CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 440

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/nsp2440V440VV620VsyngtTgtC9939730.9798592123-2125
ORF1ab/nsp2440V440VV620VsyngtTgtA993170.01711982123-2125
ORF1ab/nsp2440V440VV620VsyngtTgtG99330.003021152123-2125
ORF1ab/nsp2440V440IV620InonsynGttAtt94794712123-2125
ORF1ab/nsp2440V440FV620FnonsynGttTtt15215212123-2125
ORF1ab/nsp2440V440AV620AnonsyngTtgCt1371360.9927012123-2125
ORF1ab/nsp2440V440AV620AnonsyngTTgCC13710.007299272123-2125
ORF1ab/nsp2440V440GV620GnonsyngTtgGt505012123-2125
ORF1ab/nsp2440V440delV620deldelGTT---373712123-2125
ORF1ab/nsp2440V440del1V620del1delGtt-tt740.5714292123-2125
ORF1ab/nsp2440V440del1V620del1delgTtg-t730.4285712123-2125
ORF1ab/nsp2440V440DV620DnonsyngTtgAt6612123-2125
ORF1ab/nsp2440V440LV620LnonsynGtTCtC320.6666672123-2125
ORF1ab/nsp2440V440LV620LnonsynGttCtt310.3333332123-2125
ORF1ab/nsp2440V440del2V620del2delGTt--t1112123-2125
ORF1ab/nsp2440V440CV620CnonsynGTtTGt1112123-2125

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/nsp2440V440VgtTgtC973993All0.000186
ORF1ab/nsp2440V440VgtTgtA17993All0.000003
ORF1ab/nsp2440V440VgtTgtG3993All0.000001
ORF1ab/nsp2440V440IGttAtt947947All0.000181
ORF1ab/nsp2440V440VgtTgtC599599AY.790.725182
ORF1ab/nsp2440V440IGttAtt356356AY.40.000554
ORF1ab/nsp2440V440VgtTgtC173173AY.1030.001074
ORF1ab/nsp2440V440IGttAtt159159AY.440.000968
ORF1ab/nsp2440V440FGttTtt152152All0.000029
ORF1ab/nsp2440V440AgTtgCt136137All0.000026
ORF1ab/nsp2440V440AgTTgCC1137All0
ORF1ab/nsp2440V440IGttAtt7474B.1.617.20.000279
ORF1ab/nsp2440V440VgtTgtC7070AY.290.001104
ORF1ab/nsp2440V440IGttAtt6565B.1.1.70.000058
ORF1ab/nsp2440V440GgTtgGt5050All0.00001
ORF1ab/nsp2440V440IGttAtt4040B.10.000366
ORF1ab/nsp2440V440delGTT---3737All0.000007
ORF1ab/nsp2440V440VgtTgtC3636B.1.177.620.042908
ORF1ab/nsp2440V440FGttTtt3535P.10.000551
ORF1ab/nsp2440V440IGttAtt3232AY.30.000318
ORF1ab/nsp2440V440VgtTgtC2929B.1.10.000526
ORF1ab/nsp2440V440FGttTtt2929B.1.4290.000682
ORF1ab/nsp2440V440IGttAtt2323AY.430.000102
ORF1ab/nsp2440V440IGttAtt2222B.1.10.000399
ORF1ab/nsp2440V440IGttAtt1919AY.1030.000118
ORF1ab/nsp2440V440GgTtgGt1919B.1.2430.001322
ORF1ab/nsp2440V440GgTtgGt1717B.1.1.70.000015
ORF1ab/nsp2440V440AgTtgCt1717B.1.1.70.000015
ORF1ab/nsp2440V440FGttTtt1616AY.240.006897
ORF1ab/nsp2440V440AgTtgCt1616B.1.1.10.005227
ORF1ab/nsp2440V440VgtTgtC1516B.1.617.20.000056
ORF1ab/nsp2440V440VgtTgtA116B.1.617.20.000004
