CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp9 : CodonNum = 11

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/nsp911Q11HQ4151HnonsyncaGcaT15959159460.99918512716-12718
ORF1ab/nsp911Q11HQ4151HnonsyncaGcaC15959130.00081458712716-12718
ORF1ab/nsp911Q11QQ4151QsyncaGcaA306306112716-12718
ORF1ab/nsp911Q11RQ4151RnonsyncAgcGg1421410.99295812716-12718
ORF1ab/nsp911Q11RQ4151RnonsyncAGcGT14210.0070422512716-12718
ORF1ab/nsp911Q11delQ4151deldelCAG---2727112716-12718
ORF1ab/nsp911Q11XQ4151XnonsynCagTag77112716-12718
ORF1ab/nsp911Q11KQ4151KnonsynCagAag650.83333312716-12718
ORF1ab/nsp911Q11KQ4151KnonsynCaGAaA610.16666712716-12718
ORF1ab/nsp911Q11LQ4151LnonsyncAgcTg22112716-12718
ORF1ab/nsp911Q11del2Q4151del2delcAGc--22112716-12718
ORF1ab/nsp911Q11del1Q4151del1delcaGca-210.512716-12718
ORF1ab/nsp911Q11del1Q4151del1delcAGc-N210.512716-12718
ORF1ab/nsp911Q11PQ4151PnonsyncAgcCg11112716-12718
ORF1ab/nsp911Q11NQ4151NnonsynCaGAaT11112716-12718

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/nsp911Q11HcaGcaT1594615959All0.00305
ORF1ab/nsp911Q11HcaGcaC1315959All0.000002
ORF1ab/nsp911Q11HcaGcaT86848684AY.7.10.978699
ORF1ab/nsp911Q11HcaGcaT50495051AY.70.989612
ORF1ab/nsp911Q11HcaGcaC25051AY.70.000392
ORF1ab/nsp911Q11HcaGcaT17281728AY.7.20.966443
ORF1ab/nsp911Q11QcaGcaA306306All0.000059
ORF1ab/nsp911Q11RcAgcGg141142All0.000027
ORF1ab/nsp911Q11RcAGcGT1142All0
ORF1ab/nsp911Q11HcaGcaT133133AY.420.005351
ORF1ab/nsp911Q11QcaGcaA8686AY.40.000134
ORF1ab/nsp911Q11HcaGcaT8484B.1.617.20.000316
ORF1ab/nsp911Q11QcaGcaA7474B.1.1.70.000066
ORF1ab/nsp911Q11RcAgcGg4344B.1.1.70.000038
ORF1ab/nsp911Q11RcAGcGT144B.1.1.70.000001
ORF1ab/nsp911Q11HcaGcaT3639AY.40.000056
ORF1ab/nsp911Q11HcaGcaC339AY.40.000005
ORF1ab/nsp911Q11RcAgcGg3838AY.40.000059
ORF1ab/nsp911Q11HcaGcaT3838AY.60.001563
ORF1ab/nsp911Q11delCAG---2727All0.000005
ORF1ab/nsp911Q11QcaGcaA1919AY.70.003724
ORF1ab/nsp911Q11HcaGcaT1717AY.110.022758
ORF1ab/nsp911Q11RcAgcGg1616B.1.5260.000376
ORF1ab/nsp911Q11QcaGcaA1212AY.250.000072
ORF1ab/nsp911Q11HcaGcaT1212AY.430.000053
ORF1ab/nsp911Q11HcaGcaT1212AY.50.000248
ORF1ab/nsp911Q11HcaGcaT1212AY.880.01061
ORF1ab/nsp911Q11QcaGcaA1212B.1.20.000106
