; pattern-assembly  -v 1 -subst 1 -toppat 50 -2str -max_asmb_nb 20 -i $RSAT/public_html/tmp/www-data/2026/04/30/oligo-analysis_2026-04-30.003956_EgnUdf.tab -o $RSAT/public_html/tmp/www-data/2026/04/30/oligo-analysis_2026-04-30.003956_EgnUdf.asmb
; Input file	/var/www/html/rsat/public_html/tmp/www-data/2026/04/30/oligo-analysis_2026-04-30.003956_EgnUdf.tab
; Output file	/var/www/html/rsat/public_html/tmp/www-data/2026/04/30/oligo-analysis_2026-04-30.003956_EgnUdf.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     	150
; THE ASSEMBLY WAS RESTRICTED TO THE	50 TOP PATTERNS
;
;Number of patterns = 150.	Exceeds top number = 50.	Only the top 50 patterns will be assembled.

; assembly # 1	seed: cgcgcc	21 assembled patterns	length 26
;                   alignt	                   rev_cpl	score
cgcggc....................	....................gccgcg	8.61
.gcggcg...................	...................cgccgc.	9.67
..cggcgc..................	..................gcgccg..	15.47
...ggcgcg.................	.................cgcgcc...	23.51
....gcgcgg................	................ccgcgc....	21.26
.....cgcggg...............	...............cccgcg.....	6.53
......gcgggc..............	..............gcccgc......	6.93
.......cgggcc.............	.............ggcccg.......	2.72
........gggccg............	............cggccc........	4.93
.........ggccgc...........	...........gcggcc.........	6.74
..........gccgcg..........	..........cgcggc..........	8.61
...........ccgcgc.........	.........gcgcgg...........	21.26
............cgcgcc........	........ggcgcg............	23.51
.............gcgccg.......	.......cggcgc.............	15.47
..............cgccgc......	......gcggcg..............	9.67
...............gccgcc.....	.....ggcggc...............	3.63
................ccgccg....	....cggcgg................	4.58
.................cgccgg...	...ccggcg.................	5.55
..................gccggg..	..cccggc..................	4.92
...................ccgggc.	.gcccgg...................	6.88
....................cgggct	agcccg....................	3.77
cgcggcgcgggccgcgccgccgggct	agcccggcggcgcggcccgcgccgcg	23.51	best consensus

; assembly # 2	seed: ctgcgc	14 assembled patterns	length 19
;            alignt	            rev_cpl	score
gggcgc.............	.............gcgccc	6.09
.ggcgct............	............agcgcc.	5.63
..gcgctg...........	...........cagcgc..	2.79
...cgctgc..........	..........gcagcg...	3.65
....gctgcg.........	.........cgcagc....	7.20
.....ctgcgc........	........gcgcag.....	13.08
......tgcgcg.......	.......cgcgca......	7.51
.......gcgcgg......	......ccgcgc.......	21.26
........cgcggc.....	.....gccgcg........	8.61
.........gcggcg....	....cgccgc.........	9.67
..........cggcgc...	...gcgccg..........	15.47
...........ggcgcg..	..cgcgcc...........	23.51
............gcgcga.	.tcgcgc............	8.17
.............cgcgaa	ttcgcg.............	6.62
gggcgctgcgcggcgcgaa	ttcgcgccgcgcagcgccc	23.51	best consensus

; assembly # 3	seed: ccggcc	13 assembled patterns	length 18
;           alignt	           rev_cpl	score
agcccg............	............cgggct	3.77
.gcccgg...........	...........ccgggc.	6.88
..cccggc..........	..........gccggg..	4.92
...ccggcc.........	.........ggccgg...	6.13
....cggccc........	........gggccg....	4.93
.....ggcccg.......	.......cgggcc.....	2.72
......gcccgc......	......gcgggc......	6.93
.......cccgcg.....	.....cgcggg.......	6.53
........ccgcgc....	....gcgcgg........	21.26
.........cgcgcc...	...ggcgcg.........	23.51
..........gcgccg..	..cggcgc..........	15.47
...........cgccgc.	.gcggcg...........	9.67
............gccgcg	cgcggc............	8.61
agcccggcccgcgccgcg	cgcggcgcgggccgggct	23.51	best consensus

