CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp16 : CodonNum = 94

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/nsp1694L94LL6892LsynctGctT163413270.81211820938-20940
ORF1ab/nsp1694L94LL6892LsynCtgTtg16341500.091799320938-20940
ORF1ab/nsp1694L94LL6892LsynctGctA16341500.091799320938-20940
ORF1ab/nsp1694L94LL6892LsynctGctC163470.0042839720938-20940
ORF1ab/nsp1694L94ML6892MnonsynCtgAtg197197120938-20940
ORF1ab/nsp1694L94QL6892QnonsyncTgcAg7373120938-20940
ORF1ab/nsp1694L94delL6892deldelCTG---2424120938-20940
ORF1ab/nsp1694L94SL6892SnonsynCTgTCg12110.91666720938-20940
ORF1ab/nsp1694L94SL6892SnonsynCTGTCT1210.083333320938-20940
ORF1ab/nsp1694L94PL6892PnonsyncTgcCg760.85714320938-20940
ORF1ab/nsp1694L94PL6892PnonsyncTGcCT710.14285720938-20940
ORF1ab/nsp1694L94RL6892RnonsyncTgcGg33120938-20940
ORF1ab/nsp1694L94del1L6892del1delctGct-320.66666720938-20940
ORF1ab/nsp1694L94del1L6892del1delcTgc-g310.33333320938-20940
ORF1ab/nsp1694L94TL6892TnonsynCTGACT210.520938-20940
ORF1ab/nsp1694L94TL6892TnonsynCTgACg210.520938-20940
ORF1ab/nsp1694L94FL6892FnonsynCtGTtT11120938-20940

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/nsp1694L94LctGctT13271634All0.000254
ORF1ab/nsp1694L94LCtgTtg1501634All0.000029
ORF1ab/nsp1694L94LctGctA1501634All0.000029
ORF1ab/nsp1694L94LctGctC71634All0.000001
ORF1ab/nsp1694L94LctGctT701701B.1.1.4330.998575
ORF1ab/nsp1694L94MCtgAtg197197All0.000038
ORF1ab/nsp1694L94MCtgAtg157157B.1.5950.040971
ORF1ab/nsp1694L94LctGctT82150B.1.1.70.000073
ORF1ab/nsp1694L94LCtgTtg48150B.1.1.70.000043
ORF1ab/nsp1694L94LctGctA20150B.1.1.70.000018
ORF1ab/nsp1694L94LctGctT6580B.1.617.20.000245
ORF1ab/nsp1694L94LCtgTtg1080B.1.617.20.000038
ORF1ab/nsp1694L94LctGctA580B.1.617.20.000019
ORF1ab/nsp1694L94QcTgcAg7373All0.000014
ORF1ab/nsp1694L94LctGctT4046B.10.000366
ORF1ab/nsp1694L94LctGctA346B.10.000027
ORF1ab/nsp1694L94LCtgTtg346B.10.000027
ORF1ab/nsp1694L94LctGctT2344AY.40.000036
ORF1ab/nsp1694L94LCtgTtg1744AY.40.000026
ORF1ab/nsp1694L94LctGctA344AY.40.000005
ORF1ab/nsp1694L94LctGctC144AY.40.000002
ORF1ab/nsp1694L94LctGctT2936AY.430.000128
ORF1ab/nsp1694L94LctGctA636AY.430.000027
ORF1ab/nsp1694L94LCtgTtg136AY.430.000004
ORF1ab/nsp1694L94LctGctT2333AY.440.00014
ORF1ab/nsp1694L94LCtgTtg633AY.440.000037
ORF1ab/nsp1694L94LctGctA333AY.440.000018
ORF1ab/nsp1694L94LctGctC133AY.440.000006
ORF1ab/nsp1694L94LctGctT3333B.1.4740.062738
ORF1ab/nsp1694L94LctGctA3232B.1.177.810.006058
