; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/08/21/tmp_sequence_2026-08-21.210800_isBj8Q.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -2str -noov -quick_if_possible -seqtype dna -bg upstream-noorf -org Drosophila_melanogaster -pseudo 0.01 -l 8 -o $RSAT/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210800_pcU8kP_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/2026/08/21/tmp_sequence_2026-08-21.210800_isBj8Q.fasta.purged
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/08/21/oligo-analysis_2026-08-21.210800_pcU8kP_8nt.tab
; Discard overlapping matches
; Counted on both strands
; grouped by pairs of reverse complements
; Background model upstream-noorf
; Organism Drosophila_melanogaster
; Background estimation method Frequency file
; Expected frequency file $RSAT/public_html/data/genomes/Drosophila_melanogaster/oligo-frequencies/8nt_upstream-noorf_Drosophila_melanogaster-noov-2str.freq
; Pseudo-frequency 0.01
; Pseudo-frequency per oligo 3.03988326848249e-07
; Sequence type DNA
; Nb of sequences 37
; Sum of sequence lengths 45655
; 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 45398
; total overlapping occurrences 473
; total non overlapping occ 44925
; alphabet size 4
; nb possible oligomers 32896
; oligomers tested for significance 32896
; Sequences:
; chr2R:12374957-12377245(.) 2288
; chr3L:19845033-19848421(.) 3388
; chr3R:9263708-9264530(.) 822
; chrX:12496696-12497519(.) 823
; chrX:7195637-7196623(.) 986
; chrX:7225872-7226648(.) 776
; chr3L:14550559-14551321(.) 762
; chr3L:5975670-5977117(.) 1447
; chr3L:21034239-21035187(.) 948
; chr3L:21058520-21059519(.) 999
; chr3L:21067506-21068157(.) 651
; chr3R:4196948-4197885(.) 937
; chr2R:21871562-21872466(.) 904
; chr2L:14688433-14689698(.) 1265
; chr2R:8161000-8161640(.) 640
; chrX:22854575-22855626(.) 1051
; chr3R:14740504-14741806(.) 1302
; chr3R:14749205-14749940(.) 735
; chr2L:8898214-8899277(.) 1063
; chr2R:12978871-12981585(.) 2714
; chr3L:1947429-1947995(.) 566
; chr2L:20757615-20759169(.) 1554
; chr2L:20759686-20760643(.) 957
; chr3L:21129679-21131795(.) 2116
; chr3L:21099861-21100280(.) 419
; chr3L:2766018-2767173(.) 1155
; chr3L:11707848-11708598(.) 750
; chr2R:18611474-18612076(.) 602
; chr2R:18582454-18583873(.) 1419
; chr2R:20581564-20582738(.) 1174
; chr3L:10659246-10661255(.) 2009
; chrX:15162354-15163474(.) 1120
; chr3L:3416943-3419182(.) 2239
; chr3L:18625845-18626329(.) 484
; chr3L:18640156-18641658(.) 1502
; chr3R:28584754-28586443(.) 1689
; chr3L:11196886-11198285(.) 1399
;
; 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
gagagaga gagagaga|tctctctc 0.0001161115781 24 5.27 2.2e-09 7.3e-05 4.14 1 18 168
cacacaca cacacaca|tgtgtgtg 0.0003553206980 40 16.13 4e-07 1.3e-02 1.88 2 33 280
agagagag agagagag|ctctctct 0.0001281906895 19 5.82 1.2e-05 3.8e-01 0.42 3 24 133
aaacaaaa aaacaaaa|ttttgttt 0.0005055145987 46 22.95 1.5e-05 4.9e-01 0.31 4 2 322
cgagatac cgagatac|gtatctcg 0.0000180073617 7 0.82 2.4e-05 7.8e-01 0.11 5 0 49
; Host name rsat
; Job started 2026-08-21.210803
; Job done 2026-08-21.210806
; Seconds 2.98
; user 2.98
; system 0.07
; cuser 0.2
; csystem 0.02