CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = S : CodonNum = 1141

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
S1141L1141FnonsynttGttT754375410.99973524983-24985
S1141L1141FnonsynttGttC754320.00026514624983-24985
S1141L1141WnonsyntTgtGg24322432124983-24985
S1141L1141LsynttGttA2861940.67832224983-24985
S1141L1141LsynTtgCtg286910.31818224983-24985
S1141L1141LsynTtGCtA28610.003496524983-24985
S1141L1141deldelTTG---2323124983-24985
S1141L1141SnonsyntTgtCg23220.95652224983-24985
S1141L1141SnonsyntTGtCA2310.043478324983-24985
S1141L1141MnonsynTtgAtg1616124983-24985
S1141L1141KnonsynTTgAAg66124983-24985
S1141L1141XnonsyntTgtAg540.824983-24985
S1141L1141XnonsyntTGtAA510.224983-24985
S1141L1141VnonsynTtgGtg44124983-24985
S1141L1141del1delttGtt-430.7524983-24985
S1141L1141del1delTtg-tg410.2524983-24985
S1141L1141PnonsynTTGCCA210.524983-24985
S1141L1141PnonsynTTgCCg210.524983-24985
S1141L1141del2deltTGt--11124983-24985

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
S1141L1141FttGttT75417543All0.001442
S1141L1141FttGttC27543All0
S1141L1141FttGttT72077207AY.40.011217
S1141L1141WtTgtGg24322432All0.000465
S1141L1141WtTgtGg14171417B.1.617.20.005336
S1141L1141WtTgtGg726726AY.520.591205
S1141L1141LttGttA194286All0.000037
S1141L1141LTtgCtg91286All0.000017
S1141L1141LTtGCtA1286All0
S1141L1141WtTgtGg120120AY.16.10.056391
S1141L1141FttGttT5454B.1.617.20.000203
S1141L1141FttGttT5252AY.390.001285
S1141L1141LttGttA4749B.1.1.70.000042
S1141L1141LTtgCtg249B.1.1.70.000002
S1141L1141LTtgCtg2734B.1.20.000238
S1141L1141LttGttA734B.1.20.000062
S1141L1141FttGttT2929AY.30.000288
S1141L1141WtTgtGg2828AY.620.0122
S1141L1141LttGttA2124AY.430.000093
S1141L1141LTtgCtg324AY.430.000013
S1141L1141delTTG---2323All0.000004
S1141L1141StTgtCg2223All0.000004
S1141L1141StTGtCA123All0
S1141L1141LttGttA2222AY.3.10.001876
S1141L1141FttGttT2020AY.430.000089
S1141L1141FttGttT2020AY.50.000413
S1141L1141FttGttT2020AY.920.005745
S1141L1141LttGttA1320B.1.617.20.000049
S1141L1141LTtgCtg720B.1.617.20.000026
S1141L1141LttGttA1418AY.40.000022
S1141L1141LTtgCtg418AY.40.000006
S1141L1141FttGttT1718B.1.1.70.000015
S1141L1141FttGttC118B.1.1.70.000001
S1141L1141MTtgAtg1616All0.000003
S1141L1141FttGttT1616B.10.000147
S1141L1141LttGttA1415P.10.000221
S1141L1141LTtgCtg115P.10.000016
S1141L1141LttGttA1313AY.1010.006376
S1141L1141WtTgtGg1111AY.680.003011
S1141L1141WtTgtGg1111AY.850.004699
S1141L1141WtTgtGg1010AY.670.004643
S1141L1141FttGttT99AY.1020.000239
S1141L1141LTtgCtg69B.10.000055
S1141L1141LttGttA39B.10.000027
S1141L1141FttGttT99B.1.20.000079
S1141L1141WtTgtGg88AY.550.007339
S1141L1141WtTgtGg77AY.390.000173
S1141L1141WtTgtGg77AY.860.005809
S1141L1141KTTgAAg66All0.000001
S1141L1141WtTgtGg66AY.430.000027
S1141L1141LTtgCtg46B.1.1.4340.001394
S1141L1141LttGttA26B.1.1.4340.000697
S1141L1141StTgtCg66B.1.2210.000426
S1141L1141XtTgtAg45All0.000001
S1141L1141XtTGtAA15All0
S1141L1141WtTgtGg55AY.190.005701
S1141L1141FttGttT55AY.200.000194
S1141L1141LttGttA55AY.250.00003
S1141L1141WtTgtGg55AY.260.000142
S1141L1141WtTgtGg55AY.380.002496
S1141L1141WtTgtGg55AY.440.00003
S1141L1141LttGttA55B.1.3510.000149
S1141L1141FttGttT55B.1.4290.000118
S1141L1141LttGttA240.111111
S1141L1141LTtGCtA140.055556
S1141L1141LTtgCtg140.055556
