; dna-pattern  -v 1 -pl $RSAT/public_html/tmp/www-data/2026/06/02/dna-pattern_2026-06-02.102753_MP2meE.pat -i $RSAT/public_html/tmp/www-data/2026/06/02/tmp_sequence_2026-06-02.102753_OninIe.fasta -format fasta -return sites -origin -0 -N 4 -return limits -noov -2str -subst 0
; Citation: van Helden et al. (2000). Yeast 16(2), 177-187.
; Input file           	$RSAT/public_html/tmp/www-data/2026/06/02/tmp_sequence_2026-06-02.102753_OninIe.fasta
; Input format         	fasta
; Pattern file         	$RSAT/public_html/tmp/www-data/2026/06/02/dna-pattern_2026-06-02.102753_MP2meE.pat
; Search method        	regexp
; Threshold            	0
; Allowed substitutions	0
; Return fields
;                     	limits
;                     	sites
; Patterns
; 	seq	id	score
; 	GAGTHCA	GAGTHCA	1
; 	AAWTTCRG	AAWTTCRG	1
; 	TYCTATATGGACTCT	TYCTATATGGACTCT	1
; 	TAATCTCGTATTGGG	TAATCTCGTATTGGG	1
; 	CTTYYAATATTCCTT	CTTYYAATATTCCTT	1
; 	TAWTTYYRAATTKT	TAWTTYYRAATTKT	1
; 	AATATTCCTTATTTT	AATATTCCTTATTTT	1
; 	GCGSGGGS	GCGSGGGS	1
; 	AAAARAARAG	AAAARAARAG	1
; 	TTCCTACTTG	TTCCTACTTG	1
; 	RAATAAAAATAAAA	RAATAAAAATAAAA	1
; 	WAGAGTAT	WAGAGTAT	1
; 
; Matching positions
; PatID	Strand	Pattern	SeqID	Start	End	matching_seq	Score
START_END	DR	-	BIM2	-2162	-1	-	0.00
GAGTHCA	D	GAGTHCA	BIM2	-329	-323	acccGAGTCCAacgc	1.00
GCGSGGGS	D	GCGSGGGS	BIM2	-23	-16	tgctGCGCGGGGtaat	1.00
GCGSGGGS	R	GCGSGGGS	BIM2	-897	-890	agcgGCGGGGGCccgg	1.00
AAAARAARAG	D	AAAARAARAG	BIM2	-1415	-1406	tagtAAAAAAAAAGagag	1.00
; Host name	rsat
; Job started	2026-06-02.102754
; Job done	2026-06-02.102754
; Seconds	0.1
;	user	0.1
;	system	0.01
;	cuser	0
;	csystem	0