CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp12 : CodonNum = 321

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/nsp12321F321FF4713FsynttCttT41474147114401-14403
ORF1ab/nsp12321F321delF4713deldelTTC---141141114401-14403
ORF1ab/nsp12321F321LF4713LnonsynTtcCtc97650.67010314401-14403
ORF1ab/nsp12321F321LF4713LnonsynttCttA97270.27835114401-14403
ORF1ab/nsp12321F321LF4713LnonsynttCttG9730.030927814401-14403
ORF1ab/nsp12321F321LF4713LnonsynTtCCtT9720.020618614401-14403
ORF1ab/nsp12321F321YF4713YnonsyntTctAc1010114401-14403
ORF1ab/nsp12321F321VF4713VnonsynTtcGtc1080.814401-14403
ORF1ab/nsp12321F321VF4713VnonsynTtCGtA1020.214401-14403
ORF1ab/nsp12321F321SF4713SnonsyntTctCc980.88888914401-14403
ORF1ab/nsp12321F321SF4713SnonsyntTCtCT910.11111114401-14403
ORF1ab/nsp12321F321del1F4713del1delttCtt-750.71428614401-14403
ORF1ab/nsp12321F321del1F4713del1delTtc-tc720.28571414401-14403
ORF1ab/nsp12321F321CF4713CnonsyntTctGc540.814401-14403
ORF1ab/nsp12321F321CF4713CnonsyntTCtGT510.214401-14403
ORF1ab/nsp12321F321IF4713InonsynTtCAtA420.514401-14403
ORF1ab/nsp12321F321IF4713InonsynTtcAtc420.514401-14403
ORF1ab/nsp12321F321XF4713XnonsyntTCtAA33114401-14403
ORF1ab/nsp12321F321HF4713HnonsynTTCCAT320.66666714401-14403
ORF1ab/nsp12321F321HF4713HnonsynTTcCAc310.33333314401-14403
ORF1ab/nsp12321F321DF4713DnonsynTTcGAc22114401-14403
ORF1ab/nsp12321F321QF4713QnonsynTTCCAA22114401-14403
ORF1ab/nsp12321F321EF4713EnonsynTTCGAA22114401-14403
ORF1ab/nsp12321F321PF4713PnonsynTTCCCT22114401-14403
ORF1ab/nsp12321F321del2F4713del2delTTc--c210.514401-14403
ORF1ab/nsp12321F321del2F4713del2deltTCt--210.514401-14403

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/nsp12321F321FttCttT41474147All0.000793
ORF1ab/nsp12321F321FttCttT15591559B.1.619.11
ORF1ab/nsp12321F321FttCttT11151115B.1.6190.971254
ORF1ab/nsp12321F321FttCttT584584B.1.5260.013727
ORF1ab/nsp12321F321FttCttT341341AY.1030.002117
ORF1ab/nsp12321F321delTTC---141141All0.000027
ORF1ab/nsp12321F321LTtcCtc6597All0.000012
ORF1ab/nsp12321F321LttCttA2797All0.000005
ORF1ab/nsp12321F321LttCttG397All0.000001
ORF1ab/nsp12321F321LTtCCtT297All0
ORF1ab/nsp12321F321FttCttT9797B.1.1.70.000087
ORF1ab/nsp12321F321delTTC---7474B.1.1.70.000066
ORF1ab/nsp12321F321FttCttT4646B.1.617.20.000173
ORF1ab/nsp12321F321FttCttT3737AY.1130.005268
ORF1ab/nsp12321F321FttCttT3636AD.20.007883
