CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 61

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/nsp261Y61YY241YsyntaCtaT5565561986-988
ORF1ab/nsp261Y61CY241CnonsyntActGc4004001986-988
ORF1ab/nsp261Y61HY241HnonsynTacCac66661986-988
ORF1ab/nsp261Y61delY241deldelTAC---28281986-988
ORF1ab/nsp261Y61FY241FnonsyntActTc12121986-988
ORF1ab/nsp261Y61NY241NnonsynTacAac661986-988
ORF1ab/nsp261Y61XY241XnonsyntaCtaA540.8986-988
ORF1ab/nsp261Y61XY241XnonsyntaCtaG510.2986-988
ORF1ab/nsp261Y61DY241DnonsynTacGac221986-988
ORF1ab/nsp261Y61VY241VnonsynTAcGTc210.5986-988
ORF1ab/nsp261Y61VY241VnonsynTACGTA210.5986-988
ORF1ab/nsp261Y61LY241LnonsyntACtTA111986-988
ORF1ab/nsp261Y61EY241EnonsynTaCGaA111986-988
ORF1ab/nsp261Y61del2Y241del2deltACt--111986-988
ORF1ab/nsp261Y61del1Y241del1delTac-ac111986-988
ORF1ab/nsp261Y61IY241InonsynTACATT111986-988
ORF1ab/nsp261Y61QY241QnonsynTaCCaA111986-988
ORF1ab/nsp261Y61RY241RnonsynTACCGT111986-988
ORF1ab/nsp261Y61SY241SnonsyntActCc111986-988

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/nsp261Y61YtaCtaT556556All0.000106
ORF1ab/nsp261Y61CtActGc400400All0.000077
ORF1ab/nsp261Y61CtActGc321321AY.40.0005
ORF1ab/nsp261Y61YtaCtaT9999B.1.1.70.000089
ORF1ab/nsp261Y61YtaCtaT7272B.340.986301
ORF1ab/nsp261Y61HTacCac6666All0.000013
ORF1ab/nsp261Y61YtaCtaT5151AY.40.000079
ORF1ab/nsp261Y61delTAC---2828All0.000005
ORF1ab/nsp261Y61YtaCtaT2424B.1.10.000435
ORF1ab/nsp261Y61YtaCtaT2424B.1.617.20.00009
ORF1ab/nsp261Y61YtaCtaT2222AY.1190.000777
ORF1ab/nsp261Y61YtaCtaT1919AY.30.000189
ORF1ab/nsp261Y61CtActGc1515B.1.20.000132
ORF1ab/nsp261Y61YtaCtaT1414AY.430.000062
ORF1ab/nsp261Y61FtActTc1212All0.000002
ORF1ab/nsp261Y61YtaCtaT1212AY.610.001257
ORF1ab/nsp261Y61CtActGc1212B.1.1.70.000011
ORF1ab/nsp261Y61YtaCtaT1111AY.250.000066
ORF1ab/nsp261Y61YtaCtaT1111P.10.000173
ORF1ab/nsp261Y61YtaCtaT1010B.1.1.3970.022523
ORF1ab/nsp261Y61HTacCac1010B.1.258.110.003964
ORF1ab/nsp261Y61YtaCtaT99AY.440.000055
ORF1ab/nsp261Y61YtaCtaT88B.1.20.00007
ORF1ab/nsp261Y61HTacCac88B.1.617.20.00003
ORF1ab/nsp261Y61YtaCtaT77AY.1030.000043
ORF1ab/nsp261Y61FtActTc77B.1.1.70.000006
ORF1ab/nsp261Y61YtaCtaT77B.1.2580.000466
ORF1ab/nsp261Y61NTacAac66All0.000001
