CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 1173

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
S1173N1173NsynaaTaaC844844125079-25081
S1173N1173deldelAAT---134134125079-25081
S1173N1173SnonsynaAtaGt1141130.99122825079-25081
S1173N1173SnonsynaATaGC11410.0087719325079-25081
S1173N1173DnonsynAatGat6868125079-25081
S1173N1173KnonsynaaTaaA31170.54838725079-25081
S1173N1173KnonsynaaTaaG31140.45161325079-25081
S1173N1173TnonsynaAtaCt20180.925079-25081
S1173N1173TnonsynaATaCG2010.0525079-25081
S1173N1173TnonsynaATaCA2010.0525079-25081
S1173N1173YnonsynAatTat1717125079-25081
S1173N1173InonsynaAtaTt14130.92857125079-25081
S1173N1173InonsynaATaTC1410.071428625079-25081
S1173N1173HnonsynAatCat12110.91666725079-25081
S1173N1173HnonsynAaTCaC1210.083333325079-25081
S1173N1173AnonsynAATGCC55125079-25081
S1173N1173GnonsynAAtGGt33125079-25081
S1173N1173del1delaaTaa-33125079-25081
S1173N1173RnonsynAATCGC310.33333325079-25081
S1173N1173RnonsynAAtCGt310.33333325079-25081
S1173N1173RnonsynaATaGA310.33333325079-25081
S1173N1173del2delaATa--22125079-25081
S1173N1173EnonsynAaTGaG210.525079-25081
S1173N1173LnonsynAAtCTt210.525079-25081
S1173N1173LnonsynAATCTC210.525079-25081
S1173N1173EnonsynAaTGaA210.525079-25081
S1173N1173CnonsynAAtTGt11125079-25081

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S1173N1173NaaTaaC844844All0.000161
S1173N1173NaaTaaC219219B.1.5960.019083
S1173N1173NaaTaaC143143AY.430.000634
S1173N1173delAAT---134134All0.000026
S1173N1173NaaTaaC128128AY.1180.008019
S1173N1173SaAtaGt113114All0.000022
S1173N1173SaATaGC1114All0
S1173N1173NaaTaaC7777B.1.1600.002401
S1173N1173DAatGat6868All0.000013
S1173N1173delAAT---5656B.1.1.70.00005
S1173N1173SaAtaGt4141B.1.1.70.000037
S1173N1173NaaTaaC3737B.1.1.70.000033
S1173N1173NaaTaaC3535B.1.617.20.000132
S1173N1173KaaTaaA1731All0.000003
S1173N1173KaaTaaG1431All0.000003
S1173N1173NaaTaaC2424AY.60.000987
S1173N1173NaaTaaC2121AY.440.000128
S1173N1173TaAtaCt1820All0.000003
S1173N1173TaATaCA120All0
S1173N1173TaATaCG120All0
S1173N1173NaaTaaC2020B.1.5250.002263
S1173N1173YAatTat1717All0.000003
S1173N1173DAatGat1616AY.440.000097
S1173N1173IaAtaTt1314All0.000002
S1173N1173IaATaTC114All0
S1173N1173HAatCat1112All0.000002
S1173N1173HAaTCaC112All0
S1173N1173NaaTaaC1212AY.1030.000075
S1173N1173NaaTaaC1111AY.40.000017
S1173N1173DAatGat1111B.1.177.210.000841
S1173N1173HAatCat1010B.1.1.70.000009
S1173N1173SaAtaGt99AY.1030.000056
S1173N1173NaaTaaC99AY.39.10.000357
S1173N1173DAatGat99AY.40.000014
S1173N1173NaaTaaC88AY.140.000704
S1173N1173SaAtaGt88AY.250.000048
