CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 407

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
S407V407VsyngtCgtT456844860.98204922781-22783
S407V407VsyngtCgtA4568810.01773222781-22783
S407V407VsyngtCgtG456810.00021891422781-22783
S407V407InonsynGtcAtc3163140.99367122781-22783
S407V407InonsynGtCAtT31610.0031645622781-22783
S407V407InonsynGtCAtA31610.0031645622781-22783
S407V407deldelGTC---3232122781-22783
S407V407AnonsyngTcgCc24220.91666722781-22783
S407V407AnonsyngTCgCA2410.041666722781-22783
S407V407AnonsyngTCgCT2410.041666722781-22783
S407V407FnonsynGtcTtc1111122781-22783
S407V407del1delgTcg-c930.33333322781-22783
S407V407del1delGTc-Cc930.33333322781-22783
S407V407del1delGTcS-c920.22222222781-22783
S407V407del1delGtc-tc910.11111122781-22783
S407V407LnonsynGtcCtc77122781-22783
S407V407DnonsyngTcgAc66122781-22783
S407V407MnonsynGtCAtG33122781-22783
S407V407TnonsynGTcACc320.66666722781-22783
S407V407TnonsynGTCACA310.33333322781-22783
S407V407SnonsynGTcAGc210.522781-22783
S407V407SnonsynGTCTCG210.522781-22783
S407V407RnonsynGTCAGA11122781-22783
S407V407GnonsyngTcgGc11122781-22783
S407V407XnonsynGTCTGA11122781-22783

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S407V407VgtCgtT44864568All0.000858
S407V407VgtCgtA814568All0.000015
S407V407VgtCgtG14568All0
S407V407VgtCgtT23762376AY.30.023633
S407V407VgtCgtT786793AY.250.004728
S407V407VgtCgtA7793AY.250.000042
S407V407VgtCgtT582582AY.820.789688
S407V407IGtcAtc314316All0.00006
S407V407IGtCAtT1316All0
S407V407IGtCAtA1316All0
S407V407VgtCgtT188188B.1.10.00341
S407V407IGtcAtc169169AY.1200.006283
S407V407VgtCgtT9999B.1.1.2510.785714
S407V407VgtCgtT7184B.1.1.70.000064
S407V407VgtCgtA1384B.1.1.70.000012
S407V407VgtCgtT6669B.1.617.20.000249
S407V407VgtCgtA369B.1.617.20.000011
S407V407IGtcAtc6666B.1.1.70.000059
S407V407delGTC---3232All0.000006
S407V407VgtCgtT2328B.10.000211
S407V407VgtCgtA528B.10.000046
S407V407VgtCgtA2727AY.4.20.000586
S407V407AgTcgCc2224All0.000004
S407V407AgTCgCA124All0
S407V407AgTCgCT124All0
S407V407VgtCgtT2323AY.10.009102
S407V407VgtCgtT2022AY.430.000089
S407V407VgtCgtA222AY.430.000009
S407V407VgtCgtT1919AY.1170.001606
S407V407VgtCgtT1818AY.1190.000636
S407V407VgtCgtT1717AY.40.000026
S407V407VgtCgtT1717AY.440.000103
S407V407VgtCgtT1012AY.1030.000062
S407V407VgtCgtA212AY.1030.000012
S407V407VgtCgtT1212B.1.575.10.029268
S407V407FGtcTtc1111All0.000002
S407V407delGTC---1111B.1.1.70.00001
S407V407VgtCgtT1011B.1.3510.000297
S407V407VgtCgtA111B.1.3510.00003
S407V407IGtcAtc1111B.1.617.20.000041
S407V407VgtCgtT1111P.1.160.004115
S407V407VgtCgtT710P.10.00011
S407V407VgtCgtA310P.10.000047
S407V407del1GTc-Cc39All0.000001
S407V407del1gTcg-c39All0.000001
S407V407del1GTcS-c29All0
S407V407del1Gtc-tc19All0
S407V407VgtCgtT88C.370.000929
S407V407LGtcCtc77All0.000001
S407V407IGtcAtc77AY.40.000011
S407V407VgtCgtT77AY.550.006422
S407V407DgTcgAc66All0.000001
S407V407IGtcAtc66AY.250.000036
S407V407VgtCgtT66B.1.20.000053
S407V407VgtCgtT66B.1.2320.003224
S407V407VgtCgtA55AY.200.000194
