CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 1171

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
S1171G1171GsynggCggT145514290.98213125073-25075
S1171G1171GsynggCggA1455200.013745725073-25075
S1171G1171GsynggCggG145560.0041237125073-25075
S1171G1171VnonsyngGcgTc728728125073-25075
S1171G1171SnonsynGgcAgc3523510.99715925073-25075
S1171G1171SnonsynGgCAgT35210.0028409125073-25075
S1171G1171AnonsyngGcgCc234234125073-25075
S1171G1171deldelGGC---124124125073-25075
S1171G1171DnonsyngGcgAc1151140.99130425073-25075
S1171G1171DnonsyngGCgAT11510.0086956525073-25075
S1171G1171CnonsynGgcTgc1717125073-25075
S1171G1171RnonsynGgcCgc15140.93333325073-25075
S1171G1171RnonsynGgCAgA1510.066666725073-25075
S1171G1171del1delGgc-gc760.85714325073-25075
S1171G1171del1delGgC-gN710.14285725073-25075
S1171G1171FnonsynGGcTTc55125073-25075
S1171G1171NnonsynGGcAAc540.825073-25075
S1171G1171NnonsynGGCAAT510.225073-25075
S1171G1171del2delgGCg--320.66666725073-25075
S1171G1171del2delGGc--c310.33333325073-25075
S1171G1171EnonsyngGCgAA11125073-25075
S1171G1171KnonsynGGCAAA11125073-25075

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S1171G1171GggCggT14291455All0.000273
S1171G1171GggCggA201455All0.000004
S1171G1171GggCggG61455All0.000001
S1171G1171VgGcgTc728728All0.000139
S1171G1171SGgcAgc351352All0.000067
S1171G1171SGgCAgT1352All0
S1171G1171GggCggT244244B.1.1490.835616
S1171G1171AgGcgCc234234All0.000045
S1171G1171GggCggT175176AY.40.000272
S1171G1171GggCggA1176AY.40.000002
S1171G1171GggCggT166166B.1.1770.002186
S1171G1171GggCggT139139AY.120.10.044623
S1171G1171delGGC---124124All0.000024
S1171G1171DgGcgAc114115All0.000022
S1171G1171DgGCgAT1115All0
S1171G1171AgGcgCc106106AY.430.00047
S1171G1171AgGcgCc106106B.1.617.20.000399
S1171G1171SGgcAgc9797B.1.4290.002282
S1171G1171GggCggT9293B.1.1.70.000082
S1171G1171GggCggG193B.1.1.70.000001
S1171G1171SGgcAgc8787B.1.1.70.000078
S1171G1171GggCggT8080AY.30.000796
S1171G1171VgGcgTc7777AY.430.000341
S1171G1171VgGcgTc7070AY.40.000109
S1171G1171GggCggT6666P.1.140.003155
S1171G1171VgGcgTc5353B.1.1.70.000047
S1171G1171VgGcgTc5353B.1.438.10.005685
S1171G1171delGGC---5252B.1.1.70.000047
S1171G1171GggCggT5050P.10.000788
S1171G1171GggCggT4749B.1.617.20.000177
S1171G1171GggCggA249B.1.617.20.000008
S1171G1171VgGcgTc4646B.1.617.20.000173
S1171G1171VgGcgTc4141P.1.170.006632
S1171G1171GggCggT3636AY.1030.000224
S1171G1171GggCggT3535AY.1100.003944
S1171G1171VgGcgTc3535B.1.3510.00104
S1171G1171GggCggT3434P.1.70.010856
S1171G1171SGgcAgc3030B.1.617.20.000113
S1171G1171DgGcgAc2929B.1.1.70.000026
S1171G1171SGgcAgc2525AY.430.000111
S1171G1171GggCggT2525B.1.1.2220.0051
S1171G1171VgGcgTc2424AY.390.000593
S1171G1171GggCggT2124B.10.000192
S1171G1171GggCggA324B.10.000027
S1171G1171SGgcAgc2222AZ.40.073826
S1171G1171GggCggT2020AY.1190.000706
S1171G1171VgGcgTc2020AY.60.000823
S1171G1171VgGcgTc1919P.10.000299