; assembly # 4	seed: gcgcca	8 assembled patterns	length 13
;      alignt	      rev_cpl	score
aagcgc.......	.......gcgctt	3.39
.agcgcc......	......ggcgct.	5.63
..gcgccg.....	.....cggcgc..	15.47
...cgccgc....	....gcggcg...	9.67
....gccgcg...	...cgcggc....	8.61
.....ccgcgc..	..gcgcgg.....	21.26
......cgcgcc.	.ggcgcg......	23.51
.......gcgcca	tggcgc.......	6.08
aagcgccgcgcca	tggcgcggcgctt	23.51	best consensus

; assembly # 5	seed: cctgcg	10 assembled patterns	length 15
;        alignt	        rev_cpl	score
cctgcg.........	.........cgcagg	5.86
.ctgcgc........	........gcgcag.	13.08
..tgcgcg.......	.......cgcgca..	7.51
...gcgcgg......	......ccgcgc...	21.26
....cgcggc.....	.....gccgcg....	8.61
.....gcggcg....	....cgccgc.....	9.67
......cggcgc...	...gcgccg......	15.47
.......ggcgcg..	..cgcgcc.......	23.51
........gcgcga.	.tcgcgc........	8.17
.........cgcgaa	ttcgcg.........	6.62
cctgcgcggcgcgaa	ttcgcgccgcgcagg	23.51	best consensus

; assembly # 6	seed: acggcg	18 assembled patterns	length 23
;                alignt	                rev_cpl	score
acggcg.................	.................cgccgt	4.93
.cggcgc................	................gcgccg.	15.47
..ggcgcg...............	...............cgcgcc..	23.51
...gcgcgg..............	..............ccgcgc...	21.26
....cgcggc.............	.............gccgcg....	8.61
.....gcggcg............	............cgccgc.....	9.67
......cggcgg...........	...........ccgccg......	4.58
.......ggcggc..........	..........gccgcc.......	3.63
........gcggcc.........	.........ggccgc........	6.74
.........cggccc........	........gggccg.........	4.93
..........ggcccg.......	.......cgggcc..........	2.72
...........gcccgc......	......gcgggc...........	6.93
............cccgcg.....	.....cgcggg............	6.53
.............ccgcgc....	....gcgcgg.............	21.26
..............cgcgcc...	...ggcgcg..............	23.51
...............gcgccg..	..cggcgc...............	15.47
................cgccgc.	.gcggcg................	9.67
.................gccgcg	cgcggc.................	8.61
acggcgcggcggcccgcgccgcg	cgcggcgcgggccgccgcgccgt	23.51	best consensus

; assembly # 7	seed: ccgcaa	4 assembled patterns	length 9
;  alignt	  rev_cpl	score
agcccg...	...cgggct	3.77
.gcccgc..	..gcgggc.	6.93
..cccgca.	.tgcggg..	4.48
...ccgcaa	ttgcgg...	4.80
agcccgcaa	ttgcgggct	6.93	best consensus

; assembly # 8	seed: accccg	15 assembled patterns	length 20
;             alignt	             rev_cpl	score
ccaccc..............	..............gggtgg	3.22
.cacccc.............	.............ggggtg.	2.60
..accccg............	............cggggt..	3.98
...ccccgg...........	...........ccgggg...	2.99
....cccggc..........	..........gccggg....	4.92
.....ccggcc.........	.........ggccgg.....	6.13
......cggccc........	........gggccg......	4.93
.......ggcccg.......	.......cgggcc.......	2.72
........gcccgc......	......gcgggc........	6.93
.........cccgcg.....	.....cgcggg.........	6.53
..........ccgcgc....	....gcgcgg..........	21.26
...........cgcgcc...	...ggcgcg...........	23.51
............gcgccg..	..cggcgc............	15.47
.............cgccgc.	.gcggcg.............	9.67
..............gccgcg	cgcggc..............	8.61
ccaccccggcccgcgccgcg	cgcggcgcgggccggggtgg	23.51	best consensus

