CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp3 : CodonNum = 641

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/nsp3641L641LL1459LsynTtgCtg11135780.5193174640-4642
ORF1ab/nsp3641L641LL1459LsynttGttA11135350.4806834640-4642
ORF1ab/nsp3641L641FL1459FnonsynttGttT1231170.9512194640-4642
ORF1ab/nsp3641L641FL1459FnonsynttGttC12360.04878054640-4642
ORF1ab/nsp3641L641delL1459deldelTTG---565614640-4642
ORF1ab/nsp3641L641del1L1459del1delttGtt-860.754640-4642
ORF1ab/nsp3641L641del1L1459del1delTtg-tg820.254640-4642
ORF1ab/nsp3641L641ML1459MnonsynTtgAtg3314640-4642
ORF1ab/nsp3641L641del2L1459del2delTTGC--310.3333334640-4642
ORF1ab/nsp3641L641del2L1459del2delTTg--g310.3333334640-4642
ORF1ab/nsp3641L641del2L1459del2deltTGt--310.3333334640-4642
ORF1ab/nsp3641L641VL1459VnonsynTtgGtg2214640-4642
ORF1ab/nsp3641L641XL1459XnonsyntTgtAg2214640-4642
ORF1ab/nsp3641L641SL1459SnonsyntTgtCg2214640-4642
ORF1ab/nsp3641L641WL1459WnonsyntTgtGg1114640-4642
ORF1ab/nsp3641L641IL1459InonsynTtGAtT1114640-4642

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/nsp3641L641LTtgCtg5781113All0.000111
ORF1ab/nsp3641L641LttGttA5351113All0.000102
ORF1ab/nsp3641L641LTtgCtg210210B.1.220.27668
ORF1ab/nsp3641L641LTtgCtg205205B.1.4290.004823
ORF1ab/nsp3641L641LttGttA124124B.1.20.001092
ORF1ab/nsp3641L641FttGttT117123All0.000022
ORF1ab/nsp3641L641FttGttC6123All0.000001
ORF1ab/nsp3641L641LttGttA5171B.1.1.70.000046
ORF1ab/nsp3641L641LTtgCtg2071B.1.1.70.000018
ORF1ab/nsp3641L641LTtgCtg3758AY.440.000225
ORF1ab/nsp3641L641LttGttA2158AY.440.000128
ORF1ab/nsp3641L641delTTG---5656All0.000011
ORF1ab/nsp3641L641LttGttA4243B.1.1770.000553
ORF1ab/nsp3641L641LTtgCtg143B.1.1770.000013
ORF1ab/nsp3641L641LTtgCtg2935B.1.1600.000904
ORF1ab/nsp3641L641LttGttA635B.1.1600.000187
ORF1ab/nsp3641L641FttGttT3434B.1.1770.000448
ORF1ab/nsp3641L641LTtgCtg3232B.1.22.11
ORF1ab/nsp3641L641LttGttA2126B.1.10.000381
ORF1ab/nsp3641L641LTtgCtg526B.1.10.000091
ORF1ab/nsp3641L641LttGttA2525AY.30.000249
ORF1ab/nsp3641L641LttGttA1325AY.40.00002
ORF1ab/nsp3641L641LTtgCtg1225AY.40.000019
ORF1ab/nsp3641L641LttGttA2525B.1.1.3550.384615
ORF1ab/nsp3641L641delTTG---2020B.1.1.70.000018
ORF1ab/nsp3641L641LttGttA2020B.1.2580.001331
ORF1ab/nsp3641L641LttGttA1819B.1.617.20.000068
ORF1ab/nsp3641L641LTtgCtg119B.1.617.20.000004
ORF1ab/nsp3641L641LttGttA1717AY.1200.000632
ORF1ab/nsp3641L641FttGttT1516B.1.1.70.000013
ORF1ab/nsp3641L641FttGttC116B.1.1.70.000001
ORF1ab/nsp3641L641LTtgCtg814B.10.000073
