CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 431

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/nsp2431Q431RQ611RnonsyncAgcGg6536460.989282096-2098
ORF1ab/nsp2431Q431RQ611RnonsyncAGcGA65360.009188362096-2098
ORF1ab/nsp2431Q431RQ611RnonsynCAGAGA65310.001531392096-2098
ORF1ab/nsp2431Q431QQ611QsyncaGcaA64564512096-2098
ORF1ab/nsp2431Q431HQ611HnonsyncaGcaT4804750.9895832096-2098
ORF1ab/nsp2431Q431HQ611HnonsyncaGcaC48050.01041672096-2098
ORF1ab/nsp2431Q431LQ611LnonsyncAgcTg888812096-2098
ORF1ab/nsp2431Q431delQ611deldelCAG---414112096-2098
ORF1ab/nsp2431Q431KQ611KnonsynCagAag22210.9545452096-2098
ORF1ab/nsp2431Q431KQ611KnonsynCaGAaA2210.04545452096-2098
ORF1ab/nsp2431Q431PQ611PnonsyncAgcCg20180.92096-2098
ORF1ab/nsp2431Q431PQ611PnonsyncAGcCA2020.12096-2098
ORF1ab/nsp2431Q431XQ611XnonsynCagTag18130.7222222096-2098
ORF1ab/nsp2431Q431XQ611XnonsynCAGTGA1840.2222222096-2098
ORF1ab/nsp2431Q431XQ611XnonsynCaGTaA1810.05555562096-2098
ORF1ab/nsp2431Q431EQ611EnonsynCagGag320.6666672096-2098
ORF1ab/nsp2431Q431EQ611EnonsynCaGGaA310.3333332096-2098
ORF1ab/nsp2431Q431del1Q611del1delcAGcG-310.3333332096-2098
ORF1ab/nsp2431Q431del1Q611del1delCAgT-g310.3333332096-2098
ORF1ab/nsp2431Q431del1Q611del1delcAgc-g310.3333332096-2098
ORF1ab/nsp2431Q431SQ611SnonsynCAGTCA210.52096-2098
ORF1ab/nsp2431Q431AQ611AnonsynCAgGCg210.52096-2098
ORF1ab/nsp2431Q431AQ611AnonsynCAGGCA210.52096-2098
ORF1ab/nsp2431Q431SQ611SnonsynCAgTCg210.52096-2098

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/nsp2431Q431RcAgcGg646653All0.000124
ORF1ab/nsp2431Q431RcAGcGA6653All0.000001
ORF1ab/nsp2431Q431RCAGAGA1653All0
ORF1ab/nsp2431Q431QcaGcaA645645All0.000123
ORF1ab/nsp2431Q431RcAgcGg508508B.1.4970.159899
ORF1ab/nsp2431Q431HcaGcaT475480All0.000091
ORF1ab/nsp2431Q431HcaGcaC5480All0.000001
ORF1ab/nsp2431Q431HcaGcaT298298B.1.1.70.000267
ORF1ab/nsp2431Q431QcaGcaA207207B.1.617.20.000779
ORF1ab/nsp2431Q431QcaGcaA120120B.1.1.70.000107
ORF1ab/nsp2431Q431QcaGcaA9191AY.430.000403
ORF1ab/nsp2431Q431LcAgcTg8888All0.000017
ORF1ab/nsp2431Q431QcaGcaA4444B.1.20.000387
ORF1ab/nsp2431Q431delCAG---4141All0.000008
ORF1ab/nsp2431Q431LcAgcTg2525N.20.961538