ORF1ab/nsp261Y61YtaCtaT66AY.230.000418
ORF1ab/nsp261Y61YtaCtaT66AY.390.000148
ORF1ab/nsp261Y61HTacCac66AY.40.000009
ORF1ab/nsp261Y61YtaCtaT66B.1.177.540.003639
ORF1ab/nsp261Y61XtaCtaA45All0.000001
ORF1ab/nsp261Y61XtaCtaG15All0
ORF1ab/nsp261Y61HTacCac55AY.1030.000031
ORF1ab/nsp261Y61YtaCtaT55AY.290.000079
ORF1ab/nsp261Y61YtaCtaT55AY.4.20.000108
ORF1ab/nsp261Y61CtActGc55AY.440.00003
ORF1ab/nsp261Y61CtActGc55AY.910.003652
ORF1ab/nsp261Y61CtActGc55B.1.1.1170.048544
ORF1ab/nsp261Y61delTAC---55B.1.1.330.002104
ORF1ab/nsp261Y61delTAC---55B.1.1.70.000004
ORF1ab/nsp261Y61HTacCac55B.1.1.70.000004
ORF1ab/nsp261Y61HTacCac55B.1.1600.000156
ORF1ab/nsp261Y61YtaCtaT55B.1.5760.004533
ORF1ab/nsp261Y61CtActGc55B.1.617.20.000019
ORF1ab/nsp261Y61YtaCtaT44AY.1000.000184
ORF1ab/nsp261Y61YtaCtaT44AY.1160.001147
ORF1ab/nsp261Y61YtaCtaT44AY.75.10.000721
ORF1ab/nsp261Y61HTacCac44B.10.000037
ORF1ab/nsp261Y61delTAC---44B.1.1.3480.003185
ORF1ab/nsp261Y61YtaCtaT44B.1.3510.000119
ORF1ab/nsp261Y61YtaCtaT44B.1.5260.000094
ORF1ab/nsp261Y61CtActGc44P.10.000063
ORF1ab/nsp261Y61YtaCtaT44P.1.40.003906
ORF1ab/nsp261Y61YtaCtaT33AY.1130.000427
ORF1ab/nsp261Y61YtaCtaT33AY.240.001293
ORF1ab/nsp261Y61CtActGc33AY.260.000085
ORF1ab/nsp261Y61YtaCtaT33AY.270.000194
ORF1ab/nsp261Y61CtActGc33AY.390.000074
ORF1ab/nsp261Y61HTacCac33AY.39.10.000119
ORF1ab/nsp261Y61YtaCtaT33AY.5.40.00083
ORF1ab/nsp261Y61YtaCtaT33AY.550.002752
ORF1ab/nsp261Y61YtaCtaT33AY.60.000123
ORF1ab/nsp261Y61HTacCac33AY.70.000588
ORF1ab/nsp261Y61YtaCtaT33B0.000383
ORF1ab/nsp261Y61NTacAac33B.10.000027
ORF1ab/nsp261Y61YtaCtaT33B.10.000027
ORF1ab/nsp261Y61XtaCtaA33B.1.10.000054
ORF1ab/nsp261Y61YtaCtaT33B.1.1770.00004
ORF1ab/nsp261Y61YtaCtaT33B.1.2430.000209
ORF1ab/nsp261Y61YtaCtaT33B.1.36.210.006479
ORF1ab/nsp261Y61HTacCac33B.1.4290.000071
ORF1ab/nsp261Y61CtActGc33B.1.4290.000071
ORF1ab/nsp261Y61YtaCtaT33C.370.000348
ORF1ab/nsp261Y61YtaCtaT22A.20.001324
ORF1ab/nsp261Y61DTacGac22All0
ORF1ab/nsp261Y61VTACGTA12All0
ORF1ab/nsp261Y61VTAcGTc12All0
ORF1ab/nsp261Y61YtaCtaT22AY.1020.000053
ORF1ab/nsp261Y61CtActGc22AY.1030.000012
ORF1ab/nsp261Y61HTacCac22AY.1190.000071
ORF1ab/nsp261Y61YtaCtaT22AY.130.000322
ORF1ab/nsp261Y61YtaCtaT22AY.330.000134