ORF1ab/nsp3641L641LttGttA614B.10.000055
ORF1ab/nsp3641L641LttGttA1212B.1.5311
ORF1ab/nsp3641L641LttGttA1010B.1.1.5190.000397
ORF1ab/nsp3641L641LttGttA99AM.11
ORF1ab/nsp3641L641LttGttA99AY.750.000504
ORF1ab/nsp3641L641LttGttA99P.10.000142
ORF1ab/nsp3641L641del1ttGtt-68All0.000001
ORF1ab/nsp3641L641del1Ttg-tg28All0
ORF1ab/nsp3641L641FttGttT88B.1.3510.000238
ORF1ab/nsp3641L641LttGttA77AY.1000.000322
ORF1ab/nsp3641L641LttGttA77AY.1010.003433
ORF1ab/nsp3641L641LttGttA77AY.1030.000043
ORF1ab/nsp3641L641LttGttA77AY.740.00081
ORF1ab/nsp3641L641LttGttA66AY.3.10.000512
ORF1ab/nsp3641L641FttGttT66B.1.10.000109
ORF1ab/nsp3641L641FttGttT55AY.40.000008
ORF1ab/nsp3641L641FttGttT340.166667
ORF1ab/nsp3641L641FttGttC140.055556
ORF1ab/nsp3641L641delTTG---44AY.40.000006
ORF1ab/nsp3641L641LttGttA34AY.430.000013
ORF1ab/nsp3641L641LTtgCtg14AY.430.000004
ORF1ab/nsp3641L641FttGttT44B.10.000037
ORF1ab/nsp3641L641LttGttA44B.1.2760.067797
ORF1ab/nsp3641L641MTtgAtg33All0.000001
ORF1ab/nsp3641L641del2tTGt--13All0
ORF1ab/nsp3641L641del2TTGC--13All0
ORF1ab/nsp3641L641del2TTg--g13All0
ORF1ab/nsp3641L641LttGttA33AY.1020.00008
ORF1ab/nsp3641L641FttGttT33AY.750.000168
ORF1ab/nsp3641L641LttGttA23B.1.1.250.001137
ORF1ab/nsp3641L641LTtgCtg13B.1.1.250.000569
ORF1ab/nsp3641L641LttGttA33B.1.1.280.000934
ORF1ab/nsp3641L641del1ttGtt-23B.1.1.70.000002
ORF1ab/nsp3641L641del1Ttg-tg13B.1.1.70.000001
ORF1ab/nsp3641L641LttGttA33P.1.70.000958
ORF1ab/nsp3641L641FttGttT33Q.30.000435
ORF1ab/nsp3641L641XtTgtAg22All0
ORF1ab/nsp3641L641VTtgGtg22All0
ORF1ab/nsp3641L641StTgtCg22All0
ORF1ab/nsp3641L641FttGttT22AY.250.000012
ORF1ab/nsp3641L641LTtgCtg12AY.250.000006
ORF1ab/nsp3641L641LttGttA12AY.250.000006
ORF1ab/nsp3641L641FttGttT22AY.290.000032
ORF1ab/nsp3641L641FttGttT22AY.4.30.001684
ORF1ab/nsp3641L641FttGttT22AY.430.000009
ORF1ab/nsp3641L641del1ttGtt-22AY.440.000012
ORF1ab/nsp3641L641FttGttT12AY.440.000006
ORF1ab/nsp3641L641FttGttC12AY.440.000006
ORF1ab/nsp3641L641FttGttT22AY.50.000041
ORF1ab/nsp3641L641LttGttA22AY.9.20.000073
ORF1ab/nsp3641L641delTTG---22B.10.000018
ORF1ab/nsp3641L641LttGttA22B.1.1.3680.006173
ORF1ab/nsp3641L641LTtgCtg22B.1.1.3890.012121
ORF1ab/nsp3641L641LttGttA22B.1.1.570.022989
ORF1ab/nsp3641L641LTtgCtg12B.1.110.30.000718
ORF1ab/nsp3641L641LttGttA12B.1.110.30.000718
ORF1ab/nsp3641L641LttGttA22B.1.177.810.000379
ORF1ab/nsp3641L641FttGttT22B.1.2210.000142
ORF1ab/nsp3641L641LTtgCtg12B.1.3510.00003
ORF1ab/nsp3641L641LttGttA12B.1.3510.00003
ORF1ab/nsp3641L641FttGttT22B.1.4290.000047