ORF1ab/nsp911Q11HcaGcaT1111AY.1130.001566
ORF1ab/nsp911Q11HcaGcaT1010AY.1210.001353
ORF1ab/nsp911Q11HcaGcaT1010AY.250.00006
ORF1ab/nsp911Q11QcaGcaA1010B.1.6030.106383
ORF1ab/nsp911Q11QcaGcaA88B.1.617.20.00003
ORF1ab/nsp911Q11XCagTag77All0.000001
ORF1ab/nsp911Q11QcaGcaA77AY.420.000282
ORF1ab/nsp911Q11HcaGcaT77AY.840.003062
ORF1ab/nsp911Q11HcaGcaT67B.10.000055
ORF1ab/nsp911Q11HcaGcaC17B.10.000009
ORF1ab/nsp911Q11HcaGcaT67B.1.1.70.000005
ORF1ab/nsp911Q11HcaGcaC17B.1.1.70.000001
ORF1ab/nsp911Q11QcaGcaA77B.1.6210.00062
ORF1ab/nsp911Q11KCagAag56All0.000001
ORF1ab/nsp911Q11KCaGAaA16All0
ORF1ab/nsp911Q11HcaGcaT66AY.1110.001099
ORF1ab/nsp911Q11delCAG---66AY.250.000036
ORF1ab/nsp911Q11HcaGcaT66AY.30.00006
ORF1ab/nsp911Q11RcAgcGg66B.1.20.000053
ORF1ab/nsp911Q11HcaGcaT55AY.200.000194
ORF1ab/nsp911Q11QcaGcaA55AY.440.00003
ORF1ab/nsp911Q11RcAgcGg55AY.470.000156
ORF1ab/nsp911Q11RcAgcGg55AY.530.001438
ORF1ab/nsp911Q11HcaGcaT55AY.750.00028
ORF1ab/nsp911Q11QcaGcaA55B.1.1.4660.043478
ORF1ab/nsp911Q11QcaGcaA55B.1.5260.000118
ORF1ab/nsp911Q11RcAgcGg55B.1.617.20.000019
ORF1ab/nsp911Q11RcAgcGg44AY.1030.000025
ORF1ab/nsp911Q11HcaGcaT44AY.4.30.003367
ORF1ab/nsp911Q11HcaGcaT44AY.5.30.00135
ORF1ab/nsp911Q11HcaGcaT44AY.580.00363
ORF1ab/nsp911Q11QcaGcaA44AY.610.000419
ORF1ab/nsp911Q11delCAG---44B.1.1.70.000004
ORF1ab/nsp911Q11QcaGcaA44B.1.2430.000278
ORF1ab/nsp911Q11QcaGcaA44B.1.3510.000119
ORF1ab/nsp911Q11HcaGcaC23AY.1030.000012
ORF1ab/nsp911Q11HcaGcaT13AY.1030.000006
ORF1ab/nsp911Q11HcaGcaT33AY.1060.001005
ORF1ab/nsp911Q11HcaGcaT33AY.290.000047
ORF1ab/nsp911Q11HcaGcaT33AY.46.10.00308
ORF1ab/nsp911Q11HcaGcaT33AY.920.000862
ORF1ab/nsp911Q11QcaGcaA33B.1.1.5190.000119
ORF1ab/nsp911Q11XCagTag33B.1.20.000026
ORF1ab/nsp911Q11HcaGcaT33B.1.20.000026
ORF1ab/nsp911Q11QcaGcaA33B.1.617.10.000387
ORF1ab/nsp911Q11QcaGcaA220.111111
ORF1ab/nsp911Q11KCagAag120.055556
ORF1ab/nsp911Q11KCaGAaA120.055556
ORF1ab/nsp911Q11del2cAGc--22All0
ORF1ab/nsp911Q11LcAgcTg22All0
ORF1ab/nsp911Q11del1caGca-12All0
ORF1ab/nsp911Q11del1cAGc-N12All0
ORF1ab/nsp911Q11QcaGcaA22AY.1010.000981
ORF1ab/nsp911Q11HcaGcaT22AY.1020.000053
ORF1ab/nsp911Q11HcaGcaT22AY.1170.000169
ORF1ab/nsp911Q11HcaGcaT22AY.120.000632