ORF1ab/nsp2431Q431QcaGcaA2424B.1.1.4160.021719
ORF1ab/nsp2431Q431RcAgcGg2323AY.40.000036
ORF1ab/nsp2431Q431HcaGcaT2223B.1.617.20.000083
ORF1ab/nsp2431Q431HcaGcaC123B.1.617.20.000004
ORF1ab/nsp2431Q431KCagAag2122All0.000004
ORF1ab/nsp2431Q431KCaGAaA122All0
ORF1ab/nsp2431Q431QcaGcaA2222B.1.1.2140.00122
ORF1ab/nsp2431Q431PcAgcCg1820All0.000003
ORF1ab/nsp2431Q431PcAGcCA220All0
ORF1ab/nsp2431Q431HcaGcaT2020AY.420.000805
ORF1ab/nsp2431Q431RcAgcGg2020B.1.1.70.000018
ORF1ab/nsp2431Q431QcaGcaA1818AE.80.008802
ORF1ab/nsp2431Q431XCagTag1318All0.000002
ORF1ab/nsp2431Q431XCAGTGA418All0.000001
ORF1ab/nsp2431Q431XCaGTaA118All0
ORF1ab/nsp2431Q431LcAgcTg1717B.1.1.70.000015
ORF1ab/nsp2431Q431RcAgcGg1617B.1.617.20.00006
ORF1ab/nsp2431Q431RcAGcGA117B.1.617.20.000004
ORF1ab/nsp2431Q431QcaGcaA1616B.1.1.4340.005577
ORF1ab/nsp2431Q431RcAgcGg1313AY.1020.000345
ORF1ab/nsp2431Q431HcaGcaT1212AY.30.000119
ORF1ab/nsp2431Q431HcaGcaT1212AY.430.000053
ORF1ab/nsp2431Q431HcaGcaT1212B.1.360.001751
ORF1ab/nsp2431Q431HcaGcaT1111AY.40.000017
ORF1ab/nsp2431Q431QcaGcaA1111B.1.177.210.000841
ORF1ab/nsp2431Q431QcaGcaA1010AY.440.000061
ORF1ab/nsp2431Q431HcaGcaT88AY.260.000226
ORF1ab/nsp2431Q431QcaGcaA88AY.40.000012
ORF1ab/nsp2431Q431RcAgcGg88B.1.20.00007
ORF1ab/nsp2431Q431QcaGcaA77AY.390.000173
ORF1ab/nsp2431Q431HcaGcaT77AY.690.001307
ORF1ab/nsp2431Q431HcaGcaT66AY.1020.000159
ORF1ab/nsp2431Q431LcAgcTg66AY.250.000036
ORF1ab/nsp2431Q431HcaGcaT66AY.9.20.00022
ORF1ab/nsp2431Q431RcAgcGg66B.10.000055
ORF1ab/nsp2431Q431HcaGcaT56B.1.10.000091
ORF1ab/nsp2431Q431HcaGcaC16B.1.10.000018
ORF1ab/nsp2431Q431QcaGcaA55AY.1200.000186
ORF1ab/nsp2431Q431RcAgcGg35AY.440.000018
ORF1ab/nsp2431Q431RCAGAGA15AY.440.000006
ORF1ab/nsp2431Q431RcAGcGA15AY.440.000006
ORF1ab/nsp2431Q431QcaGcaA55B.10.000046
ORF1ab/nsp2431Q431QcaGcaA55B.1.6210.000443
ORF1ab/nsp2431Q431PcAGcCA240.111111
ORF1ab/nsp2431Q431PcAgcCg240.111111
ORF1ab/nsp2431Q431HcaGcaT44AY.1030.000025
ORF1ab/nsp2431Q431HcaGcaT44AY.250.000024
ORF1ab/nsp2431Q431PcAgcCg44AY.390.000099
ORF1ab/nsp2431Q431KCagAag44AY.430.000018
ORF1ab/nsp2431Q431KCagAag44AY.440.000024
ORF1ab/nsp2431Q431HcaGcaT44AY.750.000224
ORF1ab/nsp2431Q431QcaGcaA44AY.9.20.000147
