaG55B.1.1.70.000004
ORF1ab/nsp2442E442KGaaAaa55B.1.3510.000149
ORF1ab/nsp2442E442DgaAgaC45B.1.617.20.000015
ORF1ab/nsp2442E442DgaAgaT15B.1.617.20.000004
ORF1ab/nsp2442E442KGaaAaa44A0.001548
ORF1ab/nsp2442E442QGaaCaa44All0.000001
ORF1ab/nsp2442E442delGAA---44B.10.000037
ORF1ab/nsp2442E442delGAA---44B.1.1.70.000004
ORF1ab/nsp2442E442KGaaAaa44B.1.20.000035
ORF1ab/nsp2442E442KGaaAaa44B.1.617.20.000015
ORF1ab/nsp2442E442EgaAgaG44B.1.617.20.000015
ORF1ab/nsp2442E442XGaaTaa230.111111
ORF1ab/nsp2442E442XGAaTGa130.055556
ORF1ab/nsp2442E442DgaAgaC33AY.1210.000406
ORF1ab/nsp2442E442EgaAgaG33AY.39.10.000119
ORF1ab/nsp2442E442KGaaAaa33AY.440.000018
ORF1ab/nsp2442E442del1gAag-a33AY.440.000018
ORF1ab/nsp2442E442KGaaAaa33AY.50.000062
ORF1ab/nsp2442E442GgAagGa33AY.580.002722
ORF1ab/nsp2442E442GgAagGa33AY.7.20.001678
ORF1ab/nsp2442E442XGaaTaa33B.10.000027
ORF1ab/nsp2442E442DgaAgaC23B.10.000018
ORF1ab/nsp2442E442DgaAgaT13B.10.000009
ORF1ab/nsp2442E442DgaAgaC23B.1.10.000036
ORF1ab/nsp2442E442DgaAgaT13B.1.10.000018
ORF1ab/nsp2442E442delGAA---33B.1.1.330.001263
ORF1ab/nsp2442E442KGaaAaa33B.1.1.5190.000119
ORF1ab/nsp2442E442VgAagTa33B.1.4060.018182
ORF1ab/nsp2442E442EgaAgaG33C.370.000348
ORF1ab/nsp2442E442KGaaAaa33D.20.000225
ORF1ab/nsp2442E442VgAagTa220.111111
ORF1ab/nsp2442E442del2gAAg--22All0
ORF1ab/nsp2442E442EgaAgaG22AY.1030.000012
ORF1ab/nsp2442E442AgAagCa22AY.120.10.000642
ORF1ab/nsp2442E442del1gAag-a22AY.120.10.000642
ORF1ab/nsp2442E442GgAagGa22AY.1210.000271
ORF1ab/nsp2442E442KGaaAaa22AY.1210.000271
ORF1ab/nsp2442E442EgaAgaG22AY.360.000296
ORF1ab/nsp2442E442EgaAgaG22AY.390.000049
ORF1ab/nsp2442E442DgaAgaT22AY.40.000003
ORF1ab/nsp2442E442QGaaCaa22AY.40.000003
ORF1ab/nsp2442E442KGaaAaa22AY.4.20.000043
ORF1ab/nsp2442E442KGaaAaa22AY.420.00008
ORF1ab/nsp2442E442GgAagGa12AY.440.000006
ORF1ab/nsp2442E442GgAAgGC12AY.440.000006
ORF1ab/nsp2442E442EgaAgaG22AY.460.000208
ORF1ab/nsp2442E442GgAagGa22AY.980.000158
ORF1ab/nsp2442E442EgaAgaG22B.10.000018
ORF1ab/nsp2442E442XGAaTGa12B.1.10.000018
ORF1ab/nsp2442E442XGaaTaa12B.1.10.000018
ORF1ab/nsp2442E442KGaaAaa22B.1.1.2220.000408
ORF1ab/nsp2442E442GgAagGa22B.1.1.280.000622
ORF1ab/nsp2442E442delGAA---22B.1.1.3480.001592
ORF1ab/nsp2442E442KGaaAaa22B.1.1.3540.008772
ORF1ab/nsp2442E442GgAagGa22B.1.2430.000139
ORF1ab/nsp2442E442EgaAgaG22B.1.351.20.000605
ORF1ab/nsp2442E442EgaAgaG22B.1.360.000292
ORF1ab/nsp2442E442KGaaAaa22B.1.360.000292
ORF1ab/nsp2442E442delGAA---22B.1.4240.016129
ORF1ab/nsp2442E442KGaaAaa22B.1.4270.000101
ORF1ab/nsp2442E442delGAA---22B.1.4290.000047
ORF1ab/nsp2442E442KGaaAaa22B.1.5250.000226
ORF1ab/nsp2442E442KGaaAaa22B.1.5650.001621