ORF1ab/nsp911Q11QcaGcaA22AY.290.000032
ORF1ab/nsp911Q11QcaGcaA22AY.4.2.10.000298
ORF1ab/nsp911Q11RcAgcGg22AY.420.00008
ORF1ab/nsp911Q11HcaGcaT22AY.450.000243
ORF1ab/nsp911Q11HcaGcaT22AY.46.60.000144
ORF1ab/nsp911Q11HcaGcaT22AY.490.00639
ORF1ab/nsp911Q11HcaGcaT22AY.560.00321
ORF1ab/nsp911Q11HcaGcaT22AY.640.00119
ORF1ab/nsp911Q11QcaGcaA22AY.900.001369
ORF1ab/nsp911Q11HcaGcaT22AY.980.000158
ORF1ab/nsp911Q11HcaGcaT22AY.99.10.003106
ORF1ab/nsp911Q11RcAgcGg22B.1.10.000036
ORF1ab/nsp911Q11QcaGcaA22B.1.1.3030.005525
ORF1ab/nsp911Q11RcAgcGg22B.1.1.4340.000697
ORF1ab/nsp911Q11RcAgcGg22B.1.1.700.000682
ORF1ab/nsp911Q11HcaGcaT22B.1.4270.000101
ORF1ab/nsp911Q11QcaGcaA22B.1.5250.000226
ORF1ab/nsp911Q11XCagTag22B.1.5960.000174
ORF1ab/nsp911Q11QcaGcaA22D.20.00015
ORF1ab/nsp911Q11QcaGcaA22N.50.003534
ORF1ab/nsp911Q11XCagTag11A.2.20.001689
ORF1ab/nsp911Q11NCaGAaT11All0
ORF1ab/nsp911Q11PcAgcCg11All0
ORF1ab/nsp911Q11HcaGcaT11AY.1000.000046
ORF1ab/nsp911Q11RcAgcGg11AY.1020.000027
ORF1ab/nsp911Q11QcaGcaA11AY.1020.000027
ORF1ab/nsp911Q11QcaGcaA11AY.1030.000006
ORF1ab/nsp911Q11delCAG---11AY.1110.000183
ORF1ab/nsp911Q11RcAgcGg11AY.1160.000287
ORF1ab/nsp911Q11RcAgcGg11AY.1190.000035
ORF1ab/nsp911Q11HcaGcaT11AY.1190.000035
ORF1ab/nsp911Q11RcAgcGg11AY.1200.000037
ORF1ab/nsp911Q11RcAgcGg11AY.200.000039
ORF1ab/nsp911Q11HcaGcaT11AY.210.001898
ORF1ab/nsp911Q11QcaGcaA11AY.240.000431
ORF1ab/nsp911Q11del1cAGc-N11AY.250.000006
ORF1ab/nsp911Q11KCagAag11AY.290.000016
ORF1ab/nsp911Q11QcaGcaA11AY.30.00001
ORF1ab/nsp911Q11HcaGcaT11AY.330.000067
ORF1ab/nsp911Q11QcaGcaA11AY.360.000148
ORF1ab/nsp911Q11QcaGcaA11AY.370.000316
ORF1ab/nsp911Q11HcaGcaT11AY.380.000499
ORF1ab/nsp911Q11HcaGcaT11AY.390.000025
ORF1ab/nsp911Q11QcaGcaA11AY.39.10.00004
ORF1ab/nsp911Q11HcaGcaC11AY.4.20.000022
ORF1ab/nsp911Q11HcaGcaT11AY.400.000964
ORF1ab/nsp911Q11QcaGcaA11AY.430.000004
ORF1ab/nsp911Q11RcAgcGg11AY.430.000004
ORF1ab/nsp911Q11HcaGcaT11AY.440.000006
ORF1ab/nsp911Q11HcaGcaT11AY.460.000104
ORF1ab/nsp911Q11QcaGcaA11AY.5.30.000337
ORF1ab/nsp911Q11QcaGcaA11AY.540.000095
ORF1ab/nsp911Q11RcAgcGg11AY.670.000464
ORF1ab/nsp911Q11NCaGAaT11AY.670.000464
ORF1ab/nsp911Q11HcaGcaT11AY.690.000187
