; dna-pattern  -v 1 -pl $RSAT/public_html/tmp/www-data/2026/05/26/dna-pattern_2026-05-26.105011_CMLFk9.pat -i $RSAT/public_html/tmp/www-data/2026/05/26/tmp_sequence_2026-05-26.105011_M9Se3H -format fasta -return sites -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/2026/05/26/tmp_sequence_2026-05-26.105011_M9Se3H
; Input format         	fasta
; Pattern file         	$RSAT/public_html/tmp/www-data/2026/05/26/dna-pattern_2026-05-26.105011_CMLFk9.pat
; Search method        	regexp
; Threshold            	0
; Allowed substitutions	0
; Return fields
;                     	sites
;                     	limits
; Patterns
; 	seq	id	score
; 	AAMAATCT	NBS_1	1
; 	WRATATCT	EE_1	1
; 	AAATCT	NBS_2	1
; 	ATATCT	EE_2	1
; 
; Matching positions
; PatID	Strand	Pattern	SeqID	Start	End	matching_seq	Score
START_END	DR	-	Os01g0106300	1	4393	-	0.00
NBS_1	R	AAMAATCT	Os01g0106300	1359	1366	ataaAACAATCTgagc	1.00
NBS_2	D	AAATCT	Os01g0106300	879	884	tttaAAATCTaatt	1.00
NBS_2	R	AAATCT	Os01g0106300	2720	2725	ccccAAATCTacct	1.00
EE_2	D	ATATCT	Os01g0106300	192	197	taggATATCTgttt	1.00
EE_2	D	ATATCT	Os01g0106300	822	827	cgttATATCTacca	1.00
EE_2	D	ATATCT	Os01g0106300	4118	4123	acgaATATCTcaac	1.00
; Host name	rsat
; Job started	2026-05-26.105011
; Job done	2026-05-26.105011
; Seconds	0.1
;	user	0.1
;	system	0.01
;	cuser	0
;	csystem	0