CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 427

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
S427D427NnonsynGatAat239623950.99958322841-22843
S427D427NnonsynGaTAaC239610.00041736222841-22843
S427D427DsyngaTgaC11151115122841-22843
S427D427VnonsyngAtgTt818818122841-22843
S427D427YnonsynGatTat427427122841-22843
S427D427GnonsyngAtgGt412412122841-22843
S427D427HnonsynGatCat2702690.99629622841-22843
S427D427HnonsynGaTCaC27010.003703722841-22843
S427D427AnonsyngAtgCt122122122841-22843
S427D427EnonsyngaTgaG41340.82926822841-22843
S427D427EnonsyngaTgaA4170.17073222841-22843
S427D427deldelGAT---1919122841-22843
S427D427del2delgATg--430.7522841-22843
S427D427del2delGAt--t410.2522841-22843
S427D427del1delGat-at22122841-22843
S427D427KnonsynGaTAaG11122841-22843
S427D427CnonsynGAtTGt11122841-22843

Details of the mutation no within lineages (LineageCodonProp is the proportion the codon is observed at, at this particular site, on each lineage):

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S427D427NGatAat23952396All0.000458
S427D427NGaTAaC12396All0
S427D427NGatAat12621262B.1.1.70.00113
S427D427DgaTgaC11151115All0.000213
S427D427NGatAat953953P.10.015014
S427D427VgAtgTt818818All0.000156
S427D427VgAtgTt720720AY.40.001121
S427D427DgaTgaC523523B.1.177.801
S427D427YGatTat427427All0.000082
S427D427GgAtgGt412412All0.000079
S427D427DgaTgaC273273B.1.1770.003595
S427D427HGatCat269270All0.000051
S427D427HGaTCaC1270All0
S427D427AgAtgCt122122All0.000023
S427D427GgAtgGt109109AY.430.000483
S427D427DgaTgaC9393B.1.1.1801
S427D427GgAtgGt8484B.1.617.20.000316
S427D427AgAtgCt7272AY.250.000433
S427D427HGatCat6565B.1.617.20.000245
S427D427YGatTat6363B.1.1.70.000056
S427D427YGatTat5353P.10.000835
S427D427DgaTgaC4242B.1.5260.000987
S427D427EgaTgaG3441All0.000007
S427D427EgaTgaA741All0.000001
S427D427GgAtgGt3737AY.40.000058
S427D427HGatCat3535AY.1030.000217
S427D427NGatAat3535Q.80.005772
S427D427YGatTat3434AY.40.000053
S427D427DgaTgaC3232B.1.1.70.000029
S427D427YGatTat3131B.1.617.20.000117
S427D427EgaTgaG2929P.10.000457
S427D427GgAtgGt2424AY.250.000144
S427D427YGatTat2323AY.1030.000143
S427D427GgAtgGt2323AY.50.000475
S427D427GgAtgGt2121AY.60.000864
S427D427DgaTgaC2121B.1.617.20.000079
S427D427VgAtgTt2020B.1.617.20.000075
S427D427delGAT---1919All0.000004
S427D427HGatCat1819B.1.1.70.000016
S427D427HGaTCaC119B.1.1.70.000001
S427D427DgaTgaC1818AY.1210.002436
S427D427HGatCat1818AY.440.00011
S427D427DgaTgaC1717B.1.6370.001242
S427D427HGatCat1515AY.200.000583
S427D427HGatCat1515AY.430.000066
S427D427YGatTat1515AY.630.005803
S427D427HGatCat1515AY.980.001185