S1173N1173SaAtaGt88B.1.1.5190.000318
S1173N1173DAatGat77AY.250.000042
S1173N1173YAatTat77AY.40.000011
S1173N1173delAAT---77B.1.1770.000092
S1173N1173SaAtaGt77B.1.5260.000165
S1173N1173NaaTaaC66AY.250.000036
S1173N1173NaaTaaC66AY.30.00006
S1173N1173NaaTaaC66B.10.000055
S1173N1173NaaTaaC55A.300.714286
S1173N1173AAATGCC55All0.000001
S1173N1173delAAT---55AY.1200.000186
S1173N1173DAatGat55AY.30.00005
S1173N1173NaaTaaC55AY.330.000334
S1173N1173delAAT---55AY.40.000008
S1173N1173delAAT---55AY.4.50.000537
S1173N1173NaaTaaC55AY.690.000933
S1173N1173SaAtaGt55AY.750.00028
S1173N1173TaAtaCt55B.1.36.290.002587
S1173N1173KaaTaaA45B.1.617.20.000015
S1173N1173KaaTaaG15B.1.617.20.000004
S1173N1173DAatGat44AY.1030.000025
S1173N1173TaAtaCt44AY.1030.000025
S1173N1173SaAtaGt44AY.440.000024
S1173N1173delAAT---44B.10.000037
S1173N1173SaAtaGt44B.1.177.150.002524
S1173N1173SaAtaGt44B.1.20.000035
S1173N1173NaaTaaC44Q.80.00066
S1173N1173del1aaTaa-33All0.000001
S1173N1173GAAtGGt33All0.000001
S1173N1173RaATaGA13All0
S1173N1173RAAtCGt13All0
S1173N1173RAATCGC13All0
S1173N1173NaaTaaC33AY.1090.002219
S1173N1173NaaTaaC33AY.1200.000112
S1173N1173SaAtaGt33AY.40.000005
S1173N1173delAAT---33AY.430.000013
S1173N1173NaaTaaC33AY.470.000093
S1173N1173SaAtaGt33B.10.000027
S1173N1173TaAtaCt33B.1.1.70.000003
S1173N1173IaAtaTt33B.1.1.70.000003
S1173N1173KaaTaaG23B.1.1.70.000002
S1173N1173KaaTaaA13B.1.1.70.000001
S1173N1173NaaTaaC33B.1.177.150.001893
S1173N1173KaaTaaG33B.1.177.350.002073
S1173N1173NaaTaaC33B.1.2400.000647
S1173N1173KaaTaaA33B.1.4290.000071
S1173N1173delAAT---33B.1.617.20.000011
S1173N1173TaAtaCt13B.1.617.20.000004
S1173N1173TaATaCA13B.1.617.20.000004
S1173N1173TaATaCG13B.1.617.20.000004
S1173N1173delAAT---33P.1.150.000697
S1173N1173SaATaGC120.055556
S1173N1173IaATaTC120.055556
S1173N1173HAaTCaC120.055556
S1173N1173LAAtCTt120.055556
S1173N1173HAatCat120.055556
S1173N1173RAATCGC120.055556
S1173N1173SaAtaGt120.055556
S1173N1173RAAtCGt120.055556
S1173N1173IaAtaTt120.055556
S1173N1173LAATCTC120.055556
S1173N1173del2aATa--22All0
S1173N1173EAaTGaA12All0
S1173N1173LAATCTC12All0
S1173N1173LAAtCTt12All0
S1173N1173EAaTGaG12All0
S1173N1173NaaTaaC22AY.100.00106
S1173N1173NaaTaaC22AY.1000.000092
S1173N1173del2aATa--22AY.1200.000074
S1173N1173delAAT---22AY.190.002281
S1173N1173delAAT---22AY.230.000139
S1173N1173KaaTaaA12AY.30.00001
S1173N1173KaaTaaG12AY.30.00001
S1173N1173NaaTaaC22AY.380.000999
S1173N1173KaaTaaG22AY.40.000003
S1173N1173KaaTaaA22AY.440.000012
S1173N1173NaaTaaC22AY.610.00021
S1173N1173NaaTaaC22AY.840.000875
S1173N1173NaaTaaC22AY.920.000575
