; oligo-analysis  -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.152625_UHm4k6.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -2str -noov -quick_if_possible -seqtype dna -markov 2 -pseudo 0.01 -l 8 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.152625_vDZBfK_8nt.tab
; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. 
; Program version              	1.169
; Quick counting mode          
; Detection of over-represented words (right-tail test)
; Oligomer length              	8
; Input file                   	$RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.152625_UHm4k6.fasta.purged
; Input format                 	fasta
; Output file                  	$RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.152625_vDZBfK_8nt.tab
; Discard overlapping matches
; Counted on both strands
; 	grouped by pairs of reverse complements
; Background model             	Markov
; Background estimation method 	Markov model estimated from input sequences
; Markov chain order           	2
; Pseudo-frequency             	0.01
; Pseudo-frequency per oligo   	3.03988326848249e-07
; Sequence type                	DNA
; Nb of sequences              	1
; Sum of sequence lengths      	10667
; discarded residues           	NA (quick mode)	 (other letters than ACGT)
; discarded occurrences        	NA (quick mode)	 (contain discarded residues)
; nb possible positions        	NA (quick mode)
; total oligo occurrences      	10499
; total overlapping occurrences	17
; total non overlapping occ    	10482
; alphabet size                	4
; nb possible oligomers        	32896
; oligomers tested for significance	8126
; Sequences:
;	5-UTseq838-UTL300-PhiB002	10667
;
; column headers
;	1	seq            	oligomer sequence
;	2	id             	oligomer identifier
;	3	exp_freq       	expected relative frequency
;	4	occ            	observed occurrences
;	5	exp_occ        	expected occurrences
;	6	occ_P          	occurrence probability (binomial)
;	7	occ_E          	E-value for occurrences (binomial)
;	8	occ_sig        	occurrence significance (binomial)
;	9	rank           	rank
;	10	ovl_occ        	number of overlapping occurrences (discarded from the count)
;	11	forbocc        	forbidden positions (to avoid self-overlap)
#seq	id	exp_freq	occ	exp_occ	occ_P	occ_E	occ_sig	rank	ovl_occ	forbocc
gtcaacac	gtcaacac|gtgttgac	0.0000187470438	6	0.20	6.8e-08	5.5e-04	3.26	1	0	42
aagtcaac	aagtcaac|gttgactt	0.0000276896247	6	0.29	6.5e-07	5.3e-03	2.28	2	0	42
agtcaaca	agtcaaca|tgttgact	0.0000279687057	6	0.29	6.9e-07	5.6e-03	2.25	3	0	42
cccgccgc	cccgccgc|gcggcggg	0.0000041587413	3	0.04	1.3e-05	1.1e-01	0.96	4	0	21
attgtcag	attgtcag|ctgacaat	0.0000286652202	5	0.30	1.6e-05	1.3e-01	0.89	5	0	35
agccgctc	agccgctc|gagcggct	0.0000147501663	4	0.15	2.1e-05	1.7e-01	0.76	6	0	28
agtatatc	agtatatc|gatatact	0.0000576911787	6	0.61	4.1e-05	3.3e-01	0.48	7	0	42
; Host name	rsat
; Job started	2026-06-17.152627
; Job done	2026-06-17.152629
; Seconds	1.7
;	user	1.7
;	system	0.02
;	cuser	0.12
;	csystem	0.02