S427D427GgAtgGt1414AY.390.000346
S427D427HGatCat1414P.10.000221
S427D427GgAtgGt1313AY.440.000079
S427D427NGatAat1313AY.50.000268
S427D427GgAtgGt1313B.1.177.180.015081
S427D427VgAtgTt1313B.1.4800.032338
S427D427NGatAat1313P.1.120.006292
S427D427HGatCat1212AY.40.000019
S427D427YGatTat1212AY.430.000053
S427D427GgAtgGt1212B.1.4290.000282
S427D427GgAtgGt1111AY.1030.000068
S427D427YGatTat1111AY.50.000227
S427D427NGatAat1111B.10.000101
S427D427NGatAat1111Q.10.00139
S427D427DgaTgaC1010AY.40.000016
S427D427YGatTat1010AY.4.20.000217
S427D427VgAtgTt1010AY.440.000061
S427D427NGatAat99AY.430.00004
S427D427VgAtgTt99AY.430.00004
S427D427YGatTat99AY.440.000055
S427D427YGatTat99Q.30.001305
S427D427HGatCat88AY.1200.000297
S427D427NGatAat88AY.440.000049
S427D427YGatTat88AY.610.000838
S427D427DgaTgaC88B.10.000073
S427D427NGatAat88B.1.5800.03252
S427D427AgAtgCt88B.1.617.20.00003
S427D427GgAtgGt77B.1.1.70.000006
S427D427NGatAat77P.1.10.002224
S427D427YGatTat66AY.250.000036
S427D427YGatTat66AY.90.000406
S427D427YGatTat66AY.9.20.00022
S427D427DgaTgaC66AY.980.000474
S427D427NGatAat66B.1.10.000109
S427D427AgAtgCt66B.1.1.70.000005
S427D427YGatTat66B.1.1770.000079
S427D427DgaTgaC66B.1.177.810.001136
S427D427DgaTgaC66B.1.20.000053
S427D427YGatTat66B.1.4290.000141
S427D427GgAtgGt55AY.1020.000133
S427D427VgAtgTt55AY.1030.000031
S427D427HGatCat55AY.30.00005
S427D427DgaTgaC55AY.300.001979
S427D427DgaTgaC55B.1.4290.000118
S427D427YGatTat44A.23.10.002817
S427D427del2gATg--34All0.000001
S427D427del2GAt--t14All0
S427D427YGatTat44AY.1000.000184
S427D427NGatAat44AY.1020.000106
S427D427VgAtgTt44AY.1020.000106
S427D427DgaTgaC44AY.1030.000025
S427D427YGatTat44AY.1200.000149
S427D427DgaTgaC44AY.200.000155
S427D427NGatAat44AY.390.000099
S427D427VgAtgTt44AY.390.000099
S427D427AgAtgCt44AY.40.000006
S427D427NGatAat44AY.4.20.000087
S427D427DgaTgaC44AY.430.000018
S427D427DgaTgaC44AY.440.000024
S427D427YGatTat44AY.75.10.000721
S427D427YGatTat44B.10.000037
S427D427DgaTgaC44B.1.10.000073
S427D427YGatTat44B.1.10.000073
S427D427delGAT---44B.1.1.70.000004
S427D427HGatCat44B.1.1280.002541
S427D427GgAtgGt44B.1.20.000035
S427D427NGatAat44B.1.617.20.000015
S427D427YGatTat44P.1.120.001936
S427D427NGatAat44P.1.140.000191
S427D427NGatAat33AY.250.000018
S427D427VgAtgTt33AY.250.000018
S427D427HGatCat33AY.260.000085
S427D427GgAtgGt33AY.290.000047
S427D427YGatTat33AY.30.00003
S427D427HGatCat33AY.390.000074
S427D427AgAtgCt33AY.39.20.004622
S427D427AgAtgCt33AY.420.000121
S427D427GgAtgGt33AY.460.000312
S427D427VgAtgTt33AY.46.60.000217
S427D427VgAtgTt33AY.50.000062
S427D427NGatAat33B.1.1.5180.018987
S427D427VgAtgTt33B.1.1.70.000003
