; dna-pattern  -v 1 -pl $RSAT/public_html/tmp/www-data/2026/07/23/dna-pattern_2026-07-23.192844_Y5rzUK.pat -i $RSAT/public_html/tmp/www-data/2026/07/23/tmp_sequence_2026-07-23.192844_fp0Fr1.fasta -format fasta -return sites -N 4 -return limits -2str -subst 0
; Citation: van Helden et al. (2000). Yeast 16(2), 177-187.
; Input file           	$RSAT/public_html/tmp/www-data/2026/07/23/tmp_sequence_2026-07-23.192844_fp0Fr1.fasta
; Input format         	fasta
; Pattern file         	$RSAT/public_html/tmp/www-data/2026/07/23/dna-pattern_2026-07-23.192844_Y5rzUK.pat
; Search method        	regexp
; Threshold            	0
; Allowed substitutions	0
; Return fields
;                     	limits
;                     	sites
; Patterns
; 	seq	id	score
; 	TTGACANNNNNNNNNNNNNNNNNTATAAT	Sigma70_RpoD	1
; 	TGGCACNNNNNNTTGCW	Sigma54_RpoN	1
; 	TTGACANNNNNNNNNNNNNNNNNCTATACT	Sigma38_RpoS	1
; 	CNTGGAANNNNNNNNNNNNNNNNCGAAT	Sigma32_RpoH	1
; 	TAAAGNNNNNNNNNNNRYCGA	Sigma28_RpoF	1
; 	GAACTTNNNNNNNNNNNNNNNNTCAAA	Sigma24_RpoE	1
; 	AAGGAAANNNNNNNNNNNNNNNNTTCG	Sigma19_FecI	1
; 	GNNNANNNNNTNNNC	Fis	1
; 	ANNGCAC	SoxS	1
; 
; Matching positions
; PatID	Strand	Pattern	SeqID	Start	End	matching_seq	Score
START_END	DR	-	tmrL	1	100	-	0.00
; Host name	rsat
; Job started	2026-07-23.192844
; Job done	2026-07-23.192844
; Seconds	0.11
;	user	0.11
;	system	0
;	cuser	0
;	csystem	0