CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp4 : CodonNum = 487

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/nsp4487Y487YY3250YsyntaCtaT23112311110013-10015
ORF1ab/nsp4487Y487delY3250deldelTAC---5353110013-10015
ORF1ab/nsp4487Y487HY3250HnonsynTacCac1313110013-10015
ORF1ab/nsp4487Y487CY3250CnonsyntActGc77110013-10015
ORF1ab/nsp4487Y487XY3250XnonsyntaCtaA750.71428610013-10015
ORF1ab/nsp4487Y487XY3250XnonsyntaCtaG720.28571410013-10015
ORF1ab/nsp4487Y487FY3250FnonsyntActTc66110013-10015
ORF1ab/nsp4487Y487NY3250NnonsynTacAac33110013-10015
ORF1ab/nsp4487Y487del1Y3250del1deltACtG-210.510013-10015
ORF1ab/nsp4487Y487del1Y3250del1deltaCta-210.510013-10015
ORF1ab/nsp4487Y487SY3250SnonsyntACtCA210.510013-10015
ORF1ab/nsp4487Y487SY3250SnonsyntActCc210.510013-10015
ORF1ab/nsp4487Y487TY3250TnonsynTAcACc11110013-10015
ORF1ab/nsp4487Y487DY3250DnonsynTacGac11110013-10015
ORF1ab/nsp4487Y487LY3250LnonsyntACtTA11110013-10015

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/nsp4487Y487YtaCtaT23112311All0.000442
ORF1ab/nsp4487Y487YtaCtaT881881B.1.1.70.000789
ORF1ab/nsp4487Y487YtaCtaT176176AY.40.000274
ORF1ab/nsp4487Y487YtaCtaT154154B.1.6060.927711
ORF1ab/nsp4487Y487YtaCtaT110110AY.540.010488
ORF1ab/nsp4487Y487YtaCtaT7575B.1.617.20.000282
ORF1ab/nsp4487Y487YtaCtaT6262B.1.1770.000816
ORF1ab/nsp4487Y487YtaCtaT5757B.10.000522
ORF1ab/nsp4487Y487delTAC---5353All0.00001
ORF1ab/nsp4487Y487YtaCtaT5252AY.430.00023
ORF1ab/nsp4487Y487YtaCtaT4343B.1.20.000379
ORF1ab/nsp4487Y487YtaCtaT4242B.1.1.5240.875
ORF1ab/nsp4487Y487YtaCtaT3333R.10.00297
ORF1ab/nsp4487Y487YtaCtaT2929AY.50.000599
ORF1ab/nsp4487Y487YtaCtaT2929B.1.177.120.004399
ORF1ab/nsp4487Y487YtaCtaT2727B.1.6090.012943
ORF1ab/nsp4487Y487YtaCtaT2626AY.440.000158
ORF1ab/nsp4487Y487YtaCtaT2424AY.1030.000149
ORF1ab/nsp4487Y487YtaCtaT2323B.1.10.000417
ORF1ab/nsp4487Y487YtaCtaT1919AY.420.000764
ORF1ab/nsp4487Y487delTAC---1919B.1.1.70.000017
ORF1ab/nsp4487Y487YtaCtaT1919B.1.3510.000565
ORF1ab/nsp4487Y487YtaCtaT1717AY.250.000102
ORF1ab/nsp4487Y487YtaCtaT1717AY.4.20.000369
ORF1ab/nsp4487Y487YtaCtaT1616AY.30.000159
ORF1ab/nsp4487Y487YtaCtaT1616P.10.000252
ORF1ab/nsp4487Y487HTacCac1313All0.000002
ORF1ab/nsp4487Y487YtaCtaT1313B.1.2430.000905
ORF1ab/nsp4487Y487YtaCtaT1111AY.1180.000689
