; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/18/tmp_sequence_2026-06-18.142551_AKyZcB.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 Arabidopsis_thaliana.TAIR10.60 -pseudo 0.01 -l 7 -o $RSAT/public_html/tmp/www-data/2026/06/18/oligo-analysis_2026-06-18.142551_KhL7ja_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/2026/06/18/tmp_sequence_2026-06-18.142551_AKyZcB.fasta.purged
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/18/oligo-analysis_2026-06-18.142551_KhL7ja_7nt.tab
; Discard overlapping matches
; Counted on both strands
; grouped by pairs of reverse complements
; Background model upstream-noorf
; Organism Arabidopsis_thaliana.TAIR10.60
; Background estimation method Frequency file
; Expected frequency file $RSAT/public_html/data/genomes/Arabidopsis_thaliana.TAIR10.60/oligo-frequencies/7nt_upstream-noorf_Arabidopsis_thaliana.TAIR10.60-noov-2str.freq
; Pseudo-frequency 0.01
; Pseudo-frequency per oligo 1.220703125e-06
; Sequence type DNA
; Nb of sequences 666
; Sum of sequence lengths 409988
; 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 332797
; total overlapping occurrences 3318
; total non overlapping occ 329479
; 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
aggccca aggccca|tgggcct 0.0001467806526 416 48.85 5e-230 4e-226 225.36 1 2 2496
aagccca aagccca|tgggctt 0.0002016424593 434 67.11 6e-195 5e-191 190.34 2 1 2604
atgggcc atgggcc|ggcccat 0.0001347764866 335 44.85 7e-169 5e-165 164.27 3 5 2010
ggcccaa ggcccaa|ttgggcc 0.0001333671925 324 44.38 1e-160 1e-156 156.01 4 7 1944
aatgggc aatgggc|gcccatt 0.0001462773332 329 48.68 1e-153 1e-149 149.00 5 2 1974
attgggc attgggc|gcccaat 0.0001228729846 286 40.89 2e-137 1e-133 132.83 6 2 1716
agcccat agcccat|atgggct 0.0001336691842 280 44.48 1e-123 8e-120 119.09 7 0 1680
agcccaa agcccaa|ttgggct 0.0001616537387 293 53.80 4e-114 3e-110 109.46 8 0 1758
gggccta gggccta|taggccc 0.0000637832955 171 21.23 4.2e-92 3.5e-88 87.46 9 1 1026
aaggccc aaggccc|gggcctt 0.0000811981443 185 27.02 3.7e-88 3.0e-84 83.52 10 0 1110
aaagccc aaagccc|gggcttt 0.0001310015917 230 43.60 2.1e-87 1.7e-83 82.77 11 0 1380
gcccata gcccata|tatgggc 0.0000952659194 184 31.70 1.4e-76 1.2e-72 71.93 12 2 1104
cccatta cccatta|taatggg 0.0001393818585 214 46.39 1.6e-71 1.3e-67 66.87 13 0 1284
tggccca tggccca|tgggcca 0.0000883201127 163 29.39 2.1e-65 1.8e-61 60.76 14 0 978
gcccaaa gcccaaa|tttgggc 0.0001557900686 214 51.85 1.6e-63 1.3e-59 58.88 15 2 1284
gggctta gggctta|taagccc 0.0000744033333 141 24.76 3.7e-58 3.0e-54 53.52 16 0 846
cccaata cccaata|tattggg 0.0001467806526 195 48.85 6.4e-56 5.3e-52 51.28 17 1 1170
cggccca cggccca|tgggccg 0.0000554030287 119 18.44 8.5e-55 7.0e-51 50.15 18 0 714
