CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 567

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/nsp2567L567FL747FnonsynCttTtt7147130.9985992504-2506
ORF1ab/nsp2567L567FL747FnonsynCtTTtC71410.001400562504-2506
ORF1ab/nsp2567L567LL747LsynctTctC3192490.7805642504-2506
ORF1ab/nsp2567L567LL747LsynctTctG319570.1786832504-2506
ORF1ab/nsp2567L567LL747LsynctTctA319130.04075242504-2506
ORF1ab/nsp2567L567IL747InonsynCttAtt868612504-2506
ORF1ab/nsp2567L567delL747deldelCTT---828212504-2506
ORF1ab/nsp2567L567HL747HnonsyncTtcAt25230.922504-2506
ORF1ab/nsp2567L567HL747HnonsyncTTcAC2520.082504-2506
ORF1ab/nsp2567L567PL747PnonsyncTtcCt111112504-2506
ORF1ab/nsp2567L567del1L747del1delcTtc-t950.5555562504-2506
ORF1ab/nsp2567L567del1L747del1delCtTAt-920.2222222504-2506
ORF1ab/nsp2567L567del1L747del1delctTct-910.1111112504-2506
ORF1ab/nsp2567L567del1L747del1delCTT-GG910.1111112504-2506
ORF1ab/nsp2567L567RL747RnonsyncTtcGt6612504-2506
ORF1ab/nsp2567L567VL747VnonsynCttGtt2212504-2506
ORF1ab/nsp2567L567QL747QnonsyncTTcAA2212504-2506
ORF1ab/nsp2567L567YL747YnonsynCTtTAt1112504-2506
ORF1ab/nsp2567L567del2L747del2delcTTc--1112504-2506
ORF1ab/nsp2567L567TL747TnonsynCTtACt1112504-2506

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/nsp2567L567FCttTtt713714All0.000136
ORF1ab/nsp2567L567FCtTTtC1714All0
ORF1ab/nsp2567L567LctTctC249319All0.000048
ORF1ab/nsp2567L567LctTctG57319All0.000011
ORF1ab/nsp2567L567LctTctA13319All0.000002
ORF1ab/nsp2567L567FCttTtt133133AY.30.001323
ORF1ab/nsp2567L567FCttTtt115115B.1.1.70.000103
ORF1ab/nsp2567L567FCttTtt108108AY.440.000657
ORF1ab/nsp2567L567ICttAtt8686All0.000016
ORF1ab/nsp2567L567delCTT---8282All0.000016
ORF1ab/nsp2567L567FCttTtt7575AY.46.60.005416
ORF1ab/nsp2567L567LctTctC5050AY.39.10.001981
ORF1ab/nsp2567L567LctTctC4750B.1.1.70.000042
ORF1ab/nsp2567L567LctTctA350B.1.1.70.000003
ORF1ab/nsp2567L567FCttTtt4040AY.40.000062
ORF1ab/nsp2567L567LctTctG2432B.1.617.20.00009
ORF1ab/nsp2567L567LctTctC732B.1.617.20.000026
ORF1ab/nsp2567L567LctTctA132B.1.617.20.000004
ORF1ab/nsp2567L567HcTtcAt2325All0.000004
ORF1ab/nsp2567L567HcTTcAC225All0
ORF1ab/nsp2567L567ICttAtt2525AY.1030.000155
ORF1ab/nsp2567L567FCttTtt2425B.1.20.000211
ORF1ab/nsp2567L567FCtTTtC125B.1.20.000009
ORF1ab/nsp2567L567LctTctC2021P.10.000315
ORF1ab/nsp2567L567LctTctG121P.10.000016
ORF1ab/nsp2567L567LctTctC1618AY.40.000025
ORF1ab/nsp2567L567LctTctG218AY.40.000003
ORF1ab/nsp2567L567FCttTtt1818B.1.4290.000424
ORF1ab/nsp2567L567FCttTtt1818B.1.617.20.000068
ORF1ab/nsp2567L567delCTT---1717B.1.1.70.000015
ORF1ab/nsp2567L567LctTctC1315B.1.10.000236