ORF1ab/nsp12321F321FttCttT3333AY.1210.004465
ORF1ab/nsp12321F321FttCttT2424B.10.00022
ORF1ab/nsp12321F321FttCttT1919AY.40.00003
ORF1ab/nsp12321F321FttCttT1818B.1.20.000158
ORF1ab/nsp12321F321LTtcCtc1416B.1.1.70.000013
ORF1ab/nsp12321F321LttCttA116B.1.1.70.000001
ORF1ab/nsp12321F321LttCttG116B.1.1.70.000001
ORF1ab/nsp12321F321FttCttT1616B.1.258.70.030593
ORF1ab/nsp12321F321FttCttT1616P.10.000252
ORF1ab/nsp12321F321FttCttT1515B.1.617.10.001934
ORF1ab/nsp12321F321FttCttT1414B.1.1.2140.000776
ORF1ab/nsp12321F321FttCttT1212B.1.3200.014944
ORF1ab/nsp12321F321LTtcCtc1212C.360.010929
ORF1ab/nsp12321F321LTtcCtc811B.10.000073
ORF1ab/nsp12321F321LttCttA311B.10.000027
ORF1ab/nsp12321F321YtTctAc1010All0.000002
ORF1ab/nsp12321F321VTtcGtc810All0.000002
ORF1ab/nsp12321F321VTtCGtA210All0
ORF1ab/nsp12321F321FttCttT1010AY.30.000099
ORF1ab/nsp12321F321delTTC---1010AY.40.000016
ORF1ab/nsp12321F321FttCttT1010B.1.6210.000885
ORF1ab/nsp12321F321StTctCc89All0.000002
ORF1ab/nsp12321F321StTCtCT19All0
ORF1ab/nsp12321F321LttCttA89B.1.20.00007
ORF1ab/nsp12321F321LTtcCtc19B.1.20.000009
ORF1ab/nsp12321F321FttCttT99B.1.2430.000626
ORF1ab/nsp12321F321del1ttCtt-57All0.000001
ORF1ab/nsp12321F321del1Ttc-tc27All0
ORF1ab/nsp12321F321delTTC---77AY.430.000031
ORF1ab/nsp12321F321FttCttT77B.1.10.000127
ORF1ab/nsp12321F321LTtcCtc77B.1.9.40.042945
ORF1ab/nsp12321F321FttCttT66AY.250.000036
ORF1ab/nsp12321F321FttCttT66AY.260.00017
ORF1ab/nsp12321F321FttCttT66AY.430.000027
ORF1ab/nsp12321F321FttCttT66AY.440.000037
ORF1ab/nsp12321F321CtTctGc45All0.000001
ORF1ab/nsp12321F321CtTCtGT15All0
ORF1ab/nsp12321F321delTTC---55AY.4.50.000537
ORF1ab/nsp12321F321FttCttT55AY.470.000156
ORF1ab/nsp12321F321FttCttT55B.1.221.30.004167
ORF1ab/nsp12321F321FttCttT55B.1.5960.000436
ORF1ab/nsp12321F321LTtcCtc55B.1.617.20.000019
ORF1ab/nsp12321F321LTtCCtT240.111111
ORF1ab/nsp12321F321VTtCGtA240.111111
ORF1ab/nsp12321F321LttCttA240.111111
ORF1ab/nsp12321F321VTtcGtc240.111111
ORF1ab/nsp12321F321ITtcAtc24All0
ORF1ab/nsp12321F321ITtCAtA24All0
ORF1ab/nsp12321F321LTtcCtc44AY.40.000006
ORF1ab/nsp12321F321FttCttT44B.1.1.1170.038835
ORF1ab/nsp12321F321delTTC---44B.1.1770.000053
ORF1ab/nsp12321F321XtTCtAA33All0.000001
ORF1ab/nsp12321F321HTTCCAT23All0
ORF1ab/nsp12321F321HTTcCAc13All0
ORF1ab/nsp12321F321YtTctAc33AY.1030.000019
ORF1ab/nsp12321F321FttCttT33AY.290.000047