S1141L1141VTtgGtg44All0.000001
S1141L1141del1ttGtt-34All0.000001
S1141L1141del1Ttg-tg14All0
S1141L1141FttGttT44AY.1170.000338
S1141L1141LTtgCtg44AY.400.003857
S1141L1141WtTgtGg44AY.400.003857
S1141L1141FttGttT44AY.440.000024
S1141L1141LTtgCtg44AY.470.000124
S1141L1141WtTgtGg44AY.610.000419
S1141L1141WtTgtGg44AY.750.000224
S1141L1141delTTG---44B.1.1.70.000004
S1141L1141MTtgAtg44B.1.617.20.000015
S1141L1141WtTgtGg33AY.100.00159
S1141L1141WtTgtGg33AY.130.000483
S1141L1141FttGttT33AY.20.001068
S1141L1141FttGttT33AY.260.000085
S1141L1141LTtgCtg33AY.30.00003
S1141L1141FttGttT33AY.3.10.000256
S1141L1141LttGttA33AY.390.000074
S1141L1141FttGttT33AY.410.000882
S1141L1141FttGttT33AY.420.000121
S1141L1141FttGttT33AY.60.000123
S1141L1141LttGttA33AY.770.003382
S1141L1141WtTgtGg33AY.980.000237
S1141L1141LttGttA33B.1.10.000054
S1141L1141LttGttA33B.1.160.310.024194
S1141L1141FttGttT33B.1.5960.000261
S1141L1141PTTGCCA120.055556
S1141L1141XtTGtAA120.055556
S1141L1141StTgtCg120.055556
S1141L1141StTGtCA120.055556
S1141L1141PTTgCCg120.055556
S1141L1141XtTgtAg120.055556
S1141L1141PTTGCCA12All0
S1141L1141PTTgCCg12All0
S1141L1141MTtgAtg22AY.1000.000092
S1141L1141WtTgtGg22AY.1030.000012
S1141L1141LttGttA22AY.1030.000012
S1141L1141FttGttT22AY.1030.000012
S1141L1141WtTgtGg22AY.1170.000169
S1141L1141FttGttT22AY.1200.000074
S1141L1141delTTG---22AY.1200.000074
S1141L1141FttGttT22AY.250.000012
S1141L1141MTtgAtg22AY.270.000129
S1141L1141WtTgtGg22AY.280.003781
S1141L1141FttGttT22AY.290.000032
S1141L1141StTgtCg22AY.30.00002
S1141L1141WtTgtGg22AY.300.000791
S1141L1141WtTgtGg22AY.330.000134
S1141L1141FttGttT22AY.330.000134
S1141L1141MTtgAtg22AY.40.000003
S1141L1141delTTG---22AY.40.000003
S1141L1141KTTgAAg22AY.40.000003
S1141L1141FttGttT22AY.4.40.000818
S1141L1141delTTG---22AY.4.50.000215
S1141L1141delTTG---22AY.430.000009
S1141L1141StTgtCg22AY.440.000012
S1141L1141LTtgCtg22AY.450.000243
S1141L1141FttGttT22AY.46.40.000329
S1141L1141WtTgtGg22AY.480.00093
S1141L1141WtTgtGg22AY.540.000191
S1141L1141StTgtCg22B.10.000018
S1141L1141WtTgtGg22B.10.000018
S1141L1141WtTgtGg22B.1.10.000036
S1141L1141LttGttA12B.1.1.2140.000055
S1141L1141LTtgCtg12B.1.1.2140.000055
S1141L1141FttGttT22B.1.1.280.000622
S1141L1141LTtgCtg22B.1.1.5190.000079
S1141L1141WtTgtGg22B.1.1.70.000002
S1141L1141del1ttGtt-22B.1.1.70.000002
S1141L1141LTtgCtg22B.1.1600.000062
S1141L1141LTtgCtg22B.1.177.860.000367
S1141L1141FttGttT22B.1.177.870.001456
S1141L1141StTgtCg22B.1.20.000018
S1141L1141LttGttA12B.1.2340.000132
S1141L1141LTtgCtg12B.1.2340.000132
S1141L1141FttGttT22B.1.36.180.00084
S1141L1141LttGttA22B.1.5260.000047
S1141L1141FttGttT22B.1.5610.000794
S1141L1141VTtgGtg110.055556
S1141L1141MTtgAtg110.055556
S1141L1141del2tTGt--11All0
S1141L1141WtTgtGg11AY.1000.000046
S1141L1141LTtgCtg11AY.1020.000027
S1141L1141WtTgtGg11AY.1060.000335
S1141L1141LTtgCtg11AY.1060.000335
S1141L1141LTtgCtg11AY.116.10.000311
S1141L1141delTTG---11AY.1180.000063
S1141L1141StTgtCg11AY.1200.000037
S1141L1141StTgtCg11AY.250.000006
S1141L1141LTtgCtg11AY.330.000067
S1141L1141FttGttT11AY.350.000233
S1141L1141LttGttA11AY.39.10.00004
S1141L1141XtTgtAg11AY.40.000002
S1141L1141del1ttGtt-11AY.40.000002
S1141L1141FttGttT11AY.4.20.000022
S1141L1141FttGttT11AY.4.2.10.000149