S427D427AgAtgCt33B.1.2580.0002
S427D427NGatAat33B.1.3240.004815
S427D427YGatTat33B.1.36.160.004274
S427D427YGatTat33B.1.4270.000151
S427D427DgaTgaC33B.1.5090.002597
S427D427delGAT---33B.1.617.20.000011
S427D427NGatAat33B.1.6300.015707
S427D427del2gATg--220.111111
S427D427del1Gat-at22All0
S427D427NGatAat22AY.1030.000012
S427D427GgAtgGt22AY.1200.000074
S427D427YGatTat22AY.200.000078
S427D427YGatTat22AY.230.000139
S427D427DgaTgaC22AY.250.000012
S427D427EgaTgaA22AY.290.000032
S427D427NGatAat22AY.30.00002
S427D427HGatCat22AY.330.000134
S427D427DgaTgaC22AY.370.000632
S427D427YGatTat22AY.390.000049
S427D427YGatTat22AY.39.10.000079
S427D427NGatAat22AY.40.000003
S427D427delGAT---22AY.40.000003
S427D427VgAtgTt22AY.4.50.000215
S427D427YGatTat22AY.450.000243
S427D427GgAtgGt22AY.470.000062
S427D427YGatTat22AY.470.000062
S427D427YGatTat22AY.60.000082
S427D427HGatCat22AY.610.00021
S427D427YGatTat22AY.680.000547
S427D427YGatTat22AY.700.000417
S427D427GgAtgGt22AY.750.000112
S427D427YGatTat22AY.750.000112
S427D427AgAtgCt22AY.75.10.000361
S427D427AgAtgCt22AY.860.00166
S427D427YGatTat22AY.9.10.000167
S427D427HGatCat22AY.9.20.000073
S427D427GgAtgGt22AY.99.10.003106
S427D427EgaTgaA12B.10.000009
S427D427EgaTgaG12B.10.000009
S427D427AgAtgCt22B.1.1.2140.000111
S427D427VgAtgTt22B.1.1.2840.000215
S427D427DgaTgaC22B.1.1.3690.000892
S427D427GgAtgGt22B.1.1770.000026
S427D427NGatAat22B.1.1770.000026
S427D427HGatCat22B.1.1770.000026
S427D427HGatCat22B.1.177.70.00033
S427D427HGatCat22B.1.20.000018
S427D427GgAtgGt22B.1.2790.001027
S427D427DgaTgaC22B.1.3200.002491
S427D427VgAtgTt22B.1.3510.000059
S427D427DgaTgaC22B.1.360.000292
S427D427NGatAat22B.1.4270.000101
S427D427YGatTat22B.1.5960.000174
S427D427GgAtgGt22B.1.6370.000146
S427D427YGatTat22B.1.6370.000146
S427D427YGatTat22P.1.100.000539
S427D427NGatAat22P.1.10.10.01626
S427D427HGatCat22P.1.170.000324
S427D427YGatTat22P.1.70.000639
S427D427YGatTat22R.10.00018
S427D427AgAtgCt11A.10.000282
S427D427DgaTgaC11A.2.40.003367
S427D427YGatTat11A.2.5.20.001572
S427D427AgAtgCt11A.210.00277
S427D427YGatTat11AB.10.008197
S427D427CGAtTGt11All0
S427D427KGaTAaG11All0
S427D427HGatCat11AY.1010.00049
S427D427HGatCat11AY.1020.000027
S427D427YGatTat11AY.1040.001984
S427D427DgaTgaC11AY.1050.000643
S427D427YGatTat11AY.1060.000335
S427D427EgaTgaG11AY.1090.00074
S427D427DgaTgaC11AY.1170.000085
S427D427HGatCat11AY.1170.000085
S427D427NGatAat11AY.1180.000063
S427D427AgAtgCt11AY.1190.000035
S427D427YGatTat11AY.1190.000035
S427D427YGatTat11AY.120.10.000321
S427D427GgAtgGt11AY.120.10.000321
S427D427YGatTat11AY.1210.000135
S427D427HGatCat11AY.130.000161