ORF1ab/nsp12321F321LttCttA33AY.30.00003
ORF1ab/nsp12321F321FttCttT33AY.4.20.000065
ORF1ab/nsp12321F321FttCttT33AY.4.50.000322
ORF1ab/nsp12321F321YtTctAc33B.1.1.70.000003
ORF1ab/nsp12321F321FttCttT33B.1.160.300.008929
ORF1ab/nsp12321F321LttCttA33B.1.3510.000089
ORF1ab/nsp12321F321delTTC---33B.1.3670.002377
ORF1ab/nsp12321F321FttCttT33B.1.5250.000339
ORF1ab/nsp12321F321FttCttT33P.1.140.000143
ORF1ab/nsp12321F321HTTCCAT220.111111
ORF1ab/nsp12321F321QTTCCAA220.111111
ORF1ab/nsp12321F321XtTCtAA220.111111
ORF1ab/nsp12321F321PTTCCCT220.111111
ORF1ab/nsp12321F321YtTctAc220.111111
ORF1ab/nsp12321F321DTTcGAc220.111111
ORF1ab/nsp12321F321ITtCAtA220.111111
ORF1ab/nsp12321F321ETTCGAA220.111111
ORF1ab/nsp12321F321LttCttA22A.23.10.001408
ORF1ab/nsp12321F321PTTCCCT22All0
ORF1ab/nsp12321F321ETTCGAA22All0
ORF1ab/nsp12321F321QTTCCAA22All0
ORF1ab/nsp12321F321DTTcGAc22All0
ORF1ab/nsp12321F321del2tTCt--12All0
ORF1ab/nsp12321F321del2TTc--c12All0
ORF1ab/nsp12321F321FttCttT22AY.1020.000053
ORF1ab/nsp12321F321LTtcCtc22AY.1200.000074
ORF1ab/nsp12321F321FttCttT22AY.29.10.000441
ORF1ab/nsp12321F321FttCttT22AY.330.000134
ORF1ab/nsp12321F321FttCttT22AY.390.000049
ORF1ab/nsp12321F321StTctCc22AY.46.40.000329
ORF1ab/nsp12321F321FttCttT22AY.98.10.000097
ORF1ab/nsp12321F321delTTC---22B.10.000018
ORF1ab/nsp12321F321VTtcGtc22B.1.10.000036
ORF1ab/nsp12321F321FttCttT22B.1.1.2300.018349
ORF1ab/nsp12321F321FttCttT22B.1.1.3060.000877
ORF1ab/nsp12321F321FttCttT22B.1.1.3980.006452
ORF1ab/nsp12321F321VTtcGtc22B.1.1.70.000002
ORF1ab/nsp12321F321del1ttCtt-22B.1.1.70.000002
ORF1ab/nsp12321F321CtTCtGT12B.1.1.70.000001
ORF1ab/nsp12321F321CtTctGc12B.1.1.70.000001
ORF1ab/nsp12321F321del2TTc--c12B.1.1.70.000001
ORF1ab/nsp12321F321del2tTCt--12B.1.1.70.000001
ORF1ab/nsp12321F321FttCttT22B.1.1770.000026
ORF1ab/nsp12321F321delTTC---22B.1.177.180.00232
ORF1ab/nsp12321F321FttCttT22B.1.177.860.000367
ORF1ab/nsp12321F321delTTC---22B.1.20.000018
ORF1ab/nsp12321F321LTtcCtc22B.1.4250.005988
ORF1ab/nsp12321F321CtTctGc22B.1.4290.000047
ORF1ab/nsp12321F321FttCttT22B.1.5170.000854
ORF1ab/nsp12321F321delTTC---22B.1.6210.000177
ORF1ab/nsp12321F321del1Ttc-tc22B.1.6270.00404
ORF1ab/nsp12321F321FttCttT22P.1.120.000968
ORF1ab/nsp12321F321LTtcCtc12P.20.000187
ORF1ab/nsp12321F321LttCttG12P.20.000187
ORF1ab/nsp12321F321FttCttT22U.10.025641
ORF1ab/nsp12321F321LTtcCtc11AY.1030.000006
