CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 302

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/nsp12302L302LL4694LsynttGttA3122580.82692314344-14346
ORF1ab/nsp12302L302LL4694LsynTtgCtg312530.16987214344-14346
ORF1ab/nsp12302L302LL4694LsynTtGCtA31210.0032051314344-14346
ORF1ab/nsp12302L302FL4694FnonsynttGttT2692670.99256514344-14346
ORF1ab/nsp12302L302FL4694FnonsynttGttC26920.0074349414344-14346
ORF1ab/nsp12302L302SL4694SnonsyntTgtCg2492460.98795214344-14346
ORF1ab/nsp12302L302SL4694SnonsyntTGtCA24920.0080321314344-14346
ORF1ab/nsp12302L302SL4694SnonsynTTGAGC24910.0040160614344-14346
ORF1ab/nsp12302L302delL4694deldelTTG---8888114344-14346
ORF1ab/nsp12302L302ML4694MnonsynTtgAtg4444114344-14346
ORF1ab/nsp12302L302VL4694VnonsynTtgGtg19170.89473714344-14346
ORF1ab/nsp12302L302VL4694VnonsynTtGGtA1920.10526314344-14346
ORF1ab/nsp12302L302WL4694WnonsyntTgtGg1212114344-14346
ORF1ab/nsp12302L302del1L4694del1delttGtt-1090.914344-14346
ORF1ab/nsp12302L302del1L4694del1delTTGAC-1010.114344-14346
ORF1ab/nsp12302L302del2L4694del2deltTGt--540.814344-14346
ORF1ab/nsp12302L302del2L4694del2delTTg--g510.214344-14346
ORF1ab/nsp12302L302IL4694InonsynTtGAtA22114344-14346
ORF1ab/nsp12302L302RL4694RnonsynTTGAGA11114344-14346
ORF1ab/nsp12302L302PL4694PnonsynTTGCCA11114344-14346
ORF1ab/nsp12302L302YL4694YnonsyntTGtAT11114344-14346
ORF1ab/nsp12302L302QL4694QnonsynTTGCAA11114344-14346

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/nsp12302L302LttGttA258312All0.000049
ORF1ab/nsp12302L302LTtgCtg53312All0.00001
ORF1ab/nsp12302L302LTtGCtA1312All0
ORF1ab/nsp12302L302FttGttT267269All0.000051
ORF1ab/nsp12302L302FttGttC2269All0
ORF1ab/nsp12302L302StTgtCg246249All0.000047
ORF1ab/nsp12302L302StTGtCA2249All0
ORF1ab/nsp12302L302STTGAGC1249All0
ORF1ab/nsp12302L302StTgtCg150150C.2.11
ORF1ab/nsp12302L302delTTG---8888All0.000017
ORF1ab/nsp12302L302LttGttA6170B.1.1.70.000055
ORF1ab/nsp12302L302LTtgCtg870B.1.1.70.000007
ORF1ab/nsp12302L302LTtGCtA170B.1.1.70.000001
ORF1ab/nsp12302L302LttGttA5864AY.30.000577
ORF1ab/nsp12302L302LTtgCtg664AY.30.00006
ORF1ab/nsp12302L302StTgtCg6262C.21
ORF1ab/nsp12302L302MTtgAtg4444All0.000008
ORF1ab/nsp12302L302MTtgAtg4141B.1.1.70.000037
ORF1ab/nsp12302L302FttGttT3838B.1.1.70.000034
ORF1ab/nsp12302L302delTTG---3636B.1.1.70.000032
ORF1ab/nsp12302L302FttGttT3030B.1.617.20.000113
