; 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_2026-08-21.210333_lGYiko.tab -o $RSAT/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210333_lGYiko.asmb
; Input file	/var/www/html/rsat/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210333_lGYiko.tab
; Output file	/var/www/html/rsat/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210333_lGYiko.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     	122
; THE ASSEMBLY WAS RESTRICTED TO THE	50 TOP PATTERNS
;
;Number of patterns = 122.	Exceeds top number = 50.	Only the top 50 patterns will be assembled.

; assembly # 1	seed: cgacg	6 assembled patterns	length 10
;   alignt	   rev_cpl	score
gacgc.....	.....gcgtc	0.93
.acgcg....	....cgcgt.	4.33
..cgcga...	...tcgcg..	4.26
...gcgac..	..gtcgc...	4.43
....cgacg.	.cgtcg....	11.36
.....gacga	tcgtc.....	2.55
gacgcgacga	tcgtcgcgtc	11.36	best consensus

; assembly # 2	seed: cacac	2 assembled patterns	length 6
;alignt	rev_cpl	score
acaca.	.tgtgt	5.47
.cacac	gtgtg.	6.37
acacac	gtgtgt	6.37	best consensus

; assembly # 3	seed: aacaa	3 assembled patterns	length 7
;alignt	rev_cpl	score
aaaca..	..tgttt	4.23
.aacaa.	.ttgtt.	4.99
..acaaa	tttgt..	0.47
aaacaaa	tttgttt	4.99	best consensus

; assembly # 4	seed: ctcgc	18 assembled patterns	length 22
;               alignt	               rev_cpl	score
tgccg.................	.................cggca	2.97
.gccgc................	................gcggc.	3.34
..ccgct...............	...............agcgg..	3.87
...cgctc..............	..............gagcg...	3.26
....gctct.............	.............agagc....	1.04
.....ctctc............	............gagag.....	2.37
......tctcg...........	...........cgaga......	2.31
.......ctcgc..........	..........gcgag.......	4.51
........tcgcg.........	.........cgcga........	4.26
.........cgcgt........	........acgcg.........	4.33
..........gcgtc.......	.......gacgc..........	0.93
...........cgtcg......	......cgacg...........	11.36
............gtcgc.....	.....gcgac............	4.43
.............tcgct....	....agcga.............	0.66
..............cgctg...	...cagcg..............	1.44
...............gctgc..	..gcagc...............	2.58
................ctgct.	.agcag................	1.30
.................tgctc	gagca.................	0.31
tgccgctctcgcgtcgctgctc	gagcagcgacgcgagagcggca	11.36	best consensus

; assembly # 5	seed: cgcgc	25 assembled patterns	length 29
;                      alignt	                      rev_cpl	score
gagca........................	........................tgctc	0.31
.agcag.......................	.......................ctgct.	1.30
..gcagc......................	......................gctgc..	2.58
...cagcg.....................	.....................cgctg...	1.44
....agcga....................	....................tcgct....	0.66
.....gcgac...................	...................gtcgc.....	4.43
......cgacg..................	..................cgtcg......	11.36
.......gacgc.................	.................gcgtc.......	0.93
........acgcg................	................cgcgt........	4.33
.........cgcgc...............	...............gcgcg.........	3.41
..........gcgcg..............	..............cgcgc..........	3.41
...........cgcgt.............	.............acgcg...........	4.33
............gcgtc............	............gacgc............	0.93
.............cgtcg...........	...........cgacg.............	11.36
..............gtcgc..........	..........gcgac..............	4.43
...............tcgcg.........	.........cgcga...............	4.26
................cgcga........	........tcgcg................	4.26
.................gcgag.......	.......ctcgc.................	4.51
..................cgaga......	......tctcg..................	2.31
...................gagag.....	.....ctctc...................	2.37
....................agagc....	....gctct....................	1.04
.....................gagcg...	...cgctc.....................	3.26
......................agcgg..	..ccgct......................	3.87
.......................gcggc.	.gccgc.......................	3.34
........................cggca	tgccg........................	2.97
gagcagcgacgcgcgtcgcgagagcggca	tgccgctctcgcgacgcgcgtcgctgctc	11.36	best consensus

; assembly # 6	seed: cgccg	21 assembled patterns	length 25
;                  alignt	                  rev_cpl	score
tttcg....................	....................cgaaa	1.43
.ttcgc...................	...................gcgaa.	0.63
..tcgcc..................	..................ggcga..	0.00
...cgccg.................	.................cggcg...	2.71
....gccgc................	................gcggc....	3.34
.....ccgct...............	...............agcgg.....	3.87
......cgctc..............	..............gagcg......	3.26
.......gctct.............	.............agagc.......	1.04
........ctctc............	............gagag........	2.37
.........tctcg...........	...........cgaga.........	2.31
..........ctcgc..........	..........gcgag..........	4.51
...........tcgcg.........	.........cgcga...........	4.26
............cgcgt........	........acgcg............	4.33
.............gcgtc.......	.......gacgc.............	0.93
..............cgtcg......	......cgacg..............	11.36
...............gtcgc.....	.....gcgac...............	4.43
................tcgct....	....agcga................	0.66
.................cgctg...	...cagcg.................	1.44
..................gctgc..	..gcagc..................	2.58
...................ctgct.	.agcag...................	1.30
....................tgctc	gagca....................	0.31
tttcgccgctctcgcgtcgctgctc	gagcagcgacgcgagagcggcgaaa	11.36	best consensus

