CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 626

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
S626A626SnonsynGcaTca259125900.99961423438-23440
S626A626SnonsynGcATcT259110.00038595123438-23440
S626A626VnonsyngCagTa493493123438-23440
S626A626AsyngcAgcG4662690.57725323438-23440
S626A626AsyngcAgcT4661630.34978523438-23440
S626A626AsyngcAgcC466340.072961423438-23440
S626A626TnonsynGcaAca1811780.98342523438-23440
S626A626TnonsynGcAAcG18130.016574623438-23440
S626A626EnonsyngCagAa1313123438-23440
S626A626deldelGCA---1010123438-23440
S626A626PnonsynGcaCca55123438-23440
S626A626GnonsyngCagGa320.66666723438-23440
S626A626GnonsyngCAgGT310.33333323438-23440
S626A626del2delgCAg--210.523438-23440
S626A626del2delGCa--a210.523438-23440
S626A626CnonsynGCATGT11123438-23440
S626A626XnonsynGCaTGa11123438-23440
S626A626LnonsynGCaTTa11123438-23440

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S626A626SGcaTca25902591All0.000495
S626A626SGcATcT12591All0
S626A626SGcaTca10361036B.1.1.2770.786039
S626A626VgCagTa493493All0.000094
S626A626AgcAgcG269466All0.000051
S626A626AgcAgcT163466All0.000031
S626A626AgcAgcC34466All0.000007
S626A626SGcaTca254254B.1.1.70.000227
S626A626TGcaAca178181All0.000034
S626A626TGcAAcG3181All0.000001
S626A626SGcaTca162162K.31
S626A626AgcAgcG127148AY.40.000198
S626A626AgcAgcT21148AY.40.000033
S626A626SGcaTca146146B.1.617.20.00055
S626A626SGcaTca124124B.1.4990.130252
S626A626SGcaTca121121AY.430.000536
S626A626SGcaTca9999AY.40.000154
S626A626TGcaAca8383B.1.1.70.000074
S626A626SGcaTca8383B.1.2210.005896
S626A626VgCagTa6363B.10.000577
S626A626TGcaAca6363B.1.5260.001481
S626A626VgCagTa5757B.1.1.70.000051
S626A626VgCagTa5252AY.40.000081
S626A626SGcaTca4848B.1.20.000423
S626A626AgcAgcT4242B.1.1.5240.875
S626A626SGcaTca4242B.1.1770.000553
S626A626AgcAgcT2539B.1.1.70.000022
S626A626AgcAgcG1439B.1.1.70.000013
S626A626AgcAgcG2737B.10.000247
S626A626AgcAgcC837B.10.000073
S626A626AgcAgcT237B.10.000018
S626A626SGcaTca3333AY.90.002231
S626A626SGcaTca3232AY.99.20.002949
S626A626VgCagTa3131B.1.5880.028207
S626A626SGcaTca3030AY.1030.000186
S626A626SGcaTca2929AY.98.10.001404
S626A626SGcaTca2929P.20.005412
S626A626AgcAgcG2127AY.250.000126
S626A626AgcAgcT627AY.250.000036
S626A626VgCagTa2525AD.20.005474
S626A626VgCagTa2222AY.4.20.000477
S626A626VgCagTa2121B.1.20.000185
S626A626AgcAgcG1421B.1.617.20.000053
S626A626AgcAgcT721B.1.617.20.000026
S626A626SGcaTca1919P.10.000299
S626A626AgcAgcG1919R.10.00171
S626A626SGcaTca1818AY.440.00011
S626A626VgCagTa1818B.1.1.4340.006274
S626A626VgCagTa1818B.1.617.20.000068
S626A626SGcaTca1717B.10.000156
S626A626VgCagTa1717B.1.10.000308
S626A626VgCagTa1717B.1.1.2220.003468
S626A626SGcaTca1616B.1.10.00029
S626A626SGcaTca1515AY.250.00009
S626A626EgCagAa1313All0.000002
S626A626AgcAgcG1112AY.1030.000068
S626A626AgcAgcC112AY.1030.000006
S626A626AgcAgcT712AY.440.000043