ORF1ab/nsp3641L641LttGttA22B.1.5260.000047
ORF1ab/nsp3641L641LttGttA22B.1.5960.000174
ORF1ab/nsp3641L641LttGttA22B.1.9.50.011364
ORF1ab/nsp3641L641delTTG---22P.10.000032
ORF1ab/nsp3641L641LttGttA11A0.000387
ORF1ab/nsp3641L641LttGttA11A.10.000282
ORF1ab/nsp3641L641delTTG---11A.2.20.001689
ORF1ab/nsp3641L641WtTgtGg11All0
ORF1ab/nsp3641L641ITtGAtT11All0
ORF1ab/nsp3641L641FttGttC11AW.10.003049
ORF1ab/nsp3641L641FttGttT11AY.1000.000046
ORF1ab/nsp3641L641delTTG---11AY.1000.000046
ORF1ab/nsp3641L641FttGttT11AY.1030.000006
ORF1ab/nsp3641L641LttGttA11AY.1140.000231
ORF1ab/nsp3641L641LttGttA11AY.1170.000085
ORF1ab/nsp3641L641del2TTGC--11AY.1190.000035
ORF1ab/nsp3641L641del2tTGt--11AY.1200.000037
ORF1ab/nsp3641L641delTTG---11AY.1200.000037
ORF1ab/nsp3641L641del1ttGtt-11AY.120.10.000321
ORF1ab/nsp3641L641LttGttA11AY.200.000039
ORF1ab/nsp3641L641LttGttA11AY.240.000431
ORF1ab/nsp3641L641LttGttA11AY.260.000028
ORF1ab/nsp3641L641delTTG---11AY.360.000148
ORF1ab/nsp3641L641LttGttA11AY.380.000499
ORF1ab/nsp3641L641FttGttC11AY.390.000025
ORF1ab/nsp3641L641LttGttA11AY.39.10.00004
ORF1ab/nsp3641L641XtTgtAg11AY.39.20.001541
ORF1ab/nsp3641L641VTtgGtg11AY.39.20.001541
ORF1ab/nsp3641L641MTtgAtg11AY.40.000002
ORF1ab/nsp3641L641FttGttT11AY.4.20.000022
ORF1ab/nsp3641L641delTTG---11AY.4.50.000107
ORF1ab/nsp3641L641FttGttT11AY.4.50.000107
ORF1ab/nsp3641L641LttGttA11AY.410.000294
ORF1ab/nsp3641L641XtTgtAg11AY.420.00004
ORF1ab/nsp3641L641delTTG---11AY.430.000004
ORF1ab/nsp3641L641WtTgtGg11AY.440.000006
ORF1ab/nsp3641L641delTTG---11AY.440.000006
ORF1ab/nsp3641L641LttGttA11AY.450.000122
ORF1ab/nsp3641L641FttGttT11AY.460.000104
ORF1ab/nsp3641L641LttGttA11AY.470.000031
ORF1ab/nsp3641L641LttGttA11AY.50.000021
ORF1ab/nsp3641L641delTTG---11AY.50.000021
ORF1ab/nsp3641L641LTtgCtg11AY.500.000799
ORF1ab/nsp3641L641LttGttA11AY.540.000095
ORF1ab/nsp3641L641FttGttT11AY.540.000095
ORF1ab/nsp3641L641LttGttA11AY.550.000917
ORF1ab/nsp3641L641LTtgCtg11AY.590.00053
ORF1ab/nsp3641L641LttGttA11AY.60.000041
ORF1ab/nsp3641L641delTTG---11AY.670.000464
ORF1ab/nsp3641L641FttGttT11AY.7.10.000113
ORF1ab/nsp3641L641delTTG---11AY.720.001361
ORF1ab/nsp3641L641del1ttGtt-11AY.9.20.000037
ORF1ab/nsp3641L641delTTG---11AY.990.001049
ORF1ab/nsp3641L641delTTG---11B0.000128
ORF1ab/nsp3641L641StTgtCg11B.1.10.000018
ORF1ab/nsp3641L641delTTG---11B.1.1.1420.017544
ORF1ab/nsp3641L641LTtgCtg11B.1.1.2160.00089
ORF1ab/nsp3641L641LTtgCtg11B.1.1.2200.001859
ORF1ab/nsp3641L641FttGttT11B.1.1.2940.001266