ORF1ab/nsp12321F321ITtcAtc11AY.1030.000006
ORF1ab/nsp12321F321delTTC---11AY.1110.000183
ORF1ab/nsp12321F321delTTC---11AY.1170.000085
ORF1ab/nsp12321F321FttCttT11AY.1180.000063
ORF1ab/nsp12321F321FttCttT11AY.1190.000035
ORF1ab/nsp12321F321CtTctGc11AY.1190.000035
ORF1ab/nsp12321F321delTTC---11AY.190.00114
ORF1ab/nsp12321F321LTtcCtc11AY.200.000039
ORF1ab/nsp12321F321FttCttT11AY.200.000039
ORF1ab/nsp12321F321VTtcGtc11AY.250.000006
ORF1ab/nsp12321F321delTTC---11AY.250.000006
ORF1ab/nsp12321F321delTTC---11AY.30.00001
ORF1ab/nsp12321F321YtTctAc11AY.30.00001
ORF1ab/nsp12321F321FttCttT11AY.3.10.000085
ORF1ab/nsp12321F321FttCttT11AY.360.000148
ORF1ab/nsp12321F321FttCttT11AY.370.000316
ORF1ab/nsp12321F321StTctCc11AY.40.000002
ORF1ab/nsp12321F321FttCttT11AY.420.00004
ORF1ab/nsp12321F321LTtcCtc11AY.430.000004
ORF1ab/nsp12321F321HTTcCAc11AY.440.000006
ORF1ab/nsp12321F321FttCttT11AY.450.000122
ORF1ab/nsp12321F321FttCttT11AY.46.20.000635
ORF1ab/nsp12321F321delTTC---11AY.46.60.000072
ORF1ab/nsp12321F321FttCttT11AY.50.000021
ORF1ab/nsp12321F321delTTC---11AY.520.000814
ORF1ab/nsp12321F321FttCttT11AY.60.000041
ORF1ab/nsp12321F321FttCttT11AY.600.000938
ORF1ab/nsp12321F321LttCttA11AY.610.000105
ORF1ab/nsp12321F321FttCttT11AY.610.000105
ORF1ab/nsp12321F321delTTC---11AY.670.000464
ORF1ab/nsp12321F321LttCttA11AY.670.000464
ORF1ab/nsp12321F321FttCttT11AY.690.000187
ORF1ab/nsp12321F321delTTC---11AY.70.000196
ORF1ab/nsp12321F321delTTC---11AY.710.000475
ORF1ab/nsp12321F321FttCttT11AY.720.001361
ORF1ab/nsp12321F321delTTC---11AY.720.001361
ORF1ab/nsp12321F321FttCttT11AY.750.000056
ORF1ab/nsp12321F321FttCttT11AY.75.10.00018
ORF1ab/nsp12321F321delTTC---11AY.760.004831
ORF1ab/nsp12321F321delTTC---11AY.840.000437
ORF1ab/nsp12321F321delTTC---11AY.850.000427
ORF1ab/nsp12321F321delTTC---11AY.9.20.000037
ORF1ab/nsp12321F321StTCtCT11AY.990.001049
ORF1ab/nsp12321F321StTctCc11B0.000128
ORF1ab/nsp12321F321FttCttT11B0.000128
ORF1ab/nsp12321F321LttCttA11B0.000128
ORF1ab/nsp12321F321ITtcAtc11B.10.000009
ORF1ab/nsp12321F321XtTCtAA11B.1.10.000018
ORF1ab/nsp12321F321YtTctAc11B.1.10.000018
ORF1ab/nsp12321F321del1ttCtt-11B.1.10.000018
ORF1ab/nsp12321F321FttCttT11B.1.1.10.000327
ORF1ab/nsp12321F321FttCttT11B.1.1.1620.029412
ORF1ab/nsp12321F321delTTC---11B.1.1.2210.010101
ORF1ab/nsp12321F321StTctCc11B.1.1.250.000569
