CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 440

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
S440N440KnonsynaaTaaG872061050.70011522880-22882
S440N440KnonsynaaTaaA872026150.29988522880-22882
S440N440SnonsynaAtaGt103010260.99611722880-22882
S440N440SnonsynaATaGC103020.0019417522880-22882
S440N440SnonsynAAtTCt103010.00097087422880-22882
S440N440SnonsynAATTCG103010.00097087422880-22882
S440N440NsynaaTaaC618618122880-22882
S440N440YnonsynAatTat2822810.99645422880-22882
S440N440YnonsynAaTTaC28210.003546122880-22882
S440N440TnonsynaAtaCt1091070.98165122880-22882
S440N440TnonsynaATaCG10920.018348622880-22882
S440N440DnonsynAatGat2929122880-22882
S440N440InonsynaAtaTt29250.86206922880-22882
S440N440InonsynaATaTA2940.13793122880-22882
S440N440del1delaaTaa-20180.922880-22882
S440N440del1delAat-at2020.122880-22882
S440N440deldelAAT---1818122880-22882
S440N440FnonsynAAtTTt99122880-22882
S440N440HnonsynAatCat88122880-22882
S440N440EnonsynAaTGaG66122880-22882
S440N440LnonsynAAtCTt520.422880-22882
S440N440LnonsynAATCTA510.222880-22882
S440N440LnonsynAATTTG510.222880-22882
S440N440LnonsynAATTTA510.222880-22882
S440N440XnonsynAaTTaG320.66666722880-22882
S440N440RnonsynaATaGA310.33333322880-22882
S440N440XnonsynAaTTaA310.33333322880-22882
S440N440RnonsynaATaGG310.33333322880-22882
S440N440RnonsynAATCGA310.33333322880-22882
S440N440MnonsynaATaTG22122880-22882
S440N440CnonsynAATTGC210.522880-22882
S440N440CnonsynAAtTGt210.522880-22882
S440N440QnonsynAaTCaA11122880-22882
S440N440AnonsynAAtGCt11122880-22882

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S440N440KaaTaaG61058720All0.001168
S440N440KaaTaaA26158720All0.0005
S440N440KaaTaaA22382238B.1.6280.788584
S440N440KaaTaaG15481548B.1.619.10.992944
S440N440KaaTaaG13821382B.1.36.290.714951
S440N440SaAtaGt10261030All0.000196
S440N440SaATaGC21030All0
S440N440SAATTCG11030All0
S440N440SAAtTCt11030All0
S440N440KaaTaaG992992B.1.6190.864111
S440N440SaAtaGt969969B.1.1.70.000867
S440N440KaaTaaG821821B.1.1.4200.825956
S440N440NaaTaaC618618All0.000118
S440N440KaaTaaG379379B.1.6250.891765
S440N440YAatTat281282All0.000054
S440N440YAaTTaC1282All0
S440N440NaaTaaC279279B.1.20.002457
S440N440KaaTaaG173250B.10.001585
S440N440KaaTaaA77250B.10.000705
S440N440KaaTaaA243243B.1.6310.818182
S440N440KaaTaaG210210B.1.6340.719178
S440N440YAatTat188188AY.40.000293
S440N440KaaTaaG140140B.1.20.001233
S440N440TaAtaCt107109All0.00002
S440N440TaATaCG2109All0
S440N440NaaTaaC109109AY.620.047495
S440N440KaaTaaG9898B.1.360.014298
S440N440KaaTaaG6669B.1.10.001197
S440N440KaaTaaA369B.1.10.000054
S440N440KaaTaaG5858B.1.1.2160.051647
