CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp7 : CodonNum = 44

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/nsp744D44DD3903DsyngaTgaC19131913111972-11974
ORF1ab/nsp744D44AD3903AnonsyngAtgCt969969111972-11974
ORF1ab/nsp744D44GD3903GnonsyngAtgGt172172111972-11974
ORF1ab/nsp744D44ND3903NnonsynGatAat24220.91666711972-11974
ORF1ab/nsp744D44ND3903NnonsynGaTAaC2420.083333311972-11974
ORF1ab/nsp744D44delD3903deldelGAT---1212111972-11974
ORF1ab/nsp744D44HD3903HnonsynGatCat77111972-11974
ORF1ab/nsp744D44YD3903YnonsynGatTat77111972-11974
ORF1ab/nsp744D44TD3903TnonsynGATACC420.511972-11974
ORF1ab/nsp744D44TD3903TnonsynGAtACt420.511972-11974
ORF1ab/nsp744D44ED3903EnonsyngaTgaG22111972-11974
ORF1ab/nsp744D44VD3903VnonsyngAtgTt22111972-11974
ORF1ab/nsp744D44RD3903RnonsynGAtCGt22111972-11974
ORF1ab/nsp744D44del1D3903del1delgAtg-t210.511972-11974
ORF1ab/nsp744D44del1D3903del1delGat-at210.511972-11974
ORF1ab/nsp744D44SD3903SnonsynGAtAGt11111972-11974

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/nsp744D44DgaTgaC19131913All0.000366
ORF1ab/nsp744D44AgAtgCt969969All0.000185
ORF1ab/nsp744D44AgAtgCt959959AY.1030.005954
ORF1ab/nsp744D44DgaTgaC431431B.1.1.70.000386
ORF1ab/nsp744D44DgaTgaC213213B.1.10.003864
ORF1ab/nsp744D44DgaTgaC206206B.1.258.140.201961
ORF1ab/nsp744D44DgaTgaC202202AY.250.001215
ORF1ab/nsp744D44DgaTgaC191191AY.440.001163
ORF1ab/nsp744D44GgAtgGt172172All0.000033
ORF1ab/nsp744D44DgaTgaC148148B.1.160.221
ORF1ab/nsp744D44GgAtgGt8585B.1.5750.025789
ORF1ab/nsp744D44DgaTgaC4646AY.130.007405
ORF1ab/nsp744D44DgaTgaC4141AY.1030.000255
ORF1ab/nsp744D44DgaTgaC3737B.1.617.20.000139
ORF1ab/nsp744D44DgaTgaC3434B.10.000311
ORF1ab/nsp744D44DgaTgaC3434B.1.1.4490.772727
ORF1ab/nsp744D44DgaTgaC2727AY.40.000042
ORF1ab/nsp744D44GgAtgGt2727AY.440.000164
ORF1ab/nsp744D44DgaTgaC2727P.10.000425
ORF1ab/nsp744D44NGatAat2224All0.000004
ORF1ab/nsp744D44NGaTAaC224All0
ORF1ab/nsp744D44DgaTgaC2222AY.260.000623
ORF1ab/nsp744D44DgaTgaC2020B.1.20.000176
ORF1ab/nsp744D44DgaTgaC1919AY.430.000084
ORF1ab/nsp744D44DgaTgaC1818AY.1200.000669
ORF1ab/nsp744D44DgaTgaC1717AY.4.10.012537
ORF1ab/nsp744D44delGAT---1212All0.000002
ORF1ab/nsp744D44DgaTgaC99B.1.1.370.001736
ORF1ab/nsp744D44GgAtgGt99B.1.2130.134328
ORF1ab/nsp744D44DgaTgaC99B.1.3240.014446
