CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp2 : CodonNum = 177

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/nsp2177C177SC357SnonsyntGttCt7064910.6954671334-1336
ORF1ab/nsp2177C177SC357SnonsynTgtAgt7062130.30171334-1336
ORF1ab/nsp2177C177SC357SnonsyntGTtCA70620.002832861334-1336
ORF1ab/nsp2177C177CC357CsyntgTtgC18818811334-1336
ORF1ab/nsp2177C177delC357deldelTGT---565611334-1336
ORF1ab/nsp2177C177FC357FnonsyntGttTt191911334-1336
ORF1ab/nsp2177C177YC357YnonsyntGttAt9911334-1336
ORF1ab/nsp2177C177RC357RnonsynTgtCgt7711334-1336
ORF1ab/nsp2177C177WC357WnonsyntgTtgG7711334-1336
ORF1ab/nsp2177C177del1C357del1delTGT-NN430.751334-1336
ORF1ab/nsp2177C177del1C357del1deltgTtg-410.251334-1336
ORF1ab/nsp2177C177TC357TnonsynTGtACt3311334-1336
ORF1ab/nsp2177C177del2C357del2delTGT--A320.6666671334-1336
ORF1ab/nsp2177C177del2C357del2delTGt--t310.3333331334-1336
ORF1ab/nsp2177C177HC357HnonsynTGtCAt2211334-1336
ORF1ab/nsp2177C177GC357GnonsynTgtGgt2211334-1336
ORF1ab/nsp2177C177NC357NnonsynTGtAAt1111334-1336
ORF1ab/nsp2177C177LC357LnonsynTGtCTt1111334-1336
ORF1ab/nsp2177C177AC357AnonsynTGTGCA1111334-1336
ORF1ab/nsp2177C177XC357XnonsyntgTtgA1111334-1336

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/nsp2177C177StGttCt491706All0.000094
ORF1ab/nsp2177C177STgtAgt213706All0.000041
ORF1ab/nsp2177C177StGTtCA2706All0
ORF1ab/nsp2177C177StGttCt424429AY.1030.002633
ORF1ab/nsp2177C177STgtAgt4429AY.1030.000025
ORF1ab/nsp2177C177StGTtCA1429AY.1030.000006
ORF1ab/nsp2177C177CtgTtgC188188All0.000036
ORF1ab/nsp2177C177CtgTtgC7777B.1.1.70.000069
ORF1ab/nsp2177C177delTGT---5656All0.000011
ORF1ab/nsp2177C177StGttCt2935AY.40.000045
ORF1ab/nsp2177C177STgtAgt635AY.40.000009
ORF1ab/nsp2177C177StGttCt1734B.1.617.20.000064
ORF1ab/nsp2177C177STgtAgt1734B.1.617.20.000064
ORF1ab/nsp2177C177CtgTtgC2727AY.40.000042
ORF1ab/nsp2177C177STgtAgt2022B.1.1.70.000018
ORF1ab/nsp2177C177StGttCt222B.1.1.70.000002
ORF1ab/nsp2177C177CtgTtgC2020B.1.1.4200.020121
ORF1ab/nsp2177C177FtGttTt1919All0.000004
ORF1ab/nsp2177C177STgtAgt1616B.10.000147
ORF1ab/nsp2177C177STgtAgt1515AY.440.000091
ORF1ab/nsp2177C177CtgTtgC1111B.1.20.000097
ORF1ab/nsp2177C177YtGttAt99All0.000002
ORF1ab/nsp2177C177STgtAgt89B.1.20.00007
ORF1ab/nsp2177C177StGttCt19B.1.20.000009
ORF1ab/nsp2177C177CtgTtgC99B.1.4861
ORF1ab/nsp2177C177STgtAgt89B.1.4970.002518
ORF1ab/nsp2177C177StGttCt19B.1.4970.000315
ORF1ab/nsp2177C177CtgTtgC88AY.430.000035
ORF1ab/nsp2177C177STgtAgt88B.1.10.000145
ORF1ab/nsp2177C177delTGT---88B.1.1.70.000007
