; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/05/retrieve-seq_2026-06-05.093815_h3YG9b.fasta.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 Vitis_vinifera.PN40024.v4.60 -pseudo 0.01 -l 7 -o $RSAT/public_html/tmp/www-data/2026/06/05/oligo-analysis_2026-06-05.094204_xR8qdu_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/2026/06/05/retrieve-seq_2026-06-05.093815_h3YG9b.fasta.fasta.purged
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/05/oligo-analysis_2026-06-05.094204_xR8qdu_7nt.tab
; Discard overlapping matches
; Counted on both strands
; grouped by pairs of reverse complements
; Background model upstream-noorf
; Organism Vitis_vinifera.PN40024.v4.60
; Background estimation method Frequency file
; Expected frequency file $RSAT/public_html/data/genomes/Vitis_vinifera.PN40024.v4.60/oligo-frequencies/7nt_upstream-noorf_Vitis_vinifera.PN40024.v4.60-noov-2str.freq
; Pseudo-frequency 0.01
; Pseudo-frequency per oligo 1.220703125e-06
; Sequence type DNA
; Nb of sequences 110
; Sum of sequence lengths 191354
; 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 172350
; total overlapping occurrences 4445
; total non overlapping occ 167905
; alphabet size 4
; nb possible oligomers 8192
; oligomers tested for significance 8192
;
; 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
acgtgtc acgtgtc|gacacgt 0.0000622823471 47 10.73 3e-16 2.5e-12 11.61 1 3 282
ttaaaaa ttaaaaa|tttttaa 0.0029949516350 676 516.18 9.8e-12 8.0e-08 7.10 2 59 4056
taaaaaa taaaaaa|tttttta 0.0032047784703 708 552.34 1.1e-10 9.3e-07 6.03 3 11 4248
aaaaaat aaaaaat|atttttt 0.0036315732693 790 625.90 1.5e-10 1.2e-06 5.91 4 0 4740
acacgtg acacgtg|cacgtgt 0.0000797106961 43 13.74 2.2e-10 1.8e-06 5.74 5 19 258
acgtggc acgtggc|gccacgt 0.0000693860223 39 11.96 4.8e-10 3.9e-06 5.41 6 4 234
cacgtgg cacgtgg|ccacgtg 0.0000780627434 40 13.45 3.7e-09 3.0e-05 4.52 7 14 240
cgtgtca cgtgtca|tgacacg 0.0000507341933 31 8.74 4.1e-09 3.4e-05 4.47 8 0 186
attaaaa attaaaa|ttttaat 0.0019744194273 452 340.29 4.4e-09 3.6e-05 4.44 9 8 2712
aatttta aatttta|taaaatt 0.0017629571237 407 303.85 1e-08 8.2e-05 4.09 10 32 2442
attttaa attttaa|ttaaaat 0.0019937703878 446 343.63 6.9e-08 5.7e-04 3.25 11 42 2676
aaattta aaattta|taaattt 0.0013668242339 320 235.57 1e-07 8.2e-04 3.08 12 72 1920
aataaaa aataaaa|ttttatt 0.0027395938623 589 472.17 1.2e-07 9.7e-04 3.02 13 21 3534
acgtgta acgtgta|tacacgt 0.0000498602789 28 8.59 1.2e-07 1.0e-03 3.00 14 0 168
aaaatat aaaatat|atatttt 0.0023688544265 517 408.27 1.3e-07 1.0e-03 2.99 15 41 3102
aaaattt aaaattt|aaatttt 0.0017485625060 395 301.36 1.4e-07 1.2e-03 2.93 16 101 2370
cgtggca cgtggca|tgccacg 0.0000520200957 28 8.97 2.8e-07 2.3e-03 2.63 17 0 168
taataaa taataaa|tttatta 0.0013437154416 312 231.59 2.9e-07 2.4e-03 2.63 18 2 1872