ORF1ab/nsp2431Q431delCAG---44B.10.000037
ORF1ab/nsp2431Q431HcaGcaT34B.10.000027
ORF1ab/nsp2431Q431HcaGcaC14B.10.000009
ORF1ab/nsp2431Q431delCAG---44B.1.1.70.000004
ORF1ab/nsp2431Q431LcAgcTg44B.1.20.000035
ORF1ab/nsp2431Q431LcAgcTg44B.1.2430.000278
ORF1ab/nsp2431Q431LcAgcTg44C.80.017857
ORF1ab/nsp2431Q431QcaGcaA33AH.20.036145
ORF1ab/nsp2431Q431ECagGag23All0
ORF1ab/nsp2431Q431del1CAgT-g13All0
ORF1ab/nsp2431Q431del1cAgc-g13All0
ORF1ab/nsp2431Q431del1cAGcG-13All0
ORF1ab/nsp2431Q431ECaGGaA13All0
ORF1ab/nsp2431Q431QcaGcaA33AY.1020.00008
ORF1ab/nsp2431Q431HcaGcaT33AY.200.000117
ORF1ab/nsp2431Q431RcAgcGg33AY.390.000074
ORF1ab/nsp2431Q431HcaGcaT33AY.440.000018
ORF1ab/nsp2431Q431QcaGcaA33AY.5.40.00083
ORF1ab/nsp2431Q431RcAgcGg33AY.9.10.000251
ORF1ab/nsp2431Q431RcAGcGA23AY.9.20.000073
ORF1ab/nsp2431Q431RcAgcGg13AY.9.20.000037
ORF1ab/nsp2431Q431delCAG---33B.1.1.330.001263
ORF1ab/nsp2431Q431LcAgcTg33B.1.1.330.001263
ORF1ab/nsp2431Q431RcAgcGg33B.1.1770.00004
ORF1ab/nsp2431Q431HcaGcaT23B.1.20.000018
ORF1ab/nsp2431Q431HcaGcaC13B.1.20.000009
ORF1ab/nsp2431Q431RcAgcGg33P.20.00056
ORF1ab/nsp2431Q431RcAgcGg33Q.20.00184
ORF1ab/nsp2431Q431QcaGcaA220.111111
ORF1ab/nsp2431Q431XCaGTaA120.055556
ORF1ab/nsp2431Q431ECagGag120.055556
ORF1ab/nsp2431Q431XCagTag120.055556
ORF1ab/nsp2431Q431SCAgTCg120.055556
ORF1ab/nsp2431Q431SCAGTCA120.055556
ORF1ab/nsp2431Q431ACAgGCg120.055556
ORF1ab/nsp2431Q431ECaGGaA120.055556
ORF1ab/nsp2431Q431ACAGGCA120.055556
ORF1ab/nsp2431Q431ACAgGCg12All0
ORF1ab/nsp2431Q431ACAGGCA12All0
ORF1ab/nsp2431Q431SCAgTCg12All0
ORF1ab/nsp2431Q431SCAGTCA12All0
ORF1ab/nsp2431Q431RcAgcGg22AY.1030.000012
ORF1ab/nsp2431Q431QcaGcaA22AY.1170.000169
ORF1ab/nsp2431Q431RcAgcGg12AY.250.000006
ORF1ab/nsp2431Q431RcAGcGA12AY.250.000006
ORF1ab/nsp2431Q431RcAgcGg22AY.30.00002
ORF1ab/nsp2431Q431QcaGcaA22AY.320.001065
ORF1ab/nsp2431Q431PcAgcCg22AY.39.10.000079
ORF1ab/nsp2431Q431PcAgcCg22AY.40.000003
ORF1ab/nsp2431Q431delCAG---22AY.4.50.000215
ORF1ab/nsp2431Q431LcAgcTg22AY.440.000012
ORF1ab/nsp2431Q431RcAgcGg22AY.450.000243
ORF1ab/nsp2431Q431RcAgcGg22AY.50.000041
ORF1ab/nsp2431Q431PcAgcCg22AY.850.000854
ORF1ab/nsp2431Q431QcaGcaA22AY.900.001369
