CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp7 : CodonNum = 42

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/nsp742A42VA3901VnonsyngCtgTt933933111966-11968
ORF1ab/nsp742A42SA3901SnonsynGctTct8888111966-11968
ORF1ab/nsp742A42TA3901TnonsynGctAct79760.96202511966-11968
ORF1ab/nsp742A42TA3901TnonsynGcTAcC7930.037974711966-11968
ORF1ab/nsp742A42AA3901AsyngcTgcC78710.91025611966-11968
ORF1ab/nsp742A42AA3901AsyngcTgcA7850.064102611966-11968
ORF1ab/nsp742A42AA3901AsyngcTgcG7820.02564111966-11968
ORF1ab/nsp742A42delA3901deldelGCT---1212111966-11968
ORF1ab/nsp742A42GA3901GnonsyngCtgGt99111966-11968
ORF1ab/nsp742A42DA3901DnonsyngCtgAt88111966-11968
ORF1ab/nsp742A42NA3901NnonsynGCtAAt11111966-11968
ORF1ab/nsp742A42PA3901PnonsynGctCct11111966-11968
ORF1ab/nsp742A42del2A3901del2delGCT--G11111966-11968

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/nsp742A42VgCtgTt933933All0.000178
ORF1ab/nsp742A42VgCtgTt211211AM.40.753571
ORF1ab/nsp742A42VgCtgTt188188AY.250.001131
ORF1ab/nsp742A42SGctTct8888All0.000017
ORF1ab/nsp742A42VgCtgTt8383B.1.1.70.000074
ORF1ab/nsp742A42TGctAct7679All0.000015
ORF1ab/nsp742A42TGcTAcC379All0.000001
ORF1ab/nsp742A42AgcTgcC7178All0.000014
ORF1ab/nsp742A42AgcTgcA578All0.000001
ORF1ab/nsp742A42AgcTgcG278All0
ORF1ab/nsp742A42VgCtgTt7878B.1.2340.010292
ORF1ab/nsp742A42SGctTct4444B.1.1.70.000039
ORF1ab/nsp742A42VgCtgTt4242B.10.000385
ORF1ab/nsp742A42VgCtgTt3939B.1.1.4031
ORF1ab/nsp742A42VgCtgTt2727B.1.20.000238
ORF1ab/nsp742A42VgCtgTt2424B.1.4270.001212
ORF1ab/nsp742A42VgCtgTt1919AY.430.000084
ORF1ab/nsp742A42VgCtgTt1919B.1.1.500.012899
ORF1ab/nsp742A42AgcTgcC1616B.1.1.70.000014
ORF1ab/nsp742A42VgCtgTt1515B.1.258.140.014706
ORF1ab/nsp742A42VgCtgTt1414AY.410.004115
ORF1ab/nsp742A42VgCtgTt1313B.1.6210.001151
ORF1ab/nsp742A42delGCT---1212All0.000002
ORF1ab/nsp742A42VgCtgTt1212AY.40.000019
ORF1ab/nsp742A42VgCtgTt1212B.1.5960.001046
ORF1ab/nsp742A42VgCtgTt1212B.1.617.20.000045
ORF1ab/nsp742A42VgCtgTt1111B.1.4290.000259
ORF1ab/nsp742A42TGctAct1010B.1.1.70.000009
ORF1ab/nsp742A42GgCtgGt99All0.000002
ORF1ab/nsp742A42AgcTgcC89B.1.617.20.00003
ORF1ab/nsp742A42AgcTgcA19B.1.617.20.000004
ORF1ab/nsp742A42DgCtgAt88All0.000002
ORF1ab/nsp742A42TGctAct88B.10.000073
ORF1ab/nsp742A42VgCtgTt88B.1.177.830.011852
