CoV-GLUEGenomeCountriesLineagesMutationsInsertionsDeletionsUpdated:

CoV-GLUE | Mutations | Mutation

CoV-GLUE Mutation: ORF = ORF1ab/nsp13 : CodonNum = 27

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/nsp1327C27CC5351CsyntgTtgC961961116315-16317
ORF1ab/nsp1327C27delC5351deldelTGT---8686116315-16317
ORF1ab/nsp1327C27FC5351FnonsyntGttTt99116315-16317
ORF1ab/nsp1327C27SC5351SnonsyntGttCt850.62516315-16317
ORF1ab/nsp1327C27SC5351SnonsynTgtAgt830.37516315-16317
ORF1ab/nsp1327C27YC5351YnonsyntGttAt66116315-16317
ORF1ab/nsp1327C27RC5351RnonsynTgtCgt650.83333316315-16317
ORF1ab/nsp1327C27RC5351RnonsynTgTAgG610.16666716315-16317
ORF1ab/nsp1327C27NC5351NnonsynTGTAAC430.7516315-16317
ORF1ab/nsp1327C27NC5351NnonsynTGtAAt410.2516315-16317
ORF1ab/nsp1327C27GC5351GnonsynTgtGgt22116315-16317
ORF1ab/nsp1327C27WC5351WnonsyntgTtgG22116315-16317
ORF1ab/nsp1327C27DC5351DnonsynTGtGAt11116315-16317
ORF1ab/nsp1327C27del1C5351del1delTgt-gt11116315-16317