ORF1ab/nsp2431Q431LcAgcTg22B.10.000018
ORF1ab/nsp2431Q431XCagTag22B.10.000018
ORF1ab/nsp2431Q431QcaGcaA22B.1.10.000036
ORF1ab/nsp2431Q431RcAgcGg22B.1.10.000036
ORF1ab/nsp2431Q431QcaGcaA22B.1.1.2220.000408
ORF1ab/nsp2431Q431HcaGcaT22B.1.1.2220.000408
ORF1ab/nsp2431Q431RcAgcGg22B.1.1.3050.007722
ORF1ab/nsp2431Q431LcAgcTg22B.1.1.3170.000823
ORF1ab/nsp2431Q431QcaGcaA22B.1.1.330.000842
ORF1ab/nsp2431Q431delCAG---22B.1.1.3480.001592
ORF1ab/nsp2431Q431HcaGcaT22B.1.1.5190.000079
ORF1ab/nsp2431Q431XCAGTGA12B.1.1.70.000001
ORF1ab/nsp2431Q431XCagTag12B.1.1.70.000001
ORF1ab/nsp2431Q431LcAgcTg22B.1.110.30.001437
ORF1ab/nsp2431Q431LcAgcTg22B.1.1770.000026
ORF1ab/nsp2431Q431del1cAgc-g12B.1.20.000009
ORF1ab/nsp2431Q431del1CAgT-g12B.1.20.000009
ORF1ab/nsp2431Q431LcAgcTg22B.1.3510.000059
ORF1ab/nsp2431Q431delCAG---22B.1.4240.016129
ORF1ab/nsp2431Q431delCAG---22B.1.4290.000047
ORF1ab/nsp2431Q431HcaGcaT22B.1.5820.000981
ORF1ab/nsp2431Q431LcAgcTg22B.1.617.20.000008
ORF1ab/nsp2431Q431delCAG---22B.1.617.20.000008
ORF1ab/nsp2431Q431KCagAag22B.1.617.20.000008
ORF1ab/nsp2431Q431HcaGcaT22B.1.6230.001073
ORF1ab/nsp2431Q431QcaGcaA22B.1.6360.013423
ORF1ab/nsp2431Q431HcaGcaT22C.350.001548
ORF1ab/nsp2431Q431QcaGcaA22C.370.000232
ORF1ab/nsp2431Q431delCAG---22N.60.014184
ORF1ab/nsp2431Q431delCAG---22P.10.000032
ORF1ab/nsp2431Q431KCagAag22P.10.000032
ORF1ab/nsp2431Q431RcAgcGg22P.10.000032
ORF1ab/nsp2431Q431delCAG---22P.20.000373
ORF1ab/nsp2431Q431HcaGcaT11A0.000387
ORF1ab/nsp2431Q431RcAgcGg11AD.20.000219
ORF1ab/nsp2431Q431KCagAag11AD.20.000219
ORF1ab/nsp2431Q431HcaGcaT11AY.100.00053
ORF1ab/nsp2431Q431delCAG---11AY.1000.000046
ORF1ab/nsp2431Q431RcAgcGg11AY.1000.000046
ORF1ab/nsp2431Q431RcAgcGg11AY.1010.00049
ORF1ab/nsp2431Q431XCAGTGA11AY.1030.000006
ORF1ab/nsp2431Q431KCagAag11AY.1130.000142
ORF1ab/nsp2431Q431RcAgcGg11AY.1130.000142
ORF1ab/nsp2431Q431XCAGTGA11AY.1130.000142
ORF1ab/nsp2431Q431QcaGcaA11AY.1160.000287
ORF1ab/nsp2431Q431QcaGcaA11AY.1190.000035
ORF1ab/nsp2431Q431LcAgcTg11AY.1190.000035
ORF1ab/nsp2431Q431HcaGcaT11AY.1190.000035
ORF1ab/nsp2431Q431del1cAGcG-11AY.1190.000035
ORF1ab/nsp2431Q431QcaGcaA11AY.120.10.000321
ORF1ab/nsp2431Q431QcaGcaA11AY.1210.000135
