CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp16 : CodonNum = 102

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
ORF1ab/nsp16102D102ND6900NnonsynGacAac700970080.99985720962-20964
ORF1ab/nsp16102D102ND6900NnonsynGaCAaT700910.00014267420962-20964
ORF1ab/nsp16102D102DD6900DsyngaCgaT587587120962-20964
ORF1ab/nsp16102D102YD6900YnonsynGacTac492492120962-20964
ORF1ab/nsp16102D102GD6900GnonsyngAcgGc4424400.99547520962-20964
ORF1ab/nsp16102D102GD6900GnonsyngACgGA44210.0022624420962-20964
ORF1ab/nsp16102D102GD6900GnonsyngACgGT44210.0022624420962-20964
ORF1ab/nsp16102D102ED6900EnonsyngaCgaA85830.97647120962-20964
ORF1ab/nsp16102D102ED6900EnonsyngaCgaG8520.023529420962-20964
ORF1ab/nsp16102D102AD6900AnonsyngAcgCc4545120962-20964
ORF1ab/nsp16102D102delD6900deldelGAC---2020120962-20964
ORF1ab/nsp16102D102HD6900HnonsynGacCac77120962-20964
ORF1ab/nsp16102D102KD6900KnonsynGaCAaG22120962-20964
ORF1ab/nsp16102D102SD6900SnonsynGACAGT210.520962-20964
ORF1ab/nsp16102D102SD6900SnonsynGAcAGc210.520962-20964
ORF1ab/nsp16102D102ID6900InonsynGACATT11120962-20964
ORF1ab/nsp16102D102XD6900XnonsynGACTGA11120962-20964

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

ORFCodonNumMutRefCodonMutCodonCodonCountAACountLineageLineageCodonProp
ORF1ab/nsp16102D102NGacAac70087009All0.00134
ORF1ab/nsp16102D102NGaCAaT17009All0
ORF1ab/nsp16102D102NGacAac68916891Q.30.99942
ORF1ab/nsp16102D102DgaCgaT587587All0.000112
ORF1ab/nsp16102D102YGacTac492492All0.000094
ORF1ab/nsp16102D102GgAcgGc440442All0.000084
ORF1ab/nsp16102D102GgACgGA1442All0
ORF1ab/nsp16102D102GgACgGT1442All0
ORF1ab/nsp16102D102GgAcgGc302302AY.1180.01892
ORF1ab/nsp16102D102DgaCgaT168168B.1.1.70.00015
ORF1ab/nsp16102D102YGacTac115115B.1.1.70.000103
ORF1ab/nsp16102D102EgaCgaA8385All0.000016
ORF1ab/nsp16102D102EgaCgaG285All0
ORF1ab/nsp16102D102YGacTac7474AY.40.000115
ORF1ab/nsp16102D102GgAcgGc7373B.1.177.200.110774
ORF1ab/nsp16102D102YGacTac6868B.1.20.000599
ORF1ab/nsp16102D102YGacTac6767B.1.5580.305936
ORF1ab/nsp16102D102AgAcgCc4545All0.000009
ORF1ab/nsp16102D102DgaCgaT4040AY.40.000062
ORF1ab/nsp16102D102EgaCgaA3535AY.9.10.00293
ORF1ab/nsp16102D102DgaCgaT3434AY.430.000151
ORF1ab/nsp16102D102DgaCgaT3333A.2.50.016467
ORF1ab/nsp16102D102DgaCgaT2727B.1.617.20.000102
ORF1ab/nsp16102D102NGacAac2323AY.40.000036
ORF1ab/nsp16102D102YGacTac2323AY.4.50.002472
ORF1ab/nsp16102D102delGAC---2020All0.000004
ORF1ab/nsp16102D102YGacTac2020AY.1030.000124
ORF1ab/nsp16102D102NGacAac2020B.1.177.320.026991
ORF1ab/nsp16102D102DgaCgaT1919AY.250.000114