ORF1ab/nsp12302L302FttGttT2626AY.40.00004
ORF1ab/nsp12302L302VTtgGtg1719All0.000003
ORF1ab/nsp12302L302VTtGGtA219All0
ORF1ab/nsp12302L302FttGttT1818AY.390.000445
ORF1ab/nsp12302L302FttGttT1717B.10.000156
ORF1ab/nsp12302L302LTtgCtg1117B.1.4290.000259
ORF1ab/nsp12302L302LttGttA617B.1.4290.000141
ORF1ab/nsp12302L302LttGttA1415AY.430.000062
ORF1ab/nsp12302L302LTtgCtg115AY.430.000004
ORF1ab/nsp12302L302LTtgCtg714B.1.617.20.000026
ORF1ab/nsp12302L302LttGttA714B.1.617.20.000026
ORF1ab/nsp12302L302FttGttT1313AY.1030.000081
ORF1ab/nsp12302L302LttGttA1313B.1.20.000114
ORF1ab/nsp12302L302WtTgtGg1212All0.000002
ORF1ab/nsp12302L302FttGttT1212B.1.617.10.001548
ORF1ab/nsp12302L302LttGttA911AY.40.000014
ORF1ab/nsp12302L302LTtgCtg211AY.40.000003
ORF1ab/nsp12302L302FttGttT1111AY.50.000227
ORF1ab/nsp12302L302FttGttT1111B.1.20.000097
ORF1ab/nsp12302L302del1ttGtt-910All0.000002
ORF1ab/nsp12302L302del1TTGAC-110All0
ORF1ab/nsp12302L302delTTG---88AY.40.000012
ORF1ab/nsp12302L302LttGttA78AY.440.000043
ORF1ab/nsp12302L302LTtgCtg18AY.440.000006
ORF1ab/nsp12302L302StTgtCg88B.1.1.10.002614
ORF1ab/nsp12302L302VTtgGtg88B.1.1.70.000007
ORF1ab/nsp12302L302FttGttT77AY.260.000198
ORF1ab/nsp12302L302LttGttA77AY.270.000453
ORF1ab/nsp12302L302WtTgtGg77B.10.000064
ORF1ab/nsp12302L302delTTG---66AY.430.000027
ORF1ab/nsp12302L302StTgtCg66B.10.000055
ORF1ab/nsp12302L302del1ttGtt-56B.1.1.70.000004
ORF1ab/nsp12302L302del1TTGAC-16B.1.1.70.000001
ORF1ab/nsp12302L302FttGttT66B.1.2430.000418
ORF1ab/nsp12302L302LttGttA66B.1.5260.000141
ORF1ab/nsp12302L302del2tTGt--45All0.000001
ORF1ab/nsp12302L302del2TTg--g15All0
ORF1ab/nsp12302L302delTTG---55AY.250.00003
ORF1ab/nsp12302L302FttGttT55AY.30.00005
ORF1ab/nsp12302L302LttGttA55AY.300.001979
ORF1ab/nsp12302L302LttGttA45B.10.000037
ORF1ab/nsp12302L302LTtgCtg15B.10.000009
ORF1ab/nsp12302L302LttGttA55B.1.177.810.000947
ORF1ab/nsp12302L302LttGttA44AY.20.001425
ORF1ab/nsp12302L302FttGttT44AY.430.000018
ORF1ab/nsp12302L302FttGttT44B.1.1.2160.003562
ORF1ab/nsp12302L302LttGttA23AY.1030.000012
ORF1ab/nsp12302L302LTtgCtg13AY.1030.000006
ORF1ab/nsp12302L302LttGttA33AY.1180.000188
ORF1ab/nsp12302L302LttGttA33AY.200.000117
ORF1ab/nsp12302L302LttGttA33AY.290.000047
ORF1ab/nsp12302L302FttGttT33AY.330.0002
ORF1ab/nsp12302L302LttGttA33AY.340.000291
ORF1ab/nsp12302L302StTgtCg33AY.40.000005