S440N440KaaTaaG3839B.1.1.70.000034
S440N440KaaTaaA139B.1.1.70.000001
S440N440NaaTaaC3232B.1.1.70.000029
S440N440KaaTaaG3232C.370.003714
S440N440DAatGat2929All0.000006
S440N440IaAtaTt2529All0.000005
S440N440IaATaTA429All0.000001
S440N440TaAtaCt2929B.1.617.20.000109
S440N440NaaTaaC2525B.1.617.20.000094
S440N440NaaTaaC2323B.1.1770.000303
S440N440del1aaTaa-1820All0.000003
S440N440del1Aat-at220All0
S440N440TaAtaCt1919B.1.1.70.000017
S440N440KaaTaaG1919B.1.36.170.009387
S440N440delAAT---1818All0.000003
S440N440TaAtaCt1717AY.440.000103
S440N440NaaTaaC1717B.1.4270.000858
S440N440YAatTat1515A.2.5.20.023585
S440N440NaaTaaC1515AY.40.000023
S440N440YAatTat1515B.1.1.70.000013
S440N440KaaTaaG1515B.1.4560.04902
S440N440KaaTaaA1414B.1.6270.028283
S440N440NaaTaaC1313AY.30.000129
S440N440SaAtaGt1313B.1.1770.000171
S440N440NaaTaaC1313B.1.4290.000306
S440N440SaAtaGt1212AY.40.000019
S440N440YAatTat1212B.10.00011
S440N440KaaTaaG1112B.1.5960.000959
S440N440KaaTaaA112B.1.5960.000087
S440N440TaAtaCt1111B.1.351.20.003328
S440N440KaaTaaA1011P.1.120.00484
S440N440KaaTaaG111P.1.120.000484
S440N440NaaTaaC1010AY.99.20.000922
S440N440YAatTat1010B.1.1.370.001929
S440N440del1aaTaa-1010B.1.36.290.005173
S440N440FAAtTTt99All0.000002
S440N440KaaTaaG99AY.1010.004414
S440N440IaAtaTt79B.10.000064
S440N440IaATaTA29B.10.000018
S440N440HAatCat88All0.000002
S440N440NaaTaaC88AY.440.000049
S440N440DAatGat88B.1.1.70.000007
S440N440NaaTaaC77B.1.3510.000208
S440N440YAatTat77B.1.617.20.000026
S440N440EAaTGaG66All0.000001
S440N440NaaTaaC66AY.290.000095
S440N440TaAtaCt66AY.430.000027
S440N440KaaTaaG66B.1.1280.003812
S440N440KaaTaaG66C.1.20.025532
S440N440LAAtCTt25All0
S440N440LAATTTA15All0
S440N440LAATCTA15All0
S440N440LAATTTG15All0
S440N440NaaTaaC55AY.250.00003
S440N440EAaTGaG55B.10.000046
S440N440YAatTat55B.1.10.000091
S440N440KaaTaaG45B.1.2470.059701
S440N440KaaTaaA15B.1.2470.014925
S440N440NaaTaaC55B.1.3990.009671
S440N440YAatTat44AY.1030.000025
S440N440IaAtaTt44AY.40.000006
S440N440TaAtaCt44AY.400.003857
S440N440NaaTaaC44AY.430.000018
S440N440KaaTaaG44AY.450.000487
S440N440NaaTaaC44B.10.000037
S440N440FAAtTTt44B.10.000037
S440N440SaAtaGt24B.10.000018
S440N440SAAtTCt14B.10.000009
S440N440SAATTCG14B.10.000009
S440N440IaAtaTt44B.1.1.70.000004
S440N440KaaTaaG44B.1.2140.014652
S440N440KaaTaaG44B.1.6380.210526
S440N440TaAtaCt44B.1.6380.210526
S440N440XAaTTaG23All0
S440N440RAATCGA13All0
S440N440RaATaGA13All0
S440N440XAaTTaA13All0
S440N440RaATaGG13All0
S440N440KaaTaaG33AT.10.015385
S440N440YAatTat33AY.1020.00008
S440N440NaaTaaC33AY.1030.000019
S440N440NaaTaaC33AY.1190.000106