ORF1ab/nsp1694L94LctGctT2428B.1.10.000435
ORF1ab/nsp1694L94LCtgTtg228B.1.10.000036
ORF1ab/nsp1694L94LctGctA228B.1.10.000036
ORF1ab/nsp1694L94LctGctT2025AY.1030.000124
ORF1ab/nsp1694L94LctGctA325AY.1030.000019
ORF1ab/nsp1694L94LCtgTtg225AY.1030.000012
ORF1ab/nsp1694L94QcTgcAg2525B.1.1.70.000022
ORF1ab/nsp1694L94delCTG---2424All0.000005
ORF1ab/nsp1694L94LctGctA2022AY.70.00392
ORF1ab/nsp1694L94LctGctT222AY.70.000392
ORF1ab/nsp1694L94LctGctT2020AY.420.000805
ORF1ab/nsp1694L94LCtgTtg1119B.1.4290.000259
ORF1ab/nsp1694L94LctGctT719B.1.4290.000165
ORF1ab/nsp1694L94LctGctA119B.1.4290.000024
ORF1ab/nsp1694L94LctGctT1717AY.1060.005693
ORF1ab/nsp1694L94LctGctT1617B.1.3510.000476
ORF1ab/nsp1694L94LCtgTtg117B.1.3510.00003
ORF1ab/nsp1694L94LctGctT1014AY.250.00006
ORF1ab/nsp1694L94LCtgTtg314AY.250.000018
ORF1ab/nsp1694L94LctGctA114AY.250.000006
ORF1ab/nsp1694L94LctGctT1414C.370.001625
ORF1ab/nsp1694L94LCtgTtg813B.1.2210.000568
ORF1ab/nsp1694L94LctGctA513B.1.2210.000355
ORF1ab/nsp1694L94LctGctT1313B.1.4270.000656
ORF1ab/nsp1694L94SCTgTCg1112All0.000002
ORF1ab/nsp1694L94SCTGTCT112All0
ORF1ab/nsp1694L94LctGctT511B.1.20.000044
ORF1ab/nsp1694L94LCtgTtg511B.1.20.000044
ORF1ab/nsp1694L94LctGctA111B.1.20.000009
ORF1ab/nsp1694L94LctGctT1010AY.1140.002311
ORF1ab/nsp1694L94LctGctT910AY.4.20.000195
ORF1ab/nsp1694L94LctGctA110AY.4.20.000022
ORF1ab/nsp1694L94SCTgTCg1010AY.98.10.000484
ORF1ab/nsp1694L94LctGctT610B.1.1770.000079
ORF1ab/nsp1694L94LctGctA410B.1.1770.000053
ORF1ab/nsp1694L94LctGctA69AY.1020.000159
ORF1ab/nsp1694L94LctGctT19AY.1020.000027
ORF1ab/nsp1694L94LCtgTtg19AY.1020.000027
ORF1ab/nsp1694L94LctGctC19AY.1020.000027
ORF1ab/nsp1694L94QcTgcAg99B.1.10.000163
ORF1ab/nsp1694L94LctGctT68AY.1190.000212
ORF1ab/nsp1694L94LctGctA28AY.1190.000071
ORF1ab/nsp1694L94LctGctT88AY.98.10.000387
ORF1ab/nsp1694L94QcTgcAg88AY.99.20.000737
ORF1ab/nsp1694L94LctGctT78B.1.2320.003761
ORF1ab/nsp1694L94LCtgTtg18B.1.2320.000537
ORF1ab/nsp1694L94QcTgcAg88B.1.258.170.000832
ORF1ab/nsp1694L94PcTgcCg67All0.000001
ORF1ab/nsp1694L94PcTGcCT17All0
ORF1ab/nsp1694L94MCtgAtg77AY.1000.000322
ORF1ab/nsp1694L94LctGctT47AY.30.00004
ORF1ab/nsp1694L94LctGctA27AY.30.00002
ORF1ab/nsp1694L94LCtgTtg17AY.30.00001
ORF1ab/nsp1694L94LctGctA77AY.99.20.000645
ORF1ab/nsp1694L94LctGctT77B.1.1.3180.002112
ORF1ab/nsp1694L94LctGctT77B.1.1.3220.061404
ORF1ab/nsp1694L94LctGctT56AY.260.000142
ORF1ab/nsp1694L94LCtgTtg16AY.260.000028