ORF1ab/nsp2440V440AgTtgCt1414B.1.617.20.000053
ORF1ab/nsp2440V440AgTtgCt1313AY.9.10.001088
ORF1ab/nsp2440V440FGttTtt1313B.1.1.70.000012
ORF1ab/nsp2440V440IGttAtt1212B.1.1.700.004093
ORF1ab/nsp2440V440IGttAtt1111AY.570.007218
ORF1ab/nsp2440V440IGttAtt1010B.1.20.000088
ORF1ab/nsp2440V440IGttAtt99B.1.438.10.000965
ORF1ab/nsp2440V440VgtTgtA88AY.610.000838
ORF1ab/nsp2440V440del1Gtt-tt47All0.000001
ORF1ab/nsp2440V440del1gTtg-t37All0.000001
ORF1ab/nsp2440V440AgTtgCt77AY.440.000043
ORF1ab/nsp2440V440DgTtgAt66All0.000001
ORF1ab/nsp2440V440IGttAtt66AY.1020.000159
ORF1ab/nsp2440V440AgTtgCt66B.1.10.000109
ORF1ab/nsp2440V440delGTT---66B.1.1.70.000005
ORF1ab/nsp2440V440AgTtgCt66B.1.1770.000079
ORF1ab/nsp2440V440FGttTtt66B.1.617.20.000023
ORF1ab/nsp2440V440IGttAtt55AY.1170.000423
ORF1ab/nsp2440V440AgTtgCt55AY.40.000008
ORF1ab/nsp2440V440FGttTtt55AY.440.00003
ORF1ab/nsp2440V440AgTtgCt45B.10.000037
ORF1ab/nsp2440V440AgTTgCC15B.10.000009
ORF1ab/nsp2440V440AgTtgCt55B.1.177.320.006748
ORF1ab/nsp2440V440FGttTtt55B.1.20.000044
ORF1ab/nsp2440V440VgtTgtA24AY.250.000012
ORF1ab/nsp2440V440VgtTgtC24AY.250.000012
ORF1ab/nsp2440V440VgtTgtC44AY.330.000267
ORF1ab/nsp2440V440IGttAtt44AY.390.000099
ORF1ab/nsp2440V440AgTtgCt44AY.610.000419
ORF1ab/nsp2440V440delGTT---44B.10.000037
ORF1ab/nsp2440V440FGttTtt44B.10.000037
ORF1ab/nsp2440V440VgtTgtC44B.10.000037
ORF1ab/nsp2440V440DgTtgAt44B.1.1.5190.000159
ORF1ab/nsp2440V440IGttAtt44B.1.177.730.002265
ORF1ab/nsp2440V440IGttAtt44B.1.2210.000284
ORF1ab/nsp2440V440IGttAtt44B.1.258.170.000416
ORF1ab/nsp2440V440FGttTtt44B.1.4270.000202
ORF1ab/nsp2440V440GgTtgGt44B.1.5260.000094
ORF1ab/nsp2440V440VgtTgtA34P.10.000047
ORF1ab/nsp2440V440VgtTgtC14P.10.000016
ORF1ab/nsp2440V440LGtTCtC23All0
ORF1ab/nsp2440V440LGttCtt13All0
ORF1ab/nsp2440V440AgTtgCt33AY.1000.000138
ORF1ab/nsp2440V440IGttAtt33AY.1010.001471
ORF1ab/nsp2440V440IGttAtt33AY.290.000047
ORF1ab/nsp2440V440VgtTgtA13AY.40.000002
ORF1ab/nsp2440V440VgtTgtG13AY.40.000002
ORF1ab/nsp2440V440VgtTgtC13AY.40.000002
ORF1ab/nsp2440V440IGttAtt33AY.4.20.000065
ORF1ab/nsp2440V440AgTtgCt33AY.430.000013
ORF1ab/nsp2440V440IGttAtt33AY.460.000312
ORF1ab/nsp2440V440FGttTtt33AY.470.000093
ORF1ab/nsp2440V440IGttAtt33AY.75.10.000541
ORF1ab/nsp2440V440VgtTgtC33AY.9.20.00011
ORF1ab/nsp2440V440VgtTgtC33AY.920.000862
ORF1ab/nsp2440V440del1Gtt-tt23B.10.000018
ORF1ab/nsp2440V440del1gTtg-t13B.10.000009
ORF1ab/nsp2440V440FGttTtt33B.1.10.000054