S1171G1171CGgcTgc1717All0.000003
S1171G1171VgGcgTc1717AY.1030.000106
S1171G1171VgGcgTc1717AY.340.001648
S1171G1171GggCggT1717B.1.1.5190.000675
S1171G1171GggCggT1717B.1.258.170.001768
S1171G1171RGgcCgc1415All0.000003
S1171G1171RGgCAgA115All0
S1171G1171VgGcgTc1515AY.30.000149
S1171G1171VgGcgTc1515AY.50.00031
S1171G1171DgGcgAc1515B.1.177.40.003166
S1171G1171GggCggT1414AY.430.000062
S1171G1171VgGcgTc1414B.1.1.870.933333
S1171G1171GggCggT1112AY.250.000066
S1171G1171GggCggA112AY.250.000006
S1171G1171SGgcAgc1212B.1.20.000106
S1171G1171GggCggT1111B.1.20.000097
S1171G1171GggCggT910AY.440.000055
S1171G1171GggCggG110AY.440.000006
S1171G1171VgGcgTc99AY.250.000054
S1171G1171delGGC---99B.1.1770.000119
S1171G1171VgGcgTc99B.1.5260.000212
S1171G1171DgGcgAc99B.1.617.20.000034
S1171G1171VgGcgTc88AY.1020.000212
S1171G1171VgGcgTc88AY.1200.000297
S1171G1171VgGcgTc88AY.260.000226
S1171G1171DgGcgAc88AY.30.00008
S1171G1171SGgcAgc88AY.40.000012
S1171G1171VgGcgTc88AY.750.000448
S1171G1171del1Ggc-gc67All0.000001
S1171G1171del1GgC-gN17All0
S1171G1171VgGcgTc77B.10.000064
S1171G1171VgGcgTc77B.1.1600.000218
S1171G1171VgGcgTc77B.1.20.000062
S1171G1171DgGcgAc77B.1.3510.000208
S1171G1171SGgcAgc77B.1.36.180.002941
S1171G1171VgGcgTc77B.1.4030.022876
S1171G1171GggCggT77B.1.4290.000165
S1171G1171GggCggT56AY.1020.000133
S1171G1171GggCggG16AY.1020.000027
S1171G1171VgGcgTc66AY.1130.000854
S1171G1171VgGcgTc66AY.290.000095
S1171G1171delGGC---66AY.40.000009
S1171G1171delGGC---66AY.4.50.000645
S1171G1171VgGcgTc66AY.440.000037
S1171G1171GggCggT66B.1.10.000109
S1171G1171VgGcgTc66R.10.00054
S1171G1171FGGcTTc55All0.000001
S1171G1171NGGcAAc45All0.000001
S1171G1171NGGCAAT15All0
S1171G1171GggCggT55AY.200.000194
S1171G1171RGgcCgc55AY.30.00005
S1171G1171DgGcgAc55AY.40.000008
S1171G1171VgGcgTc55AY.420.000201
S1171G1171DgGcgAc55AY.430.000022
S1171G1171GggCggT55AY.46.60.000361
S1171G1171VgGcgTc55AY.46.60.000361
S1171G1171GggCggT55AY.540.000477
S1171G1171VgGcgTc55AY.540.000477
S1171G1171VgGcgTc55AY.75.10.000902
S1171G1171SGgcAgc55B.10.000046
S1171G1171GggCggT55P.1.100.001347
S1171G1171VgGcgTc44AY.1000.000184
S1171G1171RGgcCgc44AY.1170.000338
S1171G1171VgGcgTc44AY.1210.000541
S1171G1171SGgcAgc44AY.250.000024
S1171G1171SGgcAgc44AY.30.00004
S1171G1171GggCggT44AY.390.000099
S1171G1171SGgcAgc44AY.390.000099
S1171G1171VgGcgTc44AY.4.20.000087
S1171G1171SGgcAgc44AY.440.000024
S1171G1171GggCggT44AY.470.000124
S1171G1171VgGcgTc44AY.9.20.000147
S1171G1171VgGcgTc44B.1.1.280.001245
S1171G1171GggCggA44B.1.1.3060.001754
S1171G1171VgGcgTc44B.1.1770.000053
S1171G1171DgGcgAc44B.1.1770.000053
S1171G1171SGgcAgc44B.1.4270.000202
S1171G1171delGGC---44B.1.617.20.000015
S1171G1171VgGcgTc33A.210.00831
S1171G1171del2gGCg--23All0
S1171G1171del2GGc--c13All0
S1171G1171GggCggT33AY.1170.000254
S1171G1171GggCggT33AY.1200.000112
S1171G1171VgGcgTc33AY.200.000117