ORF1ab/nsp12302L302delTTG---33AY.4.50.000322
ORF1ab/nsp12302L302FttGttT33AY.470.000093
ORF1ab/nsp12302L302LTtgCtg33AY.570.001969
ORF1ab/nsp12302L302StTgtCg33B.1.10.000054
ORF1ab/nsp12302L302StTgtCg23B.1.1.70.000002
ORF1ab/nsp12302L302del2tTGt--23B.1.1.70.000002
ORF1ab/nsp12302L302del2TTg--g13B.1.1.70.000001
ORF1ab/nsp12302L302STTGAGC13B.1.1.70.000001
ORF1ab/nsp12302L302FttGttT33B.1.1600.000094
ORF1ab/nsp12302L302delTTG---33B.1.1770.00004
ORF1ab/nsp12302L302LttGttA33B.1.2430.000209
ORF1ab/nsp12302L302FttGttT33B.1.3510.000089
ORF1ab/nsp12302L302FttGttT33B.1.3960.002117
ORF1ab/nsp12302L302FttGttT33B.1.5250.000339
ORF1ab/nsp12302L302FttGttT33C.350.002322
ORF1ab/nsp12302L302LttGttA33P.10.000047
ORF1ab/nsp12302L302VTtGGtA220.111111
ORF1ab/nsp12302L302delTTG---220.111111
ORF1ab/nsp12302L302StTGtCA220.111111
ORF1ab/nsp12302L302LTtgCtg220.111111
ORF1ab/nsp12302L302ITtGAtA22All0
ORF1ab/nsp12302L302FttGttT22AY.200.000078
ORF1ab/nsp12302L302LttGttA22AY.250.000012
ORF1ab/nsp12302L302FttGttT22AY.250.000012
ORF1ab/nsp12302L302LttGttA22AY.3.10.000171
ORF1ab/nsp12302L302FttGttT22AY.410.000588
ORF1ab/nsp12302L302FttGttT22AY.440.000012
ORF1ab/nsp12302L302delTTG---22B.10.000018
ORF1ab/nsp12302L302delTTG---22B.1.10.000036
ORF1ab/nsp12302L302LttGttA22B.1.10.000036
ORF1ab/nsp12302L302ITtGAtA22B.1.1.70.000002
ORF1ab/nsp12302L302WtTgtGg22B.1.1.70.000002
ORF1ab/nsp12302L302LttGttA12B.1.1600.000031
ORF1ab/nsp12302L302LTtgCtg12B.1.1600.000031
ORF1ab/nsp12302L302LTtgCtg22B.1.36.290.001035
ORF1ab/nsp12302L302LttGttA22B.1.36.80.002
ORF1ab/nsp12302L302FttGttT22B.1.36.80.002
ORF1ab/nsp12302L302FttGttT22B.1.4700.002809
ORF1ab/nsp12302L302VTtgGtg22B.60.00182
ORF1ab/nsp12302L302FttGttT22C.370.000232
ORF1ab/nsp12302L302FttGttT12D.20.000075
ORF1ab/nsp12302L302FttGttC12D.20.000075
ORF1ab/nsp12302L302FttGttT22P.10.000032
ORF1ab/nsp12302L302LTtgCtg22P.1.140.000096
ORF1ab/nsp12302L302LttGttA22Q.30.00029
ORF1ab/nsp12302L302FttGttT11A.2.50.000499
ORF1ab/nsp12302L302LttGttA11A.2.5.20.001572
ORF1ab/nsp12302L302FttGttT11AH.20.012048
ORF1ab/nsp12302L302PTTGCCA11All0
ORF1ab/nsp12302L302QTTGCAA11All0
ORF1ab/nsp12302L302RTTGAGA11All0
ORF1ab/nsp12302L302YtTGtAT11All0
ORF1ab/nsp12302L302LttGttA11AW.10.003049
ORF1ab/nsp12302L302LttGttA11AY.1000.000046
ORF1ab/nsp12302L302VTtgGtg11AY.1030.000006