ORF1ab/nsp2177C177RTgtCgt77All0.000001
ORF1ab/nsp2177C177WtgTtgG77All0.000001
ORF1ab/nsp2177C177STgtAgt77AY.1000.000322
ORF1ab/nsp2177C177STgtAgt56AY.250.00003
ORF1ab/nsp2177C177StGttCt16AY.250.000006
ORF1ab/nsp2177C177STgtAgt66AY.690.00112
ORF1ab/nsp2177C177CtgTtgC66B.1.617.20.000023
ORF1ab/nsp2177C177STgtAgt55AY.1020.000133
ORF1ab/nsp2177C177delTGT---55AY.250.00003
ORF1ab/nsp2177C177delTGT---55B.1.1.330.002104
ORF1ab/nsp2177C177STgtAgt55B.1.2810.108696
ORF1ab/nsp2177C177STgtAgt55B.1.4160.006345
ORF1ab/nsp2177C177del1TGT-NN34All0.000001
ORF1ab/nsp2177C177del1tgTtg-14All0
ORF1ab/nsp2177C177CtgTtgC44AY.1030.000025
ORF1ab/nsp2177C177STgtAgt44AY.260.000113
ORF1ab/nsp2177C177STgtAgt44AY.30.00004
ORF1ab/nsp2177C177delTGT---44B.10.000037
ORF1ab/nsp2177C177STgtAgt44B.1.5760.003626
ORF1ab/nsp2177C177TTGtACt33All0.000001
ORF1ab/nsp2177C177del2TGT--A23All0
ORF1ab/nsp2177C177del2TGt--t13All0
ORF1ab/nsp2177C177StGttCt23AY.1190.000071
ORF1ab/nsp2177C177STgtAgt13AY.1190.000035
ORF1ab/nsp2177C177CtgTtgC33AY.200.000117
ORF1ab/nsp2177C177delTGT---33AY.430.000013
ORF1ab/nsp2177C177CtgTtgC33AY.440.000018
ORF1ab/nsp2177C177FtGttTt33AY.440.000018
ORF1ab/nsp2177C177delTGT---33B.1.1.3480.002389
ORF1ab/nsp2177C177del1TGT-NN23B.1.1.70.000002
ORF1ab/nsp2177C177del1tgTtg-13B.1.1.70.000001
ORF1ab/nsp2177C177CtgTtgC33B.1.1600.000094
ORF1ab/nsp2177C177StGttCt33B.1.360.000438
ORF1ab/nsp2177C177STgtAgt33B.1.5260.000071
ORF1ab/nsp2177C177delTGT---33B.1.617.20.000011
ORF1ab/nsp2177C177STgtAgt33B.1.619.10.001924
ORF1ab/nsp2177C177del2TGT--A220.111111
ORF1ab/nsp2177C177GTgtGgt22All0
ORF1ab/nsp2177C177HTGtCAt22All0
ORF1ab/nsp2177C177CtgTtgC22AY.1020.000053
ORF1ab/nsp2177C177FtGttTt22AY.270.000129
ORF1ab/nsp2177C177delTGT---22AY.350.000466
ORF1ab/nsp2177C177CtgTtgC22AY.390.000049
ORF1ab/nsp2177C177STgtAgt12AY.4.20.000022
ORF1ab/nsp2177C177StGttCt12AY.4.20.000022
ORF1ab/nsp2177C177CtgTtgC22AY.4.50.000215
ORF1ab/nsp2177C177STgtAgt22AY.430.000009
ORF1ab/nsp2177C177STgtAgt22AY.450.000243
ORF1ab/nsp2177C177STgtAgt22AY.470.000062
ORF1ab/nsp2177C177StGttCt12AY.50.000021
ORF1ab/nsp2177C177STgtAgt12AY.50.000021
ORF1ab/nsp2177C177STgtAgt22AY.590.001059
ORF1ab/nsp2177C177RTgtCgt22B.10.000018
ORF1ab/nsp2177C177STgtAgt22B.1.1.2200.003717
ORF1ab/nsp2177C177STgtAgt22B.1.1.5190.000079
ORF1ab/nsp2177C177FtGttTt22B.1.1.70.000002
ORF1ab/nsp2177C177WtgTtgG22B.1.1.70.000002
ORF1ab/nsp2177C177STgtAgt22B.1.1600.000062
ORF1ab/nsp2177C177STgtAgt12B.1.1770.000013
ORF1ab/nsp2177C177StGttCt12B.1.1770.000013