ORF1ab/nsp261Y61CtActGc22AY.430.000009
ORF1ab/nsp261Y61YtaCtaT22AY.7.10.000225
ORF1ab/nsp261Y61YtaCtaT22AY.750.000112
ORF1ab/nsp261Y61YtaCtaT22AY.90.000135
ORF1ab/nsp261Y61YtaCtaT22AY.940.000885
ORF1ab/nsp261Y61CtActGc22AY.980.000158
ORF1ab/nsp261Y61CtActGc22B.10.000018
ORF1ab/nsp261Y61VTACGTA12B.1.10.000018
ORF1ab/nsp261Y61VTAcGTc12B.1.10.000018
ORF1ab/nsp261Y61YtaCtaT22B.1.1.2840.000215
ORF1ab/nsp261Y61YtaCtaT22B.1.1.390.001019
ORF1ab/nsp261Y61YtaCtaT22B.1.1.5190.000079
ORF1ab/nsp261Y61HTacCac22B.1.3510.000059
ORF1ab/nsp261Y61YtaCtaT22B.1.3620.003082
ORF1ab/nsp261Y61CtActGc22B.1.6370.000146
ORF1ab/nsp261Y61delTAC---22N.40.008511
ORF1ab/nsp261Y61delTAC---22N.60.014184
ORF1ab/nsp261Y61YtaCtaT22P.1.140.000096
ORF1ab/nsp261Y61delTAC---22P.20.000373
ORF1ab/nsp261Y61YtaCtaT22Q.80.00033
ORF1ab/nsp261Y61XtaCtaG110.055556
ORF1ab/nsp261Y61CtActGc110.055556
ORF1ab/nsp261Y61YtaCtaT11AE.10.011364
ORF1ab/nsp261Y61LtACtTA11All0
ORF1ab/nsp261Y61del2tACt--11All0
ORF1ab/nsp261Y61StActCc11All0
ORF1ab/nsp261Y61RTACCGT11All0
ORF1ab/nsp261Y61QTaCCaA11All0
ORF1ab/nsp261Y61ITACATT11All0
ORF1ab/nsp261Y61del1Tac-ac11All0
ORF1ab/nsp261Y61ETaCGaA11All0
ORF1ab/nsp261Y61YtaCtaT11AY.1110.000183
ORF1ab/nsp261Y61delTAC---11AY.1110.000183
ORF1ab/nsp261Y61ITACATT11AY.1190.000035
ORF1ab/nsp261Y61YtaCtaT11AY.16.10.00047
ORF1ab/nsp261Y61HTacCac11AY.200.000039
ORF1ab/nsp261Y61YtaCtaT11AY.200.000039
ORF1ab/nsp261Y61CtActGc11AY.200.000039
ORF1ab/nsp261Y61HTacCac11AY.250.000006
ORF1ab/nsp261Y61FtActTc11AY.250.000006
ORF1ab/nsp261Y61YtaCtaT11AY.260.000028
ORF1ab/nsp261Y61CtActGc11AY.290.000016
ORF1ab/nsp261Y61CtActGc11AY.30.00001
ORF1ab/nsp261Y61YtaCtaT11AY.320.000532
ORF1ab/nsp261Y61YtaCtaT11AY.340.000097
ORF1ab/nsp261Y61HTacCac11AY.350.000233
ORF1ab/nsp261Y61HTacCac11AY.390.000025
ORF1ab/nsp261Y61YtaCtaT11AY.39.10.00004
ORF1ab/nsp261Y61delTAC---11AY.40.000002
ORF1ab/nsp261Y61YtaCtaT11AY.4.40.000409
ORF1ab/nsp261Y61YtaCtaT11AY.420.00004
ORF1ab/nsp261Y61RTACCGT11AY.440.000006
ORF1ab/nsp261Y61QTaCCaA11AY.440.000006
ORF1ab/nsp261Y61YtaCtaT11AY.46.60.000072
ORF1ab/nsp261Y61YtaCtaT11AY.50.000021
ORF1ab/nsp261Y61YtaCtaT11AY.540.000095
ORF1ab/nsp261Y61HTacCac11AY.750.000056
ORF1ab/nsp261Y61FtActTc11B.10.000009