ORF1ab/nsp2567L567LctTctG215B.1.10.000036
ORF1ab/nsp2567L567LctTctG1414AY.630.005416
ORF1ab/nsp2567L567ICttAtt1212B.1.1.70.000011
ORF1ab/nsp2567L567PcTtcCt1111All0.000002
ORF1ab/nsp2567L567LctTctC1111B.1.20.000097
ORF1ab/nsp2567L567LctTctC1111B.1.36.170.005435
ORF1ab/nsp2567L567ICttAtt1010AY.250.00006
ORF1ab/nsp2567L567FCttTtt1010B.1.4990.010504
ORF1ab/nsp2567L567FCttTtt1010P.10.000158
ORF1ab/nsp2567L567FCttTtt1010P.1.100.002695
ORF1ab/nsp2567L567del1cTtc-t59All0.000001
ORF1ab/nsp2567L567del1CtTAt-29All0
ORF1ab/nsp2567L567del1ctTct-19All0
ORF1ab/nsp2567L567del1CTT-GG19All0
ORF1ab/nsp2567L567FCttTtt99AY.250.000054
ORF1ab/nsp2567L567FCttTtt99AY.430.00004
ORF1ab/nsp2567L567FCttTtt88B.10.000073
ORF1ab/nsp2567L567FCttTtt88B.1.1770.000105
ORF1ab/nsp2567L567LctTctC77AY.250.000042
ORF1ab/nsp2567L567FCttTtt77AY.7.10.000789
ORF1ab/nsp2567L567RcTtcGt66All0.000001
ORF1ab/nsp2567L567LctTctG46AY.440.000024
ORF1ab/nsp2567L567LctTctC26AY.440.000012
ORF1ab/nsp2567L567FCttTtt66AY.9.10.000502
ORF1ab/nsp2567L567LctTctC56B.1.1770.000066
ORF1ab/nsp2567L567LctTctG16B.1.1770.000013
ORF1ab/nsp2567L567FCttTtt66B.1.466.20.002347
ORF1ab/nsp2567L567FCttTtt66B.1.499.10.666667
ORF1ab/nsp2567L567delCTT---66B.1.617.20.000023
ORF1ab/nsp2567L567delCTT---55B.10.000046
ORF1ab/nsp2567L567FCttTtt55B.1.10.000091
ORF1ab/nsp2567L567FCttTtt55B.1.1.1890.007564
ORF1ab/nsp2567L567LctTctG25B.1.3510.000059
ORF1ab/nsp2567L567LctTctC25B.1.3510.000059
ORF1ab/nsp2567L567LctTctA15B.1.3510.00003
ORF1ab/nsp2567L567ICttAtt55B.1.617.20.000019
ORF1ab/nsp2567L567ICttAtt55P.10.000079
ORF1ab/nsp2567L567delCTT---440.222222
ORF1ab/nsp2567L567FCttTtt44AY.1000.000184
ORF1ab/nsp2567L567HcTtcAt44AY.40.000006
ORF1ab/nsp2567L567LctTctC44AY.4.50.00043
ORF1ab/nsp2567L567LctTctC34AY.430.000013
ORF1ab/nsp2567L567LctTctG14AY.430.000004
ORF1ab/nsp2567L567LctTctC44B.1.1.540.012085
ORF1ab/nsp2567L567LctTctC44B.1.1600.000125
ORF1ab/nsp2567L567ICttAtt44B.1.1770.000053
ORF1ab/nsp2567L567FCttTtt44B.1.5260.000094
ORF1ab/nsp2567L567FCttTtt44P.1.150.000929
ORF1ab/nsp2567L567FCttTtt33AY.1190.000106
ORF1ab/nsp2567L567LctTctC33AY.1200.000112
ORF1ab/nsp2567L567LctTctG23AY.30.00002
ORF1ab/nsp2567L567LctTctC13AY.30.00001
ORF1ab/nsp2567L567delCTT---33AY.40.000005
ORF1ab/nsp2567L567ICttAtt33AY.430.000013
ORF1ab/nsp2567L567HcTtcAt33AY.440.000018
ORF1ab/nsp2567L567FCttTtt33AY.540.000286
ORF1ab/nsp2567L567FCttTtt33AY.920.000862
ORF1ab/nsp2567L567PcTtcCt33B.10.000027
ORF1ab/nsp2567L567LctTctC23B.10.000018
ORF1ab/nsp2567L567LctTctA13B.10.000009
ORF1ab/nsp2567L567delCTT---33B.1.10.000054
ORF1ab/nsp2567L567ICttAtt33B.1.10.000054