S407V407IGtcAtc55AY.390.000124
S407V407VgtCgtT55AY.50.000103
S407V407VgtCgtT55AY.750.00028
S407V407VgtCgtT45B.1.1770.000053
S407V407VgtCgtA15B.1.1770.000013
S407V407IGtcAtc55B.1.4290.000118
S407V407delGTC---440.222222
S407V407VgtCgtT44AY.1020.000106
S407V407IGtcAtc44AY.20.001425
S407V407VgtCgtT34AY.260.000085
S407V407VgtCgtA14AY.260.000028
S407V407VgtCgtT44AY.9.20.000147
S407V407VgtCgtT34B.1.5260.000071
S407V407VgtCgtA14B.1.5260.000024
S407V407VgtCgtT44P.1.150.000929
S407V407MGtCAtG33All0.000001
S407V407TGTcACc23All0
S407V407TGTCACA13All0
S407V407AgTcgCc33AY.40.000005
S407V407VgtCgtT33AY.46.10.00308
S407V407VgtCgtT33AY.790.003632
S407V407IGtcAtc33B.10.000027
S407V407IGtcAtc33B.1.10.000054
S407V407AgTcgCc33B.1.1.70.000003
S407V407VgtCgtT33B.1.3110.000824
S407V407VgtCgtT33B.1.36.180.001261
S407V407VgtCgtT23B.1.4270.000101
S407V407VgtCgtA13B.1.4270.00005
S407V407VgtCgtT33C.37.10.007853
S407V407IGtcAtc220.111111
S407V407SGTcAGc12All0
S407V407SGTCTCG12All0
S407V407VgtCgtT22AY.1210.000271
S407V407VgtCgtT22AY.130.000322
S407V407VgtCgtT12AY.16.10.00047
S407V407VgtCgtA12AY.16.10.00047
S407V407VgtCgtT22AY.290.000032
S407V407IGtcAtc22AY.30.00002
S407V407del1GTc-Cc12AY.30.00001
S407V407del1gTcg-c12AY.30.00001
S407V407FGtcTtc22AY.40.000003
S407V407LGtcCtc22AY.40.000003
S407V407VgtCgtT22AY.4.50.000215
S407V407VgtCgtT22AY.420.00008
S407V407AgTcgCc22AY.430.000009
S407V407IGtcAtc12AY.430.000004
S407V407IGtCAtT12AY.430.000004
S407V407AgTCgCT12AY.440.000006
S407V407AgTcgCc12AY.440.000006
S407V407VgtCgtT22AY.450.000243
S407V407IGtcAtc22AY.550.001835
S407V407VgtCgtT22AY.620.000871
S407V407VgtCgtT22AY.840.000875
S407V407VgtCgtT22AY.90.000135
S407V407DgTcgAc22B.10.000018
S407V407del1gTcg-c12B.10.000009
S407V407del1GTc-Cc12B.10.000009
S407V407VgtCgtT22B.1.1.2340.024096
S407V407IGtcAtc22B.1.1600.000062
S407V407IGtcAtc22B.1.1770.000026
S407V407IGtcAtc22B.1.177.730.001133
S407V407delGTC---22B.1.20.000018
S407V407delGTC---22B.1.2580.000133
S407V407IGtcAtc22B.1.2580.000133
S407V407VgtCgtT22B.1.3690.00057
S407V407delGTC---22B.1.617.20.000008
S407V407VgtCgtT22B.1.6210.000177
S407V407AgTcgCc12B.1.910.002075
S407V407TGTCACA12B.1.910.002075
S407V407IGtCAtA12B.1.910.002075
S407V407IGtcAtc12B.1.910.002075
S407V407AgTCgCA12B.1.910.002075
S407V407TGTcACc12B.1.910.002075
S407V407IGtcAtc22C.370.000232
S407V407VgtCgtT22D.20.00015
S407V407VgtCgtT110.055556
S407V407VgtCgtA11A0.000387
S407V407AgTcgCc11A.10.000282
S407V407AgTcgCc11A.60.005128
S407V407VgtCgtT11AD.20.000219
S407V407MGtCAtG11AE.30.032258
S407V407RGTCAGA11All0
S407V407GgTcgGc11All0
S407V407XGTCTGA11All0
S407V407VgtCgtT11AY.1000.000046
S407V407LGtcCtc11AY.1030.000006
S407V407AgTcgCc11AY.1030.000006
S407V407del1Gtc-tc11AY.1030.000006
S407V407IGtcAtc11AY.1030.000006
S407V407delGTC---11AY.1070.000466
S407V407FGtcTtc11AY.1100.000113
S407V407VgtCgtT11AY.1130.000142
S407V407FGtcTtc11AY.250.000006
S407V407del1GTcS-c11AY.250.000006
S407V407IGtcAtc11AY.290.000016
S407V407VgtCgtT11AY.3.10.000085
