; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/04/21/tmp_sequence_2026-04-21.095625_Jui4eP.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -1str -nogrouprc -noov -quick_if_possible -seqtype dna -bg upstream-noorf -org Saccharomyces_cerevisiae -pseudo 0.01 -l 7 -o $RSAT/public_html/tmp/www-data/2026/04/21/oligo-analysis_2026-04-21.095625_d1Zgoz_7nt.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 7
; Input file $RSAT/public_html/tmp/www-data/2026/04/21/tmp_sequence_2026-04-21.095625_Jui4eP.fasta.purged
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/04/21/oligo-analysis_2026-04-21.095625_d1Zgoz_7nt.tab
; Discard overlapping matches
; Counted on a single strand
; Background model upstream-noorf
; Organism Saccharomyces_cerevisiae
; Background estimation method Frequency file
; Expected frequency file $RSAT/public_html/data/genomes/Saccharomyces_cerevisiae/oligo-frequencies/7nt_upstream-noorf_Saccharomyces_cerevisiae-noov-1str.freq
; Pseudo-frequency 0.01
; Pseudo-frequency per oligo 6.103515625e-07
; Sequence type DNA
; Nb of sequences 19
; Sum of sequence lengths 9485
; 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 9315
; total overlapping occurrences 74
; total non overlapping occ 9241
; alphabet size 4
; nb possible oligomers 16384
; oligomers tested for significance 16384
; Sequences:
; MET8 463
; MET32 547
; MET18 568
; MET30 177
; MET28 489
; MET6 687
; MET10 338
; MET13 380
; MET3 800
; MET14 800
; MET1 702
; MET17 800
; MET2 481
; MET4 800
; MET22 215
; MET7 250
; MET31 161
; MET12 384
; MET16 443
;
; 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
cacgtga cacgtga 0.0000738482191 11 0.69 2.2e-10 3.6e-06 5.45 1 0 66
tcacgtg tcacgtg 0.0000718598608 10 0.67 2.7e-09 4.4e-05 4.35 2 0 60
gccacag gccacag 0.0000357380166 6 0.33 1.4e-06 2.3e-02 1.63 3 0 36
acgtgac acgtgac 0.0000364008027 6 0.34 1.6e-06 2.6e-02 1.59 4 0 36
ccacagt ccacagt 0.0000460112016 6 0.43 6e-06 9.8e-02 1.01 5 0 36
gcacgtg gcacgtg 0.0000354066235 5 0.33 2.5e-05 4.0e-01 0.39 6 0 30
cacagtt cacagtt 0.0000652319994 6 0.61 4.2e-05 6.8e-01 0.17 7 0 36
; Host name rsat
; Job started 2026-04-21.095626
; Job done 2026-04-21.095627
; Seconds 0.77
; user 0.77
; system 0.02
; cuser 0.1
; csystem 0.02