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Table 3 Potential regulatory elements and intergenic motifs of the JG024 genome.

From: Characterization of JG024, a pseudomonas aeruginosa PB1-like broad host range phage under simulated infection conditions

Position

ORF

Sequence

Orientation

Score

dG (kcal mol-1)

putative σ 70-dependent promoter elements:

9286..9336

ORF18

ATGTTTGAATCTCTTTTGAA CGT TTGATGTTTCCCCTATAA TAAGC GCACA

Forward

1.22

 

13050..13100

ORF22

TCATCTATAAGTAACGTTAT AAC ATAACGTCAATTTATATGCT CTA GACGT

forward

1.19

 

putative rho-independent terminator elements:

2313..2343

ORF 10

AAGCCCGGA GCGATCCGGGCTT T TCTGTGTT

reverse

 

-17.5

16623..16644

ORF24

GGCCGG GTTTCCGGCCTT TGTT

forward

 

-12.3

35910..35942

ORF48

AAAAGGCCGCT TATTCAGCGGCC TTTT TGCTTT

forward

 

-18.3

35931..35900

ORF49

AAAAGGCCGCT GAATAAGCGGCC TTTT CTTTT

reverse

 

-18.3

59033..59059

ORF77

AGGCCGCC TTCGGGCGGTCT TTT CTTT

forward

 

-14.7

60667..60706

ORF80

AAAGCCCCGG ACTCT AGTTCAGA A TCCGGGGCTTT CTTTT

forward

 

-23.8

60700..60657

ORF81

AAAGCCCCGG ATTCT GAACTAGA G TCCGGGGCTTT GTCGCTTCT

reverse

 

-23.8

  1. Position and orientation of putative sigma 70 promoters and putative rho-independent terminator regions. The putative promoters were identified using SAK and Virtual Footprint as described in Methods. "Orf" indicates the Orf in the 3'-region of the putative promoter. Bold letters of the promoter sequences indicate -35 and -10 regions. The putative terminator regions were identified using the programs TransTerm and FindTerm as described in Methods. The indicated Orf is the respective Orf in the 5'-region of the putative rho-independent terminator.