S1171G1171FGGcTTc33AY.250.000018
S1171G1171VgGcgTc33AY.270.000194
S1171G1171VgGcgTc33AY.330.0002
S1171G1171AgGcgCc33AY.390.000074
S1171G1171CGgcTgc33AY.40.000005
S1171G1171delGGC---33AY.430.000013
S1171G1171AgGcgCc33AY.440.000018
S1171G1171GggCggG23AY.50.000041
S1171G1171GggCggT13AY.50.000021
S1171G1171GggCggT33AY.980.000237
S1171G1171delGGC---33B.10.000027
S1171G1171SGgcAgc33B.1.1770.00004
S1171G1171VgGcgTc33B.1.214.20.001799
S1171G1171VgGcgTc33B.1.3980.008929
S1171G1171GggCggT33B.1.466.20.001174
S1171G1171DgGcgAc33B.1.5260.000071
S1171G1171GggCggT33B.1.5260.000071
S1171G1171SGgcAgc33B.1.910.006224
S1171G1171delGGC---33P.1.150.000697
S1171G1171NGGcAAc120.055556
S1171G1171DgGcgAc120.055556
S1171G1171DgGCgAT120.055556
S1171G1171SGgCAgT120.055556
S1171G1171SGgcAgc120.055556
S1171G1171NGGCAAT120.055556
S1171G1171SGgcAgc22AY.1000.000092
S1171G1171GggCggT22AY.1000.000092
S1171G1171SGgcAgc22AY.1020.000053
S1171G1171DgGcgAc22AY.1030.000012
S1171G1171SGgcAgc22AY.1180.000125
S1171G1171SGgcAgc22AY.1190.000071
S1171G1171delGGC---22AY.1200.000074
S1171G1171GggCggT22AY.130.000322
S1171G1171delGGC---22AY.190.002281
S1171G1171GggCggG12AY.230.00007
S1171G1171GggCggA12AY.230.00007
S1171G1171SGgcAgc22AY.260.000057
S1171G1171DgGcgAc22AY.260.000057
S1171G1171NGGcAAc22AY.260.000057
S1171G1171GggCggA12AY.260.000028
S1171G1171GggCggT12AY.260.000028
S1171G1171GggCggT22AY.270.000129
S1171G1171GggCggT22AY.290.000032
S1171G1171GggCggT22AY.330.000134
S1171G1171SGgcAgc22AY.39.10.000079
S1171G1171VgGcgTc22AY.4.50.000215
S1171G1171DgGcgAc22AY.420.00008
S1171G1171GggCggA12AY.420.00004
S1171G1171GggCggT12AY.420.00004
S1171G1171GggCggT22AY.460.000208
S1171G1171AgGcgCc22AY.470.000062
S1171G1171VgGcgTc22AY.500.001599
S1171G1171VgGcgTc22AY.610.00021
S1171G1171VgGcgTc22AY.840.000875
S1171G1171VgGcgTc22AY.920.000575
S1171G1171VgGcgTc22AY.980.000158
S1171G1171AgGcgCc22B.10.000018
S1171G1171CGgcTgc22B.10.000018
S1171G1171del1Ggc-gc12B.10.000009
S1171G1171del1GgC-gN12B.10.000009
S1171G1171GggCggA22B.1.1.2140.000111
S1171G1171GggCggT22B.1.1.280.000622
S1171G1171DgGcgAc22B.1.1.280.000622
S1171G1171AgGcgCc22B.1.1.70.000002
S1171G1171del1Ggc-gc22B.1.1770.000026
S1171G1171delGGC---22B.1.177.40.000422
S1171G1171DgGcgAc22B.1.20.000018
S1171G1171GggCggA22B.1.2340.000264
S1171G1171GggCggT22B.1.3510.000059
S1171G1171GggCggT22B.1.390.007812
S1171G1171CGgcTgc22B.1.4800.004975
S1171G1171DgGcgAc22B.1.5170.000854
S1171G1171CGgcTgc22B.1.617.20.000008
S1171G1171delGGC---22P.10.000032
S1171G1171GggCggT22P.1.170.000324
S1171G1171GggCggT22P.20.000373
S1171G1171SGgcAgc22P.50.027397
S1171G1171GggCggT110.055556
S1171G1171CGgcTgc11A0.000387
S1171G1171DgGcgAc11A.2.40.003367
S1171G1171KGGCAAA11All0
S1171G1171EgGCgAA11All0
S1171G1171GggCggT11AU.10.001266
S1171G1171AgGcgCc11AY.100.00053
S1171G1171DgGcgAc11AY.1020.000027
S1171G1171SGgcAgc11AY.1030.000006