ORF1ab/nsp16102D102NGacAac1919B.1.1.70.000017
ORF1ab/nsp16102D102DgaCgaT1818AY.1030.000112
ORF1ab/nsp16102D102DgaCgaT1717AY.1100.001916
ORF1ab/nsp16102D102DgaCgaT1717B.1.3510.000505
ORF1ab/nsp16102D102YGacTac1616B.10.000147
ORF1ab/nsp16102D102DgaCgaT1616B.1.1.3060.007014
ORF1ab/nsp16102D102GgAcgGc1414B.1.1.70.000013
ORF1ab/nsp16102D102DgaCgaT1313AY.750.000728
ORF1ab/nsp16102D102EgaCgaA1313B.1.1.70.000012
ORF1ab/nsp16102D102DgaCgaT1212B.1.20.000106
ORF1ab/nsp16102D102DgaCgaT1111AY.440.000067
ORF1ab/nsp16102D102DgaCgaT1111B.10.000101
ORF1ab/nsp16102D102GgAcgGc1111B.1.617.20.000041
ORF1ab/nsp16102D102YGacTac1010AY.98.10.000484
ORF1ab/nsp16102D102DgaCgaT1010B.1.1.3850.044643
ORF1ab/nsp16102D102DgaCgaT1010B.1.4270.000505
ORF1ab/nsp16102D102DgaCgaT99AY.1020.000239
ORF1ab/nsp16102D102AgAcgCc99AY.40.000014
ORF1ab/nsp16102D102DgaCgaT99AY.60.00037
ORF1ab/nsp16102D102YGacTac88AY.46.60.000578
ORF1ab/nsp16102D102AgAcgCc88B.1.5260.000188
ORF1ab/nsp16102D102YGacTac88B.1.617.20.00003
ORF1ab/nsp16102D102HGacCac77All0.000001
ORF1ab/nsp16102D102YGacTac77B.1.3960.00494
ORF1ab/nsp16102D102DgaCgaT66AY.30.00006
ORF1ab/nsp16102D102EgaCgaA66AY.39.10.000238
ORF1ab/nsp16102D102YGacTac66AY.430.000027
ORF1ab/nsp16102D102YGacTac66AY.440.000037
ORF1ab/nsp16102D102AgAcgCc66AY.46.60.000433
ORF1ab/nsp16102D102NGacAac66B.10.000055
ORF1ab/nsp16102D102YGacTac66B.1.3510.000178
ORF1ab/nsp16102D102NGacAac66B.1.4290.000141
ORF1ab/nsp16102D102EgaCgaA55AY.1130.000712
ORF1ab/nsp16102D102DgaCgaT55AY.1170.000423
ORF1ab/nsp16102D102EgaCgaA55AY.250.00003
ORF1ab/nsp16102D102GgAcgGc55AY.30.00005
ORF1ab/nsp16102D102AgAcgCc55AY.370.00158
ORF1ab/nsp16102D102GgAcgGc55AY.430.000022
ORF1ab/nsp16102D102YGacTac55AY.90.000338
ORF1ab/nsp16102D102NGacAac55B.1.10.000091
ORF1ab/nsp16102D102delGAC---55B.1.1.70.000004
ORF1ab/nsp16102D102NGacAac55B.1.2180.025773
ORF1ab/nsp16102D102DgaCgaT55B.1.4290.000118
ORF1ab/nsp16102D102NGacAac340.166667
ORF1ab/nsp16102D102GgAcgGc240.111111
ORF1ab/nsp16102D102GgACgGT140.055556
ORF1ab/nsp16102D102NGaCAaT140.055556
ORF1ab/nsp16102D102GgACgGA140.055556
ORF1ab/nsp16102D102YGacTac44A.2.5.10.019231
ORF1ab/nsp16102D102YGacTac44AY.80.002424
ORF1ab/nsp16102D102AgAcgCc44B.1.1.1920.009238
ORF1ab/nsp16102D102DgaCgaT44B.1.1.3440.043011
ORF1ab/nsp16102D102GgAcgGc44B.1.20.000035
ORF1ab/nsp16102D102NGacAac44B.1.20.000035
ORF1ab/nsp16102D102GgAcgGc44B.1.6280.001409
ORF1ab/nsp16102D102GgAcgGc33AY.1020.00008
ORF1ab/nsp16102D102DgaCgaT33AY.1210.000406
ORF1ab/nsp16102D102EgaCgaA33AY.200.000117
ORF1ab/nsp16102D102DgaCgaT33AY.230.000209
