; oligo-analysis  -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/05/11/tmp_sequence_2026-05-11.134158_jt9VCY.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return freq,mseq,occ,proba,rank,ratio,zscore -1str -noov -quick_if_possible -seqtype dna -markov 2 -pseudo 0.01 -l 6 -o $RSAT/public_html/tmp/www-data/2026/05/11/oligo-analysis_2026-05-11.134158_qgrcwl_6nt.tab
; Citation: van Helden et al. (1998). J Mol Biol 281(5), 827-42. 
; Program version              	1.169
; Slow counting mode           
; Detection of over-represented words (right-tail test)
; Oligomer length              	6
; Input file                   	$RSAT/public_html/tmp/www-data/2026/05/11/tmp_sequence_2026-05-11.134158_jt9VCY.fasta.purged
; Input format                 	fasta
; Output file                  	$RSAT/public_html/tmp/www-data/2026/05/11/oligo-analysis_2026-05-11.134158_qgrcwl_6nt.tab
; Discard overlapping matches
; Counted on a single strand
; Background model             	Markov
; Background estimation method 	Markov model estimated from input sequences
; Markov chain order           	2
; Pseudo-frequency             	0.01
; Pseudo-frequency per oligo   	2.44140625e-06
; Sequence type                	DNA
; Nb of sequences              	500
; Sum of sequence lengths      	100000
; discarded residues           	320	 (other letters than ACGT)
; discarded occurrences        	320	 (contain discarded residues)
; nb possible positions        	97180
; total oligo occurrences      	97180
; total overlapping occurrences	733
; total non overlapping occ    	96447
; alphabet size                	4
; nb possible oligomers        	4096
; oligomers tested for significance	4093
;
; column headers
;	1	seq            	oligomer sequence
;	2	id             	oligomer identifier
;	3	obs_freq       	observed relative frequency
;	4	exp_freq       	expected relative frequency
;	5	occ            	observed occurrences
;	6	exp_occ        	expected occurrences
;	7	occ_P          	occurrence probability (binomial)
;	8	occ_E          	E-value for occurrences (binomial)
;	9	occ_sig        	occurrence significance (binomial)
;	10	rank           	rank
;	11	ovl_occ        	number of overlapping occurrences (discarded from the count)
;	12	forbocc        	forbidden positions (to avoid self-overlap)
;	13	zscore         	z-score (Gaussian approximation)
;	14	exp_var        	estimation of the variance on occurrences
;	15	ratio          	observed/expected ratio
;	16	ms             	number of matching sequences
;	17	exp_ms         	expected number of matching sequences
;	18	ms_P           	matching sequence probability (binomial)
;	19	ms_E           	E-value for matching sequences (binomial)
;	20	ms_sig         	matching sequenc significance (binomial)
;	21	ms_freq        	proportion of matching sequences (sequences with at least one occurrence)
;	22	exp_msf        	expected proportion matching sequences
;	23	ms_rati        	observed/expected numbers of matching sequences
#seq	id	obs_freq	exp_freq	occ	exp_occ	occ_P	occ_E	occ_sig	rank	ovl_occ	forbocc	zscore	exp_var	ratio	ms	exp_ms	ms_P	ms_E	ms_sig	ms_freq	exp_msf	ms_rati
tttctt	tttctt	0.0018522329697	0.0012367670946	180	120.19	2.1e-07	8.8e-04	3.06	1	8	885	5.46	120.189	1.4976	137	106.89	0.00083	3.4	-0.5	0.27400	0.21379	1.28165
atcaag	atcaag	0.0006688619057	0.0003542159453	65	34.42	2.2e-06	9.0e-03	2.05	2	0	318	5.21	34.423	1.8883	63	33.27	1.1e-06	0.0044	2.4	0.12600	0.06654	1.89359
tatata	tatata	0.0015126569253	0.0010201723903	147	99.14	4.2e-06	1.7e-02	1.77	3	35	729	4.81	99.140	1.4827	121	89.97	0.00030	1.2	-0.1	0.24200	0.17994	1.34487
tccttt	tccttt	0.0009158263017	0.0005641017323	89	54.82	1.4e-05	5.6e-02	1.25	4	0	441	4.62	54.819	1.6235	79	51.93	0.00012	0.5	0.3	0.15800	0.10387	1.52113
tctttt	tctttt	0.0017287507718	0.0012450307404	168	120.99	3e-05	1.2e-01	0.91	5	4	825	4.27	120.992	1.3885	134	107.52	0.00286	12	-1.1	0.26800	0.21505	1.24622
ttcttt	ttcttt	0.0017184605886	0.0012367670946	167	120.19	3.1e-05	1.3e-01	0.90	6	5	809	4.27	120.189	1.3895	135	106.89	0.00166	6.8	-0.8	0.27000	0.21379	1.26294
aaggaa	aaggaa	0.0008849557522	0.0005573756181	86	54.17	4e-05	1.6e-01	0.79	7	0	409	4.33	54.166	1.5877	78	51.35	0.00014	0.58	0.2	0.15600	0.10270	1.51903
aagaaa	aagaaa	0.0016155587569	0.0011752686536	157	114.21	8.5e-05	3.5e-01	0.46	8	8	778	4.00	114.213	1.3746	132	102.16	0.00078	3.2	-0.5	0.26400	0.20432	1.29208
tattat	tattat	0.0009569870344	0.0006356992621	93	61.78	0.00013	5.2e-01	0.29	9	2	449	3.97	61.777	1.5054	85	58.13	0.00024	0.98	0.0	0.17000	0.11626	1.46222
aaaggg	aaaggg	0.0004939287919	0.0002824531653	48	27.45	0.00024	9.8e-01	0.01	10	0	240	3.92	27.449	1.7487	45	26.71	0.00054	2.2	-0.3	0.09000	0.05343	1.68460
; Host name	rsat
; Job started	2026-05-11.134158
; Job done	2026-05-11.134159
; Seconds	0.59
;	user	0.59
;	system	0.02
;	cuser	0
;	csystem	0