; dna-pattern  -v 1 -pl $RSAT/public_html/tmp/www-data/2026/07/22/dna-pattern_2026-07-22.124522_IY9Th8.pat -i $RSAT/public_html/tmp/www-data/2026/07/22/retrieve-seq_2026-07-22.124359_FmUl4a.fasta.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/2026/07/22/retrieve-seq_2026-07-22.124359_FmUl4a.fasta.fasta
; Input format         	fasta
; Pattern file         	$RSAT/public_html/tmp/www-data/2026/07/22/dna-pattern_2026-07-22.124522_IY9Th8.pat
; Search method        	regexp
; Threshold            	0
; Allowed substitutions	0
; Return fields
;                     	sites
;                     	limits
; Patterns
; 	seq	id	score
; 	ctawwwwtag	ctawwwwtag	1
; 	ccwwwwwwgg	ccwwwwwwgg	1
; 
; Matching positions
; PatID	Strand	Pattern	SeqID	Start	End	matching_seq	Score
START_END	DR	-	CWP1	-1001	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	CWP1	-387	-378	ataaCTAAAAATAGcgtt	1.00
START_END	DR	-	GFA1	-765	-1	-	0.00
START_END	DR	-	YPL088W	-815	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	YPL088W	-517	-508	gtttCTATTATTAGcttt	1.00
START_END	DR	-	FLC2	-877	-1	-	0.00
START_END	DR	-	PAU15	-1001	-1	-	0.00
START_END	DR	-	PRM5	-1001	-1	-	0.00
START_END	DR	-	SED1	-1001	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	SED1	-481	-472	atcgCTAAAATTAGccat	1.00
START_END	DR	-	AFR1	-778	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	AFR1	-350	-341	gcgcCTAAAAATAGatgg	1.00
ccwwwwwwgg	DR	ccwwwwwwgg	AFR1	-35	-26	taggCCATATTAGGtgtt	1.00
START_END	DR	-	CRG1	-724	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	CRG1	-146	-137	cgatCTATATTTAGcatt	1.00
START_END	DR	-	ASK10	-1001	-1	-	0.00
START_END	DR	-	PCM1	-628	-1	-	0.00
START_END	DR	-	RCR1	-239	-1	-	0.00
START_END	DR	-	CHS3	-1001	-1	-	0.00
START_END	DR	-	YPR078C	-605	-1	-	0.00
START_END	DR	-	CMK2	-958	-1	-	0.00
START_END	DR	-	YPS6	-1001	-1	-	0.00
START_END	DR	-	Q0255	-1	-1	-	0.00
START_END	DR	-	COS4	-1001	-1	-	0.00
START_END	DR	-	DIA1	-431	-1	-	0.00
START_END	DR	-	SLT2	-455	-1	-	0.00
START_END	DR	-	MTL1	-760	-1	-	0.00
START_END	DR	-	PLB1	-1001	-1	-	0.00
START_END	DR	-	GSC2	-795	-1	-	0.00
START_END	DR	-	DFG5	-430	-1	-	0.00
START_END	DR	-	CCW14	-320	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	CCW14	-220	-211	attaCTATTTATAGaagc	1.00
START_END	DR	-	PTP2	-468	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	PTP2	-43	-34	agtgCTATTAATAGttta	1.00
START_END	DR	-	SRL3	-459	-1	-	0.00
START_END	DR	-	YPS1	-524	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	YPS1	-508	-499	gacaCTATATATAGacac	1.00
START_END	DR	-	GYL1	-341	-1	-	0.00
START_END	DR	-	SMF1	-607	-1	-	0.00
START_END	DR	-	PRB1	-447	-1	-	0.00
START_END	DR	-	CIT1	-785	-1	-	0.00
START_END	DR	-	MSB3	-380	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	MSB3	-77	-68	gtagCTAAAAATAGctaa	1.00
START_END	DR	-	RCN2	-319	-1	-	0.00
START_END	DR	-	COS111	-859	-1	-	0.00
START_END	DR	-	SUR1	-373	-1	-	0.00
START_END	DR	-	YIL108W	-722	-1	-	0.00