ORF1ab/nsp12302L302LttGttA11AY.1060.000335
ORF1ab/nsp12302L302MTtgAtg11AY.1110.000183
ORF1ab/nsp12302L302del1ttGtt-11AY.1170.000085
ORF1ab/nsp12302L302FttGttT11AY.1170.000085
ORF1ab/nsp12302L302LttGttA11AY.1190.000035
ORF1ab/nsp12302L302delTTG---11AY.190.00114
ORF1ab/nsp12302L302LttGttA11AY.230.00007
ORF1ab/nsp12302L302LttGttA11AY.23.10.000417
ORF1ab/nsp12302L302LTtgCtg11AY.240.000431
ORF1ab/nsp12302L302FttGttT11AY.270.000065
ORF1ab/nsp12302L302FttGttT11AY.290.000016
ORF1ab/nsp12302L302delTTG---11AY.290.000016
ORF1ab/nsp12302L302delTTG---11AY.30.00001
ORF1ab/nsp12302L302StTgtCg11AY.300.000396
ORF1ab/nsp12302L302FttGttT11AY.320.000532
ORF1ab/nsp12302L302LttGttA11AY.34.10.00051
ORF1ab/nsp12302L302delTTG---11AY.360.000148
ORF1ab/nsp12302L302FttGttT11AY.360.000148
ORF1ab/nsp12302L302FttGttT11AY.39.1.10.000725
ORF1ab/nsp12302L302del1ttGtt-11AY.40.000002
ORF1ab/nsp12302L302VTtgGtg11AY.40.000002
ORF1ab/nsp12302L302LttGttA11AY.4.20.000022
ORF1ab/nsp12302L302StTgtCg11AY.4.20.000022
ORF1ab/nsp12302L302FttGttT11AY.4.20.000022
ORF1ab/nsp12302L302FttGttT11AY.4.50.000107
ORF1ab/nsp12302L302VTtgGtg11AY.4.50.000107
ORF1ab/nsp12302L302del1ttGtt-11AY.4.50.000107
ORF1ab/nsp12302L302del1ttGtt-11AY.430.000004
ORF1ab/nsp12302L302StTgtCg11AY.460.000104
ORF1ab/nsp12302L302FttGttT11AY.46.60.000072
ORF1ab/nsp12302L302StTgtCg11AY.470.000031
ORF1ab/nsp12302L302StTgtCg11AY.50.000021
ORF1ab/nsp12302L302LttGttA11AY.50.000021
ORF1ab/nsp12302L302LttGttA11AY.590.00053
ORF1ab/nsp12302L302delTTG---11AY.600.000938
ORF1ab/nsp12302L302LttGttA11AY.610.000105
ORF1ab/nsp12302L302delTTG---11AY.670.000464
ORF1ab/nsp12302L302FttGttT11AY.750.000056
ORF1ab/nsp12302L302FttGttT11AY.75.10.00018
ORF1ab/nsp12302L302FttGttT11AY.830.001724
ORF1ab/nsp12302L302delTTG---11AY.840.000437
ORF1ab/nsp12302L302delTTG---11AY.850.000427
ORF1ab/nsp12302L302FttGttT11AY.900.000684
ORF1ab/nsp12302L302LttGttA11AY.980.000079
ORF1ab/nsp12302L302delTTG---11AY.990.001049
ORF1ab/nsp12302L302VTtgGtg11B0.000128
ORF1ab/nsp12302L302FttGttT11B.1.1.1210.002427
ORF1ab/nsp12302L302StTgtCg11B.1.1.1640.005155
ORF1ab/nsp12302L302LttGttA11B.1.1.1860.003436
ORF1ab/nsp12302L302MTtgAtg11B.1.1.2030.016949
ORF1ab/nsp12302L302FttGttT11B.1.1.2140.000055
ORF1ab/nsp12302L302delTTG---11B.1.1.2210.010101
ORF1ab/nsp12302L302FttGttC11B.1.1.2370.005405
ORF1ab/nsp12302L302LTtgCtg11B.1.1.250.000569