ORF1ab/nsp16102D102YGacTac33AY.250.000018
ORF1ab/nsp16102D102NGacAac33AY.260.000085
ORF1ab/nsp16102D102EgaCgaA33AY.390.000074
ORF1ab/nsp16102D102NGacAac33AY.440.000018
ORF1ab/nsp16102D102DgaCgaT33AY.50.000062
ORF1ab/nsp16102D102DgaCgaT33AY.610.000314
ORF1ab/nsp16102D102EgaCgaA33B.10.000027
ORF1ab/nsp16102D102DgaCgaT33B.1.10.000054
ORF1ab/nsp16102D102HGacCac33B.1.1.70.000003
ORF1ab/nsp16102D102AgAcgCc33B.1.1.70.000003
ORF1ab/nsp16102D102DgaCgaT33B.1.1600.000094
ORF1ab/nsp16102D102YGacTac33B.1.177.860.00055
ORF1ab/nsp16102D102DgaCgaT33B.1.5260.000071
ORF1ab/nsp16102D102AgAcgCc33B.1.617.20.000011
ORF1ab/nsp16102D102delGAC---33P.1.150.000697
ORF1ab/nsp16102D102HGacCac33R.10.00027
ORF1ab/nsp16102D102KGaCAaG220.111111
ORF1ab/nsp16102D102SGACAGT120.055556
ORF1ab/nsp16102D102SGAcAGc120.055556
ORF1ab/nsp16102D102KGaCAaG22All0
ORF1ab/nsp16102D102SGAcAGc12All0
ORF1ab/nsp16102D102SGACAGT12All0
ORF1ab/nsp16102D102DgaCgaT22AY.1000.000092
ORF1ab/nsp16102D102delGAC---22AY.1200.000074
ORF1ab/nsp16102D102YGacTac22AY.1200.000074
ORF1ab/nsp16102D102DgaCgaT22AY.130.000322
ORF1ab/nsp16102D102DgaCgaT22AY.200.000078
ORF1ab/nsp16102D102NGacAac22AY.250.000012
ORF1ab/nsp16102D102DgaCgaT22AY.290.000032
ORF1ab/nsp16102D102YGacTac22AY.360.000296
ORF1ab/nsp16102D102DgaCgaT22AY.39.10.000079
ORF1ab/nsp16102D102EgaCgaA22AY.40.000003
ORF1ab/nsp16102D102DgaCgaT22AY.780.003082
ORF1ab/nsp16102D102YGacTac22AY.930.000546
ORF1ab/nsp16102D102DgaCgaT22AY.980.000158
ORF1ab/nsp16102D102DgaCgaT22B0.000256
ORF1ab/nsp16102D102DgaCgaT22B.1.1.5190.000079
ORF1ab/nsp16102D102NGacAac22B.1.1770.000026
ORF1ab/nsp16102D102GgAcgGc22B.1.2390.002442
ORF1ab/nsp16102D102YGacTac22B.1.4270.000101
ORF1ab/nsp16102D102GgAcgGc22B.1.5230.004902
ORF1ab/nsp16102D102YGacTac22B.1.5760.001813
ORF1ab/nsp16102D102DgaCgaT22B.1.617.10.000258
ORF1ab/nsp16102D102EgaCgaA22B.1.617.20.000008
ORF1ab/nsp16102D102DgaCgaT22B.1.6370.000146
ORF1ab/nsp16102D102DgaCgaT22B.6.60.001778
ORF1ab/nsp16102D102YGacTac22D.20.00015
ORF1ab/nsp16102D102DgaCgaT22D.20.00015
ORF1ab/nsp16102D102NGacAac22P.10.000032
ORF1ab/nsp16102D102DgaCgaT22P.10.000032
ORF1ab/nsp16102D102NGacAac22P.1.100.000539
ORF1ab/nsp16102D102DgaCgaT110.055556
ORF1ab/nsp16102D102EgaCgaA110.055556
ORF1ab/nsp16102D102YGacTac11A0.000387
ORF1ab/nsp16102D102DgaCgaT11A.10.000282
ORF1ab/nsp16102D102EgaCgaG11A.2.40.003367
ORF1ab/nsp16102D102XGACTGA11All0
ORF1ab/nsp16102D102IGACATT11All0
ORF1ab/nsp16102D102YGacTac11AY.1000.000046
ORF1ab/nsp16102D102NGacAac11AY.1030.000006
ORF1ab/nsp16102D102AgAcgCc11AY.1030.000006