S626A626AgcAgcG412AY.440.000024
S626A626AgcAgcC112AY.440.000006
S626A626SGcaTca1212B.1.1.470.064171
S626A626AgcAgcT911B.1.20.000079
S626A626AgcAgcG211B.1.20.000018
S626A626delGCA---1010All0.000002
S626A626SGcaTca1010AY.160.003797
S626A626SGcaTca1010AY.200.000389
S626A626VgCagTa1010AY.250.00006
S626A626VgCagTa1010AY.430.000044
S626A626SGcaTca1010B.1.3610.012887
S626A626AgcAgcT99AY.10.003562
S626A626AgcAgcG59AY.430.000022
S626A626AgcAgcC29AY.430.000009
S626A626AgcAgcT29AY.430.000009
S626A626EgCagAa99B.1.5260.000212
S626A626SGcaTca99P.1.10.002859
S626A626VgCagTa88AY.290.000126
S626A626SGcaTca88B.1.1600.00025
S626A626SGcaTca88C.370.000929
S626A626SGcaTca77B.1.1.5190.000278
S626A626AgcAgcG67B.1.2210.000426
S626A626AgcAgcC17B.1.2210.000071
S626A626SGcaTca77B.1.5250.000792
S626A626SGcaTca66AY.290.000095
S626A626SGcaTca66AY.390.000148
S626A626TGcaAca66AY.40.000009
S626A626VgCagTa66AY.440.000037
S626A626SGcaTca66B.1.1.2940.007595
S626A626SGcaTca66B.1.438.10.000644
S626A626SGcaTca66B.1.499.10.666667
S626A626SGcaTca66B.1.6090.002876
S626A626VgCagTa66D.20.00045
S626A626PGcaCca55All0.000001
S626A626VgCagTa55AY.1000.00023
S626A626VgCagTa55AY.1030.000031
S626A626VgCagTa55AY.30.00005
S626A626AgcAgcC55AY.500.003997
S626A626VgCagTa55B.1.1.270.028249
S626A626SGcaTca55B.1.1.2980.00431
S626A626AgcAgcC55B.1.1770.000066
S626A626AgcAgcG55B.1.177.160.003322
S626A626TGcaAca55B.1.258.110.001982
S626A626SGcaTca55B.1.3510.000149
S626A626AgcAgcT55B.1.5260.000118
S626A626VgCagTa55C.370.00058
S626A626SGcaTca44AY.120.2.10.001993
S626A626SGcaTca44AY.140.000352
S626A626SGcaTca44AY.330.000267
S626A626VgCagTa44AY.470.000124
S626A626SGcaTca44AY.9.20.000147
S626A626AgcAgcT24B.1.10.000036
S626A626AgcAgcC24B.1.10.000036
S626A626delGCA---44B.1.1.70.000004
S626A626AgcAgcT44B.1.2340.000528
S626A626SGcaTca44K.10.095238
S626A626AgcAgcG44P.10.000063
S626A626VgCagTa44P.10.000063
S626A626SGcaTca230.111111
S626A626SGcATcT130.055556
S626A626GgCagGa23All0
S626A626GgCAgGT13All0
S626A626VgCagTa33AY.1170.000254
S626A626SGcaTca33AY.1190.000106
S626A626SGcaTca33AY.230.000209
S626A626TGcaAca33AY.250.000018
S626A626EgCagAa33AY.390.000074
S626A626VgCagTa33AY.390.000074
S626A626TGcaAca33AY.50.000062
S626A626VgCagTa33B0.000383
S626A626SGcaTca33B.1.1.2220.000612
S626A626VgCagTa33B.1.1.280.000934
S626A626VgCagTa33B.1.1.3180.000905
S626A626VgCagTa33B.1.36.360.001806
S626A626SGcaTca33B.1.5170.001281
S626A626VgCagTa33B.1.6270.006061
S626A626GgCAgGT120.055556
S626A626GgCagGa120.055556
S626A626del2GCa--a12All0
S626A626del2gCAg--12All0
S626A626VgCagTa22AY.1020.000053
S626A626SGcaTca22AY.1020.000053
S626A626SGcaTca22AY.1130.000285
S626A626SGcaTca22AY.1160.000574
S626A626SGcaTca22AY.1200.000074
S626A626SGcaTca22AY.1210.000271
S626A626TGcaAca22AY.39.10.000079
S626A626SGcaTca22AY.60.000082
S626A626SGcaTca22AY.640.00119
S626A626SGcaTca22AY.770.002255