ORF1ab/nsp12302L302LTtgCtg11B.1.1.2610.008621
ORF1ab/nsp12302L302VTtgGtg11B.1.1.2650.003155
ORF1ab/nsp12302L302StTgtCg11B.1.1.280.000311
ORF1ab/nsp12302L302FttGttT11B.1.1.2840.000107
ORF1ab/nsp12302L302delTTG---11B.1.1.3110.000358
ORF1ab/nsp12302L302FttGttT11B.1.1.4850.016667
ORF1ab/nsp12302L302PTTGCCA11B.1.1.70.000001
ORF1ab/nsp12302L302delTTG---11B.1.1.700.000341
ORF1ab/nsp12302L302VTtgGtg11B.1.1570.002985
ORF1ab/nsp12302L302FttGttT11B.1.1570.002985
ORF1ab/nsp12302L302WtTgtGg11B.1.1770.000013
ORF1ab/nsp12302L302WtTgtGg11B.1.177.150.000631
ORF1ab/nsp12302L302FttGttT11B.1.177.170.000821
ORF1ab/nsp12302L302delTTG---11B.1.177.180.00116
ORF1ab/nsp12302L302LTtgCtg11B.1.177.210.000076
ORF1ab/nsp12302L302del2tTGt--11B.1.177.540.000606
ORF1ab/nsp12302L302delTTG---11B.1.177.870.000728
ORF1ab/nsp12302L302VTtgGtg11B.1.20.000009
ORF1ab/nsp12302L302StTgtCg11B.1.2210.000071
ORF1ab/nsp12302L302FttGttT11B.1.2210.000071
ORF1ab/nsp12302L302LttGttA11B.1.2340.000132
ORF1ab/nsp12302L302delTTG---11B.1.258.30.001675
ORF1ab/nsp12302L302LTtgCtg11B.1.3510.00003
ORF1ab/nsp12302L302StTgtCg11B.1.3510.00003
ORF1ab/nsp12302L302FttGttT11B.1.3560.001727
ORF1ab/nsp12302L302RTTGAGA11B.1.360.000146
ORF1ab/nsp12302L302LttGttA11B.1.360.000146
ORF1ab/nsp12302L302delTTG---11B.1.36.170.000494
ORF1ab/nsp12302L302delTTG---11B.1.36.290.000517
ORF1ab/nsp12302L302LttGttA11B.1.4270.00005
ORF1ab/nsp12302L302FttGttT11B.1.4360.001029
ORF1ab/nsp12302L302StTgtCg11B.1.438.10.000107
ORF1ab/nsp12302L302FttGttT11B.1.466.20.000391
ORF1ab/nsp12302L302delTTG---11B.1.5250.000113
ORF1ab/nsp12302L302LttGttA11B.1.5250.000113
ORF1ab/nsp12302L302FttGttT11B.1.5600.00463
ORF1ab/nsp12302L302StTgtCg11B.1.5820.000491
ORF1ab/nsp12302L302YtTGtAT11B.1.617.20.000004
ORF1ab/nsp12302L302delTTG---11B.1.6210.000089
ORF1ab/nsp12302L302QTTGCAA11B.1.6210.000089
ORF1ab/nsp12302L302StTgtCg11B.1.6230.000536
ORF1ab/nsp12302L302LttGttA11B.1.6370.000073
ORF1ab/nsp12302L302MTtgAtg11B.40.002208
ORF1ab/nsp12302L302LttGttA11C.370.000116
ORF1ab/nsp12302L302WtTgtGg11P.10.000016
ORF1ab/nsp12302L302delTTG---11P.1.10.000318
ORF1ab/nsp12302L302del2tTGt--11P.1.100.000269
ORF1ab/nsp12302L302FttGttT11P.1.150.000232
ORF1ab/nsp12302L302LttGttA11P.1.170.000162
ORF1ab/nsp12302L302delTTG---11Q.20.000613

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.