ORF1ab/nsp2567L567delCTT---33B.1.1.330.001263
ORF1ab/nsp2567L567LctTctC33B.1.160.280.008772
ORF1ab/nsp2567L567HcTtcAt33B.1.20.000026
ORF1ab/nsp2567L567FCttTtt33B.1.2400.000647
ORF1ab/nsp2567L567ICttAtt33C.36.30.001702
ORF1ab/nsp2567L567del1CtTAt-220.111111
ORF1ab/nsp2567L567QcTTcAA220.111111
ORF1ab/nsp2567L567HcTTcAC220.111111
ORF1ab/nsp2567L567VCttGtt22All0
ORF1ab/nsp2567L567QcTTcAA22All0
ORF1ab/nsp2567L567LctTctA22AY.1030.000012
ORF1ab/nsp2567L567RcTtcGt22AY.1030.000012
ORF1ab/nsp2567L567FCttTtt22AY.1030.000012
ORF1ab/nsp2567L567FCttTtt22AY.160.000759
ORF1ab/nsp2567L567FCttTtt22AY.200.000078
ORF1ab/nsp2567L567delCTT---22AY.250.000012
ORF1ab/nsp2567L567LctTctC22AY.260.000057
ORF1ab/nsp2567L567HcTtcAt22AY.30.00002
ORF1ab/nsp2567L567LctTctC22AY.390.000049
ORF1ab/nsp2567L567ICttAtt22AY.40.000003
ORF1ab/nsp2567L567HcTtcAt22AY.430.000009
ORF1ab/nsp2567L567delCTT---22AY.440.000012
ORF1ab/nsp2567L567LctTctA22AY.46.40.000329
ORF1ab/nsp2567L567LctTctC22AY.470.000062
ORF1ab/nsp2567L567LctTctC22AY.600.001876
ORF1ab/nsp2567L567HcTtcAt22AY.75.10.000361
ORF1ab/nsp2567L567FCttTtt22B.1.1.280.000622
ORF1ab/nsp2567L567LctTctA22B.1.1.3370.007194
ORF1ab/nsp2567L567delCTT---22B.1.1.3480.001592
ORF1ab/nsp2567L567FCttTtt22B.1.1.5190.000079
ORF1ab/nsp2567L567ICttAtt22B.1.110.30.001437
ORF1ab/nsp2567L567RcTtcGt22B.1.2210.000142
ORF1ab/nsp2567L567ICttAtt22B.1.2210.000142
ORF1ab/nsp2567L567del1cTtc-t12B.1.2430.00007
ORF1ab/nsp2567L567del1CTT-GG12B.1.2430.00007
ORF1ab/nsp2567L567FCttTtt22B.1.2580.000133
ORF1ab/nsp2567L567FCttTtt22B.1.3510.000059
ORF1ab/nsp2567L567FCttTtt22B.1.360.000292
ORF1ab/nsp2567L567delCTT---22B.1.4240.016129
ORF1ab/nsp2567L567LctTctC22B.1.4290.000047
ORF1ab/nsp2567L567delCTT---22B.1.4290.000047
ORF1ab/nsp2567L567HcTtcAt22B.1.6210.000177
ORF1ab/nsp2567L567FCttTtt22B.6.60.001778
ORF1ab/nsp2567L567delCTT---22N.60.014184
ORF1ab/nsp2567L567FCttTtt11A0.000387
ORF1ab/nsp2567L567LctTctC11A.2.20.001689
ORF1ab/nsp2567L567VCttGtt11A.60.005128
ORF1ab/nsp2567L567YCTtTAt11All0
ORF1ab/nsp2567L567TCTtACt11All0
ORF1ab/nsp2567L567del2cTTc--11All0
ORF1ab/nsp2567L567LctTctA11AS.10.009524
ORF1ab/nsp2567L567FCttTtt11AU.30.00211
ORF1ab/nsp2567L567FCttTtt11AY.10.000396
ORF1ab/nsp2567L567FCttTtt11AY.1010.00049
ORF1ab/nsp2567L567FCttTtt11AY.1020.000027
ORF1ab/nsp2567L567delCTT---11AY.1080.001103
ORF1ab/nsp2567L567delCTT---11AY.1110.000183
ORF1ab/nsp2567L567delCTT---11AY.1130.000142
ORF1ab/nsp2567L567LctTctG11AY.1140.000231
ORF1ab/nsp2567L567FCttTtt11AY.1170.000085
ORF1ab/nsp2567L567ICttAtt11AY.1190.000035
ORF1ab/nsp2567L567FCttTtt11AY.1210.000135