; assembly # 7	seed: gcaac	4 assembled patterns	length 8
; alignt	 rev_cpl	score
gcaac...	...gttgc	2.50
.caaca..	..tgttg.	1.78
..aacaa.	.ttgtt..	4.99
...acaaa	tttgt...	0.47
gcaacaaa	tttgttgc	4.99	best consensus

; assembly # 8	seed: cgcac	13 assembled patterns	length 17
;          alignt	          rev_cpl	score
tgccg............	............cggca	2.97
.gccgc...........	...........gcggc.	3.34
..ccgct..........	..........agcgg..	3.87
...cgctc.........	.........gagcg...	3.26
....gctct........	........agagc....	1.04
.....ctctc.......	.......gagag.....	2.37
......tctcg......	......cgaga......	2.31
.......ctcgc.....	.....gcgag.......	4.51
........tcgca....	....tgcga........	0.14
.........cgcac...	...gtgcg.........	1.67
..........gcaca..	..tgtgc..........	0.73
...........cacac.	.gtgtg...........	6.37
............acaca	tgtgt............	5.47
tgccgctctcgcacaca	tgtgtgcgagagcggca	6.37	best consensus

; assembly # 9	seed: aacgg	3 assembled patterns	length 7
;alignt	rev_cpl	score
aacgg..	..ccgtt	1.48
.acggc.	.gccgt.	1.08
..cggca	tgccg..	2.97
aacggca	tgccgtt	2.97	best consensus

; assembly # 10	seed: ctgca	12 assembled patterns	length 16
;         alignt	         rev_cpl	score
tgccg...........	...........cggca	2.97
.gccgc..........	..........gcggc.	3.34
..ccgct.........	.........agcgg..	3.87
...cgctg........	........cagcg...	1.44
....gctgc.......	.......gcagc....	2.58
.....ctgca......	......tgcag.....	1.06
......tgcag.....	.....ctgca......	1.06
.......gcagc....	....gctgc.......	2.58
........cagcg...	...cgctg........	1.44
.........agcgg..	..ccgct.........	3.87
..........gcggc.	.gccgc..........	3.34
...........cggca	tgccg...........	2.97
tgccgctgcagcggca	tgccgctgcagcggca	3.87	best consensus

; assembly # 11	seed: agcgc	34 assembled patterns	length 38
;                               alignt	                               rev_cpl	score
gagca.................................	.................................tgctc	0.31
.agcag................................	................................ctgct.	1.30
..gcagc...............................	...............................gctgc..	2.58
...cagcg..............................	..............................cgctg...	1.44
....agcga.............................	.............................tcgct....	0.66
.....gcgac............................	............................gtcgc.....	4.43
......cgacg...........................	...........................cgtcg......	11.36
.......gacgc..........................	..........................gcgtc.......	0.93
........acgcg.........................	.........................cgcgt........	4.33
.........cgcga........................	........................tcgcg.........	4.26
..........gcgag.......................	.......................ctcgc..........	4.51
...........cgaga......................	......................tctcg...........	2.31
............gagag.....................	.....................ctctc............	2.37
.............agagc....................	....................gctct.............	1.04
..............gagcg...................	...................cgctc..............	3.26
...............agcgc..................	..................gcgct...............	0.86
................gcgcg.................	.................cgcgc................	3.41
.................cgcgt................	................acgcg.................	4.33
..................gcgtc...............	...............gacgc..................	0.93
...................cgtcg..............	..............cgacg...................	11.36
....................gtcgc.............	.............gcgac....................	4.43
.....................tcgcg............	............cgcga.....................	4.26
......................cgcgc...........	...........gcgcg......................	3.41
.......................gcgct..........	..........agcgc.......................	0.86
........................cgctc.........	.........gagcg........................	3.26
.........................gctct........	........agagc.........................	1.04
..........................ctctc.......	.......gagag..........................	2.37
...........................tctcg......	......cgaga...........................	2.31
............................ctcgc.....	.....gcgag............................	4.51
.............................tcgct....	....agcga.............................	0.66
..............................cgctg...	...cagcg..............................	1.44
...............................gctgc..	..gcagc...............................	2.58
................................ctgct.	.agcag................................	1.30
.................................tgctc	gagca.................................	0.31
gagcagcgacgcgagagcgcgtcgcgctctcgctgctc	gagcagcgagagcgcgacgcgctctcgcgtcgctgctc	11.36	best consensus