S427D427HGatCat11AY.160.00038
S427D427YGatTat11AY.160.00038
S427D427VgAtgTt11AY.200.000039
S427D427NGatAat11AY.200.000039
S427D427GgAtgGt11AY.200.000039
S427D427AgAtgCt11AY.200.000039
S427D427HGatCat11AY.230.00007
S427D427VgAtgTt11AY.230.00007
S427D427GgAtgGt11AY.230.00007
S427D427DgaTgaC11AY.23.10.000417
S427D427AgAtgCt11AY.240.000431
S427D427HGatCat11AY.240.000431
S427D427AgAtgCt11AY.260.000028
S427D427YGatTat11AY.260.000028
S427D427YGatTat11AY.290.000016
S427D427EgaTgaA11AY.300.000396
S427D427YGatTat11AY.330.000067
S427D427GgAtgGt11AY.34.10.00051
S427D427NGatAat11AY.34.10.00051
S427D427HGatCat11AY.34.10.00051
S427D427EgaTgaG11AY.390.000025
S427D427DgaTgaC11AY.39.10.00004
S427D427HGatCat11AY.4.20.000022
S427D427VgAtgTt11AY.4.20.000022
S427D427NGatAat11AY.4.50.000107
S427D427delGAT---11AY.4.50.000107
S427D427YGatTat11AY.4.50.000107
S427D427HGatCat11AY.420.00004
S427D427del1Gat-at11AY.430.000004
S427D427DgaTgaC11AY.450.000122
S427D427VgAtgTt11AY.450.000122
S427D427GgAtgGt11AY.450.000122
S427D427YGatTat11AY.460.000104
S427D427YGatTat11AY.46.30.000934
S427D427GgAtgGt11AY.46.50.000198
S427D427DgaTgaC11AY.46.60.000072
S427D427YGatTat11AY.5.40.000277
S427D427DgaTgaC11AY.540.000095
S427D427AgAtgCt11AY.540.000095
S427D427AgAtgCt11AY.550.000917
S427D427YGatTat11AY.590.00053
S427D427GgAtgGt11AY.590.00053
S427D427DgaTgaC11AY.590.00053
S427D427HGatCat11AY.60.000041
S427D427AgAtgCt11AY.610.000105
S427D427VgAtgTt11AY.620.000436
S427D427GgAtgGt11AY.680.000274
S427D427GgAtgGt11AY.70.000196
S427D427YGatTat11AY.7.10.000113
S427D427NGatAat11AY.740.000116
S427D427AgAtgCt11AY.750.000056
S427D427KGaTAaG11AY.750.000056
S427D427HGatCat11AY.750.000056
S427D427GgAtgGt11AY.75.10.00018
S427D427HGatCat11AY.780.001541
S427D427YGatTat11AY.830.001724
S427D427EgaTgaA11AY.850.000427
S427D427AgAtgCt11AY.850.000427
S427D427YGatTat11AY.880.000884
S427D427NGatAat11AY.9.20.000037
S427D427GgAtgGt11AY.920.000287
S427D427delGAT---11AY.940.000443
S427D427DgaTgaC11AY.950.000761
S427D427VgAtgTt11AY.980.000079
S427D427NGatAat11AY.98.10.000048
S427D427DgaTgaC11AY.98.10.000048
S427D427YGatTat11AY.98.10.000048
S427D427YGatTat11AY.99.20.000092
S427D427delGAT---11B0.000128
S427D427VgAtgTt11B.10.000009
S427D427del2gATg--11B.10.000009
S427D427HGatCat11B.10.000009
S427D427GgAtgGt11B.1.10.000018
S427D427YGatTat11B.1.1.100.001115
S427D427HGatCat11B.1.1.2220.000204
S427D427delGAT---11B.1.1.2360.006897
S427D427DgaTgaC11B.1.1.250.000569
S427D427YGatTat11B.1.1.2790.001121
S427D427AgAtgCt11B.1.1.3060.000438
S427D427VgAtgTt11B.1.1.3060.000438
S427D427EgaTgaG11B.1.1.3060.000438
S427D427NGatAat11B.1.1.3260.001761