ORF1ab/nsp3641L641LttGttA11B.1.1.2980.000862
ORF1ab/nsp3641L641FttGttT11B.1.1.390.00051
ORF1ab/nsp3641L641delTTG---11B.1.1.4090.002833
ORF1ab/nsp3641L641LttGttA11B.1.1.4090.002833
ORF1ab/nsp3641L641delTTG---11B.1.1.5190.00004
ORF1ab/nsp3641L641LTtgCtg11B.1.1.530.013699
ORF1ab/nsp3641L641del2TTg--g11B.1.1.70.000001
ORF1ab/nsp3641L641delTTG---11B.1.1.700.000341
ORF1ab/nsp3641L641delTTG---11B.1.1570.002985
ORF1ab/nsp3641L641delTTG---11B.1.160.70.002079
ORF1ab/nsp3641L641delTTG---11B.1.1770.000013
ORF1ab/nsp3641L641MTtgAtg11B.1.177.40.000211
ORF1ab/nsp3641L641delTTG---11B.1.177.630.002703
ORF1ab/nsp3641L641delTTG---11B.1.177.690.001484
ORF1ab/nsp3641L641LTtgCtg11B.1.177.70.000165
ORF1ab/nsp3641L641FttGttT11B.1.177.730.000566
ORF1ab/nsp3641L641delTTG---11B.1.177.810.000189
ORF1ab/nsp3641L641LTtgCtg11B.1.177.860.000183
ORF1ab/nsp3641L641delTTG---11B.1.177.870.000728
ORF1ab/nsp3641L641LTtgCtg11B.1.2060.000816
ORF1ab/nsp3641L641FttGttT11B.1.2100.002132
ORF1ab/nsp3641L641ITtGAtT11B.1.2210.000071
ORF1ab/nsp3641L641MTtgAtg11B.1.2210.000071
ORF1ab/nsp3641L641FttGttT11B.1.2580.000067
ORF1ab/nsp3641L641LttGttA11B.1.258.230.02381
ORF1ab/nsp3641L641LttGttA11B.1.3110.000275
ORF1ab/nsp3641L641delTTG---11B.1.3190.003049
ORF1ab/nsp3641L641LttGttA11B.1.3460.001311
ORF1ab/nsp3641L641LttGttA11B.1.351.50.0006
ORF1ab/nsp3641L641delTTG---11B.1.360.000146
ORF1ab/nsp3641L641FttGttT11B.1.36.160.001425
ORF1ab/nsp3641L641del1Ttg-tg11B.1.36.170.000494
ORF1ab/nsp3641L641LTtgCtg11B.1.3690.000285
ORF1ab/nsp3641L641LttGttA11B.1.4220.000812
ORF1ab/nsp3641L641LTtgCtg11B.1.4270.00005
ORF1ab/nsp3641L641StTgtCg11B.1.4290.000024
ORF1ab/nsp3641L641LttGttA11B.1.4590.004082
ORF1ab/nsp3641L641FttGttT11B.1.5240.001406
ORF1ab/nsp3641L641VTtgGtg11B.1.5260.000024
ORF1ab/nsp3641L641LttGttA11B.1.5740.002151
ORF1ab/nsp3641L641FttGttT11B.1.5960.000087
ORF1ab/nsp3641L641FttGttT11B.1.617.20.000004
ORF1ab/nsp3641L641delTTG---11B.1.6210.000089
ORF1ab/nsp3641L641LttGttA11B.1.6210.000089
ORF1ab/nsp3641L641FttGttT11B.1.621.10.000506
ORF1ab/nsp3641L641FttGttT11B.1.6230.000536
ORF1ab/nsp3641L641delTTG---11B.150.017544
ORF1ab/nsp3641L641FttGttC11D.20.000075
ORF1ab/nsp3641L641FttGttT11P.1.160.000374
ORF1ab/nsp3641L641LttGttA11P.20.000187
ORF1ab/nsp3641L641LTtgCtg11P.60.003145
ORF1ab/nsp3641L641FttGttT11Q.20.000613
ORF1ab/nsp3641L641FttGttT11Q.40.000455
ORF1ab/nsp3641L641LttGttA11R.10.00009
ORF1ab/nsp3641L641delTTG---11U.30.003861

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.