ORF1ab/nsp16102D102GgAcgGc11AY.1040.001984
ORF1ab/nsp16102D102DgaCgaT11AY.116.10.000311
ORF1ab/nsp16102D102DgaCgaT11AY.1180.000063
ORF1ab/nsp16102D102DgaCgaT11AY.1200.000037
ORF1ab/nsp16102D102YGacTac11AY.1210.000135
ORF1ab/nsp16102D102EgaCgaG11AY.130.000161
ORF1ab/nsp16102D102YGacTac11AY.140.000088
ORF1ab/nsp16102D102YGacTac11AY.170.008197
ORF1ab/nsp16102D102AgAcgCc11AY.200.000039
ORF1ab/nsp16102D102NGacAac11AY.240.000431
ORF1ab/nsp16102D102HGacCac11AY.250.000006
ORF1ab/nsp16102D102delGAC---11AY.250.000006
ORF1ab/nsp16102D102YGacTac11AY.30.00001
ORF1ab/nsp16102D102DgaCgaT11AY.320.000532
ORF1ab/nsp16102D102delGAC---11AY.330.000067
ORF1ab/nsp16102D102YGacTac11AY.330.000067
ORF1ab/nsp16102D102GgAcgGc11AY.390.000025
ORF1ab/nsp16102D102YGacTac11AY.390.000025
ORF1ab/nsp16102D102DgaCgaT11AY.390.000025
ORF1ab/nsp16102D102GgAcgGc11AY.40.000002
ORF1ab/nsp16102D102delGAC---11AY.4.50.000107
ORF1ab/nsp16102D102YGacTac11AY.410.000294
ORF1ab/nsp16102D102YGacTac11AY.420.00004
ORF1ab/nsp16102D102DgaCgaT11AY.420.00004
ORF1ab/nsp16102D102AgAcgCc11AY.430.000004
ORF1ab/nsp16102D102EgaCgaA11AY.430.000004
ORF1ab/nsp16102D102DgaCgaT11AY.450.000122
ORF1ab/nsp16102D102DgaCgaT11AY.460.000104
ORF1ab/nsp16102D102IGACATT11AY.46.20.000635
ORF1ab/nsp16102D102DgaCgaT11AY.46.50.000198
ORF1ab/nsp16102D102DgaCgaT11AY.46.60.000072
ORF1ab/nsp16102D102DgaCgaT11AY.470.000031
ORF1ab/nsp16102D102EgaCgaA11AY.470.000031
ORF1ab/nsp16102D102YGacTac11AY.50.000021
ORF1ab/nsp16102D102DgaCgaT11AY.5.40.000277
ORF1ab/nsp16102D102YGacTac11AY.520.000814
ORF1ab/nsp16102D102DgaCgaT11AY.530.000288
ORF1ab/nsp16102D102YGacTac11AY.580.000907
ORF1ab/nsp16102D102NGacAac11AY.7.10.000113
ORF1ab/nsp16102D102EgaCgaA11AY.700.000209
ORF1ab/nsp16102D102DgaCgaT11AY.710.000475
ORF1ab/nsp16102D102YGacTac11AY.870.000833
ORF1ab/nsp16102D102AgAcgCc11AY.930.000273
ORF1ab/nsp16102D102GgAcgGc11AY.99.20.000092
ORF1ab/nsp16102D102AgAcgCc11AY.99.20.000092
ORF1ab/nsp16102D102NGacAac11B0.000128
ORF1ab/nsp16102D102YGacTac11B0.000128
ORF1ab/nsp16102D102GgAcgGc11B.10.000009
ORF1ab/nsp16102D102delGAC---11B.10.000009
ORF1ab/nsp16102D102GgAcgGc11B.1.10.000018
ORF1ab/nsp16102D102NGacAac11B.1.1.1590.004673
ORF1ab/nsp16102D102DgaCgaT11B.1.1.1690.018182
ORF1ab/nsp16102D102DgaCgaT11B.1.1.2050.003717
ORF1ab/nsp16102D102DgaCgaT11B.1.1.250.000569
ORF1ab/nsp16102D102GgAcgGc11B.1.1.250.000569
ORF1ab/nsp16102D102EgaCgaA11B.1.1.280.000311
ORF1ab/nsp16102D102DgaCgaT11B.1.1.2840.000107
ORF1ab/nsp16102D102YGacTac11B.1.1.3340.016393
ORF1ab/nsp16102D102DgaCgaT11B.1.1.3860.066667
ORF1ab/nsp16102D102NGacAac11B.1.1.4160.000905