S1171G1171VgGcgTc11AY.1060.000335
S1171G1171GggCggT11AY.1090.00074
S1171G1171VgGcgTc11AY.1100.000113
S1171G1171del2GGc--c11AY.1110.000183
S1171G1171delGGC---11AY.1110.000183
S1171G1171SGgcAgc11AY.1130.000142
S1171G1171GggCggT11AY.1140.000231
S1171G1171DgGcgAc11AY.1160.000287
S1171G1171AgGcgCc11AY.1160.000287
S1171G1171delGGC---11AY.1180.000063
S1171G1171AgGcgCc11AY.1190.000035
S1171G1171DgGcgAc11AY.1200.000037
S1171G1171VgGcgTc11AY.130.000161
S1171G1171SGgcAgc11AY.140.000088
S1171G1171GggCggT11AY.140.000088
S1171G1171AgGcgCc11AY.140.000088
S1171G1171SGgcAgc11AY.200.000039
S1171G1171DgGcgAc11AY.200.000039
S1171G1171FGGcTTc11AY.200.000039
S1171G1171DgGcgAc11AY.210.001898
S1171G1171delGGC---11AY.230.00007
S1171G1171AgGcgCc11AY.250.000006
S1171G1171delGGC---11AY.250.000006
S1171G1171DgGcgAc11AY.290.000016
S1171G1171del1Ggc-gc11AY.30.00001
S1171G1171AgGcgCc11AY.30.00001
S1171G1171VgGcgTc11AY.3.10.000085
S1171G1171delGGC---11AY.300.000396
S1171G1171GggCggT11AY.300.000396
S1171G1171delGGC---11AY.350.000233
S1171G1171VgGcgTc11AY.360.000148
S1171G1171DgGcgAc11AY.390.000025
S1171G1171SGgcAgc11AY.39.20.001541
S1171G1171RGgcCgc11AY.40.000002
S1171G1171AgGcgCc11AY.40.000002
S1171G1171GggCggT11AY.4.20.000022
S1171G1171DgGcgAc11AY.4.20.000022
S1171G1171GggCggT11AY.4.50.000107
S1171G1171SGgcAgc11AY.4.50.000107
S1171G1171GggCggT11AY.400.000964
S1171G1171SGgcAgc11AY.410.000294
S1171G1171CGgcTgc11AY.440.000006
S1171G1171RGgcCgc11AY.440.000006
S1171G1171AgGcgCc11AY.460.000104
S1171G1171GggCggT11AY.46.40.000165
S1171G1171VgGcgTc11AY.46.40.000165
S1171G1171VgGcgTc11AY.470.000031
S1171G1171delGGC---11AY.50.000021
S1171G1171SGgcAgc11AY.50.000021
S1171G1171GggCggT11AY.530.000288
S1171G1171VgGcgTc11AY.530.000288
S1171G1171VgGcgTc11AY.590.00053
S1171G1171GggCggT11AY.60.000041
S1171G1171delGGC---11AY.60.000041
S1171G1171delGGC---11AY.600.000938
S1171G1171GggCggT11AY.600.000938
S1171G1171GggCggT11AY.610.000105
S1171G1171del1Ggc-gc11AY.610.000105
S1171G1171AgGcgCc11AY.620.000436
S1171G1171GggCggT11AY.650.000533
S1171G1171VgGcgTc11AY.680.000274
S1171G1171delGGC---11AY.680.000274
S1171G1171VgGcgTc11AY.7.10.000113
S1171G1171VgGcgTc11AY.700.000209
S1171G1171VgGcgTc11AY.710.000475
S1171G1171GggCggT11AY.750.000056
S1171G1171GggCggT11AY.75.10.00018
S1171G1171delGGC---11AY.75.10.00018
S1171G1171delGGC---11AY.810.001992
S1171G1171delGGC---11AY.850.000427
S1171G1171VgGcgTc11AY.880.000884
S1171G1171delGGC---11AY.90.000068
S1171G1171VgGcgTc11AY.90.000068
S1171G1171VgGcgTc11AY.9.10.000084
S1171G1171delGGC---11AY.9.20.000037
S1171G1171CGgcTgc11AY.980.000079
S1171G1171VgGcgTc11AY.98.10.000048
S1171G1171GggCggT11AY.98.10.000048
S1171G1171VgGcgTc11AY.99.20.000092
S1171G1171GggCggT11B0.000128
S1171G1171VgGcgTc11B0.000128
S1171G1171del2gGCg--11B.10.000009
S1171G1171DgGcgAc11B.10.000009
S1171G1171delGGC---11B.1.10.000018
S1171G1171VgGcgTc11B.1.10.000018