ORF1ab/nsp2442E442delGAA---22N.60.014184
ORF1ab/nsp2442E442AgAagCa22P.10.000032
ORF1ab/nsp2442E442KGaaAaa22P.10.000032
ORF1ab/nsp2442E442delGAA---22P.10.000032
ORF1ab/nsp2442E442AgAagCa22P.1.150.000465
ORF1ab/nsp2442E442delGAA---22P.20.000373
ORF1ab/nsp2442E442GgAagGa110.055556
ORF1ab/nsp2442E442LGAaTTa110.055556
ORF1ab/nsp2442E442RGAaAGa11All0
ORF1ab/nsp2442E442LGAaTTa11All0
ORF1ab/nsp2442E442TGAaACa11All0
ORF1ab/nsp2442E442KGaaAaa11AY.10.000396
ORF1ab/nsp2442E442GgAagGa11AY.1000.000046
ORF1ab/nsp2442E442DgaAgaC11AY.1020.000027
ORF1ab/nsp2442E442GgAagGa11AY.1020.000027
ORF1ab/nsp2442E442KGaaAaa11AY.1020.000027
ORF1ab/nsp2442E442del1gAag-a11AY.1030.000006
ORF1ab/nsp2442E442EgaAgaG11AY.1110.000183
ORF1ab/nsp2442E442KGaaAaa11AY.1140.000231
ORF1ab/nsp2442E442KGaaAaa11AY.1170.000085
ORF1ab/nsp2442E442del1Gaa-aa11AY.1190.000035
ORF1ab/nsp2442E442KGaaAaa11AY.1200.000037
ORF1ab/nsp2442E442AgAagCa11AY.130.000161
ORF1ab/nsp2442E442GgAagGa11AY.20.000356
ORF1ab/nsp2442E442GgAagGa11AY.260.000028
ORF1ab/nsp2442E442XGaaTaa11AY.260.000028
ORF1ab/nsp2442E442DgaAgaT11AY.260.000028
ORF1ab/nsp2442E442KGaaAaa11AY.290.000016
ORF1ab/nsp2442E442AgAagCa11AY.30.00001
ORF1ab/nsp2442E442GgAagGa11AY.300.000396
ORF1ab/nsp2442E442KGaaAaa11AY.340.000097
ORF1ab/nsp2442E442del2gAAg--11AY.390.000025
ORF1ab/nsp2442E442KGaaAaa11AY.390.000025
ORF1ab/nsp2442E442DgaAgaC11AY.39.10.00004
ORF1ab/nsp2442E442EgaAgaG11AY.40.000002
ORF1ab/nsp2442E442VgAagTa11AY.40.000002
ORF1ab/nsp2442E442DgaAgaC11AY.4.20.000022
ORF1ab/nsp2442E442del1gAag-a11AY.430.000004
ORF1ab/nsp2442E442VgAagTa11AY.430.000004
ORF1ab/nsp2442E442GgAagGa11AY.430.000004
ORF1ab/nsp2442E442KGaaAaa11AY.450.000122
ORF1ab/nsp2442E442GgAagGa11AY.46.20.000635
ORF1ab/nsp2442E442GgAagGa11AY.46.60.000072
ORF1ab/nsp2442E442EgaAgaG11AY.50.000021
ORF1ab/nsp2442E442DgaAgaC11AY.5.30.000337
ORF1ab/nsp2442E442delGAA---11AY.540.000095
ORF1ab/nsp2442E442AgAagCa11AY.600.000938
ORF1ab/nsp2442E442KGaaAaa11AY.610.000105
ORF1ab/nsp2442E442AgAagCa11AY.610.000105
ORF1ab/nsp2442E442KGaaAaa11AY.75.10.00018
ORF1ab/nsp2442E442EgaAgaG11AY.850.000427
ORF1ab/nsp2442E442GgAagGa11AY.9.10.000084
ORF1ab/nsp2442E442KGaaAaa11AY.9.10.000084
ORF1ab/nsp2442E442XGaaTaa11AY.920.000287
ORF1ab/nsp2442E442DgaAgaC11AY.920.000287
ORF1ab/nsp2442E442GgAagGa11AY.98.10.000048
ORF1ab/nsp2442E442EgaAgaG11AY.98.10.000048
ORF1ab/nsp2442E442EgaAgaG11AY.99.20.000092
ORF1ab/nsp2442E442XGaaTaa11B0.000128
ORF1ab/nsp2442E442VgAagTa11B0.000128
ORF1ab/nsp2442E442del1gAag-a11B.10.000009
ORF1ab/nsp2442E442delGAA---11B.1.10.000018
ORF1ab/nsp2442E442del1gAag-a11B.1.10.000018
ORF1ab/nsp2442E442KGaaAaa11B.1.1.2140.000055