ORF1ab/nsp4487Y487YtaCtaT1111AY.390.000272
ORF1ab/nsp4487Y487YtaCtaT1111B.1.258.170.001144
ORF1ab/nsp4487Y487YtaCtaT99AY.1190.000318
ORF1ab/nsp4487Y487YtaCtaT99AY.1200.000335
ORF1ab/nsp4487Y487YtaCtaT99AY.1210.001218
ORF1ab/nsp4487Y487YtaCtaT99B.1.1.4860.014196
ORF1ab/nsp4487Y487YtaCtaT99B.1.5260.000212
ORF1ab/nsp4487Y487CtActGc77All0.000001
ORF1ab/nsp4487Y487XtaCtaA57All0.000001
ORF1ab/nsp4487Y487XtaCtaG27All0
ORF1ab/nsp4487Y487YtaCtaT77AY.1020.000186
ORF1ab/nsp4487Y487YtaCtaT77AY.230.000488
ORF1ab/nsp4487Y487YtaCtaT77B.1.1.3480.005573
ORF1ab/nsp4487Y487YtaCtaT77B.1.1.5190.000278
ORF1ab/nsp4487Y487YtaCtaT77B.1.5170.002989
ORF1ab/nsp4487Y487FtActTc66All0.000001
ORF1ab/nsp4487Y487YtaCtaT66AY.75.10.001082
ORF1ab/nsp4487Y487YtaCtaT66B.1.1600.000187
ORF1ab/nsp4487Y487YtaCtaT66B.1.177.790.014052
ORF1ab/nsp4487Y487YtaCtaT66B.1.5090.005195
ORF1ab/nsp4487Y487YtaCtaT66P.1.100.001617
ORF1ab/nsp4487Y487YtaCtaT55AY.200.000194
ORF1ab/nsp4487Y487YtaCtaT55AY.290.000079
ORF1ab/nsp4487Y487YtaCtaT55AY.470.000156
ORF1ab/nsp4487Y487delTAC---55B.10.000046
ORF1ab/nsp4487Y487YtaCtaT55B.1.1.1760.002197
ORF1ab/nsp4487Y487YtaCtaT55B.1.1.4590.076923
ORF1ab/nsp4487Y487YtaCtaT55B.1.4270.000252
ORF1ab/nsp4487Y487YtaCtaT55B.1.5960.000436
ORF1ab/nsp4487Y487YtaCtaT44AY.260.000113
ORF1ab/nsp4487Y487YtaCtaT44AY.590.002119
ORF1ab/nsp4487Y487YtaCtaT44AY.720.005442
ORF1ab/nsp4487Y487YtaCtaT44B.1.1.2140.000222
ORF1ab/nsp4487Y487YtaCtaT44B.1.160.140.008475
ORF1ab/nsp4487Y487YtaCtaT44B.1.160.290.016878
ORF1ab/nsp4487Y487YtaCtaT44B.1.4290.000094
ORF1ab/nsp4487Y487YtaCtaT44C.370.000464
ORF1ab/nsp4487Y487YtaCtaT33A.2.20.005068
ORF1ab/nsp4487Y487NTacAac33All0.000001
ORF1ab/nsp4487Y487delTAC---33AY.430.000013
ORF1ab/nsp4487Y487delTAC---33AY.750.000168
ORF1ab/nsp4487Y487YtaCtaT33AY.750.000168
ORF1ab/nsp4487Y487YtaCtaT33AY.98.10.000145
ORF1ab/nsp4487Y487YtaCtaT33B.1.2210.000213
ORF1ab/nsp4487Y487YtaCtaT33B.1.2340.000396
ORF1ab/nsp4487Y487YtaCtaT33B.1.2580.0002
ORF1ab/nsp4487Y487YtaCtaT33B.1.258.220.008
ORF1ab/nsp4487Y487YtaCtaT33B.1.3110.000824
ORF1ab/nsp4487Y487YtaCtaT33B.1.621.10.001517
ORF1ab/nsp4487Y487YtaCtaT33P.20.00056
ORF1ab/nsp4487Y487StACtCA120.055556
ORF1ab/nsp4487Y487StActCc120.055556
ORF1ab/nsp4487Y487StACtCA12All0