ORF1ab/nsp2567L567LctTctC11AY.130.000161
ORF1ab/nsp2567L567LctTctC11AY.160.00038
ORF1ab/nsp2567L567delCTT---11AY.190.00114
ORF1ab/nsp2567L567FCttTtt11AY.260.000028
ORF1ab/nsp2567L567ICttAtt11AY.260.000028
ORF1ab/nsp2567L567PcTtcCt11AY.270.000065
ORF1ab/nsp2567L567ICttAtt11AY.270.000065
ORF1ab/nsp2567L567ICttAtt11AY.290.000016
ORF1ab/nsp2567L567delCTT---11AY.30.00001
ORF1ab/nsp2567L567FCttTtt11AY.330.000067
ORF1ab/nsp2567L567FCttTtt11AY.39.10.00004
ORF1ab/nsp2567L567PcTtcCt11AY.40.000002
ORF1ab/nsp2567L567FCttTtt11AY.4.20.000022
ORF1ab/nsp2567L567delCTT---11AY.4.50.000107
ORF1ab/nsp2567L567ICttAtt11AY.4.50.000107
ORF1ab/nsp2567L567FCttTtt11AY.420.00004
ORF1ab/nsp2567L567delCTT---11AY.420.00004
ORF1ab/nsp2567L567LctTctC11AY.420.00004
ORF1ab/nsp2567L567delCTT---11AY.430.000004
ORF1ab/nsp2567L567YCTtTAt11AY.430.000004
ORF1ab/nsp2567L567TCTtACt11AY.440.000006
ORF1ab/nsp2567L567del1ctTct-11AY.440.000006
ORF1ab/nsp2567L567del2cTTc--11AY.440.000006
ORF1ab/nsp2567L567FCttTtt11AY.450.000122
ORF1ab/nsp2567L567delCTT---11AY.460.000104
ORF1ab/nsp2567L567FCttTtt11AY.46.50.000198
ORF1ab/nsp2567L567delCTT---11AY.46.60.000072
ORF1ab/nsp2567L567FCttTtt11AY.470.000031
ORF1ab/nsp2567L567delCTT---11AY.50.000021
ORF1ab/nsp2567L567RcTtcGt11AY.50.000021
ORF1ab/nsp2567L567FCttTtt11AY.580.000907
ORF1ab/nsp2567L567FCttTtt11AY.60.000041
ORF1ab/nsp2567L567delCTT---11AY.60.000041
ORF1ab/nsp2567L567ICttAtt11AY.610.000105
ORF1ab/nsp2567L567FCttTtt11AY.610.000105
ORF1ab/nsp2567L567FCttTtt11AY.680.000274
ORF1ab/nsp2567L567LctTctG11AY.700.000209
ORF1ab/nsp2567L567ICttAtt11AY.710.000475
ORF1ab/nsp2567L567FCttTtt11AY.750.000056
ORF1ab/nsp2567L567LctTctC11AY.840.000437
ORF1ab/nsp2567L567delCTT---11AY.840.000437
ORF1ab/nsp2567L567delCTT---11AY.9.20.000037
ORF1ab/nsp2567L567LctTctC11AY.980.000079
ORF1ab/nsp2567L567delCTT---11AY.990.001049
ORF1ab/nsp2567L567LctTctC11AY.99.20.000092
ORF1ab/nsp2567L567HcTtcAt11B0.000128
ORF1ab/nsp2567L567del1cTtc-t11B.10.000009
ORF1ab/nsp2567L567HcTtcAt11B.10.000009
ORF1ab/nsp2567L567del1cTtc-t11B.1.10.000018
ORF1ab/nsp2567L567HcTtcAt11B.1.10.000018
ORF1ab/nsp2567L567LctTctC11B.1.1.10.000327
ORF1ab/nsp2567L567LctTctG11B.1.1.1940.00495
ORF1ab/nsp2567L567FCttTtt11B.1.1.2140.000055
ORF1ab/nsp2567L567del1cTtc-t11B.1.1.2360.006897
ORF1ab/nsp2567L567LctTctC11B.1.1.3720.000689
ORF1ab/nsp2567L567FCttTtt11B.1.1.390.00051
ORF1ab/nsp2567L567delCTT---11B.1.1.4160.000905
ORF1ab/nsp2567L567LctTctC11B.1.1.4170.002703
ORF1ab/nsp2567L567FCttTtt11B.1.1.430.014925
ORF1ab/nsp2567L567delCTT---11B.1.1.4480.002033
ORF1ab/nsp2567L567LctTctC11B.1.1.5190.00004