S626A626SGcaTca22B0.000256
S626A626AgcAgcC22B.1.1.1610.007067
S626A626SGcaTca22B.1.1.2140.000111
S626A626VgCagTa22B.1.1.4290.009217
S626A626AgcAgcC22B.1.1600.000062
S626A626VgCagTa22B.1.1770.000026
S626A626AgcAgcT22B.1.177.810.000379
S626A626TGcAAcG12B.1.20.000009
S626A626TGcaAca12B.1.20.000009
S626A626VgCagTa22B.1.3190.006098
S626A626VgCagTa22B.1.4290.000047
S626A626SGcaTca22B.1.4290.000047
S626A626VgCagTa22B.1.4970.00063
S626A626VgCagTa22B.1.5950.000522
S626A626AgcAgcT22B.1.6200.001892
S626A626VgCagTa22B.1.6210.000177
S626A626AgcAgcT22B.1.621.10.001012
S626A626SGcaTca22P.1.100.000539
S626A626SGcaTca22Q.30.00029
S626A626PGcaCca110.055556
S626A626XGCaTGa110.055556
S626A626CGCATGT110.055556
S626A626AgcAgcT110.055556
S626A626SGcaTca11A0.000387
S626A626TGcaAca11A.10.000282
S626A626VgCagTa11A.2.50.000499
S626A626VgCagTa11A.30.002096
S626A626XGCaTGa11All0
S626A626LGCaTTa11All0
S626A626CGCATGT11All0
S626A626VgCagTa11AY.10.000396
S626A626AgcAgcG11AY.1020.000027
S626A626VgCagTa11AY.1080.001103
S626A626VgCagTa11AY.1090.00074
S626A626SGcaTca11AY.1140.000231
S626A626AgcAgcT11AY.1170.000085
S626A626delGCA---11AY.1180.000063
S626A626TGcaAca11AY.1200.000037
S626A626AgcAgcT11AY.1200.000037
S626A626TGcaAca11AY.120.10.000321
S626A626VgCagTa11AY.1210.000135
S626A626AgcAgcG11AY.130.000161
S626A626SGcaTca11AY.130.000161
S626A626AgcAgcG11AY.200.000039
S626A626AgcAgcT11AY.230.00007
S626A626TGcaAca11AY.260.000028
S626A626VgCagTa11AY.260.000028
S626A626SGcaTca11AY.270.000065
S626A626SGcaTca11AY.30.00001
S626A626TGcAAcG11AY.30.00001
S626A626AgcAgcT11AY.3.10.000085
S626A626VgCagTa11AY.3.10.000085
S626A626VgCagTa11AY.330.000067
S626A626SGcaTca11AY.34.10.00051
S626A626delGCA---11AY.380.000499
S626A626SGcaTca11AY.39.10.00004
S626A626TGcaAca11AY.4.20.000022
S626A626VgCagTa11AY.4.50.000107
S626A626TGcaAca11AY.420.00004
S626A626TGcaAca11AY.430.000004
S626A626delGCA---11AY.430.000004
S626A626TGcaAca11AY.440.000006
S626A626SGcaTca11AY.460.000104
S626A626VgCagTa11AY.46.60.000072
S626A626AgcAgcG11AY.470.000031
S626A626VgCagTa11AY.50.000021
S626A626SGcaTca11AY.5.30.000337
S626A626SGcaTca11AY.520.000814
S626A626VgCagTa11AY.530.000288
S626A626SGcaTca11AY.550.000917
S626A626SGcaTca11AY.610.000105
S626A626SGcaTca11AY.620.000436
S626A626SGcaTca11AY.650.000533
S626A626AgcAgcT11AY.670.000464
S626A626SGcaTca11AY.690.000187
S626A626AgcAgcT11AY.7.10.000113
S626A626SGcaTca11AY.810.001992
S626A626SGcaTca11AY.860.00083
S626A626SGcaTca11AY.880.000884
S626A626del2GCa--a11AY.920.000287
S626A626VgCagTa11AY.950.000761
S626A626VgCagTa11AY.980.000079
S626A626VgCagTa11AY.99.20.000092
S626A626SGcaTca11AZ.10.000867
S626A626TGcAAcG11B0.000128
S626A626TGcaAca11B.10.000009
S626A626PGcaCca11B.1.10.000018
S626A626delGCA---11B.1.10.000018
S626A626SGcaTca11B.1.1.1340.011364
S626A626del2gCAg--11B.1.1.2200.001859
S626A626VgCagTa11B.1.1.250.000569
S626A626LGCaTTa11B.1.1.2770.000759