S440N440TaAtaCt33AY.30.00003
S440N440SaAtaGt33AY.30.00003
S440N440KaaTaaG33AY.40.000005
S440N440SaAtaGt33AY.430.000013
S440N440KaaTaaA23AY.430.000009
S440N440KaaTaaG13AY.430.000004
S440N440KaaTaaA33AY.440.000018
S440N440YAatTat33AY.440.000018
S440N440HAatCat33B.10.000027
S440N440DAatGat33B.10.000027
S440N440TaATaCG23B.10.000018
S440N440TaAtaCt13B.10.000009
S440N440IaAtaTt23B.1.10.000036
S440N440SaAtaGt23B.1.10.000036
S440N440IaATaTA13B.1.10.000018
S440N440SaATaGC13B.1.10.000018
S440N440KaaTaaA33B.1.1.3170.001235
S440N440KaaTaaG33B.1.1.4090.008499
S440N440NaaTaaC33B.1.1.5190.000119
S440N440delAAT---33B.1.1.70.000003
S440N440KaaTaaG33B.1.1600.000094
S440N440KaaTaaG33B.1.1700.012931
S440N440DAatGat33B.1.2210.000213
S440N440KaaTaaG33B.1.2600.010033
S440N440KaaTaaG33B.1.36.160.004274
S440N440KaaTaaG33B.1.4620.021739
S440N440SaAtaGt33B.1.617.20.000011
S440N440KaaTaaG33B.1.9.50.017045
S440N440KaaTaaG33C.140.012987
S440N440delAAT---220.111111
S440N440SaAtaGt120.055556
S440N440CAAtTGt120.055556
S440N440CAATTGC120.055556
S440N440SaATaGC120.055556
S440N440YAaTTaC120.055556
S440N440YAatTat120.055556
S440N440MaATaTG22All0
S440N440CAATTGC12All0
S440N440CAAtTGt12All0
S440N440TaAtaCt22AY.1020.000053
S440N440NaaTaaC22AY.1020.000053
S440N440SaAtaGt22AY.1030.000012
S440N440SaAtaGt22AY.230.000139
S440N440KaaTaaA22AY.250.000012
S440N440YAatTat22AY.260.000057
S440N440NaaTaaC22AY.390.000049
S440N440YAatTat22AY.430.000009
S440N440DAatGat22AY.430.000009
S440N440IaAtaTt22AY.470.000062
S440N440TaAtaCt22AY.490.00639
S440N440KaaTaaG22B0.000256
S440N440XAaTTaG22B.10.000018
S440N440del1aaTaa-22B.10.000018
S440N440LAAtCTt12B.10.000009
S440N440LAATTTG12B.10.000009
S440N440KaaTaaG22B.1.1.280.000622
S440N440YAatTat22B.1.1.3160.00185
S440N440SaAtaGt22B.1.1.5190.000079
S440N440FAAtTTt22B.1.1.70.000002
S440N440KaaTaaG22B.1.1.830.00542
S440N440KaaTaaG22B.1.1570.00597
S440N440DAatGat22B.1.177.40.000422
S440N440KaaTaaA12B.1.177.730.000566
S440N440KaaTaaG12B.1.177.730.000566
S440N440LAAtCTt12B.1.2210.000071
S440N440LAATCTA12B.1.2210.000071
S440N440IaATaTA12B.1.2210.000071
S440N440IaAtaTt12B.1.2210.000071
S440N440KaaTaaG22B.1.3690.00057
S440N440KaaTaaG22B.1.4600.035714
S440N440KaaTaaG22B.1.4650.007605
S440N440NaaTaaC22B.1.5410.00885
S440N440NaaTaaC22B.1.5960.000174
S440N440KaaTaaA22B.1.617.10.000258
S440N440KaaTaaG12B.1.617.20.000004
S440N440KaaTaaA12B.1.617.20.000004
S440N440NaaTaaC22B.1.6210.000177
S440N440KaaTaaG22C.36.3.10.005435
S440N440KaaTaaG22P.1.160.000748
S440N440NaaTaaC110.055556
S440N440delAAT---11A0.000387
S440N440YAatTat11A.2.50.000499
S440N440KaaTaaG11A.2.50.000499