ORF1ab/nsp744D44DgaTgaC88AY.50.000165
ORF1ab/nsp744D44DgaTgaC88B.1.1600.00025
ORF1ab/nsp744D44AgAtgCt88B.1.617.20.00003
ORF1ab/nsp744D44HGatCat77All0.000001
ORF1ab/nsp744D44YGatTat77All0.000001
ORF1ab/nsp744D44DgaTgaC77AY.200.000272
ORF1ab/nsp744D44GgAtgGt77B.1.1.70.000006
ORF1ab/nsp744D44GgAtgGt66AY.40.000009
ORF1ab/nsp744D44GgAtgGt66P.10.000095
ORF1ab/nsp744D44DgaTgaC55AY.390.000124
ORF1ab/nsp744D44DgaTgaC55B.1.1770.000066
ORF1ab/nsp744D44DgaTgaC55B.1.258.30.008375
ORF1ab/nsp744D44TGAtACt240.111111
ORF1ab/nsp744D44NGatAat240.111111
ORF1ab/nsp744D44NGaTAaC240.111111
ORF1ab/nsp744D44TGATACC240.111111
ORF1ab/nsp744D44TGATACC24All0
ORF1ab/nsp744D44TGAtACt24All0
ORF1ab/nsp744D44DgaTgaC44AY.1190.000141
ORF1ab/nsp744D44DgaTgaC44AY.30.00004
ORF1ab/nsp744D44DgaTgaC44AY.460.000416
ORF1ab/nsp744D44GgAtgGt44B.10.000037
ORF1ab/nsp744D44GgAtgGt44B.1.20.000035
ORF1ab/nsp744D44DgaTgaC44B.1.4290.000094
ORF1ab/nsp744D44DgaTgaC33AY.1020.00008
ORF1ab/nsp744D44DgaTgaC33AY.1160.00086
ORF1ab/nsp744D44DgaTgaC33AY.750.000168
ORF1ab/nsp744D44DgaTgaC33B.1.1.5140.115385
ORF1ab/nsp744D44NGatAat33B.1.1.70.000003
ORF1ab/nsp744D44NGatAat33B.1.20.000026
ORF1ab/nsp744D44DgaTgaC33B.1.3510.000089
ORF1ab/nsp744D44DgaTgaC33B.1.4160.003807
ORF1ab/nsp744D44DgaTgaC33B.1.4270.000151
ORF1ab/nsp744D44GgAtgGt33B.1.5260.000071
ORF1ab/nsp744D44GgAtgGt33B.1.617.20.000011
ORF1ab/nsp744D44DgaTgaC33B.1.9.40.018405
ORF1ab/nsp744D44DgaTgaC33C.1.20.012766
ORF1ab/nsp744D44RGAtCGt220.111111
ORF1ab/nsp744D44EgaTgaG22All0
ORF1ab/nsp744D44RGAtCGt22All0
ORF1ab/nsp744D44VgAtgTt22All0
ORF1ab/nsp744D44del1Gat-at12All0
ORF1ab/nsp744D44del1gAtg-t12All0
ORF1ab/nsp744D44GgAtgGt22AY.1030.000012
ORF1ab/nsp744D44DgaTgaC22AY.116.10.000623
ORF1ab/nsp744D44GgAtgGt22AY.250.000012
ORF1ab/nsp744D44DgaTgaC22AY.270.000129
ORF1ab/nsp744D44GgAtgGt22AY.390.000049
ORF1ab/nsp744D44DgaTgaC22AY.540.000191
ORF1ab/nsp744D44DgaTgaC22AY.60.000082
ORF1ab/nsp744D44DgaTgaC22AY.610.00021
ORF1ab/nsp744D44GgAtgGt22AY.750.000112
ORF1ab/nsp744D44VgAtgTt22B.1.10.000036
ORF1ab/nsp744D44DgaTgaC22B.1.1.2200.003717
ORF1ab/nsp744D44DgaTgaC22B.1.1.3880.090909
ORF1ab/nsp744D44DgaTgaC22B.1.1.390.001019
ORF1ab/nsp744D44DgaTgaC22B.1.1.4090.005666
ORF1ab/nsp744D44DgaTgaC22B.1.1.530.027397
ORF1ab/nsp744D44HGatCat22B.1.1.70.000002