; assembly # 9	seed: caccgg	12 assembled patterns	length 17
;          alignt	          rev_cpl	score
caccgg...........	...........ccggtg	3.92
.accggc..........	..........gccggt.	2.69
..ccggcc.........	.........ggccgg..	6.13
...cggccc........	........gggccg...	4.93
....ggcccg.......	.......cgggcc....	2.72
.....gcccgc......	......gcgggc.....	6.93
......cccgcg.....	.....cgcggg......	6.53
.......ccgcgc....	....gcgcgg.......	21.26
........cgcgcc...	...ggcgcg........	23.51
.........gcgccg..	..cggcgc.........	15.47
..........cgccgc.	.gcggcg..........	9.67
...........gccgcg	cgcggc...........	8.61
caccggcccgcgccgcg	cgcggcgcgggccggtg	23.51	best consensus

; assembly # 10	seed: cgggga	13 assembled patterns	length 18
;           alignt	           rev_cpl	score
cgcggc............	............gccgcg	8.61
.gcggcg...........	...........cgccgc.	9.67
..cggcgc..........	..........gcgccg..	15.47
...ggcgcg.........	.........cgcgcc...	23.51
....gcgcgg........	........ccgcgc....	21.26
.....cgcggg.......	.......cccgcg.....	6.53
......gcgggc......	......gcccgc......	6.93
.......cgggcc.....	.....ggcccg.......	2.72
........gggccg....	....cggccc........	4.93
.........ggccgg...	...ccggcc.........	6.13
..........gccggg..	..cccggc..........	4.92
...........ccgggg.	.ccccgg...........	2.99
............cgggga	tccccg............	3.68
cgcggcgcgggccgggga	tccccggcccgcgccgcg	23.51	best consensus

; assembly # 11	seed: gccgca	17 assembled patterns	length 22
;               alignt	               rev_cpl	score
cgcggc................	................gccgcg	8.61
.gcggcg...............	...............cgccgc.	9.67
..cggcgc..............	..............gcgccg..	15.47
...ggcgcg.............	.............cgcgcc...	23.51
....gcgcgg............	............ccgcgc....	21.26
.....cgcggg...........	...........cccgcg.....	6.53
......gcgggc..........	..........gcccgc......	6.93
.......cgggcc.........	.........ggcccg.......	2.72
........gggccg........	........cggccc........	4.93
.........ggccgc.......	.......gcggcc.........	6.74
..........gccgcg......	......cgcggc..........	8.61
...........ccgcgc.....	.....gcgcgg...........	21.26
............cgcgcc....	....ggcgcg............	23.51
.............gcgccg...	...cggcgc.............	15.47
..............cgccgc..	..gcggcg..............	9.67
...............gccgca.	.tgcggc...............	3.57
................ccgcaa	ttgcgg................	4.80
cgcggcgcgggccgcgccgcaa	ttgcggcgcggcccgcgccgcg	23.51	best consensus

; assembly # 12	seed: ccgtgc	1 assembled patterns	length 6
;alignt	rev_cpl	score
ccgtgc	gcacgg	3.55
ccgtgc	gcacgg	3.55	best consensus

; assembly # 13	seed: acgcgc	13 assembled patterns	length 18
;           alignt	           rev_cpl	score
acgcgc............	............gcgcgt	3.24
.cgcgcc...........	...........ggcgcg.	23.51
..gcgccg..........	..........cggcgc..	15.47
...cgccgc.........	.........gcggcg...	9.67
....gccgcg........	........cgcggc....	8.61
.....ccgcgc.......	.......gcgcgg.....	21.26
......cgcgca......	......tgcgcg......	7.51
.......gcgcag.....	.....ctgcgc.......	13.08
........cgcagc....	....gctgcg........	7.20
.........gcagcg...	...cgctgc.........	3.65
..........cagcgc..	..gcgctg..........	2.79
...........agcgcc.	.ggcgct...........	5.63
............gcgccc	gggcgc............	6.09
acgcgccgcgcagcgccc	gggcgctgcgcggcgcgt	23.51	best consensus