ORF1ab/nsp4487Y487del1tACtG-12All0
ORF1ab/nsp4487Y487StActCc12All0
ORF1ab/nsp4487Y487del1taCta-12All0
ORF1ab/nsp4487Y487YtaCtaT22AY.270.000129
ORF1ab/nsp4487Y487YtaCtaT22AY.39.10.000079
ORF1ab/nsp4487Y487YtaCtaT22AY.4.50.000215
ORF1ab/nsp4487Y487delTAC---22AY.4.50.000215
ORF1ab/nsp4487Y487YtaCtaT22AY.450.000243
ORF1ab/nsp4487Y487YtaCtaT22AY.46.60.000144
ORF1ab/nsp4487Y487YtaCtaT22AY.5.40.000553
ORF1ab/nsp4487Y487YtaCtaT22AY.530.000575
ORF1ab/nsp4487Y487YtaCtaT22AY.740.000231
ORF1ab/nsp4487Y487YtaCtaT22AY.99.20.000184
ORF1ab/nsp4487Y487FtActTc22B.10.000018
ORF1ab/nsp4487Y487delTAC---22B.1.10.000036
ORF1ab/nsp4487Y487YtaCtaT22B.1.1.2360.013793
ORF1ab/nsp4487Y487YtaCtaT22B.1.1.2410.004141
ORF1ab/nsp4487Y487YtaCtaT22B.1.1.2940.002532
ORF1ab/nsp4487Y487YtaCtaT22B.1.1.3170.000823
ORF1ab/nsp4487Y487YtaCtaT22B.1.1.3700.025316
ORF1ab/nsp4487Y487HTacCac22B.1.1.70.000002
ORF1ab/nsp4487Y487XtaCtaA22B.1.1.70.000002
ORF1ab/nsp4487Y487CtActGc22B.1.1.70.000002
ORF1ab/nsp4487Y487delTAC---22B.1.1770.000026
ORF1ab/nsp4487Y487CtActGc22B.1.2210.000142
ORF1ab/nsp4487Y487HTacCac22B.1.2580.000133
ORF1ab/nsp4487Y487YtaCtaT22B.1.2930.025
ORF1ab/nsp4487Y487YtaCtaT22B.1.3610.002577
ORF1ab/nsp4487Y487YtaCtaT22B.1.3690.00057
ORF1ab/nsp4487Y487YtaCtaT22B.1.3970.009709
ORF1ab/nsp4487Y487YtaCtaT22C.320.046512
ORF1ab/nsp4487Y487XtaCtaA110.055556
ORF1ab/nsp4487Y487YtaCtaT11A0.000387
ORF1ab/nsp4487Y487LtACtTA11All0
ORF1ab/nsp4487Y487TTAcACc11All0
ORF1ab/nsp4487Y487DTacGac11All0
ORF1ab/nsp4487Y487YtaCtaT11AY.10.000396
ORF1ab/nsp4487Y487YtaCtaT11AY.1000.000046
ORF1ab/nsp4487Y487YtaCtaT11AY.1070.000466
ORF1ab/nsp4487Y487YtaCtaT11AY.1110.000183
ORF1ab/nsp4487Y487delTAC---11AY.1110.000183
ORF1ab/nsp4487Y487YtaCtaT11AY.1130.000142
ORF1ab/nsp4487Y487YtaCtaT11AY.1170.000085
ORF1ab/nsp4487Y487TTAcACc11AY.120.10.000321
ORF1ab/nsp4487Y487YtaCtaT11AY.130.000161
ORF1ab/nsp4487Y487YtaCtaT11AY.140.000088
ORF1ab/nsp4487Y487YtaCtaT11AY.160.00038
ORF1ab/nsp4487Y487YtaCtaT11AY.16.10.00047
ORF1ab/nsp4487Y487YtaCtaT11AY.23.10.000417
ORF1ab/nsp4487Y487YtaCtaT11AY.240.000431
ORF1ab/nsp4487Y487delTAC---11AY.250.000006
ORF1ab/nsp4487Y487HTacCac11AY.30.00001
ORF1ab/nsp4487Y487YtaCtaT11AY.3.10.000085
ORF1ab/nsp4487Y487YtaCtaT11AY.360.000148
ORF1ab/nsp4487Y487CtActGc11AY.360.000148