ORF1ab/nsp2567L567del1cTtc-t11B.1.1.5190.00004
ORF1ab/nsp2567L567FCttTtt11B.1.1.630.000386
ORF1ab/nsp2567L567VCttGtt11B.1.1.70.000001
ORF1ab/nsp2567L567HcTtcAt11B.1.1.70.000001
ORF1ab/nsp2567L567PcTtcCt11B.1.1.70.000001
ORF1ab/nsp2567L567RcTtcGt11B.1.1.70.000001
ORF1ab/nsp2567L567LctTctG11B.1.1100.004525
ORF1ab/nsp2567L567FCttTtt11B.1.1470.000756
ORF1ab/nsp2567L567FCttTtt11B.1.1600.000031
ORF1ab/nsp2567L567FCttTtt11B.1.160.300.002976
ORF1ab/nsp2567L567LctTctC11B.1.1700.00431
ORF1ab/nsp2567L567LctTctC11B.1.177.100.000878
ORF1ab/nsp2567L567LctTctC11B.1.177.400.005155
ORF1ab/nsp2567L567delCTT---11B.1.177.430.001477
ORF1ab/nsp2567L567ICttAtt11B.1.177.430.001477
ORF1ab/nsp2567L567delCTT---11B.1.177.570.000281
ORF1ab/nsp2567L567FCttTtt11B.1.177.650.000665
ORF1ab/nsp2567L567delCTT---11B.1.177.830.001481
ORF1ab/nsp2567L567FCttTtt11B.1.1990.004132
ORF1ab/nsp2567L567FCttTtt11B.1.2210.000071
ORF1ab/nsp2567L567delCTT---11B.1.2210.000071
ORF1ab/nsp2567L567LctTctC11B.1.2340.000132
ORF1ab/nsp2567L567LctTctC11B.1.2410.000812
ORF1ab/nsp2567L567delCTT---11B.1.258.30.001675
ORF1ab/nsp2567L567LctTctC11B.1.3110.000275
ORF1ab/nsp2567L567PcTtcCt11B.1.3320.003497
ORF1ab/nsp2567L567PcTtcCt11B.1.3510.00003
ORF1ab/nsp2567L567delCTT---11B.1.36.180.00042
ORF1ab/nsp2567L567delCTT---11B.1.36.380.001642
ORF1ab/nsp2567L567FCttTtt11B.1.3670.000792
ORF1ab/nsp2567L567LctTctC11B.1.4270.00005
ORF1ab/nsp2567L567FCttTtt11B.1.4270.00005
ORF1ab/nsp2567L567FCttTtt11B.1.4710.002732
ORF1ab/nsp2567L567FCttTtt11B.1.5330.009615
ORF1ab/nsp2567L567delCTT---11B.1.5610.000397
ORF1ab/nsp2567L567LctTctC11B.1.5770.000687
ORF1ab/nsp2567L567ICttAtt11B.1.5770.000687
ORF1ab/nsp2567L567LctTctC11B.1.5820.000491
ORF1ab/nsp2567L567FCttTtt11B.1.617.10.000129
ORF1ab/nsp2567L567ICttAtt11B.1.617.10.000129
ORF1ab/nsp2567L567LctTctC11B.1.617.10.000129
ORF1ab/nsp2567L567HcTtcAt11B.1.617.20.000004
ORF1ab/nsp2567L567delCTT---11B.1.617.30.002985
ORF1ab/nsp2567L567delCTT---11B.1.6210.000089
ORF1ab/nsp2567L567FCttTtt11B.1.6210.000089
ORF1ab/nsp2567L567PcTtcCt11B.1.90.006173
ORF1ab/nsp2567L567LctTctC11B.30.000831
ORF1ab/nsp2567L567delCTT---11B.570.015152
ORF1ab/nsp2567L567PcTtcCt11B.60.00091
ORF1ab/nsp2567L567FCttTtt11C.370.000116
ORF1ab/nsp2567L567LctTctC11C.370.000116
ORF1ab/nsp2567L567FCttTtt11D.20.000075
ORF1ab/nsp2567L567PcTtcCt11D.20.000075
ORF1ab/nsp2567L567FCttTtt11L.30.003546
ORF1ab/nsp2567L567delCTT---11P.10.000016
ORF1ab/nsp2567L567FCttTtt11P.1.140.000048
ORF1ab/nsp2567L567LctTctC11P.1.160.000374
ORF1ab/nsp2567L567FCttTtt11Q.80.000165

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.