S440N440KaaTaaG11A.230.010526
S440N440QAaTCaA11All0
S440N440AAAtGCt11All0
S440N440NaaTaaC11AT.10.005128
S440N440YAatTat11AW.10.003049
S440N440IaAtaTt11AY.1090.00074
S440N440DAatGat11AY.1130.000142
S440N440SaAtaGt11AY.116.10.000311
S440N440NaaTaaC11AY.116.10.000311
S440N440TaAtaCt11AY.1170.000085
S440N440SaAtaGt11AY.1180.000063
S440N440DAatGat11AY.1180.000063
S440N440NaaTaaC11AY.1200.000037
S440N440TaAtaCt11AY.120.10.000321
S440N440KaaTaaA11AY.130.000161
S440N440SaAtaGt11AY.140.000088
S440N440NaaTaaC11AY.160.00038
S440N440NaaTaaC11AY.230.00007
S440N440YAatTat11AY.250.000006
S440N440SaAtaGt11AY.260.000028
S440N440TaAtaCt11AY.260.000028
S440N440KaaTaaA11AY.290.000016
S440N440HAatCat11AY.3.10.000085
S440N440NaaTaaC11AY.39.10.00004
S440N440YAatTat11AY.39.10.00004
S440N440DAatGat11AY.39.1.10.000725
S440N440TaAtaCt11AY.40.000002
S440N440delAAT---11AY.40.000002
S440N440DAatGat11AY.4.20.000022
S440N440NaaTaaC11AY.4.20.000022
S440N440DAatGat11AY.4.50.000107
S440N440YAatTat11AY.4.50.000107
S440N440TaAtaCt11AY.4.50.000107
S440N440YAatTat11AY.420.00004
S440N440IaAtaTt11AY.430.000004
S440N440FAAtTTt11AY.430.000004
S440N440SaAtaGt11AY.440.000006
S440N440NaaTaaC11AY.450.000122
S440N440TaAtaCt11AY.46.40.000165
S440N440KaaTaaA11AY.470.000031
S440N440delAAT---11AY.50.000021
S440N440YAatTat11AY.50.000021
S440N440NaaTaaC11AY.540.000095
S440N440NaaTaaC11AY.580.000907
S440N440SaAtaGt11AY.60.000041
S440N440KaaTaaA11AY.620.000436
S440N440NaaTaaC11AY.750.000056
S440N440IaAtaTt11AY.800.001129
S440N440SaAtaGt11AY.9.20.000037
S440N440NaaTaaC11AY.910.00073
S440N440NaaTaaC11AY.920.000287
S440N440SaAtaGt11AY.98.10.000048
S440N440KaaTaaG11AY.99.20.000092
S440N440delAAT---11B0.000128
S440N440NaaTaaC11B0.000128
S440N440MaATaTG11B.10.000009
S440N440RAATCGA11B.10.000009
S440N440XAaTTaA11B.1.10.000018
S440N440LAATTTA11B.1.10.000018
S440N440RaATaGG11B.1.10.000018
S440N440del1aaTaa-11B.1.10.000018
S440N440MaATaTG11B.1.10.000018
S440N440NaaTaaC11B.1.10.000018
S440N440FAAtTTt11B.1.10.000018
S440N440TaAtaCt11B.1.10.000018
S440N440SaAtaGt11B.1.1.10.000327
S440N440KaaTaaA11B.1.1.1170.009709
S440N440NaaTaaC11B.1.1.1280.007092
S440N440KaaTaaA11B.1.1.1610.003534
S440N440KaaTaaG11B.1.1.1740.003378
S440N440TaAtaCt11B.1.1.1890.001513
S440N440KaaTaaG11B.1.1.2000.007463
S440N440KaaTaaG11B.1.1.2540.011236
S440N440KaaTaaG11B.1.1.2790.001121
S440N440SaAtaGt11B.1.1.2910.000742
S440N440DAatGat11B.1.1.2980.000862
S440N440KaaTaaG11B.1.1.3040.002809
S440N440KaaTaaG11B.1.1.3070.002532
S440N440KaaTaaG11B.1.1.3110.000358
S440N440KaaTaaG11B.1.1.3260.001761
S440N440YAatTat11B.1.1.3260.001761