; assembly # 14	seed: ccgcac	4 assembled patterns	length 9
;  alignt	  rev_cpl	score
agcccg...	...cgggct	3.77
.gcccgc..	..gcgggc.	6.93
..cccgca.	.tgcggg..	4.48
...ccgcac	gtgcgg...	3.07
agcccgcac	gtgcgggct	6.93	best consensus

; assembly # 15	seed: cgctga	9 assembled patterns	length 14
;       alignt	       rev_cpl	score
gggcgc........	........gcgccc	6.09
.ggcgcg.......	.......cgcgcc.	23.51
..gcgcgg......	......ccgcgc..	21.26
...cgcggc.....	.....gccgcg...	8.61
....gcggcg....	....cgccgc....	9.67
.....cggcgc...	...gcgccg.....	15.47
......ggcgct..	..agcgcc......	5.63
.......gcgctg.	.cagcgc.......	2.79
........cgctga	tcagcg........	3.02
gggcgcggcgctga	tcagcgccgcgccc	23.51	best consensus

; assembly # 16	seed: gcggga	8 assembled patterns	length 13
;      alignt	      rev_cpl	score
cgcggc.......	.......gccgcg	8.61
.gcggcg......	......cgccgc.	9.67
..cggcgc.....	.....gcgccg..	15.47
...ggcgcg....	....cgcgcc...	23.51
....gcgcgg...	...ccgcgc....	21.26
.....cgcggg..	..cccgcg.....	6.53
......gcggga.	.tcccgc......	2.82
.......cgggag	ctcccg.......	2.64
cgcggcgcgggag	ctcccgcgccgcg	23.51	best consensus

; assembly # 17	seed: ccccgc	10 assembled patterns	length 15
;        alignt	        rev_cpl	score
ccaccc.........	.........gggtgg	3.22
.cacccc........	........ggggtg.	2.60
..accccg.......	.......cggggt..	3.98
...ccccgc......	......gcgggg...	2.81
....cccgcg.....	.....cgcggg....	6.53
.....ccgcgc....	....gcgcgg.....	21.26
......cgcgcc...	...ggcgcg......	23.51
.......gcgccg..	..cggcgc.......	15.47
........cgccgc.	.gcggcg........	9.67
.........gccgcg	cgcggc.........	8.61
ccaccccgcgccgcg	cgcggcgcggggtgg	23.51	best consensus

; assembly # 18	seed: tccgca	2 assembled patterns	length 7
;alignt	rev_cpl	score
tccgca.	.tgcgga	2.63
.ccgcaa	ttgcgg.	4.80
tccgcaa	ttgcgga	4.80	best consensus

; assembly # 19	seed: accgcg	6 assembled patterns	length 11
;    alignt	    rev_cpl	score
accgcg.....	.....cgcggt	2.61
.ccgcgc....	....gcgcgg.	21.26
..cgcgcc...	...ggcgcg..	23.51
...gcgccg..	..cggcgc...	15.47
....cgccgc.	.gcggcg....	9.67
.....gccgcg	cgcggc.....	8.61
accgcgccgcg	cgcggcgcggt	23.51	best consensus

; assembly # 20	seed: cccgga	3 assembled patterns	length 8
; alignt	 rev_cpl	score
agcccg..	..cgggct	3.77
.gcccgg.	.ccgggc.	6.88
..cccgga	tccggg..	2.34
agcccgga	tccgggct	6.88	best consensus
; Host name	rsat
; Job started	2026-04-30.004000
; Job done	2026-04-30.004008
; Seconds	8.05
;	user	8.05
;	system	0.02
;	cuser	0
;	csystem	0