S626A626VgCagTa11B.1.1.2840.000107
S626A626AgcAgcT11B.1.1.2940.001266
S626A626VgCagTa11B.1.1.3150.008475
S626A626SGcaTca11B.1.1.3170.000412
S626A626TGcaAca11B.1.1.3180.000302
S626A626AgcAgcT11B.1.1.3180.000302
S626A626VgCagTa11B.1.1.3260.001761
S626A626VgCagTa11B.1.1.370.000193
S626A626AgcAgcT11B.1.1.3970.002252
S626A626VgCagTa11B.1.1.4320.001266
S626A626AgcAgcC11B.1.1.4450.037037
S626A626SGcaTca11B.1.1.500.000679
S626A626VgCagTa11B.1.1.5190.00004
S626A626SGcaTca11B.1.1.520.012195
S626A626SGcaTca11B.1.1.5210.005348
S626A626AgcAgcT11B.1.1.5280.004808
S626A626SGcaTca11B.1.1.700.000341
S626A626AgcAgcG11B.1.1.880.071429
S626A626VgCagTa11B.1.177.40.000211
S626A626AgcAgcC11B.1.177.440.000519
S626A626VgCagTa11B.1.177.560.000668
S626A626SGcaTca11B.1.177.570.000281
S626A626VgCagTa11B.1.177.730.000566
S626A626VgCagTa11B.1.2060.000816
S626A626AgcAgcC11B.1.220.001318
S626A626SGcaTca11B.1.2230.002778
S626A626AgcAgcT11B.1.2360.002053
S626A626PGcaCca11B.1.2430.00007
S626A626VgCagTa11B.1.2430.00007
S626A626VgCagTa11B.1.2580.000067
S626A626SGcaTca11B.1.2650.001271
S626A626SGcaTca11B.1.2770.02381
S626A626SGcaTca11B.1.3380.008621
S626A626SGcaTca11B.1.3480.018182
S626A626SGcaTca11B.1.3490.000715
S626A626AgcAgcG11B.1.3510.00003
S626A626VgCagTa11B.1.3510.00003
S626A626SGcaTca11B.1.360.000146
S626A626TGcaAca11B.1.36.360.000602
S626A626SGcaTca11B.1.36.370.002778
S626A626VgCagTa11B.1.36.70.004
S626A626SGcaTca11B.1.36.80.001
S626A626SGcaTca11B.1.3670.000792
S626A626PGcaCca11B.1.3770.004566
S626A626AgcAgcT11B.1.3780.006849
S626A626AgcAgcT11B.1.4270.00005
S626A626AgcAgcG11B.1.4290.000024
S626A626SGcaTca11B.1.4410.009615
S626A626PGcaCca11B.1.4530.003236
S626A626AgcAgcT11B.1.466.20.000391
S626A626VgCagTa11B.1.4700.001404
S626A626SGcaTca11B.1.4980.020408
S626A626VgCagTa11B.1.5260.000024
S626A626VgCagTa11B.1.5350.028571
S626A626SGcaTca11B.1.5610.000397
S626A626SGcaTca11B.1.5770.000687
S626A626AgcAgcG11B.1.5960.000087
S626A626SGcaTca11B.1.617.10.000129
S626A626EgCagAa11B.1.617.20.000004
S626A626VgCagTa11B.1.619.10.000641
S626A626delGCA---11B.1.6200.000946
S626A626AgcAgcG11B.1.6250.002353
S626A626AgcAgcC11B.1.6270.00202
S626A626SGcaTca11B.1.6310.003367
S626A626SGcaTca11B.1.6370.000073
S626A626SGcaTca11B.1.840.020833
S626A626SGcaTca11B.1.930.000934
S626A626VgCagTa11B.100.008264
S626A626SGcaTca11B.310.003731
S626A626SGcaTca11B.4.50.011905
S626A626VgCagTa11C.360.000911
S626A626AgcAgcG11C.370.000116
S626A626GgCagGa11D.20.000075
S626A626SGcaTca11D.20.000075
S626A626SGcaTca11N.50.001767
S626A626TGcaAca11P.10.000016
S626A626VgCagTa11P.1.140.000048
S626A626VgCagTa11P.1.170.000162
S626A626VgCagTa11P.20.000187
S626A626AgcAgcT11P.20.000187
S626A626AgcAgcC11Q.10.000126
S626A626VgCagTa11Q.30.000145
S626A626SGcaTca11Q.80.000165
S626A626VgCagTa11R.10.00009
S626A626delGCA---11R.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.