ORF1ab/nsp742A42SGctTct88B.1.617.20.00003
ORF1ab/nsp742A42AgcTgcC77AY.440.000043
ORF1ab/nsp742A42VgCtgTt77AY.440.000043
ORF1ab/nsp742A42VgCtgTt77B.1.214.10.14
ORF1ab/nsp742A42VgCtgTt77B.1.5260.000165
ORF1ab/nsp742A42SGctTct66AY.670.002786
ORF1ab/nsp742A42TGctAct66B.1.5260.000141
ORF1ab/nsp742A42VgCtgTt55AY.1030.000031
ORF1ab/nsp742A42VgCtgTt55AY.4.20.000108
ORF1ab/nsp742A42AgcTgcC55B.1.1.2140.000277
ORF1ab/nsp742A42TGctAct55B.1.1.5190.000199
ORF1ab/nsp742A42TGctAct55B.1.177.40.001055
ORF1ab/nsp742A42AgcTgcC55B.1.3510.000149
ORF1ab/nsp742A42TGctAct55Q.70.005556
ORF1ab/nsp742A42VgCtgTt44AY.1020.000106
ORF1ab/nsp742A42TGctAct44AY.40.000006
ORF1ab/nsp742A42AgcTgcC44AY.50.000083
ORF1ab/nsp742A42VgCtgTt44B.1.1.370.000771
ORF1ab/nsp742A42TGctAct44B.1.466.20.001565
ORF1ab/nsp742A42VgCtgTt44B.1.5770.002749
ORF1ab/nsp742A42AgcTgcC23AY.1030.000012
ORF1ab/nsp742A42AgcTgcA13AY.1030.000006
ORF1ab/nsp742A42VgCtgTt33AY.120.000948
ORF1ab/nsp742A42VgCtgTt33AY.130.000483
ORF1ab/nsp742A42VgCtgTt33AY.260.000085
ORF1ab/nsp742A42AgcTgcC33AY.30.00003
ORF1ab/nsp742A42SGctTct33AY.40.000005
ORF1ab/nsp742A42DgCtgAt33AY.440.000018
ORF1ab/nsp742A42AgcTgcC33B.10.000027
ORF1ab/nsp742A42VgCtgTt33B.1.177.810.000568
ORF1ab/nsp742A42TGctAct33B.1.5230.007353
ORF1ab/nsp742A42VgCtgTt33P.10.000047
ORF1ab/nsp742A42TGctAct33P.10.000047
ORF1ab/nsp742A42VgCtgTt220.111111
ORF1ab/nsp742A42TGcTAcC220.111111
ORF1ab/nsp742A42VgCtgTt22A.300.285714
ORF1ab/nsp742A42GgCtgGt22AY.1170.000169
ORF1ab/nsp742A42SGctTct22AY.230.000139
ORF1ab/nsp742A42TGctAct22AY.30.00002
ORF1ab/nsp742A42VgCtgTt22AY.30.00002
ORF1ab/nsp742A42TGctAct22AY.430.000009
ORF1ab/nsp742A42SGctTct22AY.430.000009
ORF1ab/nsp742A42AgcTgcC22AY.430.000009
ORF1ab/nsp742A42TGctAct22AY.46.60.000144
ORF1ab/nsp742A42TGctAct22AY.60.000082
ORF1ab/nsp742A42SGctTct22AY.750.000112
ORF1ab/nsp742A42SGctTct22B.10.000018
ORF1ab/nsp742A42VgCtgTt22B.1.10.000036
ORF1ab/nsp742A42SGctTct22B.1.1.630.000772
ORF1ab/nsp742A42VgCtgTt22B.1.177.120.000303
ORF1ab/nsp742A42VgCtgTt22B.1.2210.000142
ORF1ab/nsp742A42AgcTgcC22B.1.2220.003384
ORF1ab/nsp742A42VgCtgTt22B.1.3510.000059
ORF1ab/nsp742A42TGctAct22B.1.4290.000047
ORF1ab/nsp742A42VgCtgTt22D.20.00015
ORF1ab/nsp742A42TGctAct22R.10.00018
ORF1ab/nsp742A42AgcTgcA11A0.000387