ORF1ab/nsp2177C177StGttCt22B.1.177.730.001133
ORF1ab/nsp2177C177delTGT---22B.1.20.000018
ORF1ab/nsp2177C177StGttCt22B.1.2350.005038
ORF1ab/nsp2177C177STgtAgt22B.1.2400.000431
ORF1ab/nsp2177C177delTGT---22B.1.2580.000133
ORF1ab/nsp2177C177STgtAgt22B.1.3690.00057
ORF1ab/nsp2177C177STgtAgt22B.1.4290.000047
ORF1ab/nsp2177C177STgtAgt22B.1.4800.004975
ORF1ab/nsp2177C177STgtAgt22B.1.5250.000226
ORF1ab/nsp2177C177STgtAgt22B.1.5960.000174
ORF1ab/nsp2177C177TTGtACt22B.1.617.20.000008
ORF1ab/nsp2177C177YtGttAt22B.1.617.20.000008
ORF1ab/nsp2177C177delTGT---22N.60.014184
ORF1ab/nsp2177C177delTGT---22P.20.000373
ORF1ab/nsp2177C177STgtAgt22Q.30.00029
ORF1ab/nsp2177C177delTGT---11A.10.000282
ORF1ab/nsp2177C177STgtAgt11A.2.50.000499
ORF1ab/nsp2177C177CtgTtgC11A.2.50.000499
ORF1ab/nsp2177C177STgtAgt11A.210.00277
ORF1ab/nsp2177C177XtgTtgA11All0
ORF1ab/nsp2177C177LTGtCTt11All0
ORF1ab/nsp2177C177ATGTGCA11All0
ORF1ab/nsp2177C177NTGtAAt11All0
ORF1ab/nsp2177C177CtgTtgC11AY.1130.000142
ORF1ab/nsp2177C177STgtAgt11AY.1130.000142
ORF1ab/nsp2177C177StGttCt11AY.1180.000063
ORF1ab/nsp2177C177delTGT---11AY.1200.000037
ORF1ab/nsp2177C177StGttCt11AY.1200.000037
ORF1ab/nsp2177C177StGTtCA11AY.20.000356
ORF1ab/nsp2177C177STgtAgt11AY.200.000039
ORF1ab/nsp2177C177GTgtGgt11AY.250.000006
ORF1ab/nsp2177C177ATGTGCA11AY.250.000006
ORF1ab/nsp2177C177NTGtAAt11AY.260.000028
ORF1ab/nsp2177C177FtGttTt11AY.390.000025
ORF1ab/nsp2177C177YtGttAt11AY.39.10.00004
ORF1ab/nsp2177C177delTGT---11AY.40.000002
ORF1ab/nsp2177C177YtGttAt11AY.40.000002
ORF1ab/nsp2177C177WtgTtgG11AY.400.000964
ORF1ab/nsp2177C177RTgtCgt11AY.430.000004
ORF1ab/nsp2177C177HTGtCAt11AY.440.000006
ORF1ab/nsp2177C177XtgTtgA11AY.440.000006
ORF1ab/nsp2177C177FtGttTt11AY.460.000104
ORF1ab/nsp2177C177CtgTtgC11AY.460.000104
ORF1ab/nsp2177C177delTGT---11AY.460.000104
ORF1ab/nsp2177C177YtGttAt11AY.46.60.000072
ORF1ab/nsp2177C177STgtAgt11AY.540.000095
ORF1ab/nsp2177C177StGttCt11AY.60.000041
ORF1ab/nsp2177C177delTGT---11AY.750.000056
ORF1ab/nsp2177C177delTGT---11AY.75.10.00018
ORF1ab/nsp2177C177WtgTtgG11AY.75.10.00018
ORF1ab/nsp2177C177STgtAgt11AY.780.001541
ORF1ab/nsp2177C177STgtAgt11AY.840.000437
ORF1ab/nsp2177C177FtGttTt11AY.850.000427
ORF1ab/nsp2177C177STgtAgt11AY.910.00073
ORF1ab/nsp2177C177FtGttTt11B.10.000009
ORF1ab/nsp2177C177YtGttAt11B.10.000009
ORF1ab/nsp2177C177WtgTtgG11B.10.000009
ORF1ab/nsp2177C177CtgTtgC11B.10.000009
ORF1ab/nsp2177C177del2TGt--t11B.1.10.000018
ORF1ab/nsp2177C177FtGttTt11B.1.10.000018
ORF1ab/nsp2177C177delTGT---11B.1.10.000018
