; dna-pattern  -v 1 -pl $RSAT/public_html/tmp/www-data/2026/07/23/dna-pattern_2026-07-23.193029_dyScSJ.pat -i $RSAT/public_html/tmp/www-data/2026/07/23/tmp_sequence_2026-07-23.193029_nWp1yT.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_2026-07-23.193029_nWp1yT.fasta
; Input format         	fasta
; Pattern file         	$RSAT/public_html/tmp/www-data/2026/07/23/dna-pattern_2026-07-23.193029_dyScSJ.pat
; Search method        	regexp
; Threshold            	0
; Allowed substitutions	0
; Return fields
;                     	limits
;                     	sites
; Patterns
; 	seq	id	score
; 	GnnnAnnnnnTnnnC	Fis	1
; 	ANNGCAC	SoxS_plus	1
; 	GTGCTNN	SoxS_minus	1
; 	TTGACAn{15,19}TATAAT	Sigma70_RpoD	1
; 	TGGCACn{6}TTGC	Sigma54_RpoN	1
; 	TTGACAn{15,19}CTATACT	Sigma38_RpoS	1
; 	CnTGGAAn{15,17}CGAAT	Sigma32_RpoH	1
; 	TAAAGn{10,12}[AG][CT]CGA	Sigma28_RpoF	1
; 	GAACTTn{15,17}TCAAA	Sigma24_RpoE	1
; 	AAGGAAAn{15,17}TTCG	Sigma19_FecI	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	2026-07-23.193030
; Job done	2026-07-23.193030
; Seconds	0.09
;	user	0.09
;	system	0.02
;	cuser	0
;	csystem	0