ORF1ab/nsp1694L94LctGctT56AY.390.000124
ORF1ab/nsp1694L94LctGctA16AY.390.000025
ORF1ab/nsp1694L94MCtgAtg66B.10.000055
ORF1ab/nsp1694L94QcTgcAg66B.1.1.3530.125
ORF1ab/nsp1694L94MCtgAtg66B.1.1.70.000005
ORF1ab/nsp1694L94LctGctT66B.1.5950.001566
ORF1ab/nsp1694L94LctGctT56P.10.000079
ORF1ab/nsp1694L94LctGctA16P.10.000016
ORF1ab/nsp1694L94QcTgcAg55B.1.1.1530.005476
ORF1ab/nsp1694L94delCTG---55B.1.1.70.000004
ORF1ab/nsp1694L94LctGctT55B.1.177.40.001055
ORF1ab/nsp1694L94LctGctA35B.1.617.10.000387
ORF1ab/nsp1694L94LCtgTtg25B.1.617.10.000258
ORF1ab/nsp1694L94LctGctT55C.360.004554
ORF1ab/nsp1694L94delCTG---440.222222
ORF1ab/nsp1694L94LctGctA240.111111
ORF1ab/nsp1694L94LCtgTtg140.055556
ORF1ab/nsp1694L94LctGctT140.055556
ORF1ab/nsp1694L94LctGctT44AY.340.000388
ORF1ab/nsp1694L94LctGctT44AY.790.004843
ORF1ab/nsp1694L94LctGctT34B.1.2430.000209
ORF1ab/nsp1694L94LctGctA14B.1.2430.00007
ORF1ab/nsp1694L94LctGctT44B.1.351.20.00121
ORF1ab/nsp1694L94RcTgcGg33All0.000001
ORF1ab/nsp1694L94del1ctGct-23All0
ORF1ab/nsp1694L94del1cTgc-g13All0
ORF1ab/nsp1694L94LctGctT33AY.1170.000254
ORF1ab/nsp1694L94LctGctT33AY.200.000117
ORF1ab/nsp1694L94MCtgAtg33AY.40.000005
ORF1ab/nsp1694L94QcTgcAg33AY.40.000005
ORF1ab/nsp1694L94LCtgTtg33AY.460.000312
ORF1ab/nsp1694L94LctGctA33AY.470.000093
ORF1ab/nsp1694L94LctGctT23AY.610.00021
ORF1ab/nsp1694L94LctGctA13AY.610.000105
ORF1ab/nsp1694L94LCtgTtg13AY.9.20.000037
ORF1ab/nsp1694L94LctGctC13AY.9.20.000037
ORF1ab/nsp1694L94LctGctT13AY.9.20.000037
ORF1ab/nsp1694L94LctGctT23B.1.2340.000264
ORF1ab/nsp1694L94LCtgTtg13B.1.2340.000132
ORF1ab/nsp1694L94LctGctT33B.1.36.290.001552
ORF1ab/nsp1694L94delCTG---33P.1.150.000697
ORF1ab/nsp1694L94SCTgTCg120.055556
ORF1ab/nsp1694L94PcTGcCT120.055556
ORF1ab/nsp1694L94PcTgcCg120.055556
ORF1ab/nsp1694L94SCTGTCT120.055556
ORF1ab/nsp1694L94TCTGACT12All0
ORF1ab/nsp1694L94TCTgACg12All0
ORF1ab/nsp1694L94LctGctT22AY.1000.000092
ORF1ab/nsp1694L94delCTG---22AY.1200.000074
ORF1ab/nsp1694L94MCtgAtg22AY.230.000139
ORF1ab/nsp1694L94LctGctC12AY.230.00007
ORF1ab/nsp1694L94LctGctT12AY.230.00007
ORF1ab/nsp1694L94LctGctT22AY.29.10.000441
ORF1ab/nsp1694L94MCtgAtg22AY.390.000049
ORF1ab/nsp1694L94LctGctT22AY.50.000041
ORF1ab/nsp1694L94LctGctA12AY.5.30.000337
ORF1ab/nsp1694L94LctGctT12AY.5.30.000337
ORF1ab/nsp1694L94LctGctT22AY.750.000112
ORF1ab/nsp1694L94LCtgTtg12AY.9.10.000084
ORF1ab/nsp1694L94LctGctT12AY.9.10.000084
ORF1ab/nsp1694L94LCtgTtg22AY.960.004149