ORF1ab/nsp261Y61StActCc11B.10.000009
ORF1ab/nsp261Y61LtACtTA11B.1.10.000018
ORF1ab/nsp261Y61ETaCGaA11B.1.10.000018
ORF1ab/nsp261Y61CtActGc11B.1.10.000018
ORF1ab/nsp261Y61DTacGac11B.1.10.000018
ORF1ab/nsp261Y61FtActTc11B.1.10.000018
ORF1ab/nsp261Y61YtaCtaT11B.1.1.10.000327
ORF1ab/nsp261Y61YtaCtaT11B.1.1.1010.01
ORF1ab/nsp261Y61YtaCtaT11B.1.1.3170.000412
ORF1ab/nsp261Y61CtActGc11B.1.1.3180.000302
ORF1ab/nsp261Y61YtaCtaT11B.1.1.4120.007634
ORF1ab/nsp261Y61HTacCac11B.1.1.4860.001577
ORF1ab/nsp261Y61del1Tac-ac11B.1.1.70.000001
ORF1ab/nsp261Y61YtaCtaT11B.1.1.700.000341
ORF1ab/nsp261Y61XtaCtaA11B.1.1180.006711
ORF1ab/nsp261Y61del2tACt--11B.1.1390.000733
ORF1ab/nsp261Y61YtaCtaT11B.1.1600.000031
ORF1ab/nsp261Y61HTacCac11B.1.160.300.002976
ORF1ab/nsp261Y61CtActGc11B.1.1770.000013
ORF1ab/nsp261Y61YtaCtaT11B.1.177.200.001517
ORF1ab/nsp261Y61YtaCtaT11B.1.177.40.000211
ORF1ab/nsp261Y61HTacCac11B.1.177.570.000281
ORF1ab/nsp261Y61YtaCtaT11B.1.177.690.001484
ORF1ab/nsp261Y61FtActTc11B.1.20.000009
ORF1ab/nsp261Y61NTacAac11B.1.20.000009
ORF1ab/nsp261Y61YtaCtaT11B.1.2230.002778
ORF1ab/nsp261Y61YtaCtaT11B.1.258.140.00098
ORF1ab/nsp261Y61YtaCtaT11B.1.258.30.001675
ORF1ab/nsp261Y61YtaCtaT11B.1.360.000146
ORF1ab/nsp261Y61YtaCtaT11B.1.36.290.000517
ORF1ab/nsp261Y61YtaCtaT11B.1.3610.001289
ORF1ab/nsp261Y61YtaCtaT11B.1.4130.004255
ORF1ab/nsp261Y61delTAC---11B.1.4290.000024
ORF1ab/nsp261Y61YtaCtaT11B.1.4290.000024
ORF1ab/nsp261Y61DTacGac11B.1.4620.007246
ORF1ab/nsp261Y61YtaCtaT11B.1.466.20.000391
ORF1ab/nsp261Y61HTacCac11B.1.4990.00105
ORF1ab/nsp261Y61CtActGc11B.1.617.10.000129
ORF1ab/nsp261Y61delTAC---11B.1.617.20.000004
ORF1ab/nsp261Y61NTacAac11B.1.617.20.000004
ORF1ab/nsp261Y61delTAC---11B.1.617.30.002985
ORF1ab/nsp261Y61YtaCtaT11B.1.6280.000352
ORF1ab/nsp261Y61NTacAac11B.230.002924
ORF1ab/nsp261Y61delTAC---11B.340.013699
ORF1ab/nsp261Y61HTacCac11C.350.000774
ORF1ab/nsp261Y61delTAC---11C.350.000774
ORF1ab/nsp261Y61delTAC---11C.360.000911
ORF1ab/nsp261Y61YtaCtaT11D.20.000075
ORF1ab/nsp261Y61FtActTc11P.10.000016
ORF1ab/nsp261Y61YtaCtaT11P.1.150.000232
ORF1ab/nsp261Y61CtActGc11P.20.000187
ORF1ab/nsp261Y61YtaCtaT11P.20.000187

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.