CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 631

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
S631P631SnonsynCctTct170417020.99882623453-23455
S631P631SnonsynCcTTcC170420.0011737123453-23455
S631P631PsynccTccC6405400.8437523453-23455
S631P631PsynccTccA6401000.1562523453-23455
S631P631LnonsyncCtcTt122122123453-23455
S631P631HnonsyncCtcAt102990.97058823453-23455
S631P631HnonsyncCTcAC10230.029411823453-23455
S631P631TnonsynCctAct3636123453-23455
S631P631deldelCCT---1616123453-23455
S631P631RnonsyncCtcGt77123453-23455
S631P631FnonsynCCTTTC11123453-23455
S631P631del2delCCt--t11123453-23455

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S631P631SCctTct17021704All0.000326
S631P631SCcTTcC21704All0
S631P631PccTccC540640All0.000103
S631P631PccTccA100640All0.000019
S631P631SCctTct624624B.1.1.70.000559
S631P631SCctTct284284B.1.20.002501
S631P631PccTccC122209B.1.1.70.000109
S631P631PccTccA87209B.1.1.70.000078
S631P631SCctTct190190AY.40.000296
S631P631PccTccC124124AY.90.008382
S631P631LcCtcTt122122All0.000023
S631P631HcCtcAt99102All0.000019
S631P631HcCTcAC3102All0.000001
S631P631PccTccC5757AY.40.000089
S631P631LcCtcTt5151B.1.1.70.000046
S631P631SCctTct4242B.10.000385
S631P631TCctAct3636All0.000007
S631P631SCctTct3535B.1.1770.000461
S631P631HcCtcAt3232AY.40.00005
S631P631SCctTct3030AY.1030.000186
S631P631SCctTct2828AY.430.000124
S631P631SCctTct2626B.1.617.20.000098
S631P631SCctTct2525B.1.1600.00078
S631P631PccTccC2424AY.1030.000149
S631P631PccTccC2222B.1.20.000194
S631P631SCctTct2020B.1.1.5190.000794
S631P631HcCtcAt1919B.10.000174
S631P631SCctTct1717AY.30.000169
S631P631PccTccC1717B.1.617.20.000064
S631P631delCCT---1616All0.000003
S631P631SCctTct1616AY.250.000096
S631P631PccTccC1616AY.30.000159
S631P631SCctTct1616AY.440.000097
S631P631PccTccC1515B.10.000137
S631P631SCctTct1414AY.4.20.000304
S631P631HcCtcAt1314B.1.1.70.000012
S631P631HcCTcAC114B.1.1.70.000001
S631P631SCctTct1414P.10.000221
S631P631SCctTct1212AY.130.001932
S631P631TCctAct1212B.10.00011
S631P631SCctTct1212B.1.1.4320.01519
S631P631SCctTct1212B.1.5260.000282
S631P631SCctTct1212Q.10.001516
S631P631SCctTct1010B.1.10.000181
S631P631SCctTct1010B.1.177.860.001835
S631P631LcCtcTt1010B.1.2430.000696
S631P631PccTccC910P.10.000142
S631P631PccTccA110P.10.000016
S631P631SCctTct99AY.50.000186
S631P631PccTccA99B.1.1.1890.013616
S631P631PccTccC99B.1.4700.01264
S631P631SCctTct88C.360.007286
S631P631RcCtcGt77All0.000001
S631P631PccTccC77AY.260.000198
S631P631LcCtcTt77AY.40.000011
S631P631PccTccC77AY.740.00081
S631P631SCctTct77B.1.1.3740.016627
S631P631LcCtcTt77B.1.617.20.000026
S631P631HcCtcAt77P.10.00011
S631P631LcCtcTt66AY.1020.000159
S631P631PccTccC66AY.1110.001099