ORF1ab/nsp1694L94LctGctT12AY.980.000079
ORF1ab/nsp1694L94LctGctA12AY.980.000079
ORF1ab/nsp1694L94PcTgcCg22B.10.000018
ORF1ab/nsp1694L94MCtgAtg22B.1.1.1810.009091
ORF1ab/nsp1694L94LctGctT22B.1.1.2140.000111
ORF1ab/nsp1694L94LctGctT22B.1.1.2360.013793
ORF1ab/nsp1694L94MCtgAtg22B.1.1.5190.000079
ORF1ab/nsp1694L94LctGctT22B.1.1.700.000682
ORF1ab/nsp1694L94del1cTgc-g12B.1.20.000009
ORF1ab/nsp1694L94del1ctGct-12B.1.20.000009
ORF1ab/nsp1694L94LctGctT22B.1.2370.00995
ORF1ab/nsp1694L94LCtgTtg22B.1.2580.000133
ORF1ab/nsp1694L94LctGctA22B.1.360.000292
ORF1ab/nsp1694L94LCtgTtg12B.1.5260.000024
ORF1ab/nsp1694L94LctGctA12B.1.5260.000024
ORF1ab/nsp1694L94LctGctT22B.1.5960.000174
ORF1ab/nsp1694L94FCtGTtT110.055556
ORF1ab/nsp1694L94LCtgTtg11A.10.000282
ORF1ab/nsp1694L94MCtgAtg11A.2.50.000499
ORF1ab/nsp1694L94FCtGTtT11All0
ORF1ab/nsp1694L94del1ctGct-11AY.1030.000006
ORF1ab/nsp1694L94LctGctT11AY.1100.000113
ORF1ab/nsp1694L94RcTgcGg11AY.1170.000085
ORF1ab/nsp1694L94LctGctT11AY.1180.000063
ORF1ab/nsp1694L94MCtgAtg11AY.120.10.000321
ORF1ab/nsp1694L94LctGctT11AY.120.10.000321
ORF1ab/nsp1694L94PcTgcCg11AY.120.10.000321
ORF1ab/nsp1694L94LctGctT11AY.1210.000135
ORF1ab/nsp1694L94LctGctA11AY.23.10.000417
ORF1ab/nsp1694L94LctGctT11AY.240.000431
ORF1ab/nsp1694L94QcTgcAg11AY.250.000006
ORF1ab/nsp1694L94delCTG---11AY.250.000006
ORF1ab/nsp1694L94RcTgcGg11AY.260.000028
ORF1ab/nsp1694L94QcTgcAg11AY.290.000016
ORF1ab/nsp1694L94QcTgcAg11AY.30.00001
ORF1ab/nsp1694L94delCTG---11AY.330.000067
ORF1ab/nsp1694L94LctGctA11AY.330.000067
ORF1ab/nsp1694L94MCtgAtg11AY.360.000148
ORF1ab/nsp1694L94LctGctT11AY.360.000148
ORF1ab/nsp1694L94LCtgTtg11AY.370.000316
ORF1ab/nsp1694L94PcTgcCg11AY.40.000002
ORF1ab/nsp1694L94delCTG---11AY.4.50.000107
ORF1ab/nsp1694L94LctGctA11AY.4.50.000107
ORF1ab/nsp1694L94QcTgcAg11AY.440.000006
ORF1ab/nsp1694L94QcTgcAg11AY.450.000122
ORF1ab/nsp1694L94LCtgTtg11AY.450.000122
ORF1ab/nsp1694L94LctGctT11AY.46.50.000198
ORF1ab/nsp1694L94LctGctT11AY.46.60.000072
ORF1ab/nsp1694L94LctGctT11AY.550.000917
ORF1ab/nsp1694L94LctGctT11AY.60.000041
ORF1ab/nsp1694L94MCtgAtg11AY.610.000105
ORF1ab/nsp1694L94LctGctA11AY.730.000665
ORF1ab/nsp1694L94LctGctT11AY.740.000116
ORF1ab/nsp1694L94LctGctA11AY.80.000606
ORF1ab/nsp1694L94LctGctT11AY.850.000427
ORF1ab/nsp1694L94LctGctT11AY.880.000884
ORF1ab/nsp1694L94LCtgTtg11AY.90.000068
ORF1ab/nsp1694L94LctGctT11AY.990.001049
ORF1ab/nsp1694L94delCTG---11B.10.000009