ORF1ab/nsp4487Y487delTAC---11AY.390.000025
ORF1ab/nsp4487Y487delTAC---11AY.40.000002
ORF1ab/nsp4487Y487del1tACtG-11AY.430.000004
ORF1ab/nsp4487Y487HTacCac11AY.430.000004
ORF1ab/nsp4487Y487HTacCac11AY.440.000006
ORF1ab/nsp4487Y487DTacGac11AY.440.000006
ORF1ab/nsp4487Y487YtaCtaT11AY.460.000104
ORF1ab/nsp4487Y487delTAC---11AY.46.20.000635
ORF1ab/nsp4487Y487YtaCtaT11AY.46.20.000635
ORF1ab/nsp4487Y487YtaCtaT11AY.46.50.000198
ORF1ab/nsp4487Y487FtActTc11AY.50.000021
ORF1ab/nsp4487Y487YtaCtaT11AY.5.30.000337
ORF1ab/nsp4487Y487YtaCtaT11AY.60.000041
ORF1ab/nsp4487Y487YtaCtaT11AY.610.000105
ORF1ab/nsp4487Y487YtaCtaT11AY.650.000533
ORF1ab/nsp4487Y487YtaCtaT11AY.770.001127
ORF1ab/nsp4487Y487YtaCtaT11AY.90.000068
ORF1ab/nsp4487Y487HTacCac11B.10.000009
ORF1ab/nsp4487Y487CtActGc11B.10.000009
ORF1ab/nsp4487Y487XtaCtaA11B.10.000009
ORF1ab/nsp4487Y487LtACtTA11B.10.000009
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.10.000327
ORF1ab/nsp4487Y487delTAC---11B.1.1.1390.022727
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.2070.001182
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.2100.005714
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.280.000311
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.2910.000742
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.3510.002793
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.3540.004386
ORF1ab/nsp4487Y487delTAC---11B.1.1.4090.002833
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.4160.000905
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.460.004367
ORF1ab/nsp4487Y487YtaCtaT11B.1.1.5280.004808
ORF1ab/nsp4487Y487XtaCtaG11B.1.1.5280.004808
ORF1ab/nsp4487Y487FtActTc11B.1.1.70.000001
ORF1ab/nsp4487Y487del1taCta-11B.1.1.70.000001
ORF1ab/nsp4487Y487HTacCac11B.1.1390.000733
ORF1ab/nsp4487Y487YtaCtaT11B.1.1390.000733
ORF1ab/nsp4487Y487YtaCtaT11B.1.1570.002985
ORF1ab/nsp4487Y487delTAC---11B.1.177.100.000878
ORF1ab/nsp4487Y487delTAC---11B.1.177.150.000631
ORF1ab/nsp4487Y487YtaCtaT11B.1.177.190.001431
ORF1ab/nsp4487Y487YtaCtaT11B.1.177.230.003236
ORF1ab/nsp4487Y487delTAC---11B.1.177.40.000211
ORF1ab/nsp4487Y487YtaCtaT11B.1.177.40.000211
ORF1ab/nsp4487Y487YtaCtaT11B.1.177.440.000519
ORF1ab/nsp4487Y487FtActTc11B.1.177.530.002392