ORF1ab/nsp911Q11delCAG---11AY.70.000196
ORF1ab/nsp911Q11delCAG---11AY.750.000056
ORF1ab/nsp911Q11QcaGcaA11AY.75.10.00018
ORF1ab/nsp911Q11LcAgcTg11AY.9.20.000037
ORF1ab/nsp911Q11HcaGcaT11AY.900.000684
ORF1ab/nsp911Q11HcaGcaT11AY.950.000761
ORF1ab/nsp911Q11RcAgcGg11AY.980.000079
ORF1ab/nsp911Q11HcaGcaT11AY.98.10.000048
ORF1ab/nsp911Q11RcAgcGg11AY.98.10.000048
ORF1ab/nsp911Q11delCAG---11AY.990.001049
ORF1ab/nsp911Q11HcaGcaT11AY.990.001049
ORF1ab/nsp911Q11HcaGcaT11B0.000128
ORF1ab/nsp911Q11delCAG---11B0.000128
ORF1ab/nsp911Q11QcaGcaA11B.10.000009
ORF1ab/nsp911Q11KCagAag11B.10.000009
ORF1ab/nsp911Q11PcAgcCg11B.10.000009
ORF1ab/nsp911Q11delCAG---11B.1.10.000018
ORF1ab/nsp911Q11XCagTag11B.1.10.000018
ORF1ab/nsp911Q11QcaGcaA11B.1.10.000018
ORF1ab/nsp911Q11delCAG---11B.1.1.1390.022727
ORF1ab/nsp911Q11QcaGcaA11B.1.1.2140.000055
ORF1ab/nsp911Q11HcaGcaT11B.1.1.2220.000204
ORF1ab/nsp911Q11delCAG---11B.1.1.280.000311
ORF1ab/nsp911Q11QcaGcaA11B.1.1.2860.002899
ORF1ab/nsp911Q11QcaGcaA11B.1.1.3110.000358
ORF1ab/nsp911Q11QcaGcaA11B.1.1.3180.000302
ORF1ab/nsp911Q11delCAG---11B.1.1.3480.000796
ORF1ab/nsp911Q11KCagAag11B.1.1.5190.00004
ORF1ab/nsp911Q11QcaGcaA11B.1.1.630.000386
ORF1ab/nsp911Q11HcaGcaC11B.1.1260.001276
ORF1ab/nsp911Q11HcaGcaT11B.1.177.820.000477
ORF1ab/nsp911Q11del2cAGc--11B.1.20.000009
ORF1ab/nsp911Q11delCAG---11B.1.20.000009
ORF1ab/nsp911Q11del2cAGc--11B.1.2400.000216
ORF1ab/nsp911Q11HcaGcaC11B.1.2580.000067
ORF1ab/nsp911Q11delCAG---11B.1.2580.000067
ORF1ab/nsp911Q11HcaGcaT11B.1.4090.000781
ORF1ab/nsp911Q11RcAgcGg11B.1.4270.00005
ORF1ab/nsp911Q11HcaGcaT11B.1.4970.000315
ORF1ab/nsp911Q11QcaGcaA11B.1.5170.000427
ORF1ab/nsp911Q11HcaGcaC11B.1.5870.001898
ORF1ab/nsp911Q11delCAG---11B.1.5950.000261
ORF1ab/nsp911Q11del1caGca-11B.1.617.10.000129
ORF1ab/nsp911Q11KCagAag11B.1.617.20.000004
ORF1ab/nsp911Q11delCAG---11B.1.617.20.000004
ORF1ab/nsp911Q11delCAG---11C.360.000911
ORF1ab/nsp911Q11delCAG---11N.40.004255
ORF1ab/nsp911Q11QcaGcaA11P.10.000016
ORF1ab/nsp911Q11RcAgcGg11P.10.000016
ORF1ab/nsp911Q11delCAG---11P.1.10.000318
ORF1ab/nsp911Q11LcAgcTg11Q.10.000126
ORF1ab/nsp911Q11delCAG---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.