S631P631SCctTct66AY.23.10.002504
S631P631PccTccC66AY.420.000241
S631P631PccTccC66AY.430.000027
S631P631HcCtcAt66AY.440.000037
S631P631PccTccC66B.1.10.000109
S631P631SCctTct66B.1.110.21
S631P631SCctTct66B.1.2430.000418
S631P631SCctTct66B.1.619.10.003849
S631P631TCctAct55AY.1030.000031
S631P631SCctTct55AY.290.000079
S631P631PccTccC55AY.320.002662
S631P631SCctTct55AY.390.000124
S631P631SCctTct55AY.39.10.000198
S631P631LcCtcTt55AY.540.000477
S631P631SCctTct55AY.98.10.000242
S631P631TCctAct55B.1.1.70.000004
S631P631SCctTct55B.1.160.150.024752
S631P631HcCtcAt55B.1.177.450.001906
S631P631SCctTct55B.1.36.290.002587
S631P631SCctTct55B.1.5960.000436
S631P631SCctTct55C.370.00058
S631P631PccTccC55P.1.20.00578
S631P631SCcTTcC240.111111
S631P631SCctTct240.111111
S631P631PccTccC44AY.200.000155
S631P631PccTccC44AY.250.000024
S631P631SCctTct44AY.610.000419
S631P631SCctTct44AY.7.10.000451
S631P631SCctTct44AY.740.000463
S631P631PccTccC44B.1.1.330.001684
S631P631SCctTct44B.1.177.810.000757
S631P631LcCtcTt44B.1.20.000035
S631P631PccTccC44B.1.221.40.016667
S631P631SCctTct44B.1.3510.000119
S631P631SCctTct33AY.1020.00008
S631P631LcCtcTt33AY.1030.000019
S631P631SCctTct33AY.260.000085
S631P631PccTccC33AY.290.000047
S631P631LcCtcTt33AY.30.00003
S631P631PccTccC23AY.4.20.000043
S631P631PccTccA13AY.4.20.000022
S631P631TCctAct33AY.430.000013
S631P631PccTccC33AY.470.000093
S631P631SCctTct33B0.000383
S631P631LcCtcTt33B.10.000027
S631P631SCctTct33B.1.1.1340.034091
S631P631PccTccC33B.1.1.5190.000119
S631P631delCCT---33B.1.1.70.000003
S631P631RcCtcGt33B.1.1.70.000003
S631P631SCctTct33B.1.177.60.00293
S631P631SCctTct33B.1.438.10.000322
S631P631SCctTct33B.1.5250.000339
S631P631PccTccC33P.1.140.000143
S631P631SCctTct33P.1.140.000143
S631P631SCctTct33P.1.150.000697
S631P631SCctTct33P.20.00056
S631P631PccTccC220.111111
S631P631SCctTct22A.10.000564
S631P631PccTccC22AY.1010.000981
S631P631SCctTct22AY.1100.000225
S631P631PccTccC22AY.1170.000169
S631P631SCctTct22AY.1180.000125
S631P631LcCtcTt22AY.1190.000071
S631P631SCctTct22AY.120.000632
S631P631SCctTct22AY.120.10.000642
S631P631SCctTct22AY.210.003795
S631P631SCctTct22AY.230.000139
S631P631PccTccC22AY.230.000139
S631P631LcCtcTt22AY.250.000012
S631P631PccTccC22AY.360.000296
S631P631HcCtcAt22AY.4.50.000215
S631P631HcCtcAt22AY.430.000009
S631P631LcCtcTt22AY.440.000012
S631P631SCctTct22AY.450.000243
S631P631SCctTct22AY.460.000208
S631P631SCctTct22AY.470.000062
S631P631PccTccC22AY.50.000041
S631P631PccTccC22AY.540.000191
S631P631SCctTct22AY.60.000082
S631P631PccTccC22AY.750.000112
S631P631SCctTct22AY.750.000112
S631P631LcCtcTt22B.1.10.000036
S631P631SCctTct22B.1.1.1890.003026
S631P631SCctTct22B.1.1.2300.018349
S631P631SCctTct22B.1.1.3480.001592