ORF1ab/nsp2442E442KGaaAaa11B.1.1.3010.001179
ORF1ab/nsp2442E442EgaAgaG11B.1.1.370.000193
ORF1ab/nsp2442E442GgAagGa11B.1.1.3720.000689
ORF1ab/nsp2442E442DgaAgaC11B.1.1.390.00051
ORF1ab/nsp2442E442KGaaAaa11B.1.1.4090.002833
ORF1ab/nsp2442E442delGAA---11B.1.1.4160.000905
ORF1ab/nsp2442E442KGaaAaa11B.1.1.4340.000349
ORF1ab/nsp2442E442DgaAgaC11B.1.1.5190.00004
ORF1ab/nsp2442E442GgAagGa11B.1.1.5190.00004
ORF1ab/nsp2442E442QGaaCaa11B.1.1.70.000001
ORF1ab/nsp2442E442del2gAAg--11B.1.1.70.000001
ORF1ab/nsp2442E442TGAaACa11B.1.1.70.000001
ORF1ab/nsp2442E442del1gAag-a11B.1.1430.021277
ORF1ab/nsp2442E442GgAagGa11B.1.1770.000013
ORF1ab/nsp2442E442KGaaAaa11B.1.177.160.000664
ORF1ab/nsp2442E442delGAA---11B.1.177.180.00116
ORF1ab/nsp2442E442KGaaAaa11B.1.177.210.000076
ORF1ab/nsp2442E442KGaaAaa11B.1.177.510.004566
ORF1ab/nsp2442E442EgaAgaG11B.1.177.600.000218
ORF1ab/nsp2442E442AgAagCa11B.1.177.650.000665
ORF1ab/nsp2442E442delGAA---11B.1.177.830.001481
ORF1ab/nsp2442E442delGAA---11B.1.1790.003759
ORF1ab/nsp2442E442DgaAgaC11B.1.20.000009
ORF1ab/nsp2442E442RGAaAGa11B.1.20.000009
ORF1ab/nsp2442E442QGaaCaa11B.1.2060.000816
ORF1ab/nsp2442E442KGaaAaa11B.1.2210.000071
ORF1ab/nsp2442E442DgaAgaC11B.1.2210.000071
ORF1ab/nsp2442E442del1Gaa-aa11B.1.2340.000132
ORF1ab/nsp2442E442GgAagGa11B.1.2580.000067
ORF1ab/nsp2442E442GgAagGa11B.1.258.170.000104
ORF1ab/nsp2442E442EgaAgaG11B.1.3360.002439
ORF1ab/nsp2442E442KGaaAaa11B.1.3380.008621
ORF1ab/nsp2442E442GgAagGa11B.1.3510.00003
ORF1ab/nsp2442E442DgaAgaT11B.1.351.30.000876
ORF1ab/nsp2442E442GgAagGa11B.1.36.190.009259
ORF1ab/nsp2442E442GgAagGa11B.1.3890.001002
ORF1ab/nsp2442E442GgAagGa11B.1.3960.000706
ORF1ab/nsp2442E442KGaaAaa11B.1.4290.000024
ORF1ab/nsp2442E442KGaaAaa11B.1.4970.000315
ORF1ab/nsp2442E442delGAA---11B.1.5610.000397
ORF1ab/nsp2442E442GgAagGa11B.1.5750.000303
ORF1ab/nsp2442E442AgAagCa11B.1.5750.000303
ORF1ab/nsp2442E442GgAagGa11B.1.5950.000261
ORF1ab/nsp2442E442GgAagGa11B.1.5960.000087
ORF1ab/nsp2442E442del1gAag-a11B.1.5960.000087
ORF1ab/nsp2442E442GgAagGa11B.1.6090.000479
ORF1ab/nsp2442E442del1gAag-a11B.1.617.20.000004
ORF1ab/nsp2442E442delGAA---11B.1.617.20.000004
ORF1ab/nsp2442E442KGaaAaa11B.110.005128
ORF1ab/nsp2442E442KGaaAaa11B.350.007812
ORF1ab/nsp2442E442XGaaTaa11B.410.008
ORF1ab/nsp2442E442delGAA---11B.570.015152
ORF1ab/nsp2442E442XGaaTaa11B.6.60.000889
ORF1ab/nsp2442E442KGaaAaa11C.180.002591
ORF1ab/nsp2442E442VgAagTa11D.20.000075
ORF1ab/nsp2442E442EgaAgaG11P.10.000016
ORF1ab/nsp2442E442DgaAgaT11P.1.10.000318
ORF1ab/nsp2442E442EgaAgaG11Q.40.000455

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.