ORF1ab/nsp742A42del2GCT--G11All0
ORF1ab/nsp742A42NGCtAAt11All0
ORF1ab/nsp742A42PGctCct11All0
ORF1ab/nsp742A42SGctTct11AY.1020.000027
ORF1ab/nsp742A42SGctTct11AY.1030.000006
ORF1ab/nsp742A42VgCtgTt11AY.1140.000231
ORF1ab/nsp742A42VgCtgTt11AY.116.10.000311
ORF1ab/nsp742A42VgCtgTt11AY.1190.000035
ORF1ab/nsp742A42SGctTct11AY.1200.000037
ORF1ab/nsp742A42TGctAct11AY.140.000088
ORF1ab/nsp742A42SGctTct11AY.160.00038
ORF1ab/nsp742A42del2GCT--G11AY.200.000039
ORF1ab/nsp742A42AgcTgcC11AY.200.000039
ORF1ab/nsp742A42AgcTgcG11AY.230.00007
ORF1ab/nsp742A42SGctTct11AY.250.000006
ORF1ab/nsp742A42DgCtgAt11AY.250.000006
ORF1ab/nsp742A42delGCT---11AY.30.00001
ORF1ab/nsp742A42SGctTct11AY.30.00001
ORF1ab/nsp742A42VgCtgTt11AY.390.000025
ORF1ab/nsp742A42SGctTct11AY.390.000025
ORF1ab/nsp742A42TGctAct11AY.390.000025
ORF1ab/nsp742A42GgCtgGt11AY.40.000002
ORF1ab/nsp742A42AgcTgcC11AY.40.000002
ORF1ab/nsp742A42AgcTgcC11AY.4.20.000022
ORF1ab/nsp742A42TGctAct11AY.4.20.000022
ORF1ab/nsp742A42delGCT---11AY.4.50.000107
ORF1ab/nsp742A42delGCT---11AY.430.000004
ORF1ab/nsp742A42NGCtAAt11AY.440.000006
ORF1ab/nsp742A42SGctTct11AY.440.000006
ORF1ab/nsp742A42AgcTgcC11AY.460.000104
ORF1ab/nsp742A42VgCtgTt11AY.460.000104
ORF1ab/nsp742A42TGctAct11AY.46.40.000165
ORF1ab/nsp742A42GgCtgGt11AY.490.003195
ORF1ab/nsp742A42AgcTgcC11AY.490.003195
ORF1ab/nsp742A42VgCtgTt11AY.540.000095
ORF1ab/nsp742A42VgCtgTt11AY.60.000041
ORF1ab/nsp742A42TGcTAcC11AY.690.000187
ORF1ab/nsp742A42SGctTct11AY.700.000209
ORF1ab/nsp742A42AgcTgcC11AY.75.10.00018
ORF1ab/nsp742A42GgCtgGt11AY.840.000437
ORF1ab/nsp742A42AgcTgcC11AY.90.000068
ORF1ab/nsp742A42VgCtgTt11AY.9.20.000037
ORF1ab/nsp742A42TGctAct11AY.99.20.000092
ORF1ab/nsp742A42GgCtgGt11B.10.000009
ORF1ab/nsp742A42delGCT---11B.10.000009
ORF1ab/nsp742A42AgcTgcA11B.1.10.000018
ORF1ab/nsp742A42TGctAct11B.1.10.000018
ORF1ab/nsp742A42GgCtgGt11B.1.10.000018
ORF1ab/nsp742A42VgCtgTt11B.1.1.10.000327
ORF1ab/nsp742A42DgCtgAt11B.1.1.1610.003534
ORF1ab/nsp742A42SGctTct11B.1.1.1640.005155
ORF1ab/nsp742A42SGctTct11B.1.1.1740.003378
ORF1ab/nsp742A42VgCtgTt11B.1.1.2320.001815
ORF1ab/nsp742A42VgCtgTt11B.1.1.2400.004695
ORF1ab/nsp742A42VgCtgTt11B.1.1.3170.000412
ORF1ab/nsp742A42VgCtgTt11B.1.1.330.000421
ORF1ab/nsp742A42SGctTct11B.1.1.3370.003597