tagccca tagccca|tgggcta 0.0000705781064 118 23.49 9.5e-44 7.8e-40 39.11 19 0 708
aacccta aacccta|tagggtt 0.0002031524172 208 67.61 1.1e-42 9.2e-39 38.03 20 2 1248
aaaggcc aaaggcc|ggccttt 0.0000854511926 125 28.44 1.6e-40 1.3e-36 35.87 21 0 750
cggcgga cggcgga|tccgccg 0.0000175534153 61 5.84 3.6e-40 3.0e-36 35.53 22 0 366
cgccgcc cgccgcc|ggcggcg 0.0000135268607 55 4.50 8.2e-40 6.7e-36 35.17 23 6 330
gcccaac gcccaac|gttgggc 0.0000580706211 101 19.33 4.2e-39 3.4e-35 34.47 24 0 606
caggccc caggccc|gggcctg 0.0000325774972 77 10.84 7.8e-39 6.4e-35 34.19 25 0 462
atcgccg atcgccg|cggcgat 0.0000234674174 67 7.81 8e-39 6.6e-35 34.18 26 0 402
ggcctta ggcctta|taaggcc 0.0000576176338 99 19.17 6e-38 5.0e-34 33.31 27 0 594
cggcggc cggcggc|gccgccg 0.0000141308439 54 4.70 8.7e-38 7.1e-34 33.15 28 6 324
ccgccgc ccgccgc|gcggcgg 0.0000139043502 52 4.63 5.2e-36 4.3e-32 31.37 29 5 312
ccggcga ccggcga|tcgccgg 0.0000219322934 62 7.30 8.1e-36 6.6e-32 31.18 30 5 372
ggcctaa ggcctaa|ttaggcc 0.0000714337493 107 23.77 8.5e-36 7.0e-32 31.16 31 1 642
cgacggc cgacggc|gccgtcg 0.0000187362158 55 6.24 9e-33 7.4e-29 28.13 32 0 330
ctccgcc ctccgcc|ggcggag 0.0000214289741 57 7.13 9.6e-32 7.9e-28 27.10 33 0 342
acggcgg acggcgg|ccgccgt 0.0000157917977 50 5.26 2e-31 1.7e-27 26.78 34 0 300
cgtcgtc cgtcgtc|gacgacg 0.0000428452115 77 14.26 3.9e-31 3.2e-27 26.49 35 10 462
ggcccac ggcccac|gtgggcc 0.0000333576422 68 11.10 8.8e-31 7.2e-27 26.14 36 0 408
gggccca gggccca|tgggccc 0.0000299854027 64 9.98 3.8e-30 3.1e-26 25.51 37 32 384
aaatggg aaatggg|cccattt 0.0001805030476 167 60.07 9e-30 7.4e-26 25.13 38 0 1002
aaaagcc aaaagcc|ggctttt 0.0001649504803 157 54.90 2.4e-29 1.9e-25 24.71 39 0 942
ataggcc ataggcc|ggcctat 0.0000532890875 83 17.73 2.8e-29 2.3e-25 24.63 40 0 498
ctgggcc ctgggcc|ggcccag 0.0000258078523 58 8.59 1.4e-28 1.1e-24 23.95 41 1 348
cgccgtc cgccgtc|gacggcg 0.0000192395350 51 6.40 1.6e-28 1.3e-24 23.88 42 0 306
atcggag atcggag|ctccgat 0.0000531129258 81 17.68 5e-28 4.1e-24 23.39 43 0 486
cttcttc cttcttc|gaagaag 0.0003767472533 266 125.38 6.8e-28 5.5e-24 23.26 44 51 1596
acgacga acgacga|tcgtcgt 0.0000627011589 88 20.87 7.8e-28 6.4e-24 23.19 45 12 528
aaaccct aaaccct|agggttt 0.0002337542324 191 77.79 2.2e-27 1.8e-23 22.75 46 0 1146
actgggc actgggc|gcccagt 0.0000252542010 55 8.40 1.5e-26 1.2e-22 21.92 47 0 330
gatgggc gatgggc|gcccatc 0.0000486082178 75 16.18 2.2e-26 1.8e-22 21.74 48 0 450
gggccaa gggccaa|ttggccc 0.0000619461800 85 20.62 2.6e-26 2.2e-22 21.67 49 0 510
cggagga cggagga|tcctccg 0.0000322251737 59 10.72 1.2e-24 9.8e-21 20.01 50 0 354
; Host name rsat
; Job started 2026-06-18.142552
; Job done 2026-06-18.142553
; Seconds 0.89
; user 0.89
; system 0.02
; cuser 0.19
; csystem 0.02