ORF1ab/nsp12321F321FttCttT11B.1.1.250.000569
ORF1ab/nsp12321F321FttCttT11B.1.1.2790.001121
ORF1ab/nsp12321F321LTtcCtc11B.1.1.3110.000358
ORF1ab/nsp12321F321delTTC---11B.1.1.3120.001912
ORF1ab/nsp12321F321LTtcCtc11B.1.1.3220.008772
ORF1ab/nsp12321F321FttCttT11B.1.1.370.000193
ORF1ab/nsp12321F321delTTC---11B.1.1.370.000193
ORF1ab/nsp12321F321FttCttT11B.1.1.500.000679
ORF1ab/nsp12321F321FttCttT11B.1.1.5210.005348
ORF1ab/nsp12321F321StTctCc11B.1.1.70.000001
ORF1ab/nsp12321F321LTtcCtc11B.1.1770.000013
ORF1ab/nsp12321F321delTTC---11B.1.177.160.000664
ORF1ab/nsp12321F321FttCttT11B.1.177.160.000664
ORF1ab/nsp12321F321FttCttT11B.1.177.170.000821
ORF1ab/nsp12321F321LttCttA11B.1.177.40.000211
ORF1ab/nsp12321F321FttCttT11B.1.177.520.001757
ORF1ab/nsp12321F321delTTC---11B.1.177.540.000606
ORF1ab/nsp12321F321delTTC---11B.1.177.690.001484
ORF1ab/nsp12321F321FttCttT11B.1.177.730.000566
ORF1ab/nsp12321F321delTTC---11B.1.177.760.002494
ORF1ab/nsp12321F321FttCttT11B.1.177.820.000477
ORF1ab/nsp12321F321FttCttT11B.1.177.870.000728
ORF1ab/nsp12321F321FttCttT11B.1.2210.000071
ORF1ab/nsp12321F321delTTC---11B.1.230.006061
ORF1ab/nsp12321F321StTctCc11B.1.2430.00007
ORF1ab/nsp12321F321StTctCc11B.1.3380.008621
ORF1ab/nsp12321F321FttCttT11B.1.3490.000715
ORF1ab/nsp12321F321delTTC---11B.1.36.170.000494
ORF1ab/nsp12321F321FttCttT11B.1.36.360.000602
ORF1ab/nsp12321F321FttCttT11B.1.3670.000792
ORF1ab/nsp12321F321del1ttCtt-11B.1.3690.000285
ORF1ab/nsp12321F321LTtcCtc11B.1.3990.001934
ORF1ab/nsp12321F321FttCttT11B.1.4290.000024
ORF1ab/nsp12321F321VTtcGtc11B.1.4290.000024
ORF1ab/nsp12321F321delTTC---11B.1.4530.003236
ORF1ab/nsp12321F321FttCttT11B.1.4970.000315
ORF1ab/nsp12321F321delTTC---11B.1.5250.000113
ORF1ab/nsp12321F321del1ttCtt-11B.1.5960.000087
ORF1ab/nsp12321F321delTTC---11B.1.617.10.000129
ORF1ab/nsp12321F321LttCttG11B.1.6360.006711
ORF1ab/nsp12321F321LTtcCtc11B.1.90.006173
ORF1ab/nsp12321F321FttCttT11B.310.003731
ORF1ab/nsp12321F321LttCttA11B.60.00091
ORF1ab/nsp12321F321FttCttT11D.20.000075
ORF1ab/nsp12321F321LTtcCtc11P.10.000016
ORF1ab/nsp12321F321delTTC---11P.1.10.000318
ORF1ab/nsp12321F321FttCttT11P.1.10.000318
ORF1ab/nsp12321F321delTTC---11P.1.100.000269
ORF1ab/nsp12321F321FttCttT11P.1.110.010204
ORF1ab/nsp12321F321FttCttT11P.1.150.000232
ORF1ab/nsp12321F321delTTC---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.