S1141L1141LttGttA11AY.4.50.000107
S1141L1141WtTgtGg11AY.410.000294
S1141L1141KTTgAAg11AY.430.000004
S1141L1141LTtgCtg11AY.440.000006
S1141L1141MTtgAtg11AY.450.000122
S1141L1141FttGttT11AY.460.000104
S1141L1141del2tTGt--11AY.460.000104
S1141L1141WtTgtGg11AY.460.000104
S1141L1141FttGttT11AY.46.10.001027
S1141L1141WtTgtGg11AY.470.000031
S1141L1141WtTgtGg11AY.490.003195
S1141L1141FttGttT11AY.490.003195
S1141L1141WtTgtGg11AY.5.40.000277
S1141L1141WtTgtGg11AY.510.000909
S1141L1141VTtgGtg11AY.520.000814
S1141L1141WtTgtGg11AY.530.000288
S1141L1141FttGttT11AY.530.000288
S1141L1141FttGttT11AY.550.000917
S1141L1141LTtgCtg11AY.60.000041
S1141L1141LTtgCtg11AY.610.000105
S1141L1141delTTG---11AY.670.000464
S1141L1141FttGttT11AY.690.000187
S1141L1141StTgtCg11AY.75.10.00018
S1141L1141WtTgtGg11AY.770.001127
S1141L1141WtTgtGg11AY.800.001129
S1141L1141KTTgAAg11AY.840.000437
S1141L1141MTtgAtg11AY.840.000437
S1141L1141XtTgtAg11AY.840.000437
S1141L1141delTTG---11AY.850.000427
S1141L1141LTtgCtg11AY.850.000427
S1141L1141WtTgtGg11AY.90.000068
S1141L1141delTTG---11AY.90.000068
S1141L1141LttGttA11AY.90.000068
S1141L1141FttGttT11AY.90.000068
S1141L1141WtTgtGg11AY.9.20.000037
S1141L1141FttGttT11AY.9.20.000037
S1141L1141WtTgtGg11AY.930.000273
S1141L1141WtTgtGg11AY.970.001701
S1141L1141KTTgAAg11AY.990.001049
S1141L1141XtTgtAg11AY.990.001049
S1141L1141VTtgGtg11AY.99.20.000092
S1141L1141LTtgCtg11B0.000128
S1141L1141delTTG---11B.10.000009
S1141L1141MTtgAtg11B.10.000009
S1141L1141MTtgAtg11B.1.1.2140.000055
S1141L1141LTtgCtg11B.1.1.2160.00089
S1141L1141LTtgCtg11B.1.1.2630.001558
S1141L1141LttGttA11B.1.1.2770.000759
S1141L1141FttGttT11B.1.1.2970.002237
S1141L1141FttGttT11B.1.1.4130.006897
S1141L1141FttGttT11B.1.1.5190.00004
S1141L1141StTgtCg11B.1.1.70.000001
S1141L1141FttGttT11B.1.1.700.000341
S1141L1141FttGttT11B.1.110.30.000718
S1141L1141LttGttA11B.1.160.160.000929
S1141L1141WtTgtGg11B.1.1770.000013
S1141L1141FttGttT11B.1.1770.000013
S1141L1141del1Ttg-tg11B.1.1770.000013
S1141L1141FttGttT11B.1.177.600.000218
S1141L1141LttGttA11B.1.177.600.000218
S1141L1141delTTG---11B.1.177.70.000165
S1141L1141WtTgtGg11B.1.177.810.000189
S1141L1141WtTgtGg11B.1.2140.003663
S1141L1141LTtgCtg11B.1.2210.000071
S1141L1141FttGttT11B.1.2210.000071
S1141L1141FttGttT11B.1.2340.000132
S1141L1141WtTgtGg11B.1.2430.00007
S1141L1141FttGttT11B.1.258.110.000396
S1141L1141LttGttA11B.1.2790.000514
S1141L1141FttGttT11B.1.3510.00003
S1141L1141StTgtCg11B.1.3510.00003
S1141L1141FttGttC11B.1.351.20.000303
S1141L1141MTtgAtg11B.1.36.80.001
S1141L1141VTtgGtg11B.1.4290.000024
S1141L1141LTtgCtg11B.1.466.20.000391
S1141L1141FttGttT11B.1.5600.00463
S1141L1141delTTG---11B.1.5610.000397
S1141L1141KTTgAAg11B.1.5680.001111
S1141L1141FttGttT11B.1.5760.000907
S1141L1141WtTgtGg11B.1.617.10.000129
S1141L1141FttGttT11B.1.617.10.000129
S1141L1141StTgtCg11B.1.617.20.000004
S1141L1141delTTG---11C.170.055556
S1141L1141delTTG---11C.370.000116
S1141L1141LttGttA11C.370.000116
S1141L1141LTtgCtg11D.20.000075
S1141L1141StTgtCg11D.20.000075
S1141L1141delTTG---11P.10.000016
S1141L1141FttGttT11P.1.150.000232
S1141L1141delTTG---11P.1.150.000232
S1141L1141FttGttT11P.1.170.000162
S1141L1141LTtgCtg11R.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.