G4PromFinder: an algorithm for predicting transcription promoters in GC-rich bacterial genomes based on AT-rich elements and G-quadruplex motifs

Table 4 Comparison between G4PromFinder, PePPER, PromPredict and bTSSfinder testing results^a

Tools	Bacterial genome	Streptomyces coelicolor A3(2)	Pseudomonas aeruginosa PA14
G4PromFinder	Recall	0.70	0.69
	Precision	0.54	0.43
	F₁-score	0.61	0.53
PePPER	Recall	0.20	0.31
	Precision	0.78	0.67
	F₁-score	0.32	0.42
PromPredict	Recall	0.51	0.56
	Precision	0.41	0.42
	F₁-score	0.46	0.48
bTSSfinder (for E. coli σ factors)	Recall	0.45	0.41
	Precision	0.33	0.31
	F₁-score	0.38	0.36
bTSSfinder (for Cyanobacteria σ factors)	Recall	0.29	0.30
	Precision	0.27	0.26
	F₁-score	0.28	0.28

^aTest experiments were repeated 10 times for 548 and 338 randomly selected sequences of positive sets of S. coelicolor A3(2) and P. aeruginosa PA14, and the means were taken

ISSN: 1471-2105