S631P631SCctTct22B.1.1.370.000386
S631P631SCctTct22B.1.1.3970.004505
S631P631SCctTct22B.1.1.4340.000697
S631P631SCctTct22B.1.160.260.004843
S631P631PccTccC22B.1.2430.000139
S631P631HcCtcAt22B.1.360.000292
S631P631SCctTct22B.1.4680.011429
S631P631SCctTct22B.1.4970.00063
S631P631SCctTct22B.1.617.10.000258
S631P631PccTccC22B.1.617.10.000258
S631P631delCCT---22B.1.617.20.000008
S631P631SCctTct22C.36.30.001134
S631P631PccTccC22P.30.00319
S631P631SCctTct22Q.80.00033
S631P631TCctAct11A0.000387
S631P631SCctTct11A.50.001923
S631P631LcCtcTt11AD.20.000219
S631P631SCctTct11AE.80.000489
S631P631del2CCt--t11All0
S631P631FCCTTTC11All0
S631P631SCctTct11AU.20.002421
S631P631SCctTct11AY.1000.000046
S631P631PccTccC11AY.1020.000027
S631P631LcCtcTt11AY.1100.000113
S631P631SCctTct11AY.1130.000142
S631P631PccTccC11AY.1160.000287
S631P631delCCT---11AY.1180.000063
S631P631SCctTct11AY.1210.000135
S631P631PccTccC11AY.130.000161
S631P631HcCtcAt11AY.140.000088
S631P631SCctTct11AY.200.000039
S631P631HcCtcAt11AY.250.000006
S631P631del2CCt--t11AY.250.000006
S631P631HcCtcAt11AY.260.000028
S631P631LcCtcTt11AY.290.000016
S631P631SCctTct11AY.29.10.000221
S631P631HcCtcAt11AY.30.00001
S631P631SCctTct11AY.330.000067
S631P631TCctAct11AY.330.000067
S631P631SCctTct11AY.360.000148
S631P631delCCT---11AY.370.000316
S631P631delCCT---11AY.380.000499
S631P631PccTccC11AY.390.000025
S631P631TCctAct11AY.40.000002
S631P631RcCtcGt11AY.40.000002
S631P631LcCtcTt11AY.4.20.000022
S631P631HcCtcAt11AY.420.00004
S631P631RcCtcGt11AY.430.000004
S631P631LcCtcTt11AY.430.000004
S631P631delCCT---11AY.430.000004
S631P631HcCtcAt11AY.450.000122
S631P631PccTccC11AY.460.000104
S631P631delCCT---11AY.46.50.000198
S631P631SCctTct11AY.46.50.000198
S631P631RcCtcGt11AY.50.000021
S631P631delCCT---11AY.50.000021
S631P631SCctTct11AY.510.000909
S631P631TCctAct11AY.520.000814
S631P631SCctTct11AY.540.000095
S631P631PccTccC11AY.60.000041
S631P631SCctTct11AY.690.000187
S631P631SCctTct11AY.7.20.000559
S631P631PccTccC11AY.730.000665
S631P631LcCtcTt11AY.790.001211
S631P631SCctTct11AY.90.000068
S631P631SCctTct11AY.9.10.000084
S631P631SCctTct11AY.9.20.000037
S631P631SCctTct11AY.930.000273
S631P631SCctTct11AY.940.000443
S631P631SCctTct11AY.970.001701
S631P631PccTccC11AY.980.000079
S631P631PccTccC11AY.98.10.000048
S631P631SCctTct11AZ.10.000867
S631P631PccTccC11AZ.30.00152
S631P631TCctAct11B0.000128
S631P631TCctAct11B.1.10.000018
S631P631SCctTct11B.1.1.10.000327
S631P631LcCtcTt11B.1.1.100.001115
S631P631LcCtcTt11B.1.1.1570.000913
S631P631SCctTct11B.1.1.1700.001247
S631P631delCCT---11B.1.1.2020.076923
S631P631SCctTct11B.1.1.2200.001859
S631P631PccTccC11B.1.1.2220.000204
S631P631SCctTct11B.1.1.2220.000204
S631P631SCctTct11B.1.1.2320.001815