S427D427GgAtgGt11B.1.1.330.000421
S427D427AgAtgCt11B.1.1.3510.002793
S427D427NGatAat11B.1.1.3680.003086
S427D427YGatTat11B.1.1.3760.005952
S427D427NGatAat11B.1.1.4480.002033
S427D427VgAtgTt11B.1.1.500.000679
S427D427VgAtgTt11B.1.1.5180.006329
S427D427HGatCat11B.1.1.5190.00004
S427D427YGatTat11B.1.1.5190.00004
S427D427NGatAat11B.1.1.5280.004808
S427D427EgaTgaA11B.1.1.70.000001
S427D427HGatCat11B.1.1.700.000341
S427D427YGatTat11B.1.1110.001175
S427D427VgAtgTt11B.1.1770.000013
S427D427EgaTgaA11B.1.1770.000013
S427D427del2GAt--t11B.1.177.110.001698
S427D427HGatCat11B.1.177.120.000152
S427D427YGatTat11B.1.177.120.000152
S427D427YGatTat11B.1.177.170.000821
S427D427YGatTat11B.1.177.350.000691
S427D427GgAtgGt11B.1.177.40.000211
S427D427delGAT---11B.1.177.510.004566
S427D427YGatTat11B.1.177.570.000281
S427D427YGatTat11B.1.177.580.001332
S427D427CGAtTGt11B.1.177.70.000165
S427D427YGatTat11B.1.177.70.000165
S427D427DgaTgaC11B.1.177.80.000752
S427D427YGatTat11B.1.177.810.000189
S427D427VgAtgTt11B.1.20.000009
S427D427delGAT---11B.1.20.000009
S427D427del1Gat-at11B.1.20.000009
S427D427YGatTat11B.1.2010.005682
S427D427YGatTat11B.1.2340.000132
S427D427AgAtgCt11B.1.2430.00007
S427D427YGatTat11B.1.2430.00007
S427D427YGatTat11B.1.2580.000067
S427D427NGaTAaC11B.1.2580.000067
S427D427YGatTat11B.1.2650.001271
S427D427YGatTat11B.1.3490.000715
S427D427YGatTat11B.1.3510.00003
S427D427delGAT---11B.1.351.20.000303
S427D427YGatTat11B.1.351.20.000303
S427D427HGatCat11B.1.36.290.000517
S427D427DgaTgaC11B.1.36.390.002217
S427D427YGatTat11B.1.3710.001122
S427D427DgaTgaC11B.1.4680.005714
S427D427HGatCat11B.1.5260.000024
S427D427NGatAat11B.1.5260.000024
S427D427YGatTat11B.1.5440.006024
S427D427HGatCat11B.1.5670.003333
S427D427delGAT---11B.1.5680.001111
S427D427YGatTat11B.1.5760.000907
S427D427YGatTat11B.1.5820.000491
S427D427HGatCat11B.1.6200.000946
S427D427delGAT---11B.1.6200.000946
S427D427NGatAat11B.1.6210.000089
S427D427YGatTat11B.1.6280.000352
S427D427YGatTat11B.1.9.40.006135
S427D427GgAtgGt11C.350.000774
S427D427YGatTat11C.370.000116
S427D427VgAtgTt11P.10.000016
S427D427DgaTgaC11P.10.000016
S427D427AgAtgCt11P.10.000016
S427D427AgAtgCt11P.1.10.000318
S427D427EgaTgaG11P.1.10.000318
S427D427VgAtgTt11P.1.10.000318
S427D427AgAtgCt11P.1.140.000048
S427D427YGatTat11P.1.140.000048
S427D427DgaTgaC11P.1.140.000048
S427D427NGatAat11P.1.150.000232
S427D427NGatAat11P.1.160.000374
S427D427YGatTat11P.1.170.000162
S427D427HGatCat11P.1.20.001156
S427D427delGAT---11Q.80.000165
S427D427HGatCat11Q.80.000165
S427D427HGatCat11R.10.00009
S427D427VgAtgTt11R.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.