ORF1ab/nsp742A42delGCT---11B.1.1.4480.002033
ORF1ab/nsp742A42AgcTgcC11B.1.1.460.004367
ORF1ab/nsp742A42AgcTgcC11B.1.1.50.008333
ORF1ab/nsp742A42GgCtgGt11B.1.1.70.000001
ORF1ab/nsp742A42delGCT---11B.1.1.70.000001
ORF1ab/nsp742A42SGctTct11B.1.1570.002985
ORF1ab/nsp742A42VgCtgTt11B.1.160.300.002976
ORF1ab/nsp742A42VgCtgTt11B.1.1770.000013
ORF1ab/nsp742A42AgcTgcC11B.1.1770.000013
ORF1ab/nsp742A42AgcTgcA11B.1.177.210.000076
ORF1ab/nsp742A42TGctAct11B.1.177.210.000076
ORF1ab/nsp742A42SGctTct11B.1.177.350.000691
ORF1ab/nsp742A42VgCtgTt11B.1.177.420.000894
ORF1ab/nsp742A42VgCtgTt11B.1.177.540.000606
ORF1ab/nsp742A42SGctTct11B.1.177.820.000477
ORF1ab/nsp742A42SGctTct11B.1.20.000009
ORF1ab/nsp742A42DgCtgAt11B.1.20.000009
ORF1ab/nsp742A42delGCT---11B.1.20.000009
ORF1ab/nsp742A42VgCtgTt11B.1.2230.002778
ORF1ab/nsp742A42VgCtgTt11B.1.230.006061
ORF1ab/nsp742A42VgCtgTt11B.1.2580.000067
ORF1ab/nsp742A42VgCtgTt11B.1.258.170.000104
ORF1ab/nsp742A42delGCT---11B.1.258.30.001675
ORF1ab/nsp742A42TGctAct11B.1.3240.001605
ORF1ab/nsp742A42AgcTgcG11B.1.3320.003497
ORF1ab/nsp742A42DgCtgAt11B.1.3510.00003
ORF1ab/nsp742A42VgCtgTt11B.1.36.170.000494
ORF1ab/nsp742A42VgCtgTt11B.1.36.390.002217
ORF1ab/nsp742A42DgCtgAt11B.1.3620.001541
ORF1ab/nsp742A42VgCtgTt11B.1.3660.004878
ORF1ab/nsp742A42VgCtgTt11B.1.3670.000792
ORF1ab/nsp742A42VgCtgTt11B.1.3690.000285
ORF1ab/nsp742A42delGCT---11B.1.3720.010989
ORF1ab/nsp742A42delGCT---11B.1.4150.014286
ORF1ab/nsp742A42AgcTgcC11B.1.4270.00005
ORF1ab/nsp742A42AgcTgcC11B.1.4290.000024
ORF1ab/nsp742A42VgCtgTt11B.1.438.10.000107
ORF1ab/nsp742A42TGctAct11B.1.5210.004975
ORF1ab/nsp742A42AgcTgcC11B.1.5950.000261
ORF1ab/nsp742A42SGctTct11B.1.5960.000087
ORF1ab/nsp742A42AgcTgcC11B.1.617.10.000129
ORF1ab/nsp742A42GgCtgGt11B.1.617.20.000004
ORF1ab/nsp742A42PGctCct11B.1.617.20.000004
ORF1ab/nsp742A42TGctAct11B.1.617.20.000004
ORF1ab/nsp742A42delGCT---11B.1.617.20.000004
ORF1ab/nsp742A42VgCtgTt11B.1.6230.000536
ORF1ab/nsp742A42VgCtgTt11B.1.6370.000073
ORF1ab/nsp742A42VgCtgTt11B.230.002924
ORF1ab/nsp742A42VgCtgTt11B.6.60.000889
ORF1ab/nsp742A42VgCtgTt11C.36.30.000567
ORF1ab/nsp742A42TGctAct11D.20.000075
ORF1ab/nsp742A42delGCT---11N.40.004255

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.