S1171G1171delGGC---11B.1.1.1590.004673
S1171G1171GggCggT11B.1.1.1760.000439
S1171G1171VgGcgTc11B.1.1.1760.000439
S1171G1171VgGcgTc11B.1.1.2220.000204
S1171G1171delGGC---11B.1.1.2360.006897
S1171G1171GggCggT11B.1.1.330.000421
S1171G1171RGgcCgc11B.1.1.3690.000446
S1171G1171GggCggT11B.1.1.370.000193
S1171G1171SGgcAgc11B.1.1.4160.000905
S1171G1171VgGcgTc11B.1.1.4200.001006
S1171G1171GggCggT11B.1.1.5000.02
S1171G1171GggCggT11B.1.1.5240.020833
S1171G1171GggCggT11B.1.1.610.008772
S1171G1171RGgcCgc11B.1.1.70.000001
S1171G1171VgGcgTc11B.1.1.700.000341
S1171G1171VgGcgTc11B.1.110.30.000718
S1171G1171VgGcgTc11B.1.1110.001175
S1171G1171delGGC---11B.1.160.230.004831
S1171G1171GggCggT11B.1.1700.00431
S1171G1171delGGC---11B.1.177.170.000821
S1171G1171DgGcgAc11B.1.177.190.001431
S1171G1171delGGC---11B.1.177.210.000076
S1171G1171del1Ggc-gc11B.1.177.480.003125
S1171G1171delGGC---11B.1.177.540.000606
S1171G1171delGGC---11B.1.177.600.000218
S1171G1171delGGC---11B.1.177.90.001332
S1171G1171AgGcgCc11B.1.20.000009
S1171G1171GggCggT11B.1.2100.002132
S1171G1171delGGC---11B.1.2180.005155
S1171G1171VgGcgTc11B.1.2210.000071
S1171G1171DgGcgAc11B.1.2210.000071
S1171G1171delGGC---11B.1.221.10.002907
S1171G1171DgGcgAc11B.1.2340.000132
S1171G1171VgGcgTc11B.1.2390.001221
S1171G1171CGgcTgc11B.1.2410.000812
S1171G1171SGgcAgc11B.1.2430.00007
S1171G1171GggCggA11B.1.2580.000067
S1171G1171VgGcgTc11B.1.2580.000067
S1171G1171SGgcAgc11B.1.2790.000514
S1171G1171VgGcgTc11B.1.3110.000275
S1171G1171RGgcCgc11B.1.3380.008621
S1171G1171SGgcAgc11B.1.3400.004292
S1171G1171VgGcgTc11B.1.36.170.000494
S1171G1171del2gGCg--11B.1.36.290.000517
S1171G1171GggCggT11B.1.3690.000285
S1171G1171FGGcTTc11B.1.3690.000285
S1171G1171CGgcTgc11B.1.3980.002976
S1171G1171VgGcgTc11B.1.4000.000429
S1171G1171CGgcTgc11B.1.4270.00005
S1171G1171SGgcAgc11B.1.429.10.012048
S1171G1171GggCggT11B.1.4680.005714
S1171G1171GggCggT11B.1.5030.002488
S1171G1171VgGcgTc11B.1.5640.000426
S1171G1171NGGcAAc11B.1.5760.000907
S1171G1171RGgCAgA11B.1.5760.000907
S1171G1171EgGCgAA11B.1.5760.000907
S1171G1171SGgcAgc11B.1.5760.000907
S1171G1171KGGCAAA11B.1.5760.000907
S1171G1171DgGcgAc11B.1.5760.000907
S1171G1171GggCggA11B.1.5760.000907
S1171G1171VgGcgTc11B.1.5820.000491
S1171G1171GggCggT11B.1.6090.000479
S1171G1171VgGcgTc11B.1.617.10.000129
S1171G1171delGGC---11B.1.6210.000089
S1171G1171DgGcgAc11B.1.6210.000089
S1171G1171GggCggT11B.1.6250.002353
S1171G1171GggCggT11B.1.6370.000073
S1171G1171VgGcgTc11B.1.6370.000073
S1171G1171SGgcAgc11C.170.055556
S1171G1171delGGC---11C.370.000116
S1171G1171CGgcTgc11C.380.008065
S1171G1171GggCggT11D.20.000075
S1171G1171SGgcAgc11P.10.000016
S1171G1171DgGcgAc11P.10.000016
S1171G1171CGgcTgc11P.1.140.000048
S1171G1171SGgcAgc11P.1.150.000232
S1171G1171delGGC---11Q.20.000613
S1171G1171delGGC---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.