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/nsp1327C27CtgTtgC961961All0.000184
ORF1ab/nsp1327C27CtgTtgC662662B.1.3610.853093
ORF1ab/nsp1327C27delTGT---8686All0.000016
ORF1ab/nsp1327C27CtgTtgC7676B.1.4290.001788
ORF1ab/nsp1327C27CtgTtgC4949AY.1030.000304
ORF1ab/nsp1327C27delTGT---4444B.1.1.70.000039
ORF1ab/nsp1327C27CtgTtgC3939B.10.000357
ORF1ab/nsp1327C27CtgTtgC3737AY.40.000058
ORF1ab/nsp1327C27CtgTtgC2424B.1.20.000211
ORF1ab/nsp1327C27CtgTtgC1616B.1.1.70.000014
ORF1ab/nsp1327C27CtgTtgC1010B.1.5960.000871
ORF1ab/nsp1327C27FtGttTt99All0.000002
ORF1ab/nsp1327C27StGttCt58All0.000001
ORF1ab/nsp1327C27STgtAgt38All0.000001
ORF1ab/nsp1327C27delTGT---77B.1.1770.000092
ORF1ab/nsp1327C27YtGttAt66All0.000001
ORF1ab/nsp1327C27RTgtCgt56All0.000001
ORF1ab/nsp1327C27RTgTAgG16All0
ORF1ab/nsp1327C27delTGT---66AY.430.000027
ORF1ab/nsp1327C27CtgTtgC66B.1.617.20.000023
ORF1ab/nsp1327C27CtgTtgC55B.1.5800.020325
ORF1ab/nsp1327C27NTGTAAC34All0.000001
ORF1ab/nsp1327C27NTGtAAt14All0
ORF1ab/nsp1327C27CtgTtgC44AY.440.000024
ORF1ab/nsp1327C27delTGT---44B.10.000037
ORF1ab/nsp1327C27CtgTtgC44B.1.258.170.000416
ORF1ab/nsp1327C27delTGT---44B.1.617.20.000015
ORF1ab/nsp1327C27CtgTtgC44P.1.100.001078
ORF1ab/nsp1327C27delTGT---33AY.40.000005
ORF1ab/nsp1327C27StGttCt23AY.40.000003
ORF1ab/nsp1327C27STgtAgt13AY.40.000002
ORF1ab/nsp1327C27STgtAgt23B.1.1.70.000002
ORF1ab/nsp1327C27StGttCt13B.1.1.70.000001
ORF1ab/nsp1327C27delTGT---220.111111
ORF1ab/nsp1327C27NTGTAAC220.111111
ORF1ab/nsp1327C27WtgTtgG22All0
ORF1ab/nsp1327C27GTgtGgt22All0
ORF1ab/nsp1327C27CtgTtgC22AY.30.00002
ORF1ab/nsp1327C27YtGttAt22AY.40.000003
ORF1ab/nsp1327C27delTGT---22AY.4.50.000215
ORF1ab/nsp1327C27CtgTtgC22B.1.10.000036
ORF1ab/nsp1327C27NTGTAAC12B.1.10.000018
ORF1ab/nsp1327C27NTGtAAt12B.1.10.000018
ORF1ab/nsp1327C27CtgTtgC22B.1.780.017094
ORF1ab/nsp1327C27FtGttTt22D.20.00015
ORF1ab/nsp1327C27FtGttTt110.055556
ORF1ab/nsp1327C27CtgTtgC11A0.000387
ORF1ab/nsp1327C27RTgtCgt11A.2.50.000499
ORF1ab/nsp1327C27DTGtGAt11All0
ORF1ab/nsp1327C27del1Tgt-gt11All0
ORF1ab/nsp1327C27del1Tgt-gt11AY.1000.000046
ORF1ab/nsp1327C27CtgTtgC11AY.1020.000027
ORF1ab/nsp1327C27CtgTtgC11AY.1090.00074
ORF1ab/nsp1327C27delTGT---11AY.1130.000142
ORF1ab/nsp1327C27CtgTtgC11AY.200.000039
ORF1ab/nsp1327C27FtGttTt11AY.250.000006
ORF1ab/nsp1327C27delTGT---11AY.30.00001
ORF1ab/nsp1327C27CtgTtgC11AY.330.000067
ORF1ab/nsp1327C27FtGttTt11AY.390.000025
ORF1ab/nsp1327C27RTgTAgG11AY.390.000025
ORF1ab/nsp1327C27CtgTtgC11AY.420.00004
ORF1ab/nsp1327C27delTGT---11AY.420.00004
ORF1ab/nsp1327C27CtgTtgC11AY.470.000031
ORF1ab/nsp1327C27FtGttTt11AY.50.000021
ORF1ab/nsp1327C27CtgTtgC11AY.610.000105
ORF1ab/nsp1327C27delTGT---11AY.670.000464
ORF1ab/nsp1327C27delTGT---11AY.750.000056
ORF1ab/nsp1327C27WtgTtgG11AY.990.001049
ORF1ab/nsp1327C27FtGttTt11B0.000128
ORF1ab/nsp1327C27YtGttAt11B0.000128
ORF1ab/nsp1327C27YtGttAt11B.10.000009
ORF1ab/nsp1327C27DTGtGAt11B.10.000009
ORF1ab/nsp1327C27RTgtCgt11B.10.000009
ORF1ab/nsp1327C27StGttCt11B.10.000009
ORF1ab/nsp1327C27YtGttAt11B.1.1.100.001115
ORF1ab/nsp1327C27CtgTtgC11B.1.1.2220.000204
ORF1ab/nsp1327C27delTGT---11B.1.1.3110.000358
ORF1ab/nsp1327C27StGttCt11B.1.1.610.008772
ORF1ab/nsp1327C27GTgtGgt11B.1.1.70.000001
ORF1ab/nsp1327C27FtGttTt11B.1.1.70.000001
ORF1ab/nsp1327C27WtgTtgG11B.1.1.70.000001
ORF1ab/nsp1327C27CtgTtgC11B.1.1110.001175
ORF1ab/nsp1327C27CtgTtgC11B.1.1430.021277
ORF1ab/nsp1327C27RTgtCgt11B.1.1600.000031
ORF1ab/nsp1327C27CtgTtgC11B.1.1700.00431
ORF1ab/nsp1327C27YtGttAt11B.1.1770.000013
ORF1ab/nsp1327C27FtGttTt11B.1.177.600.000218
ORF1ab/nsp1327C27delTGT---11B.1.177.620.001192
ORF1ab/nsp1327C27delTGT---11B.1.177.680.015152
ORF1ab/nsp1327C27delTGT---11B.1.177.70.000165
ORF1ab/nsp1327C27delTGT---11B.1.177.730.000566
ORF1ab/nsp1327C27delTGT---11B.1.20.000009
ORF1ab/nsp1327C27CtgTtgC11B.1.2430.00007
ORF1ab/nsp1327C27RTgtCgt11B.1.2580.000067
ORF1ab/nsp1327C27CtgTtgC11B.1.2580.000067
ORF1ab/nsp1327C27CtgTtgC11B.1.36.380.001642
ORF1ab/nsp1327C27CtgTtgC11B.1.3800.006623
ORF1ab/nsp1327C27delTGT---11B.1.416.10.001563
ORF1ab/nsp1327C27CtgTtgC11B.1.4270.00005
ORF1ab/nsp1327C27RTgtCgt11B.1.4270.00005
ORF1ab/nsp1327C27CtgTtgC11B.1.5260.000024
ORF1ab/nsp1327C27CtgTtgC11B.1.5640.000426
ORF1ab/nsp1327C27GTgtGgt11B.1.6090.000479
ORF1ab/nsp1327C27delTGT---11C.170.055556
ORF1ab/nsp1327C27delTGT---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

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