S1173N1173KaaTaaA22B.10.000018
S1173N1173GAAtGGt22B.10.000018
S1173N1173delAAT---22B.1.10.000036
S1173N1173NaaTaaC22B.1.1.250.001137
S1173N1173NaaTaaC22B.1.1.3170.000823
S1173N1173AAATGCC22B.1.1.70.000002
S1173N1173del1aaTaa-22B.1.1.70.000002
S1173N1173delAAT---22B.1.177.40.000422
S1173N1173DAatGat22B.1.617.20.000008
S1173N1173delAAT---22P.10.000032
S1173N1173TaAtaCt22P.10.000032
S1173N1173NaaTaaC22P.10.000032
S1173N1173NaaTaaC110.055556
S1173N1173CAAtTGt11All0
S1173N1173NaaTaaC11AY.1020.000027
S1173N1173KaaTaaG11AY.1030.000006
S1173N1173IaAtaTt11AY.1110.000183
S1173N1173delAAT---11AY.1110.000183
S1173N1173NaaTaaC11AY.1160.000287
S1173N1173delAAT---11AY.1180.000063
S1173N1173NaaTaaC11AY.1190.000035
S1173N1173KaaTaaG11AY.1200.000037
S1173N1173NaaTaaC11AY.200.000039
S1173N1173DAatGat11AY.200.000039
S1173N1173delAAT---11AY.240.000431
S1173N1173delAAT---11AY.250.000006
S1173N1173YAatTat11AY.250.000006
S1173N1173SaAtaGt11AY.260.000028
S1173N1173NaaTaaC11AY.260.000028
S1173N1173DAatGat11AY.260.000028
S1173N1173YAatTat11AY.270.000065
S1173N1173SaAtaGt11AY.270.000065
S1173N1173KaaTaaA11AY.290.000016
S1173N1173delAAT---11AY.300.000396
S1173N1173delAAT---11AY.350.000233
S1173N1173NaaTaaC11AY.360.000148
S1173N1173RaATaGA11AY.40.000002
S1173N1173TaAtaCt11AY.40.000002
S1173N1173YAatTat11AY.4.20.000022
S1173N1173NaaTaaC11AY.410.000294
S1173N1173NaaTaaC11AY.420.00004
S1173N1173IaAtaTt11AY.420.00004
S1173N1173SaAtaGt11AY.430.000004
S1173N1173DAatGat11AY.430.000004
S1173N1173YAatTat11AY.430.000004
S1173N1173KaaTaaA11AY.450.000122
S1173N1173DAatGat11AY.460.000104
S1173N1173NaaTaaC11AY.460.000104
S1173N1173DAatGat11AY.46.10.001027
S1173N1173SaAtaGt11AY.46.60.000072
S1173N1173DAatGat11AY.50.000021
S1173N1173delAAT---11AY.50.000021
S1173N1173IaAtaTt11AY.5.30.000337
S1173N1173NaaTaaC11AY.540.000095
S1173N1173DAatGat11AY.540.000095
S1173N1173NaaTaaC11AY.580.000907
S1173N1173delAAT---11AY.60.000041
S1173N1173delAAT---11AY.600.000938
S1173N1173delAAT---11AY.680.000274
S1173N1173delAAT---11AY.70.000196
S1173N1173YAatTat11AY.710.000475
S1173N1173TaAtaCt11AY.750.000056
S1173N1173AAATGCC11AY.750.000056
S1173N1173KaaTaaG11AY.750.000056
S1173N1173NaaTaaC11AY.75.10.00018
S1173N1173delAAT---11AY.75.10.00018
S1173N1173delAAT---11AY.810.001992
S1173N1173IaAtaTt11AY.840.000437
S1173N1173delAAT---11AY.850.000427
S1173N1173delAAT---11AY.90.000068
S1173N1173SaAtaGt11AY.90.000068
S1173N1173delAAT---11AY.9.20.000037
S1173N1173DAatGat11AY.9.20.000037
S1173N1173DAatGat11AY.98.10.000048
S1173N1173NaaTaaC11AY.98.10.000048