S631P631SCctTct11B.1.1.2690.001353
S631P631SCctTct11B.1.1.280.000311
S631P631SCctTct11B.1.1.2840.000107
S631P631SCctTct11B.1.1.2890.002083
S631P631PccTccC11B.1.1.310.066667
S631P631PccTccC11B.1.1.3160.000925
S631P631SCctTct11B.1.1.3180.000302
S631P631PccTccC11B.1.1.3180.000302
S631P631PccTccC11B.1.1.3540.004386
S631P631SCctTct11B.1.1.3680.003086
S631P631LcCtcTt11B.1.1.3720.000689
S631P631SCctTct11B.1.1.390.00051
S631P631SCctTct11B.1.1.4610.012048
S631P631PccTccC11B.1.1.470.005348
S631P631delCCT---11B.1.1.5190.00004
S631P631SCctTct11B.1.1110.001175
S631P631FCCTTTC11B.1.1590.012195
S631P631LcCtcTt11B.1.1600.000031
S631P631HcCTcAC11B.1.1600.000031
S631P631LcCtcTt11B.1.1770.000013
S631P631HcCtcAt11B.1.1770.000013
S631P631PccTccC11B.1.1770.000013
S631P631SCctTct11B.1.177.160.000664
S631P631SCctTct11B.1.177.210.000076
S631P631PccTccC11B.1.177.210.000076
S631P631HcCTcAC11B.1.177.540.000606
S631P631PccTccA11B.1.177.810.000189
S631P631TCctAct11B.1.20.000009
S631P631PccTccC11B.1.2210.000071
S631P631SCctTct11B.1.2230.002778
S631P631SCctTct11B.1.2400.000216
S631P631HcCtcAt11B.1.2430.00007
S631P631PccTccA11B.1.2580.000067
S631P631SCctTct11B.1.258.170.000104
S631P631SCctTct11B.1.2650.001271
S631P631TCctAct11B.1.3010.005917
S631P631SCctTct11B.1.3050.002151
S631P631SCctTct11B.1.3110.000275
S631P631SCctTct11B.1.3490.000715
S631P631SCctTct11B.1.36.310.001751
S631P631SCctTct11B.1.36.80.001
S631P631HcCtcAt11B.1.3960.000706
S631P631SCctTct11B.1.4030.003268
S631P631PccTccC11B.1.4270.00005
S631P631SCctTct11B.1.4530.003236
S631P631PccTccC11B.1.4990.00105
S631P631LcCtcTt11B.1.5260.000024
S631P631SCctTct11B.1.5460.003704
S631P631SCctTct11B.1.5510.00129
S631P631SCctTct11B.1.5610.000397
S631P631SCctTct11B.1.5650.00081
S631P631PccTccC11B.1.5960.000087
S631P631PccTccC11B.1.6000.005848
S631P631SCctTct11B.1.6090.000479
S631P631SCctTct11B.1.6120.002653
S631P631TCctAct11B.1.617.20.000004
S631P631HcCtcAt11B.1.617.20.000004
S631P631HcCtcAt11B.1.619.10.000641
S631P631delCCT---11B.1.6200.000946
S631P631SCctTct11B.1.6210.000089
S631P631TCctAct11B.1.6230.000536
S631P631SCctTct11B.1.6230.000536
S631P631delCCT---11B.1.6370.000073
S631P631SCctTct11B.1.6370.000073
S631P631TCctAct11B.6.60.000889
S631P631PccTccC11C.370.000116
S631P631SCctTct11D.20.000075
S631P631RcCtcGt11D.20.000075
S631P631SCctTct11N.50.001767
S631P631LcCtcTt11P.10.000016
S631P631SCctTct11P.1.100.000269
S631P631LcCtcTt11P.1.140.000048
S631P631PccTccC11P.1.170.000162
S631P631delCCT---11P.1.20.001156
S631P631LcCtcTt11P.1.70.000319
S631P631SCctTct11P.70.004367
S631P631SCctTct11Q.30.000145
S631P631SCctTct11W.10.008696
S631P631SCctTct11Z.10.00289

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.