ORF1ab/nsp2431Q431KCagAag11AY.160.00038
ORF1ab/nsp2431Q431RcAgcGg11AY.160.00038
ORF1ab/nsp2431Q431HcaGcaT11AY.160.00038
ORF1ab/nsp2431Q431RcAGcGA11AY.16.10.00047
ORF1ab/nsp2431Q431RcAgcGg11AY.230.00007
ORF1ab/nsp2431Q431HcaGcaT11AY.240.000431
ORF1ab/nsp2431Q431HcaGcaT11AY.270.000065
ORF1ab/nsp2431Q431HcaGcaT11AY.290.000016
ORF1ab/nsp2431Q431QcaGcaA11AY.290.000016
ORF1ab/nsp2431Q431delCAG---11AY.30.00001
ORF1ab/nsp2431Q431HcaGcaT11AY.3.10.000085
ORF1ab/nsp2431Q431LcAgcTg11AY.300.000396
ORF1ab/nsp2431Q431PcAgcCg11AY.300.000396
ORF1ab/nsp2431Q431HcaGcaT11AY.340.000097
ORF1ab/nsp2431Q431QcaGcaA11AY.360.000148
ORF1ab/nsp2431Q431LcAgcTg11AY.370.000316
ORF1ab/nsp2431Q431HcaGcaT11AY.39.10.00004
ORF1ab/nsp2431Q431RcAgcGg11AY.39.10.00004
ORF1ab/nsp2431Q431KCagAag11AY.40.000002
ORF1ab/nsp2431Q431LcAgcTg11AY.4.2.10.000149
ORF1ab/nsp2431Q431HcaGcaT11AY.4.40.000409
ORF1ab/nsp2431Q431RcAgcGg11AY.420.00004
ORF1ab/nsp2431Q431LcAgcTg11AY.430.000004
ORF1ab/nsp2431Q431delCAG---11AY.430.000004
ORF1ab/nsp2431Q431HcaGcaT11AY.450.000122
ORF1ab/nsp2431Q431QcaGcaA11AY.460.000104
ORF1ab/nsp2431Q431PcAgcCg11AY.470.000031
ORF1ab/nsp2431Q431QcaGcaA11AY.470.000031
ORF1ab/nsp2431Q431LcAgcTg11AY.470.000031
ORF1ab/nsp2431Q431QcaGcaA11AY.50.000021
ORF1ab/nsp2431Q431KCagAag11AY.50.000021
ORF1ab/nsp2431Q431delCAG---11AY.5.30.000337
ORF1ab/nsp2431Q431delCAG---11AY.540.000095
ORF1ab/nsp2431Q431QcaGcaA11AY.540.000095
ORF1ab/nsp2431Q431QcaGcaA11AY.610.000105
ORF1ab/nsp2431Q431XCagTag11AY.690.000187
ORF1ab/nsp2431Q431LcAgcTg11AY.700.000209
ORF1ab/nsp2431Q431QcaGcaA11AY.740.000116
ORF1ab/nsp2431Q431RcAgcGg11AY.750.000056
ORF1ab/nsp2431Q431XCagTag11AY.820.001357
ORF1ab/nsp2431Q431QcaGcaA11AY.840.000437
ORF1ab/nsp2431Q431QcaGcaA11AY.920.000287
ORF1ab/nsp2431Q431delCAG---11AY.930.000273
ORF1ab/nsp2431Q431LcAgcTg11AY.990.001049
ORF1ab/nsp2431Q431XCagTag11B0.000128
ORF1ab/nsp2431Q431KCaGAaA11B.10.000009
ORF1ab/nsp2431Q431delCAG---11B.1.10.000018
ORF1ab/nsp2431Q431KCagAag11B.1.10.000018
ORF1ab/nsp2431Q431QcaGcaA11B.1.1.1280.007092
ORF1ab/nsp2431Q431RcAgcGg11B.1.1.2140.000055
ORF1ab/nsp2431Q431LcAgcTg11B.1.1.2140.000055
ORF1ab/nsp2431Q431LcAgcTg11B.1.1.2200.001859
