; dna-pattern  -v 1 -pl $RSAT/public_html/tmp/www-data/2026/04/21/dna-pattern_2026-04-21.125351_FILVd5.pat -i $RSAT/public_html/tmp/www-data/2026/04/21/tmp_sequence_2026-04-21.125351_9HdLC2.fasta -format fasta -return sites -origin -0 -N 4 -noov -2str -subst 1
; Citation: van Helden et al. (2000). Yeast 16(2), 177-187.
; Input file           	$RSAT/public_html/tmp/www-data/2026/04/21/tmp_sequence_2026-04-21.125351_9HdLC2.fasta
; Input format         	fasta
; Pattern file         	$RSAT/public_html/tmp/www-data/2026/04/21/dna-pattern_2026-04-21.125351_FILVd5.pat
; Search method        	IUPAC
; Threshold            	0
; Allowed substitutions	1
; Return fields
;                     	sites
; Patterns
; 	seq	id	score
; 	GCCGCC	GCC-box	1
; 	TAAGAGCCGCC	GCC-box	1
; 	GCCGCC	DRE	1
; 	GCCGAC	CRT	1
; 	ACCGAC	CRT	1
; 	GAAATTTC	VWRE	1
; 	CACCG	CEI	1
; 
; Matching positions
; PatID	Strand	Pattern	SeqID	Start	End	matching_seq	Score
GCC-box	D	GCCGCC	pro-9590	-1284	-1279	GCCGTC	0.83
DRE	D	GCCGCC	pro-9590	-1284	-1279	GCCGTC	0.83
CRT	D	GCCGAC	pro-9590	-1284	-1279	GCCGTC	0.83
CRT	D	GCCGAC	pro-9590	-1206	-1201	ACCGAC	0.83
CRT	D	GCCGAC	pro-9590	-976	-971	GCAGAC	0.83
CRT	D	ACCGAC	pro-9590	-1206	-1201	ACCGAC	1.00
CRT	D	ACCGAC	pro-9590	-1123	-1118	AACGAC	0.83
CRT	R	ACCGAC	pro-9590	-1918	-1913	ACCTAC	0.83
CRT	R	ACCGAC	pro-9590	-1901	-1896	ACCCAC	0.83
CRT	R	ACCGAC	pro-9590	-1841	-1836	ACCAAC	0.83
CRT	R	ACCGAC	pro-9590	-1407	-1402	ACCGAA	0.83
CRT	R	ACCGAC	pro-9590	-580	-575	ACCGAA	0.83
CRT	R	ACCGAC	pro-9590	-557	-552	ACCGAA	0.83
CRT	R	ACCGAC	pro-9590	-483	-478	ACCGAA	0.83
CRT	R	ACCGAC	pro-9590	-455	-450	ACCGAA	0.83
CRT	R	ACCGAC	pro-9590	-184	-179	ACCGAA	0.83
CRT	R	ACCGAC	pro-9590	-38	-33	ACCGAA	0.83
CEI	D	CACCG	pro-9590	-1450	-1446	CAACG	0.80
CEI	D	CACCG	pro-9590	-1348	-1344	CTCCG	0.80
CEI	D	CACCG	pro-9590	-1218	-1214	CACCG	1.00
CEI	D	CACCG	pro-9590	-1207	-1203	CACCG	1.00
CEI	D	CACCG	pro-9590	-1118	-1114	CAGCG	0.80
CEI	D	CACCG	pro-9590	-1112	-1108	CACCA	0.80
CEI	D	CACCG	pro-9590	-1031	-1027	CAACG	0.80
CEI	D	CACCG	pro-9590	-865	-861	CATCG	0.80
CEI	D	CACCG	pro-9590	-15	-11	CACCC	0.80
CEI	R	CACCG	pro-9590	-1903	-1899	CACCC	0.80
CEI	R	CACCG	pro-9590	-1892	-1888	CACCC	0.80
CEI	R	CACCG	pro-9590	-1839	-1835	CACCA	0.80
CEI	R	CACCG	pro-9590	-1810	-1806	CACCA	0.80
CEI	R	CACCG	pro-9590	-1737	-1733	CACCC	0.80
CEI	R	CACCG	pro-9590	-1444	-1440	CACCC	0.80
CEI	R	CACCG	pro-9590	-1405	-1401	TACCG	0.80
CEI	R	CACCG	pro-9590	-1199	-1195	CATCG	0.80
CEI	R	CACCG	pro-9590	-1028	-1024	TACCG	0.80
CEI	R	CACCG	pro-9590	-987	-983	TACCG	0.80
CEI	R	CACCG	pro-9590	-969	-965	CATCG	0.80
CEI	R	CACCG	pro-9590	-589	-585	CACCC	0.80
CEI	R	CACCG	pro-9590	-578	-574	AACCG	0.80
CEI	R	CACCG	pro-9590	-555	-551	AACCG	0.80
CEI	R	CACCG	pro-9590	-481	-477	AACCG	0.80
CEI	R	CACCG	pro-9590	-453	-449	AACCG	0.80
CEI	R	CACCG	pro-9590	-182	-178	AACCG	0.80
CEI	R	CACCG	pro-9590	-36	-32	AACCG	0.80
; Host name	rsat
; Job started	2026-04-21.125351
; Job done	2026-04-21.125351
; Seconds	0.13
;	user	0.13
;	system	0.02
;	cuser	0
;	csystem	0