START_END	DR	-	NTH1	-570	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	NTH1	-283	-274	aaggCTATATATAGactg	1.00
START_END	DR	-	PRM10	-1	-1	-	0.00
START_END	DR	-	SSK22	-380	-1	-	0.00
START_END	DR	-	CRH1	-518	-1	-	0.00
START_END	DR	-	RLM1	-815	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	RLM1	-309	-300	aaagCTAATAATAGaaac	1.00
START_END	DR	-	KTR2	-335	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	KTR2	-268	-259	ctaaCTAATTATAGcatt	1.00
START_END	DR	-	TMA10	-967	-1	-	0.00
START_END	DR	-	YJL132W	-351	-1	-	0.00
START_END	DR	-	PCA1	-1001	-1	-	0.00
START_END	DR	-	SPO11	-304	-1	-	0.00
START_END	DR	-	MSG5	-359	-1	-	0.00
ccwwwwwwgg	DR	ccwwwwwwgg	MSG5	-267	-258	ctttCCAAAAAAGGaaaa	1.00
START_END	DR	-	YPS5	-1001	-1	-	0.00
START_END	DR	-	RIM21	-380	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	RIM21	-314	-305	ttagCTATTTTTAGctac	1.00
START_END	DR	-	YIL029C	-1001	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	YIL029C	-264	-255	tagtCTATTATTAGagag	1.00
START_END	DR	-	GDE1	-525	-1	-	0.00
START_END	DR	-	YJL107C	-1001	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	YJL107C	-503	-494	tgaaCTATTTTTAGatta	1.00
START_END	DR	-	YPS3	-1001	-1	-	0.00
START_END	DR	-	YNL208W	-518	-1	-	0.00
START_END	DR	-	FBP26	-458	-1	-	0.00
START_END	DR	-	FMP33	-1001	-1	-	0.00
START_END	DR	-	CHS1	-458	-1	-	0.00
START_END	DR	-	YMR122W-A	-967	-1	-	0.00
START_END	DR	-	YPL067C	-386	-1	-	0.00
START_END	DR	-	YNL058C	-536	-1	-	0.00
START_END	DR	-	YKE4	-739	-1	-	0.00
START_END	DR	-	YNR065C	-25	-1	-	0.00
START_END	DR	-	YNR066C	-711	-1	-	0.00
START_END	DR	-	YPK2	-444	-1	-	0.00
START_END	DR	-	MCH5	-1001	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	MCH5	-304	-295	gaggCTAATAATAGagag	1.00
START_END	DR	-	YLR042C	-1001	-1	-	0.00
START_END	DR	-	ATP22	-492	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	ATP22	-225	-216	tattCTAATTATAGcagg	1.00
START_END	DR	-	YMR315W	-387	-1	-	0.00
START_END	DR	-	FLC1	-815	-1	-	0.00
START_END	DR	-	HAL1	-598	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	HAL1	-489	-480	atcaCTATATTTAGttcg	1.00
START_END	DR	-	BAG7	-938	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	BAG7	-479	-470	gcttCTATAATTAGagcg	1.00
START_END	DR	-	PIR3	-1001	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	PIR3	-281	-272	caaaCTAATTATAGatca	1.00
ccwwwwwwgg	DR	ccwwwwwwgg	PIR3	-980	-971	attaCCTAAATAGGaaag	1.00
ccwwwwwwgg	DR	ccwwwwwwgg	PIR3	-710	-701	gcaaCCATTTTAGGtatg	1.00
START_END	DR	-	ATG8	-313	-1	-	0.00
ccwwwwwwgg	DR	ccwwwwwwgg	ATG8	-86	-77	ggaaCCATTAAAGGttga	1.00
START_END	DR	-	HSP150	-1001	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	HSP150	-224	-215	tgagCTAAATTTAGattt	1.00
START_END	DR	-	PST1	-1001	-1	-	0.00
ctawwwwtag	DR	ctawwwwtag	PST1	-306	-297	gtctCTAAAAATAGcgta	1.00
; Host name	rsat
; Job started	2026-07-22.124522
; Job done	2026-07-22.124522
; Seconds	0.1
;	user	0.1
;	system	0
;	cuser	0
;	csystem	0