S440N440KaaTaaG11B.1.1.3480.000796
S440N440KaaTaaG11B.1.1.370.000193
S440N440NaaTaaC11B.1.1.3720.000689
S440N440NaaTaaC11B.1.1.3890.006061
S440N440KaaTaaG11B.1.1.4170.002703
S440N440TaAtaCt11B.1.1.4340.000349
S440N440KaaTaaG11B.1.1.4480.002033
S440N440KaaTaaA11B.1.1.4590.015385
S440N440KaaTaaG11B.1.1.560.017857
S440N440KaaTaaG11B.1.1.570.011494
S440N440RaATaGA11B.1.1.70.000001
S440N440del1aaTaa-11B.1.1.70.000001
S440N440HAatCat11B.1.1.70.000001
S440N440SaAtaGt11B.1.177.330.001645
S440N440delAAT---11B.1.177.40.000211
S440N440YAatTat11B.1.177.570.000281
S440N440delAAT---11B.1.20.000009
S440N440DAatGat11B.1.20.000009
S440N440del1aaTaa-11B.1.2140.003663
S440N440delAAT---11B.1.214.20.0006
S440N440KaaTaaG11B.1.214.20.0006
S440N440QAaTCaA11B.1.2210.000071
S440N440KaaTaaA11B.1.2210.000071
S440N440HAatCat11B.1.2210.000071
S440N440IaAtaTt11B.1.2220.001692
S440N440HAatCat11B.1.2360.002053
S440N440del1aaTaa-11B.1.2470.014925
S440N440delAAT---11B.1.2580.000067
S440N440AAAtGCt11B.1.2580.000067
S440N440delAAT---11B.1.258.170.000104
S440N440KaaTaaA11B.1.3200.001245
S440N440HAatCat11B.1.3510.00003
S440N440KaaTaaG11B.1.3510.00003
S440N440delAAT---11B.1.351.20.000303
S440N440KaaTaaG11B.1.36.100.004785
S440N440KaaTaaG11B.1.36.190.009259
S440N440YAatTat11B.1.36.190.009259
S440N440KaaTaaG11B.1.36.20.010753
S440N440KaaTaaG11B.1.36.220.001208
S440N440KaaTaaG11B.1.36.240.006173
S440N440KaaTaaG11B.1.36.310.001751
S440N440IaAtaTt11B.1.36.370.002778
S440N440KaaTaaA11B.1.3670.000792
S440N440KaaTaaA11B.1.3990.001934
S440N440KaaTaaG11B.1.4270.00005
S440N440YAatTat11B.1.4290.000024
S440N440KaaTaaG11B.1.4320.011236
S440N440del1aaTaa-11B.1.4680.005714
S440N440DAatGat11B.1.4860.111111
S440N440del1Aat-at11B.1.5250.000113
S440N440DAatGat11B.1.5260.000024
S440N440KaaTaaG11B.1.5330.009615
S440N440KaaTaaG11B.1.5480.035714
S440N440KaaTaaG11B.1.5610.000397
S440N440FAAtTTt11B.1.5770.000687
S440N440del1aaTaa-11B.1.617.20.000004
S440N440delAAT---11B.1.617.20.000004
S440N440EAaTGaG11B.1.6190.000871
S440N440delAAT---11B.1.6200.000946
S440N440NaaTaaC11B.1.6300.005236
S440N440KaaTaaA11B.1.6370.000073
S440N440delAAT---11B.340.013699
S440N440KaaTaaG11B.4.10.018868
S440N440YAatTat11B.520.010101
S440N440SaAtaGt11B.6.80.008264
S440N440NaaTaaC11C.370.000116
S440N440KaaTaaG11C.37.10.002618
S440N440DAatGat11N.50.001767
S440N440KaaTaaG11P.10.000016
S440N440del1Aat-at11P.1.10.000318
S440N440KaaTaaA11P.1.100.000269
S440N440NaaTaaC11P.1.150.000232
S440N440DAatGat11P.1.150.000232
S440N440KaaTaaG11P.20.000187
S440N440NaaTaaC11Q.80.000165
S440N440NaaTaaC11R.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.