ORF1ab/nsp2177C177FtGttTt11B.1.1.2140.000055
ORF1ab/nsp2177C177CtgTtgC11B.1.1.2140.000055
ORF1ab/nsp2177C177WtgTtgG11B.1.1.280.000311
ORF1ab/nsp2177C177FtGttTt11B.1.1.280.000311
ORF1ab/nsp2177C177delTGT---11B.1.1.3150.008475
ORF1ab/nsp2177C177RTgtCgt11B.1.1.3480.000796
ORF1ab/nsp2177C177STgtAgt11B.1.1.390.00051
ORF1ab/nsp2177C177STgtAgt11B.1.1.4860.001577
ORF1ab/nsp2177C177YtGttAt11B.1.1.70.000001
ORF1ab/nsp2177C177TTGtACt11B.1.1.70.000001
ORF1ab/nsp2177C177HTGtCAt11B.1.1.70.000001
ORF1ab/nsp2177C177FtGttTt11B.1.1280.000635
ORF1ab/nsp2177C177delTGT---11B.1.1400.018868
ORF1ab/nsp2177C177FtGttTt11B.1.1770.000013
ORF1ab/nsp2177C177del1TGT-NN11B.1.20.000009
ORF1ab/nsp2177C177LTGtCTt11B.1.20.000009
ORF1ab/nsp2177C177WtgTtgG11B.1.20.000009
ORF1ab/nsp2177C177STgtAgt11B.1.2390.001221
ORF1ab/nsp2177C177delTGT---11B.1.2420.018868
ORF1ab/nsp2177C177FtGttTt11B.1.2430.00007
ORF1ab/nsp2177C177YtGttAt11B.1.258.200.015873
ORF1ab/nsp2177C177CtgTtgC11B.1.351.50.0006
ORF1ab/nsp2177C177FtGttTt11B.1.36.280.005747
ORF1ab/nsp2177C177CtgTtgC11B.1.36.380.001642
ORF1ab/nsp2177C177YtGttAt11B.1.36.390.002217
ORF1ab/nsp2177C177CtgTtgC11B.1.3690.000285
ORF1ab/nsp2177C177RTgtCgt11B.1.3690.000285
ORF1ab/nsp2177C177STgtAgt11B.1.3960.000706
ORF1ab/nsp2177C177STgtAgt11B.1.4000.000429
ORF1ab/nsp2177C177delTGT---11B.1.4290.000024
ORF1ab/nsp2177C177STgtAgt11B.1.4460.02
ORF1ab/nsp2177C177STgtAgt11B.1.4590.004082
ORF1ab/nsp2177C177STgtAgt11B.1.466.20.000391
ORF1ab/nsp2177C177STgtAgt11B.1.4680.005714
ORF1ab/nsp2177C177STgtAgt11B.1.5300.007143
ORF1ab/nsp2177C177CtgTtgC11B.1.5440.006024
ORF1ab/nsp2177C177STgtAgt11B.1.595.10.005848
ORF1ab/nsp2177C177RTgtCgt11B.1.5960.000087
ORF1ab/nsp2177C177delTGT---11B.1.5960.000087
ORF1ab/nsp2177C177STgtAgt11B.1.617.10.000129
ORF1ab/nsp2177C177GTgtGgt11B.1.617.20.000004
ORF1ab/nsp2177C177CtgTtgC11B.1.619.10.000641
ORF1ab/nsp2177C177delTGT---11B.1.6210.000089
ORF1ab/nsp2177C177STgtAgt11B.1.6210.000089
ORF1ab/nsp2177C177STgtAgt11B.1.621.10.000506
ORF1ab/nsp2177C177STgtAgt11B.1.6300.005236
ORF1ab/nsp2177C177delTGT---11C.360.000911
ORF1ab/nsp2177C177STgtAgt11C.370.000116
ORF1ab/nsp2177C177RTgtCgt11D.20.000075
ORF1ab/nsp2177C177STgtAgt11P.10.000016
ORF1ab/nsp2177C177FtGttTt11P.10.000016
ORF1ab/nsp2177C177StGttCt11P.1.140.000048
ORF1ab/nsp2177C177STgtAgt11P.1.160.000374
ORF1ab/nsp2177C177STgtAgt11P.1.170.000162
ORF1ab/nsp2177C177delTGT---11Q.20.000613
ORF1ab/nsp2177C177CtgTtgC11Q.80.000165
ORF1ab/nsp2177C177STgtAgt11R.10.00009

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.