ORF1ab/nsp744D44GgAtgGt22B.1.1600.000062
ORF1ab/nsp744D44DgaTgaC22B.1.177.190.002861
ORF1ab/nsp744D44DgaTgaC22B.1.177.40.000422
ORF1ab/nsp744D44DgaTgaC22B.1.177.730.001133
ORF1ab/nsp744D44DgaTgaC22B.1.2580.000133
ORF1ab/nsp744D44DgaTgaC22Q.50.033898
ORF1ab/nsp744D44DgaTgaC22Q.80.00033
ORF1ab/nsp744D44DgaTgaC11A.20.000662
ORF1ab/nsp744D44SGAtAGt11All0
ORF1ab/nsp744D44GgAtgGt11AT.10.005128
ORF1ab/nsp744D44NGatAat11AY.100.00053
ORF1ab/nsp744D44DgaTgaC11AY.1060.000335
ORF1ab/nsp744D44DgaTgaC11AY.1130.000142
ORF1ab/nsp744D44GgAtgGt11AY.1190.000035
ORF1ab/nsp744D44AgAtgCt11AY.1190.000035
ORF1ab/nsp744D44NGatAat11AY.130.000161
ORF1ab/nsp744D44DgaTgaC11AY.16.10.00047
ORF1ab/nsp744D44NGatAat11AY.200.000039
ORF1ab/nsp744D44DgaTgaC11AY.23.10.000417
ORF1ab/nsp744D44YGatTat11AY.250.000006
ORF1ab/nsp744D44NGatAat11AY.250.000006
ORF1ab/nsp744D44HGatCat11AY.40.000002
ORF1ab/nsp744D44NGatAat11AY.40.000002
ORF1ab/nsp744D44DgaTgaC11AY.4.20.000022
ORF1ab/nsp744D44DgaTgaC11AY.4.2.10.000149
ORF1ab/nsp744D44delGAT---11AY.4.50.000107
ORF1ab/nsp744D44GgAtgGt11AY.430.000004
ORF1ab/nsp744D44AgAtgCt11AY.430.000004
ORF1ab/nsp744D44delGAT---11AY.430.000004
ORF1ab/nsp744D44HGatCat11AY.430.000004
ORF1ab/nsp744D44del1Gat-at11AY.440.000006
ORF1ab/nsp744D44SGAtAGt11AY.440.000006
ORF1ab/nsp744D44YGatTat11AY.440.000006
ORF1ab/nsp744D44GgAtgGt11AY.5.40.000277
ORF1ab/nsp744D44EgaTgaG11AY.520.000814
ORF1ab/nsp744D44GgAtgGt11AY.60.000041
ORF1ab/nsp744D44DgaTgaC11AY.630.000387
ORF1ab/nsp744D44DgaTgaC11AY.640.000595
ORF1ab/nsp744D44HGatCat11AY.790.001211
ORF1ab/nsp744D44DgaTgaC11AY.840.000437
ORF1ab/nsp744D44DgaTgaC11AY.9.10.000084
ORF1ab/nsp744D44NGatAat11AY.9.10.000084
ORF1ab/nsp744D44DgaTgaC11AY.900.000684
ORF1ab/nsp744D44DgaTgaC11AY.980.000079
ORF1ab/nsp744D44YGatTat11B.10.000009
ORF1ab/nsp744D44delGAT---11B.10.000009
ORF1ab/nsp744D44EgaTgaG11B.10.000009
ORF1ab/nsp744D44DgaTgaC11B.1.1.1340.011364
ORF1ab/nsp744D44YGatTat11B.1.1.250.000569
ORF1ab/nsp744D44DgaTgaC11B.1.1.2770.000759
ORF1ab/nsp744D44DgaTgaC11B.1.1.2820.011628
ORF1ab/nsp744D44DgaTgaC11B.1.1.2840.000107
ORF1ab/nsp744D44DgaTgaC11B.1.1.3390.010526
ORF1ab/nsp744D44DgaTgaC11B.1.1.3480.000796
ORF1ab/nsp744D44DgaTgaC11B.1.1.4190.007407
ORF1ab/nsp744D44DgaTgaC11B.1.1.4320.001266
ORF1ab/nsp744D44DgaTgaC11B.1.1.4380.05