ORF1ab/nsp2440V440delGTT---33B.1.1.330.001263
ORF1ab/nsp2440V440VgtTgtC23B.1.1.70.000002
ORF1ab/nsp2440V440VgtTgtG13B.1.1.70.000001
ORF1ab/nsp2440V440AgTtgCt33B.1.177.830.004444
ORF1ab/nsp2440V440FGttTtt33B.1.2400.000647
ORF1ab/nsp2440V440IGttAtt33B.1.36.170.001482
ORF1ab/nsp2440V440FGttTtt33B.1.5770.002062
ORF1ab/nsp2440V440VgtTgtC33B.1.6270.006061
ORF1ab/nsp2440V440IGttAtt33N.80.09375
ORF1ab/nsp2440V440GgTtgGt220.111111
ORF1ab/nsp2440V440IGttAtt22AY.1000.000092
ORF1ab/nsp2440V440VgtTgtC22AY.1160.000574
ORF1ab/nsp2440V440IGttAtt22AY.1190.000071
ORF1ab/nsp2440V440IGttAtt22AY.150.004444
ORF1ab/nsp2440V440IGttAtt22AY.250.000012
ORF1ab/nsp2440V440AgTtgCt22AY.260.000057
ORF1ab/nsp2440V440VgtTgtC22AY.29.10.000441
ORF1ab/nsp2440V440IGttAtt22AY.360.000296
ORF1ab/nsp2440V440AgTtgCt22AY.390.000049
ORF1ab/nsp2440V440AgTtgCt22AY.39.10.000079
ORF1ab/nsp2440V440FGttTtt22AY.40.000003
ORF1ab/nsp2440V440VgtTgtC22AY.4.20.000043
ORF1ab/nsp2440V440VgtTgtC22AY.4.50.000215
ORF1ab/nsp2440V440VgtTgtC22AY.440.000012
ORF1ab/nsp2440V440IGttAtt22AY.470.000062
ORF1ab/nsp2440V440IGttAtt22AY.80.001212
ORF1ab/nsp2440V440GgTtgGt22AY.980.000158
ORF1ab/nsp2440V440IGttAtt22B0.000256
ORF1ab/nsp2440V440delGTT---22B.1.10.000036
ORF1ab/nsp2440V440IGttAtt22B.1.1.2160.001781
ORF1ab/nsp2440V440FGttTtt22B.1.1.280.000622
ORF1ab/nsp2440V440delGTT---22B.1.1.3480.001592
ORF1ab/nsp2440V440IGttAtt22B.1.1260.002551
ORF1ab/nsp2440V440AgTtgCt22B.1.1600.000062
ORF1ab/nsp2440V440AgTtgCt22B.1.177.520.003515
ORF1ab/nsp2440V440delGTT---22B.1.4240.016129
ORF1ab/nsp2440V440LGttCtt12B.1.4270.00005
ORF1ab/nsp2440V440LGtTCtC12B.1.4270.00005
ORF1ab/nsp2440V440delGTT---22B.1.4290.000047
ORF1ab/nsp2440V440VgtTgtC22B.1.5260.000047
ORF1ab/nsp2440V440FGttTtt22B.1.617.10.000258
ORF1ab/nsp2440V440GgTtgGt22B.1.617.20.000008
ORF1ab/nsp2440V440IGttAtt22B.260.029412
ORF1ab/nsp2440V440VgtTgtC22D.20.00015
ORF1ab/nsp2440V440delGTT---22N.60.014184
ORF1ab/nsp2440V440delGTT---22P.10.000032
ORF1ab/nsp2440V440IGttAtt22P.1.10.000635
ORF1ab/nsp2440V440delGTT---22P.20.000373
ORF1ab/nsp2440V440FGttTtt110.055556
ORF1ab/nsp2440V440CGTtTGt110.055556
ORF1ab/nsp2440V440IGttAtt11A0.000387
ORF1ab/nsp2440V440IGttAtt11A.2.50.000499
ORF1ab/nsp2440V440FGttTtt11A.50.001923
ORF1ab/nsp2440V440IGttAtt11AD.20.000219
ORF1ab/nsp2440V440IGttAtt11AE.80.000489
ORF1ab/nsp2440V440CGTtTGt11All0
ORF1ab/nsp2440V440del2GTt--t11All0
ORF1ab/nsp2440V440FGttTtt11AY.1030.000006