aaaaata aaaaata|tattttt 0.0035292254145 735 608.26 3.3e-07 2.7e-03 2.56 19 31 4410
ataaaaa ataaaaa|tttttat 0.0026538378957 567 457.39 4.1e-07 3.3e-03 2.48 20 21 3402
aaaatta aaaatta|taatttt 0.0022260068838 482 383.65 7.3e-07 6.0e-03 2.22 21 10 2892
tttaaaa tttaaaa|ttttaaa 0.0024012891333 515 413.86 8.8e-07 7.2e-03 2.14 22 225 3090
aaataaa aaataaa|tttattt 0.0029834783881 625 514.20 1.2e-06 9.7e-03 2.01 23 81 3750
aaaataa aaaataa|ttatttt 0.0033880507937 701 583.93 1.4e-06 1.1e-02 1.95 24 32 4206
ataatat ataatat|atattat 0.0010641252723 248 183.40 3.3e-06 2.7e-02 1.57 25 14 1488
aaaaaaa aaaaaaa|ttttttt 0.0032079120774 662 552.88 3.5e-06 2.9e-02 1.54 26 910 3972
aaatata aaatata|tatattt 0.0015963391109 353 275.13 3.7e-06 3.0e-02 1.52 27 19 2118
acgtcac acgtcac|gtgacgt 0.0000284993153 18 4.91 4.3e-06 3.5e-02 1.46 28 1 108
attttta attttta|taaaaat 0.0025155971301 529 433.56 4.9e-06 4.0e-02 1.39 29 24 3174
ttaataa ttaataa|ttattaa 0.0011500685064 263 198.21 6.5e-06 5.3e-02 1.28 30 5 1578
cgacacg cgacacg|cgtgtcg 0.0000184742693 14 3.18 6.6e-06 5.4e-02 1.27 31 2 84
cacgtca cacgtca|tgacgtg 0.0000484994694 24 8.36 7.6e-06 6.2e-02 1.21 32 0 144
aaaaatt aaaaatt|aattttt 0.0024278935830 509 418.45 9.8e-06 8.0e-02 1.10 33 2 3054
aataaat aataaat|atttatt 0.0017958287878 387 309.51 1.2e-05 9.8e-02 1.01 34 42 2322
ataaata ataaata|tatttat 0.0015432925099 338 265.99 1.2e-05 1.0e-01 1.00 35 36 2028
gtgtcaa gtgtcaa|ttgacac 0.0001085623541 40 18.71 1.3e-05 1.0e-01 0.98 36 0 240
ccacgtc ccacgtc|gacgtgg 0.0000441298976 22 7.61 1.6e-05 1.3e-01 0.89 37 0 132
acgtgga acgtgga|tccacgt 0.0000690614256 29 11.90 2e-05 1.6e-01 0.80 38 1 174
aattaaa aattaaa|tttaatt 0.0017634939569 378 303.94 2.3e-05 1.9e-01 0.73 39 24 2268
aataatt aataatt|aattatt 0.0017693866365 378 304.95 2.9e-05 2.4e-01 0.62 40 9 2268
cacgtgc cacgtgc|gcacgtg 0.0000394482137 20 6.80 3e-05 2.4e-01 0.61 41 0 120
acgcagt acgcagt|actgcgt 0.0000116577373 10 2.01 4.8e-05 4.0e-01 0.40 42 0 60
cgtcacc cgtcacc|ggtgacg 0.0000282995635 16 4.88 5.2e-05 4.3e-01 0.37 43 0 96
aaattaa aaattaa|ttaattt 0.0018468653857 390 318.31 5.5e-05 4.5e-01 0.35 44 28 2340
attatta attatta|taataat 0.0011817042057 261 203.67 6.4e-05 5.3e-01 0.28 45 58 1566
cacgtag cacgtag|ctacgtg 0.0000289113035 16 4.98 6.6e-05 5.4e-01 0.26 46 0 96
ataataa ataataa|ttattat 0.0013223419935 287 227.91 9.1e-05 7.4e-01 0.13 47 65 1722
tattaaa tattaaa|tttaata 0.0013555632232 293 233.63 0.00010 8.2e-01 0.08 48 2 1758
cgcgcca cgcgcca|tggcgcg 0.0000103718349 9 1.79 0.00010 8.5e-01 0.07 49 1 54
atataat atataat|attatat 0.0009842744698 220 169.64 0.00012 9.8e-01 0.01 50 12 1320
; Host name rsat
; Job started 2026-06-05.094206
; Job done 2026-06-05.094207
; Seconds 0.79
; user 0.79
; system 0.02
; cuser 0.12
; csystem 0.02