S1173N1173KaaTaaA11AY.99.20.000092
S1173N1173NaaTaaC11B0.000128
S1173N1173DAatGat11B.10.000009
S1173N1173del1aaTaa-11B.10.000009
S1173N1173YAatTat11B.10.000009
S1173N1173AAATGCC11B.10.000009
S1173N1173EAaTGaA11B.10.000009
S1173N1173NaaTaaC11B.1.10.000018
S1173N1173IaAtaTt11B.1.10.000018
S1173N1173SaAtaGt11B.1.10.000018
S1173N1173SaAtaGt11B.1.1.1350.004695
S1173N1173delAAT---11B.1.1.1390.022727
S1173N1173delAAT---11B.1.1.1590.004673
S1173N1173NaaTaaC11B.1.1.2140.000055
S1173N1173delAAT---11B.1.1.2360.006897
S1173N1173SaAtaGt11B.1.1.280.000311
S1173N1173AAATGCC11B.1.1.3060.000438
S1173N1173DAatGat11B.1.1.330.000421
S1173N1173NaaTaaC11B.1.1.3540.004386
S1173N1173NaaTaaC11B.1.1.500.000679
S1173N1173NaaTaaC11B.1.1.5190.00004
S1173N1173GAAtGGt11B.1.1.70.000001
S1173N1173CAAtTGt11B.1.1.70.000001
S1173N1173YAatTat11B.1.1.70.000001
S1173N1173SaAtaGt11B.1.110.30.000718
S1173N1173SaAtaGt11B.1.1600.000031
S1173N1173delAAT---11B.1.160.230.004831
S1173N1173DAatGat11B.1.1770.000013
S1173N1173SaAtaGt11B.1.1770.000013
S1173N1173delAAT---11B.1.177.170.000821
S1173N1173delAAT---11B.1.177.210.000076
S1173N1173DAatGat11B.1.177.280.007407
S1173N1173KaaTaaG11B.1.177.420.000894
S1173N1173TaAtaCt11B.1.177.50.001242
S1173N1173delAAT---11B.1.177.540.000606
S1173N1173delAAT---11B.1.177.600.000218
S1173N1173delAAT---11B.1.177.830.001481
S1173N1173delAAT---11B.1.177.90.001332
S1173N1173NaaTaaC11B.1.20.000009
S1173N1173DAatGat11B.1.20.000009
S1173N1173YAatTat11B.1.20.000009
S1173N1173KaaTaaG11B.1.20.000009
S1173N1173delAAT---11B.1.2180.005155
S1173N1173delAAT---11B.1.221.10.002907
S1173N1173IaAtaTt11B.1.3360.002439
S1173N1173SaAtaGt11B.1.3510.00003
S1173N1173EAaTGaG11B.1.360.000146
S1173N1173NaaTaaC11B.1.36.170.000494
S1173N1173delAAT---11B.1.36.290.000517
S1173N1173YAatTat11B.1.4270.00005
S1173N1173NaaTaaC11B.1.4290.000024
S1173N1173NaaTaaC11B.1.4380.006536
S1173N1173IaAtaTt11B.1.438.10.000107
S1173N1173NaaTaaC11B.1.4650.003802
S1173N1173KaaTaaA11B.1.5260.000024
S1173N1173NaaTaaC11B.1.5260.000024
S1173N1173SaAtaGt11B.1.5380.008065
S1173N1173NaaTaaC11B.1.5680.001111
S1173N1173SaAtaGt11B.1.617.10.000129
S1173N1173IaAtaTt11B.1.617.20.000004
S1173N1173SaAtaGt11B.1.617.20.000004
S1173N1173YAatTat11B.1.617.20.000004
S1173N1173delAAT---11B.1.6210.000089
S1173N1173NaaTaaC11B.390.002331
S1173N1173SaAtaGt11B.60.00091
S1173N1173NaaTaaC11C.350.000774
S1173N1173NaaTaaC11C.370.000116
S1173N1173delAAT---11C.370.000116
S1173N1173IaAtaTt11P.1.10.000318
S1173N1173delAAT---11Q.20.000613
S1173N1173delAAT---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.