; pattern-assembly  -v 1 -subst 1 -toppat 50 -2str -max_asmb_nb 20 -i $RSAT/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210800_pcU8kP.tab -o $RSAT/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210800_pcU8kP.asmb
; Input file	/var/www/html/rsat/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210800_pcU8kP.tab
; Output file	/var/www/html/rsat/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210800_pcU8kP.asmb
; Input score column           	8
; Output score column          	0
; Strand-insensitive assembly
; Max flanking bases           	1
; Max substitutions            	1
; Min matches                  	0
; Min weight                   	0
; Max assembly size            	50
; Max assembly width           	0
; Top number of patterns       	50
; Number of input patterns     	65
; THE ASSEMBLY WAS RESTRICTED TO THE	50 TOP PATTERNS
;
;Number of patterns = 65.	Exceeds top number = 50.	Only the top 50 patterns will be assembled.

; assembly # 1	seed: agagag	16 assembled patterns	length 18
;           alignt	           rev_cpl	score
agagaga...........	...........tctctct	4.62
.gagaga...........	...........tctctc.	6.68
.gagagag..........	..........ctctctc.	5.95
..agagag..........	..........ctctct..	10.37
...gagagc.........	.........gctctc...	2.29
...gagagcg........	........cgctctc...	1.18
....agagcg........	........cgctct....	3.77
.....gagcgc.......	.......gcgctc.....	0.83
......agcgcg......	......cgcgct......	2.44
.......gcgcga.....	.....tcgcgc.......	0.17
........cgcgag....	....ctcgcg........	1.53
.........gcgaga...	...tctcgc.........	1.69
..........cgagag..	..ctctcg..........	2.70
...........gagagg.	.cctctc...........	1.44
...........gagaggg	ccctctc...........	1.26
............agaggg	ccctct............	0.71
agagagagcgcgagaggg	ccctctcgcgctctctct	10.37	best consensus

; assembly # 2	seed: cgtcgc	13 assembled patterns	length 16
;         alignt	         rev_cpl	score
tcgtcg..........	..........cgacga	2.46
.cgtcgc.........	.........gcgacg.	3.50
.cgtcgcg........	........cgcgacg.	2.03
...tcgcgc.......	.......gcgcga...	0.17
....cgcgct......	......agcgcg....	2.44
.....gcgctc.....	.....gagcgc.....	0.83
......cgctct....	....agagcg......	3.77
......cgctctc...	...gagagcg......	1.18
.......gctctc...	...gagagc.......	2.29
........ctctct..	..agagag........	10.37
........ctctctc.	.gagagag........	5.95
.........tctctc.	.gagaga.........	6.68
.........tctctct	agagaga.........	4.62
tcgtcgcgctctctct	agagagagcgcgacga	10.37	best consensus

; assembly # 3	seed: ctcgca	8 assembled patterns	length 12
;     alignt	     rev_cpl	score
tctctct.....	.....agagaga	4.62
.ctctct.....	.....agagag.	10.37
.ctctctc....	....gagagag.	5.95
..tctctc....	....gagaga..	6.68
...ctctcg...	...cgagag...	2.70
....tctcgc..	..gcgaga....	1.69
.....ctcgca.	.tgcgag.....	2.35
.....ctcgcac	gtgcgag.....	0.50
tctctctcgcac	gtgcgagagaga	10.37	best consensus

; assembly # 4	seed: agcggg	9 assembled patterns	length 12
;     alignt	     rev_cpl	score
agagaga.....	.....tctctct	4.62
.gagaga.....	.....tctctc.	6.68
.gagagag....	....ctctctc.	5.95
..agagag....	....ctctct..	10.37
...gagagc...	...gctctc...	2.29
...gagagcg..	..cgctctc...	1.18
....agagcg..	..cgctct....	3.77
.....gagcgg.	.ccgctc.....	0.21
......agcggg	cccgct......	2.26
agagagagcggg	cccgctctctct	10.37	best consensus

; assembly # 5	seed: acacac	3 assembled patterns	length 7
;alignt	rev_cpl	score
cacacac	gtgtgtg	1.81
cacaca.	.tgtgtg	1.78
.acacac	gtgtgt.	1.85
cacacac	gtgtgtg	1.85	best consensus

; assembly # 6	seed: ggcgac	3 assembled patterns	length 8
; alignt	 rev_cpl	score
ggcgac..	..gtcgcc	1.85
.gcgacg.	.cgtcgc.	3.50
..cgacga	tcgtcg..	2.46
ggcgacga	tcgtcgcc	3.50	best consensus

; assembly # 7	seed: ggcgacc	2 assembled patterns	length 7
;alignt	rev_cpl	score
ggcgac.	.gtcgcc	1.85
ggcgacc	ggtcgcc	1.80
ggcgacc	ggtcgcc	1.85	best consensus