ORF1ab/nsp1694L94MCtgAtg11B.1.10.000018
ORF1ab/nsp1694L94LCtgTtg11B.1.1.10.000327
ORF1ab/nsp1694L94LCtgTtg11B.1.1.2070.001182
ORF1ab/nsp1694L94LCtgTtg11B.1.1.2220.000204
ORF1ab/nsp1694L94MCtgAtg11B.1.1.2430.004082
ORF1ab/nsp1694L94LctGctT11B.1.1.2820.011628
ORF1ab/nsp1694L94LctGctT11B.1.1.3060.000438
ORF1ab/nsp1694L94LctGctT11B.1.1.3170.000412
ORF1ab/nsp1694L94LctGctA11B.1.1.330.000421
ORF1ab/nsp1694L94LCtgTtg11B.1.1.3540.004386
ORF1ab/nsp1694L94LctGctT11B.1.1.390.00051
ORF1ab/nsp1694L94LCtgTtg11B.1.1.4320.001266
ORF1ab/nsp1694L94LctGctT11B.1.1.4360.025641
ORF1ab/nsp1694L94LctGctT11B.1.1.460.004367
ORF1ab/nsp1694L94LctGctT11B.1.1.5190.00004
ORF1ab/nsp1694L94LctGctT11B.1.1.540.003021
ORF1ab/nsp1694L94PcTgcCg11B.1.1.70.000001
ORF1ab/nsp1694L94QcTgcAg11B.1.1390.000733
ORF1ab/nsp1694L94MCtgAtg11B.1.1460.004237
ORF1ab/nsp1694L94RcTgcGg11B.1.1600.000031
ORF1ab/nsp1694L94LctGctT11B.1.1600.000031
ORF1ab/nsp1694L94LctGctT11B.1.160.320.004292
ORF1ab/nsp1694L94delCTG---11B.1.1610.017241
ORF1ab/nsp1694L94LctGctT11B.1.177.120.000152
ORF1ab/nsp1694L94LctGctC11B.1.177.320.00135
ORF1ab/nsp1694L94delCTG---11B.1.177.620.001192
ORF1ab/nsp1694L94MCtgAtg11B.1.177.860.000183
ORF1ab/nsp1694L94LCtgTtg11B.1.1950.005025
ORF1ab/nsp1694L94MCtgAtg11B.1.20.000009
ORF1ab/nsp1694L94LctGctT11B.1.2100.002132
ORF1ab/nsp1694L94QcTgcAg11B.1.2580.000067
ORF1ab/nsp1694L94delCTG---11B.1.2580.000067
ORF1ab/nsp1694L94LctGctT11B.1.258.140.00098
ORF1ab/nsp1694L94LCtgTtg11B.1.36.370.002778
ORF1ab/nsp1694L94delCTG---11B.1.4000.000429
ORF1ab/nsp1694L94LCtgTtg11B.1.416.10.001563
ORF1ab/nsp1694L94QcTgcAg11B.1.4290.000024
ORF1ab/nsp1694L94LCtgTtg11B.1.438.10.000107
ORF1ab/nsp1694L94LctGctT11B.1.466.20.000391
ORF1ab/nsp1694L94LctGctT11B.1.4670.04
ORF1ab/nsp1694L94TCTGACT11B.1.5250.000113
ORF1ab/nsp1694L94LctGctT11B.1.596.10.009346
ORF1ab/nsp1694L94MCtgAtg11B.1.617.20.000004
ORF1ab/nsp1694L94TCTgACg11B.1.617.20.000004
ORF1ab/nsp1694L94delCTG---11B.1.6200.000946
ORF1ab/nsp1694L94LCtgTtg11B.1.6200.000946
ORF1ab/nsp1694L94QcTgcAg11B.1.6230.000536
ORF1ab/nsp1694L94LctGctT11B.1.80.001972
ORF1ab/nsp1694L94delCTG---11B.610.005747
ORF1ab/nsp1694L94LctGctT11C.36.30.000567
ORF1ab/nsp1694L94LctGctT11N.40.004255
ORF1ab/nsp1694L94LctGctC11P.1.150.000232
ORF1ab/nsp1694L94LctGctT11P.1.170.000162
ORF1ab/nsp1694L94LctGctT11P.20.000187
ORF1ab/nsp1694L94LCtgTtg11Q.30.000145

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.