ORF1ab/nsp744D44DgaTgaC11B.1.1.440.00241
ORF1ab/nsp744D44delGAT---11B.1.1.4480.002033
ORF1ab/nsp744D44DgaTgaC11B.1.1.5190.00004
ORF1ab/nsp744D44delGAT---11B.1.1.70.000001
ORF1ab/nsp744D44YGatTat11B.1.1.70.000001
ORF1ab/nsp744D44DgaTgaC11B.1.1110.001175
ORF1ab/nsp744D44NGatAat11B.1.1600.000031
ORF1ab/nsp744D44DgaTgaC11B.1.160.280.002924
ORF1ab/nsp744D44NGatAat11B.1.1770.000013
ORF1ab/nsp744D44DgaTgaC11B.1.177.150.000631
ORF1ab/nsp744D44DgaTgaC11B.1.177.210.000076
ORF1ab/nsp744D44DgaTgaC11B.1.177.70.000165
ORF1ab/nsp744D44NGatAat11B.1.177.70.000165
ORF1ab/nsp744D44DgaTgaC11B.1.177.770.000726
ORF1ab/nsp744D44GgAtgGt11B.1.177.810.000189
ORF1ab/nsp744D44HGatCat11B.1.20.000009
ORF1ab/nsp744D44delGAT---11B.1.20.000009
ORF1ab/nsp744D44DgaTgaC11B.1.214.20.0006
ORF1ab/nsp744D44DgaTgaC11B.1.2320.000537
ORF1ab/nsp744D44DgaTgaC11B.1.2340.000132
ORF1ab/nsp744D44DgaTgaC11B.1.2430.00007
ORF1ab/nsp744D44del1gAtg-t11B.1.2430.00007
ORF1ab/nsp744D44delGAT---11B.1.258.30.001675
ORF1ab/nsp744D44DgaTgaC11B.1.3490.000715
ORF1ab/nsp744D44DgaTgaC11B.1.36.100.004785
ORF1ab/nsp744D44NGatAat11B.1.36.380.001642
ORF1ab/nsp744D44delGAT---11B.1.3720.010989
ORF1ab/nsp744D44delGAT---11B.1.4150.014286
ORF1ab/nsp744D44NGatAat11B.1.4270.00005
ORF1ab/nsp744D44GgAtgGt11B.1.4270.00005
ORF1ab/nsp744D44DgaTgaC11B.1.4990.00105
ORF1ab/nsp744D44HGatCat11B.1.5260.000024
ORF1ab/nsp744D44NGatAat11B.1.5260.000024
ORF1ab/nsp744D44DgaTgaC11B.1.5510.00129
ORF1ab/nsp744D44DgaTgaC11B.1.5750.000303
ORF1ab/nsp744D44DgaTgaC11B.1.5870.001898
ORF1ab/nsp744D44GgAtgGt11B.1.5950.000261
ORF1ab/nsp744D44delGAT---11B.1.5960.000087
ORF1ab/nsp744D44DgaTgaC11B.1.5960.000087
ORF1ab/nsp744D44DgaTgaC11B.1.6090.000479
ORF1ab/nsp744D44delGAT---11B.1.617.20.000004
ORF1ab/nsp744D44YGatTat11B.1.617.20.000004
ORF1ab/nsp744D44NGatAat11B.1.6210.000089
ORF1ab/nsp744D44DgaTgaC11B.1.6280.000352
ORF1ab/nsp744D44DgaTgaC11B.1.780.008547
ORF1ab/nsp744D44YGatTat11B.1.970.025641
ORF1ab/nsp744D44DgaTgaC11B.40.002208
ORF1ab/nsp744D44DgaTgaC11D.20.000075
ORF1ab/nsp744D44delGAT---11N.40.004255
ORF1ab/nsp744D44NGatAat11P.10.000016
ORF1ab/nsp744D44DgaTgaC11P.1.120.000484
ORF1ab/nsp744D44DgaTgaC11P.1.160.000374
ORF1ab/nsp744D44DgaTgaC11P.1.70.000319

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.