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Table 6 SNVs of hp0605-hp0607 cluster in 12 CLR-resistant H. pylori

From: Whole-genome sequencing of clarithromycin resistant Helicobacter pylori characterizes unidentified variants of multidrug resistant efflux pump genes

  Locus tag HP0605 (NP_207400.1)        
  Annotation hypothetical protein        
  Coding sequence c.530A > C   c.546A > G   c.804 T > C   c.1365 T > C  
  Amino acid p.Asn177Thr   No   No   No  
  Nucleotide positiona 641828 641844 642102 642663
Strain   Count reads/Total reads Frequency (%) Count reads/Total reads Frequency (%) Count reads/Total reads Frequency (%) Count reads/Total reads Frequency (%)
S1   179/180 99.4 181/181 100 140/141 99.3 107/107 100
S2   373/373 100 392/394 99.5 319/320 99.7 295/295 100
S4   212/213 99.5 219/221 99.1 212/214 99.1 204/205 99.5
S8   507/508 99.8 530/532 99.6 478/479 99.8 503/506 99.4
S13   218/218 100 225/225 100 169/170 99.4 179/179 100
S16   343/343 100 371/371 100 325/325 100 312/313 99.7
S17   266/266 100 306/306 100 185/186 99.5 246/246 100
S22   328/328 100 348/348 100 299/299 100 287/289 99.3
S23   -   -   -   -  
S26   341/341 100 368/368 100 321/321 100 310/311 99.7
174   123/123 100 124/124 100 114/114 100 151/151 100
194   305/306 99.7 324/324 100 341/343 99.4 231/232 99.6
  Locus tag HP0606 (NP_207401.1)        
  Annotation membrane fusion protein MtrC       
  Coding sequence c.99 T > C   c.105A > G   c.192A > G    
  Amino acid No   No   No    
  Nucleotide position 642841 642847 642934   
Strain   Count reads/Total reads Frequency (%) Count reads/Total reads Frequency (%) Count reads/Total reads Frequency (%)   
S1   140/140 100 129/129 100 139/140 99.3   
S2   340/340 100 324/324 100 383/385 99.5   
S4   194/194 100 192/193 99.5 221/223 99.1   
S8   496/498 99.6 472/473 99.8 505/506 99.8   
S13   203/203 100 194/194 100 -    
S16   329/331 99.4 316/317 99.7 335/335 100   
S17   233/233 100 230/230 100 272/273 99.6   
S22   295/295 100 285/285 100 320/322 99.4   
S23   109/109 100 105/105 100 110/110 100   
S26   323/325 99.4 311/312 99.7 331/331 100   
174   137/138 99.3 126/127 99.2 137/138 99.3   
194   -   -   299/301 99.3   
  Locus tag HP0607 (NP_207402.1)        
  Annotation acriflavine resistance protein AcrB        
  Coding sequence c.1341T>C   c.39A>G      
  Amino acid No   No      
  Nucleotide position 644800 643498     
Strain   Count reads/Total reads Frequency (%) Count reads/Total reads Frequency (%)     
S1   159/160 99.4 123/124 99.2     
S2   345/347 99.4 280/280 100     
S4   284/286 99.3 182/182 100     
S8   585/586 99.8 431/432 99.8     
S13   227/228 99.6 164/164 100     
S16   425/425 100 295/295 100     
S17   317/317 100 198/198 100     
S22   346/347 99.7 273/275 99.3     
S23   104/104 100 106/106 100     
S26   419/419 100 295/295 100     
174   113/113 100 -      
194   -   342/344 99.4     
  1. aNucelotide position was based on NC_000915.