; assembly # 12	seed: acttg	16 assembled patterns	length 20
;             alignt	             rev_cpl	score
tgccg...............	...............cggca	2.97
.gccgc..............	..............gcggc.	3.34
..ccgct.............	.............agcgg..	3.87
...cgctc............	............gagcg...	3.26
....gctct...........	...........agagc....	1.04
.....ctctc..........	..........gagag.....	2.37
......tctcg.........	.........cgaga......	2.31
.......ctcgc........	........gcgag.......	4.51
........tcgca.......	.......tgcga........	0.14
.........cgcac......	......gtgcg.........	1.67
..........gcact.....	.....agtgc..........	0.11
...........cactt....	....aagtg...........	0.21
............acttg...	...caagt............	0.83
.............cttgt..	..acaag.............	0.00
..............ttgtt.	.aacaa..............	4.99
...............tgttt	aaaca...............	4.23
tgccgctctcgcacttgttt	aaacaagtgcgagagcggca	4.99	best consensus

; assembly # 13	seed: agaga	12 assembled patterns	length 16
;         alignt	         rev_cpl	score
agagc...........	...........gctct	1.04
.gagcg..........	..........cgctc.	3.26
..agcga.........	.........tcgct..	0.66
...gcgac........	........gtcgc...	4.43
....cgacg.......	.......cgtcg....	11.36
.....gacgc......	......gcgtc.....	0.93
......acgcg.....	.....cgcgt......	4.33
.......cgcga....	....tcgcg.......	4.26
........gcgag...	...ctcgc........	4.51
.........cgaga..	..tctcg.........	2.31
..........gagag.	.ctctc..........	2.37
...........agaga	tctct...........	0.76
agagcgacgcgagaga	tctctcgcgtcgctct	11.36	best consensus

; assembly # 14	seed: cactc	12 assembled patterns	length 16
;         alignt	         rev_cpl	score
tgccg...........	...........cggca	2.97
.gccgc..........	..........gcggc.	3.34
..ccgct.........	.........agcgg..	3.87
...cgctc........	........gagcg...	3.26
....gctct.......	.......agagc....	1.04
.....ctctc......	......gagag.....	2.37
......tctcg.....	.....cgaga......	2.31
.......ctcgc....	....gcgag.......	4.51
........tcgca...	...tgcga........	0.14
.........cgcac..	..gtgcg.........	1.67
..........gcact.	.agtgc..........	0.11
...........cactc	gagtg...........	0.66
tgccgctctcgcactc	gagtgcgagagcggca	4.51	best consensus

; assembly # 15	seed: cggac	1 assembled patterns	length 5
;alignt	rev_cpl	score
cggac	gtccg	0.41
cggac	gtccg	0.41	best consensus

; assembly # 16	seed: ctcac	1 assembled patterns	length 5
;alignt	rev_cpl	score
ctcac	gtgag	0.39
ctcac	gtgag	0.39	best consensus

; assembly # 17	seed: acaac	5 assembled patterns	length 9
;  alignt	  rev_cpl	score
aaaca....	....tgttt	4.23
.aacaa...	...ttgtt.	4.99
..acaac..	..gttgt..	0.37
...caaca.	.tgttg...	1.78
....aacag	ctgtt....	0.20
aaacaacag	ctgttgttt	4.99	best consensus

; assembly # 18	seed: gcaga	14 assembled patterns	length 18
;           alignt	           rev_cpl	score
gagcg.............	.............cgctc	3.26
.agcga............	............tcgct.	0.66
..gcgac...........	...........gtcgc..	4.43
...cgacg..........	..........cgtcg...	11.36
....gacgc.........	.........gcgtc....	0.93
.....acgcg........	........cgcgt.....	4.33
......cgcga.......	.......tcgcg......	4.26
.......gcgag......	......ctcgc.......	4.51
........cgaga.....	.....tctcg........	2.31
.........gagag....	....ctctc.........	2.37
..........agagc...	...gctct..........	1.04
...........gagca..	..tgctc...........	0.31
............agcag.	.ctgct............	1.30
.............gcaga	tctgc.............	0.24
gagcgacgcgagagcaga	tctgctctcgcgtcgctc	11.36	best consensus

; assembly # 19	seed: cacgc	16 assembled patterns	length 20
;             alignt	             rev_cpl	score
cacgc...............	...............gcgtg	0.22
.acgcg..............	..............cgcgt.	4.33
..cgcgt.............	.............acgcg..	4.33
...gcgtc............	............gacgc...	0.93
....cgtcg...........	...........cgacg....	11.36
.....gtcgc..........	..........gcgac.....	4.43
......tcgcg.........	.........cgcga......	4.26
.......cgcga........	........tcgcg.......	4.26
........gcgag.......	.......ctcgc........	4.51
.........cgaga......	......tctcg.........	2.31
..........gagag.....	.....ctctc..........	2.37
...........agagc....	....gctct...........	1.04
............gagcg...	...cgctc............	3.26
.............agcgg..	..ccgct.............	3.87
..............gcggc.	.gccgc..............	3.34
...............cggca	tgccg...............	2.97
cacgcgtcgcgagagcggca	tgccgctctcgcgacgcgtg	11.36	best consensus
; Host name	rsat
; Job started	2026-08-21.210339
; Job done	2026-08-21.210349
; Seconds	10.27
;	user	10.27
;	system	0
;	cuser	0
;	csystem	0