ORF1ab/nsp2440V440IGttAtt11AY.1130.000142
ORF1ab/nsp2440V440IGttAtt11AY.1180.000063
ORF1ab/nsp2440V440AgTtgCt11AY.1190.000035
ORF1ab/nsp2440V440FGttTtt11AY.1200.000037
ORF1ab/nsp2440V440LGtTCtC11AY.1200.000037
ORF1ab/nsp2440V440AgTtgCt11AY.230.00007
ORF1ab/nsp2440V440AgTtgCt11AY.250.000006
ORF1ab/nsp2440V440delGTT---11AY.250.000006
ORF1ab/nsp2440V440IGttAtt11AY.260.000028
ORF1ab/nsp2440V440FGttTtt11AY.30.00001
ORF1ab/nsp2440V440IGttAtt11AY.3.10.000085
ORF1ab/nsp2440V440VgtTgtC11AY.370.000316
ORF1ab/nsp2440V440IGttAtt11AY.4.50.000107
ORF1ab/nsp2440V440VgtTgtA11AY.420.00004
ORF1ab/nsp2440V440IGttAtt11AY.420.00004
ORF1ab/nsp2440V440VgtTgtC11AY.430.000004
ORF1ab/nsp2440V440GgTtgGt11AY.440.000006
ORF1ab/nsp2440V440IGttAtt11AY.450.000122
ORF1ab/nsp2440V440VgtTgtC11AY.450.000122
ORF1ab/nsp2440V440AgTtgCt11AY.450.000122
ORF1ab/nsp2440V440AgTtgCt11AY.470.000031
ORF1ab/nsp2440V440VgtTgtC11AY.50.000021
ORF1ab/nsp2440V440IGttAtt11AY.50.000021
ORF1ab/nsp2440V440VgtTgtC11AY.5.30.000337
ORF1ab/nsp2440V440IGttAtt11AY.5.30.000337
ORF1ab/nsp2440V440IGttAtt11AY.520.000814
ORF1ab/nsp2440V440delGTT---11AY.540.000095
ORF1ab/nsp2440V440VgtTgtC11AY.590.00053
ORF1ab/nsp2440V440IGttAtt11AY.600.000938
ORF1ab/nsp2440V440GgTtgGt11AY.600.000938
ORF1ab/nsp2440V440FGttTtt11AY.610.000105
ORF1ab/nsp2440V440IGttAtt11AY.610.000105
ORF1ab/nsp2440V440VgtTgtG11AY.7.10.000113
ORF1ab/nsp2440V440VgtTgtA11AY.710.000475
ORF1ab/nsp2440V440GgTtgGt11AY.750.000056
ORF1ab/nsp2440V440IGttAtt11AY.780.001541
ORF1ab/nsp2440V440IGttAtt11AY.860.00083
ORF1ab/nsp2440V440AgTtgCt11AY.9.20.000037
ORF1ab/nsp2440V440IGttAtt11AY.9.20.000037
ORF1ab/nsp2440V440AgTtgCt11AY.940.000443
ORF1ab/nsp2440V440IGttAtt11AY.98.10.000048
ORF1ab/nsp2440V440IGttAtt11AY.99.20.000092
ORF1ab/nsp2440V440AgTtgCt11B0.000128
ORF1ab/nsp2440V440del1Gtt-tt11B.1.10.000018
ORF1ab/nsp2440V440IGttAtt11B.1.1.1570.000913
ORF1ab/nsp2440V440FGttTtt11B.1.1.2220.000204
ORF1ab/nsp2440V440IGttAtt11B.1.1.2220.000204
ORF1ab/nsp2440V440VgtTgtC11B.1.1.280.000311
ORF1ab/nsp2440V440VgtTgtC11B.1.1.3110.000358
ORF1ab/nsp2440V440IGttAtt11B.1.1.3170.000412
ORF1ab/nsp2440V440AgTtgCt11B.1.1.3480.000796
ORF1ab/nsp2440V440IGttAtt11B.1.1.3480.000796
ORF1ab/nsp2440V440VgtTgtC11B.1.1.3710.010417
ORF1ab/nsp2440V440IGttAtt11B.1.1.4090.002833
ORF1ab/nsp2440V440delGTT---11B.1.1.4160.000905
ORF1ab/nsp2440V440IGttAtt11B.1.1.500.000679
ORF1ab/nsp2440V440IGttAtt11B.1.1.5190.00004