S407V407IGtcAtc11AY.3.10.000085
S407V407FGtcTtc11AY.330.000067
S407V407LGtcCtc11AY.330.000067
S407V407IGtcAtc11AY.330.000067
S407V407VgtCgtT11AY.390.000025
S407V407VgtCgtT11AY.39.10.00004
S407V407delGTC---11AY.40.000002
S407V407DgTcgAc11AY.40.000002
S407V407VgtCgtA11AY.4.2.10.000149
S407V407delGTC---11AY.4.50.000107
S407V407FGtcTtc11AY.420.00004
S407V407delGTC---11AY.430.000004
S407V407del1GTc-Cc11AY.440.000006
S407V407IGtcAtc11AY.440.000006
S407V407VgtCgtT11AY.460.000104
S407V407IGtcAtc11AY.460.000104
S407V407AgTcgCc11AY.460.000104
S407V407VgtCgtT11AY.5.30.000337
S407V407VgtCgtA11AY.520.000814
S407V407AgTcgCc11AY.540.000095
S407V407VgtCgtT11AY.560.001605
S407V407VgtCgtT11AY.590.00053
S407V407IGtcAtc11AY.610.000105
S407V407IGtcAtc11AY.750.000056
S407V407AgTcgCc11AY.750.000056
S407V407IGtcAtc11AY.90.000068
S407V407delGTC---11AY.90.000068
S407V407VgtCgtT11AY.9.10.000084
S407V407IGtcAtc11AY.9.10.000084
S407V407VgtCgtT11AY.930.000273
S407V407VgtCgtT11AY.950.000761
S407V407VgtCgtT11AY.98.10.000048
S407V407LGtcCtc11AY.98.10.000048
S407V407delGTC---11AY.990.001049
S407V407VgtCgtA11B0.000128
S407V407GgTcgGc11B0.000128
S407V407delGTC---11B.10.000009
S407V407AgTcgCc11B.10.000009
S407V407TGTcACc11B.1.10.000018
S407V407LGtcCtc11B.1.10.000018
S407V407FGtcTtc11B.1.1.1920.002309
S407V407VgtCgtA11B.1.1.2210.010101
S407V407AgTcgCc11B.1.1.3730.02381
S407V407MGtCAtG11B.1.1.70.000001
S407V407DgTcgAc11B.1.1.70.000001
S407V407IGtcAtc11B.1.160.100.008065
S407V407delGTC---11B.1.160.290.004219
S407V407VgtCgtT11B.1.177.170.000821
S407V407VgtCgtT11B.1.177.750.001041
S407V407VgtCgtT11B.1.177.80.000752
S407V407IGtcAtc11B.1.20.000009
S407V407VgtCgtT11B.1.2400.000216
S407V407DgTcgAc11B.1.243.10.022222
S407V407FGtcTtc11B.1.2580.000067
S407V407AgTcgCc11B.1.2580.000067
S407V407SGTCTCG11B.1.258.170.000104
S407V407delGTC---11B.1.3510.00003
S407V407MGtCAtG11B.1.360.000146
S407V407AgTcgCc11B.1.36.270.000763
S407V407IGtcAtc11B.1.3750.00082
S407V407IGtcAtc11B.1.4050.012346
S407V407DgTcgAc11B.1.4290.000024
S407V407VgtCgtT11B.1.4290.000024
S407V407XGTCTGA11B.1.4460.02
S407V407VgtCgtT11B.1.466.20.000391
S407V407FGtcTtc11B.1.5090.000866
S407V407IGtcAtc11B.1.5260.000024
S407V407FGtcTtc11B.1.5610.000397
S407V407IGtcAtc11B.1.5750.000303
S407V407LGtcCtc11B.1.5760.000907
S407V407VgtCgtT11B.1.5950.000261
S407V407VgtCgtA11B.1.5960.000087
S407V407FGtcTtc11B.1.6060.006024
S407V407AgTcgCc11B.1.6120.002653
S407V407SGTcAGc11B.1.617.10.000129
S407V407del1GTcS-c11B.1.617.20.000004
S407V407delGTC---11B.1.6200.000946
S407V407del1gTcg-c11B.1.6210.000089
S407V407VgtCgtA11B.1.6230.000536
S407V407VgtCgtG11B.1.6300.005236
S407V407VgtCgtT11B.1.6310.003367
S407V407IGtcAtc11B.1.6370.000073
S407V407VgtCgtA11B.1.910.002075
S407V407VgtCgtT11B.1.940.027027
S407V407VgtCgtT11B.4.40.018868
S407V407RGTCAGA11B.60.00091
S407V407AgTcgCc11D.20.000075
S407V407delGTC---11P.1.10.000318
S407V407VgtCgtT11P.1.20.001156
S407V407VgtCgtT11Q.80.000165
S407V407VgtCgtT11W.10.008696

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.