ORF1ab/nsp2431Q431XCagTag11B.1.1.2690.001353
ORF1ab/nsp2431Q431XCagTag11B.1.1.280.000311
ORF1ab/nsp2431Q431RcAgcGg11B.1.1.3170.000412
ORF1ab/nsp2431Q431delCAG---11B.1.1.4160.000905
ORF1ab/nsp2431Q431HcaGcaT11B.1.1.4620.008621
ORF1ab/nsp2431Q431PcAgcCg11B.1.1.70.000001
ORF1ab/nsp2431Q431KCagAag11B.1.1.70.000001
ORF1ab/nsp2431Q431ECagGag11B.1.1.70.000001
ORF1ab/nsp2431Q431HcaGcaT11B.1.1600.000031
ORF1ab/nsp2431Q431XCagTag11B.1.160.150.00495
ORF1ab/nsp2431Q431delCAG---11B.1.177.180.00116
ORF1ab/nsp2431Q431delCAG---11B.1.1790.003759
ORF1ab/nsp2431Q431delCAG---11B.1.20.000009
ORF1ab/nsp2431Q431XCAGTGA11B.1.20.000009
ORF1ab/nsp2431Q431delCAG---11B.1.2340.000132
ORF1ab/nsp2431Q431QcaGcaA11B.1.2430.00007
ORF1ab/nsp2431Q431XCagTag11B.1.243.10.022222
ORF1ab/nsp2431Q431LcAgcTg11B.1.3110.000275
ORF1ab/nsp2431Q431HcaGcaT11B.1.3510.00003
ORF1ab/nsp2431Q431QcaGcaA11B.1.360.000146
ORF1ab/nsp2431Q431RcAgcGg11B.1.36.170.000494
ORF1ab/nsp2431Q431HcaGcaC11B.1.3690.000285
ORF1ab/nsp2431Q431RcAgcGg11B.1.3690.000285
ORF1ab/nsp2431Q431KCagAag11B.1.416.10.001563
ORF1ab/nsp2431Q431RcAgcGg11B.1.4270.00005
ORF1ab/nsp2431Q431HcaGcaT11B.1.4270.00005
ORF1ab/nsp2431Q431KCagAag11B.1.5260.000024
ORF1ab/nsp2431Q431HcaGcaT11B.1.5260.000024
ORF1ab/nsp2431Q431RcAgcGg11B.1.5300.007143
ORF1ab/nsp2431Q431delCAG---11B.1.5610.000397
ORF1ab/nsp2431Q431PcAgcCg11B.1.5610.000397
ORF1ab/nsp2431Q431HcaGcaT11B.1.5740.002151
ORF1ab/nsp2431Q431QcaGcaA11B.1.5750.000303
ORF1ab/nsp2431Q431XCagTag11B.1.5820.000491
ORF1ab/nsp2431Q431HcaGcaT11B.1.6090.000479
ORF1ab/nsp2431Q431QcaGcaA11B.1.6090.000479
ORF1ab/nsp2431Q431PcAgcCg11B.1.617.20.000004
ORF1ab/nsp2431Q431RcAgcGg11B.4.10.018868
ORF1ab/nsp2431Q431delCAG---11B.570.015152
ORF1ab/nsp2431Q431QcaGcaA11C.36.30.000567
ORF1ab/nsp2431Q431HcaGcaT11C.370.000116
ORF1ab/nsp2431Q431PcAgcCg11D.20.000075
ORF1ab/nsp2431Q431XCagTag11D.20.000075
ORF1ab/nsp2431Q431RcAgcGg11D.20.000075
ORF1ab/nsp2431Q431RcAgcGg11N.90.005952
ORF1ab/nsp2431Q431HcaGcaT11P.10.000016
ORF1ab/nsp2431Q431QcaGcaA11P.10.000016
ORF1ab/nsp2431Q431HcaGcaT11Q.10.000126
ORF1ab/nsp2431Q431HcaGcaT11R.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.