ORF1ab/nsp2440V440VgtTgtC11B.1.1.5210.005348
ORF1ab/nsp2440V440IGttAtt11B.1.1110.001175
ORF1ab/nsp2440V440IGttAtt11B.1.1390.000733
ORF1ab/nsp2440V440IGttAtt11B.1.1470.000756
ORF1ab/nsp2440V440FGttTtt11B.1.1600.000031
ORF1ab/nsp2440V440IGttAtt11B.1.160.160.000929
ORF1ab/nsp2440V440delGTT---11B.1.177.180.00116
ORF1ab/nsp2440V440GgTtgGt11B.1.177.420.000894
ORF1ab/nsp2440V440AgTtgCt11B.1.177.720.00339
ORF1ab/nsp2440V440del1Gtt-tt11B.1.177.770.000726
ORF1ab/nsp2440V440delGTT---11B.1.177.830.001481
ORF1ab/nsp2440V440delGTT---11B.1.1790.003759
ORF1ab/nsp2440V440AgTtgCt11B.1.20.000009
ORF1ab/nsp2440V440del1gTtg-t11B.1.20.000009
ORF1ab/nsp2440V440VgtTgtC11B.1.20.000009
ORF1ab/nsp2440V440AgTtgCt11B.1.2210.000071
ORF1ab/nsp2440V440delGTT---11B.1.2340.000132
ORF1ab/nsp2440V440FGttTtt11B.1.2390.001221
ORF1ab/nsp2440V440VgtTgtC11B.1.2430.00007
ORF1ab/nsp2440V440del1gTtg-t11B.1.258.110.000396
ORF1ab/nsp2440V440IGttAtt11B.1.3010.005917
ORF1ab/nsp2440V440FGttTtt11B.1.3510.00003
ORF1ab/nsp2440V440IGttAtt11B.1.3510.00003
ORF1ab/nsp2440V440FGttTtt11B.1.36.80.001
ORF1ab/nsp2440V440IGttAtt11B.1.3750.00082
ORF1ab/nsp2440V440AgTtgCt11B.1.3770.004566
ORF1ab/nsp2440V440FGttTtt11B.1.3780.006849
ORF1ab/nsp2440V440IGttAtt11B.1.4270.00005
ORF1ab/nsp2440V440VgtTgtC11B.1.4270.00005
ORF1ab/nsp2440V440IGttAtt11B.1.4290.000024
ORF1ab/nsp2440V440VgtTgtC11B.1.4290.000024
ORF1ab/nsp2440V440AgTtgCt11B.1.466.20.000391
ORF1ab/nsp2440V440AgTtgCt11B.1.5070.011236
ORF1ab/nsp2440V440FGttTtt11B.1.5250.000113
ORF1ab/nsp2440V440del2GTt--t11B.1.5440.006024
ORF1ab/nsp2440V440IGttAtt11B.1.5500.013699
ORF1ab/nsp2440V440delGTT---11B.1.5610.000397
ORF1ab/nsp2440V440DgTtgAt11B.1.5960.000087
ORF1ab/nsp2440V440delGTT---11B.1.617.20.000004
ORF1ab/nsp2440V440DgTtgAt11B.1.617.20.000004
ORF1ab/nsp2440V440IGttAtt11B.1.6230.000536
ORF1ab/nsp2440V440IGttAtt11B.1.6270.00202
ORF1ab/nsp2440V440AgTtgCt11B.400.000364
ORF1ab/nsp2440V440IGttAtt11B.520.010101
ORF1ab/nsp2440V440delGTT---11B.570.015152
ORF1ab/nsp2440V440FGttTtt11C.370.000116
ORF1ab/nsp2440V440AgTtgCt11D.20.000075
ORF1ab/nsp2440V440FGttTtt11D.20.000075
ORF1ab/nsp2440V440IGttAtt11P.10.000016
ORF1ab/nsp2440V440AgTtgCt11P.10.000016
ORF1ab/nsp2440V440AgTtgCt11P.1.140.000048
ORF1ab/nsp2440V440IGttAtt11P.1.150.000232
ORF1ab/nsp2440V440FGttTtt11P.1.150.000232
ORF1ab/nsp2440V440FGttTtt11P.70.004367
ORF1ab/nsp2440V440AgTtgCt11R.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.