ORF1ab/nsp16102D102YGacTac11B.1.1.4340.000349
ORF1ab/nsp16102D102NGacAac11B.1.1.4670.019231
ORF1ab/nsp16102D102DgaCgaT11B.1.1.5180.006329
ORF1ab/nsp16102D102NGacAac11B.1.1.5190.00004
ORF1ab/nsp16102D102YGacTac11B.1.1.5190.00004
ORF1ab/nsp16102D102delGAC---11B.1.1610.017241
ORF1ab/nsp16102D102YGacTac11B.1.1690.014925
ORF1ab/nsp16102D102DgaCgaT11B.1.1770.000013
ORF1ab/nsp16102D102DgaCgaT11B.1.177.120.000152
ORF1ab/nsp16102D102delGAC---11B.1.177.620.001192
ORF1ab/nsp16102D102DgaCgaT11B.1.177.620.001192
ORF1ab/nsp16102D102YGacTac11B.1.177.770.000726
ORF1ab/nsp16102D102DgaCgaT11B.1.2060.000816
ORF1ab/nsp16102D102DgaCgaT11B.1.2320.000537
ORF1ab/nsp16102D102DgaCgaT11B.1.2430.00007
ORF1ab/nsp16102D102YGacTac11B.1.2470.014925
ORF1ab/nsp16102D102delGAC---11B.1.2580.000067
ORF1ab/nsp16102D102DgaCgaT11B.1.258.110.000396
ORF1ab/nsp16102D102YGacTac11B.1.3010.005917
ORF1ab/nsp16102D102DgaCgaT11B.1.350.008475
ORF1ab/nsp16102D102NGacAac11B.1.3510.00003
ORF1ab/nsp16102D102DgaCgaT11B.1.3560.001727
ORF1ab/nsp16102D102NGacAac11B.1.3560.001727
ORF1ab/nsp16102D102GgAcgGc11B.1.360.000146
ORF1ab/nsp16102D102DgaCgaT11B.1.36.10.00114
ORF1ab/nsp16102D102DgaCgaT11B.1.36.260.002857
ORF1ab/nsp16102D102EgaCgaA11B.1.36.360.000602
ORF1ab/nsp16102D102AgAcgCc11B.1.3970.004854
ORF1ab/nsp16102D102DgaCgaT11B.1.4110.003704
ORF1ab/nsp16102D102GgAcgGc11B.1.4290.000024
ORF1ab/nsp16102D102YGacTac11B.1.4320.011236
ORF1ab/nsp16102D102DgaCgaT11B.1.4560.003268
ORF1ab/nsp16102D102DgaCgaT11B.1.4690.00361
ORF1ab/nsp16102D102DgaCgaT11B.1.5250.000113
ORF1ab/nsp16102D102DgaCgaT11B.1.5640.000426
ORF1ab/nsp16102D102DgaCgaT11B.1.5770.000687
ORF1ab/nsp16102D102YGacTac11B.1.5960.000087
ORF1ab/nsp16102D102DgaCgaT11B.1.5960.000087
ORF1ab/nsp16102D102YGacTac11B.1.5990.00365
ORF1ab/nsp16102D102DgaCgaT11B.1.6090.000479
ORF1ab/nsp16102D102NGacAac11B.1.617.20.000004
ORF1ab/nsp16102D102XGACTGA11B.1.617.20.000004
ORF1ab/nsp16102D102delGAC---11B.1.6200.000946
ORF1ab/nsp16102D102YGacTac11B.1.6230.000536
ORF1ab/nsp16102D102GgAcgGc11B.1.6320.006711
ORF1ab/nsp16102D102GgAcgGc11B.1.6370.000073
ORF1ab/nsp16102D102delGAC---11B.340.013699
ORF1ab/nsp16102D102YGacTac11B.60.00091
ORF1ab/nsp16102D102DgaCgaT11C.370.000116
ORF1ab/nsp16102D102GgAcgGc11C.370.000116
ORF1ab/nsp16102D102GgAcgGc11P.1.120.000484
ORF1ab/nsp16102D102DgaCgaT11P.1.140.000048
ORF1ab/nsp16102D102DgaCgaT11Q.10.000126
ORF1ab/nsp16102D102AgAcgCc11Q.20.000613
ORF1ab/nsp16102D102NGacAac11Q.40.000455
ORF1ab/nsp16102D102delGAC---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.