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Table 2 Synonymous and non-synonymous analysis of mutations in the heterogeneity sites

From: GenHtr: a tool for comparative assessment of genetic heterogeneity in microbial genomes generated by massive short-read sequencing

Chrom Position

Types of Mutations

Genotype at SRX007711

Genotype at FPR3757

Alignment with Orthologous Proteins

Gene and Function

    

gi 87161249 ref

423

EKDATIEKSNTG

 
      

E DATIEKSNTG

 
      

ENDATIEKSNTG

 
    

SRR022865_26088

1

gaggaagataag

 

778416

NONSYN

T:6 G:140

G:37

  

aaacctaacacg

 
      

attattgaacat

sulfatase family protein lipoate-protein ligase A family protein

1021087

   

Query: 36 VKLAMEEYVLKN

1

  
 

NONSYN

T:5 G:151

G:37

+ LAMEEYVLKN

   
    

Sbjct: 14 LNLAMEEYVLKN

25

  
    

gi 87162345 ref

143

AGIGRYLLNRVD

 
      

AGIGRYLLNR+D

 
      

AGIGRYLLNRLD

 
    

SRR022865_32431

-37

Ggagattcaatg

lantibiotic epidermin biosynthesis protein EpiC

      

Cgtggattagta

 

1950547

NONSYN

A:5 C:164

C:37

  

Tgagatgataat

 
    

gi 87160275 ref

122

NCLPVYKILLEK

 
      

NCLPVYKILL+K

 
      

NCLPVYKILLKK

 
    

SRR022865_59666

-36

attcgtaattaa

Lactose phosphotransferase system repressor phosphotransferase system, glucose-specific IIABC component

      

agtctaatttaa

 

2333470

NONSYN

T:5 C:164

C:37

  

ttgggtatgaaa

 
    

Query: 36 LV*IAPWLKNDI

1

  
    

LV IAPWLKNDI

   

2674216

TRUNC

A:5 C:170

C:37

Sbjct: 41 LVEIAPWLKNDI

52

  
    

gi 87161394 ref

71

KKVLLTGLGIVI

 
      

KK+LLTGLGIVI

 
      

KKLLLTGLGIVI

 
    

SRR022865_30969

1

aatctagtgaga

 

2648343

NONSYN

A:5 C:192

C:37

  

aatttcgtgttt

drug transporter

      

aaatagagaaac

 
    

gi 87160343 ref

120

EVQSKEMLIISI

 
      

EVQSKEMLI+SI

 
      

EVQSKEMLIVSI

 
    

SRR022865_47009

2

ggctagatagaa

 

2262790

NONSYN

A:153 G:6

A:37

  

atacaattttgt

cation efflux family protein

      

ataaaagacttt

 
    

gi 87160156 ref

825

SDSDSDSDSDSD

 
      

SDSDSDSDSDSD

 
      

SDSDSDSDSDSD

 
    

SRR022865_28556

-37

agtgtgagtgtg

 

861340

SYN

A:9 C:136

C:49

  

gacacagacaca

clumping factor A

      

ctatatctatac

 
    

gi 87160605 ref

4

FTQLSDRIKKAI

 
      

FTQLSDRIKK I

 
      

FTQLSDRIKKDI

 
    

SRR022865_49291

-36

tactagaaaaga

 

1542366

NONSYN

A:14 G:85

G:37

  

tcatgagtaaat

hypothetical protein

      

ttagttacaacc

 
    

gi 87160966 ref

476

RNDMVEFFGEKL

5-

      

RN+MVEFFGEKL

 
      

RNEMVEFFGEKL

Methyltetrahydropteroyltriglut amate--homocysteine S- Methyltransferase

    

SRR022865_53088

1

cagaggttggat

 
      

gaattattgaat

 

408863

NONSYN

T:6 G:160

G:37

  

ttagtaccaaaa

 
    

gi 87161941 ref

177

VDVLDVYSDAY

 
      

VD+LDVYSDAY

 
      

VDLLDVYSDAY

 
    

SRR022865_54601

3

ggttggttggt

 

1180638

NONSYN

T:5 G:97

G:37

  

tattatacaca

cell division protein ftsA

      

ttaattcttat

 
    

gi 87160920 ref

104

KGDIIGYVEAMK

 
      

KGDIIGYVEA+K

 
      

KGDIIGYVEAIK

 
    

SRR022865_82913

-37

aggaagtgggaa

acetyl-CoA carboxylase, biotin carboxyl carrier protein

      

agattgatacta

 

1714319

NONSYN

T:6 C:95

C:37

  

gattaattagaa

 
    

gi 87162179 ref

415

AKSEVWRQMMSD

 
      

AKSEVWRQM+SD

 
      

AKSEVWRQMISD

 
    

SRR022865_51952

-36

gaaggtccaatg

 
      

cagatggattca

 

2638027

NONSYN

A:5 C:112

C:36

  

gataagtagtat

gluconate kinase

    

gi 87161981 ref

47

DIAVVDIMMDGM

 
      

DIAVVDIMMD M

 
      

DIAVVDIMMDVM

 
    

SRR022865_55616

-36

gaggggaaagga

 
      

atcttatttatt

 

2481059

NONSYN

T:5 G:148

G:37

  

ttagattggttg

response regulator protein

    

gi 87161886 ref

196

KSENIEKTVNRF

 
      

K ENIEKTVNRF

 
      

KIENIEKTVNRF

 
    

SRR022865_56405

1

aagaagaagact

 
      

ataataactagt

thiamine-phosphate pyrophosphorylase

2212436

NONSYN

A:5 C:107

C:37

  

atattagtttac

 
    

gi 87161325 ref

64

PVVKELKKHAK

 
      

P VKELKKHAK

 
      

PFVKELKKHAK

 
    

SRR022865_71442

3

ctgagtaacga

 
      

cttaataaaca

 

1252956

NONSYN

T:9 G:125

G:37

  

ttaaagaataa

DNA topoisomerase I

    

gi 87162241 ref

319

SMDNVVTVGSTD

 
      

SM NVVTVGSTD

 
      

SMYNVVTVGSTD

lantibiotic epidermin leader

    

SRR022865_97728

2

tataggaggtag

 

1948255

NONSYN

A:5 C:169

C:37

  

ctaattctgcca

peptide processing serine

      

tgctctaaatat

protease EpiP

1309034

TRUNC

C:115 G:5

C:37

Query: 35 ASAGKKSSI*N

3 b

 

DNA mismatch repair protein MutS

    

Sbjct: 754 ASAGKKSSISN

764

  
    

gi 87161934 ref

619

QQANVELSPTSD

 
      

Q+ANVELSPTSD

 
      

QKANVELSPTSD

 
    

SRR022865_10478

2

cagaggtacatg

 

950365

NONSYN

A:5 C:113

C:37

  

aacatatgccca

 
      

ggttcgataaat

exonuclease RexB

    

Query: 1 FK*YFKQFEENY

36

  
    

FK YFKQFEENY

   
    

Sbjct: 223 FKSYFKQFEENY

234

  

2512836

TRUNC

C:7 G:115

G:37

   

sensor histidine kinase

    

Query: 3 Q*IINDEVDIG

35

  
    

Q IINDEVDIG

  

LysR family transcriptional regulator

2678195

TRUNC

A:5 G:92

G:37

Sbjct: 137 QQIINDEVDIG

147

  
  1. Note. TRUNC: truncated protein; NONSYN: non-synonymous mutation and SYN: synonymous mutation. a: align with Genewisedb and b: align with Blastx.
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BMC Bioinformatics

ISSN: 1471-2105

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