; assembly # 8	seed: cagcga	5 assembled patterns	length 9
;  alignt	  rev_cpl	score
aacagc...	...gctgtt	0.22
.acagcg..	..cgctgt.	1.57
..cagcga.	.tcgctg..	1.76
..cagcgaa	ttcgctg..	1.26
...agcgaa	ttcgct...	1.13
aacagcgaa	ttcgctgtt	1.76	best consensus

; assembly # 9	seed: gtgaga	6 assembled patterns	length 10
;   alignt	   rev_cpl	score
gtgaga....	....tctcac	1.34
gtgagag...	...ctctcac	1.20
..gagaga..	..tctctc..	6.68
..gagagag.	.ctctctc..	5.95
...agagag.	.ctctct...	10.37
...agagaga	tctctct...	4.62
gtgagagaga	tctctctcac	10.37	best consensus

; assembly # 10	seed: cgtcga	2 assembled patterns	length 7
;alignt	rev_cpl	score
tcgtcg.	.cgacga	2.46
.cgtcga	tcgacg.	1.05
tcgtcga	tcgacga	2.46	best consensus

; assembly # 11	seed: ctgccgc	2 assembled patterns	length 7
;alignt	rev_cpl	score
ctgccgc	gcggcag	0.80
.tgccgc	gcggca.	0.36
ctgccgc	gcggcag	0.80	best consensus

; assembly # 12	seed: aaagag	1 assembled patterns	length 6
;alignt	rev_cpl	score
aaagag	ctcttt	0.72
aaagag	ctcttt	0.72	best consensus

; assembly # 13	seed: cgacgc	13 assembled patterns	length 16
;         alignt	         rev_cpl	score
agagaga.........	.........tctctct	4.62
.gagaga.........	.........tctctc.	6.68
.gagagag........	........ctctctc.	5.95
..agagag........	........ctctct..	10.37
...gagagc.......	.......gctctc...	2.29
...gagagcg......	......cgctctc...	1.18
....agagcg......	......cgctct....	3.77
.....gagcgc.....	.....gcgctc.....	0.83
......agcgcg....	....cgcgct......	2.44
.......gcgcga...	...tcgcgc.......	0.17
........cgcgacg.	.cgtcgcg........	2.03
.........gcgacg.	.cgtcgc.........	3.50
..........cgacgc	gcgtcg..........	0.63
agagagagcgcgacgc	gcgtcgcgctctctct	10.37	best consensus

; assembly # 14	seed: gcgagc	3 assembled patterns	length 8
; alignt	 rev_cpl	score
gtgcgag.	.ctcgcac	0.50
.tgcgag.	.ctcgca.	2.35
..gcgagc	gctcgc..	0.52
gtgcgagc	gctcgcac	2.35	best consensus

; assembly # 15	seed: agataca	1 assembled patterns	length 7
;alignt	rev_cpl	score
agataca	tgtatct	0.50
agataca	tgtatct	0.50	best consensus

; assembly # 16	seed: cgtctc	5 assembled patterns	length 10
;   alignt	   rev_cpl	score
cgtctc....	....gagacg	0.36
.gtctcg...	...cgagac.	0.15
..tctcgc..	..gcgaga..	1.69
...ctcgca.	.tgcgag...	2.35
...ctcgcac	gtgcgag...	0.50
cgtctcgcac	gtgcgagacg	2.35	best consensus

; assembly # 17	seed: cggtaa	1 assembled patterns	length 6
;alignt	rev_cpl	score
cggtaa	ttaccg	0.26
cggtaa	ttaccg	0.26	best consensus

; assembly # 18	seed: acactc	1 assembled patterns	length 6
;alignt	rev_cpl	score
acactc	gagtgt	0.21
acactc	gagtgt	0.21	best consensus

; assembly # 19	seed: aaacaa	1 assembled patterns	length 6
;alignt	rev_cpl	score
aaacaa	ttgttt	0.11
aaacaa	ttgttt	0.11	best consensus

; assembly # 20	seed: acgcgc	10 assembled patterns	length 13
;      alignt	      rev_cpl	score
acgcgc.......	.......gcgcgt	0.09
.cgcgct......	......agcgcg.	2.44
..gcgctc.....	.....gagcgc..	0.83
...cgctct....	....agagcg...	3.77
...cgctctc...	...gagagcg...	1.18
....gctctc...	...gagagc....	2.29
.....ctctct..	..agagag.....	10.37
.....ctctctc.	.gagagag.....	5.95
......tctctc.	.gagaga......	6.68
......tctctct	agagaga......	4.62
acgcgctctctct	agagagagcgcgt	10.37	best consensus
; Maximal number of assemblies is reached (20). Remaining patterns: 1.
; Host name	rsat
; Job started	2026-08-21.210806
; Job done	2026-08-21.210811
; Seconds	5.36
;	user	5.36
;	system	0
;	cuser	0
;	csystem	0