ORF1ab/nsp4487Y487delTAC---11B.1.177.60.000977
ORF1ab/nsp4487Y487delTAC---11B.1.177.690.001484
ORF1ab/nsp4487Y487delTAC---11B.1.177.70.000165
ORF1ab/nsp4487Y487YtaCtaT11B.1.177.70.000165
ORF1ab/nsp4487Y487YtaCtaT11B.1.177.730.000566
ORF1ab/nsp4487Y487delTAC---11B.1.177.810.000189
ORF1ab/nsp4487Y487delTAC---11B.1.1790.003759
ORF1ab/nsp4487Y487NTacAac11B.1.20.000009
ORF1ab/nsp4487Y487XtaCtaG11B.1.20.000009
ORF1ab/nsp4487Y487YtaCtaT11B.1.221.20.004016
ORF1ab/nsp4487Y487YtaCtaT11B.1.2390.001221
ORF1ab/nsp4487Y487YtaCtaT11B.1.2410.000812
ORF1ab/nsp4487Y487YtaCtaT11B.1.2800.007143
ORF1ab/nsp4487Y487YtaCtaT11B.1.3130.006579
ORF1ab/nsp4487Y487XtaCtaA11B.1.3510.00003
ORF1ab/nsp4487Y487YtaCtaT11B.1.351.20.000303
ORF1ab/nsp4487Y487YtaCtaT11B.1.36.10.00114
ORF1ab/nsp4487Y487delTAC---11B.1.36.180.00042
ORF1ab/nsp4487Y487YtaCtaT11B.1.36.290.000517
ORF1ab/nsp4487Y487YtaCtaT11B.1.36.360.000602
ORF1ab/nsp4487Y487YtaCtaT11B.1.4040.001302
ORF1ab/nsp4487Y487YtaCtaT11B.1.4220.000812
ORF1ab/nsp4487Y487YtaCtaT11B.1.438.10.000107
ORF1ab/nsp4487Y487YtaCtaT11B.1.438.40.021277
ORF1ab/nsp4487Y487YtaCtaT11B.1.466.20.000391
ORF1ab/nsp4487Y487YtaCtaT11B.1.5200.021739
ORF1ab/nsp4487Y487FtActTc11B.1.5250.000113
ORF1ab/nsp4487Y487YtaCtaT11B.1.5250.000113
ORF1ab/nsp4487Y487HTacCac11B.1.5440.006024
ORF1ab/nsp4487Y487YtaCtaT11B.1.5650.00081
ORF1ab/nsp4487Y487YtaCtaT11B.1.5740.002151
ORF1ab/nsp4487Y487YtaCtaT11B.1.5760.000907
ORF1ab/nsp4487Y487YtaCtaT11B.1.5800.004065
ORF1ab/nsp4487Y487YtaCtaT11B.1.5820.000491
ORF1ab/nsp4487Y487NTacAac11B.1.5960.000087
ORF1ab/nsp4487Y487HTacCac11B.1.6120.002653
ORF1ab/nsp4487Y487YtaCtaT11B.1.617.10.000129
ORF1ab/nsp4487Y487YtaCtaT11B.1.6210.000089
ORF1ab/nsp4487Y487YtaCtaT11B.1.6300.005236
ORF1ab/nsp4487Y487YtaCtaT11B.1.90.006173
ORF1ab/nsp4487Y487NTacAac11B.1.9.40.006135
ORF1ab/nsp4487Y487HTacCac11C.270.018519
ORF1ab/nsp4487Y487CtActGc11C.350.000774
ORF1ab/nsp4487Y487HTacCac11C.350.000774
ORF1ab/nsp4487Y487delTAC---11P.10.000016
ORF1ab/nsp4487Y487YtaCtaT11P.1.10.000318
ORF1ab/nsp4487Y487YtaCtaT11P.1.120.000484
ORF1ab/nsp4487Y487YtaCtaT11P.1.140.000048
ORF1ab/nsp4487Y487YtaCtaT11P.1.170.000162
ORF1ab/nsp4487Y487YtaCtaT11P.30.001595
ORF1ab/nsp4487Y487YtaCtaT11P.70.004367

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.