; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.085039_xLaMFX -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -1str -nogrouprc -noov -quick_if_possible -seqtype other -markov 2 -pseudo 0.01 -l 6 -o $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.085039_KzEHtt_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/2026/06/17/tmp_sequence_2026-06-17.085039_xLaMFX
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.085039_KzEHtt_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 6.4e-07
; Sequence type other
; Nb of sequences 13219
; Sum of sequence lengths 297323989
; nb possible positions 297257894
; total oligo occurrences 297257894
; total overlapping occurrences 3578245
; total non overlapping occ 293679649
; alphabet size 5
; nb possible oligomers 15625
; oligomers tested for significance 4147
;
; 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
ggcgac ggcgac 0.0000370177879 23336 11003.83 0 0e+00 350.00 1 0 116546
gcccag gcccag 0.0003786186182 203758 112547.37 0 0e+00 350.00 2 642 1018675
tcaagt tcaagt 0.0002157932661 110960 64146.25 0 0e+00 350.00 3 74 554681
tctcaa tctcaa 0.0004373243419 185497 129998.11 0 0e+00 350.00 4 0 927050
tacttt tacttt 0.0003648862007 127564 108465.30 0 0e+00 350.00 5 229 637808
tataat tataat 0.0003341922968 136618 99341.30 0 0e+00 350.00 6 526 683029
catgtt catgtt 0.0002896988653 140001 86115.27 0 0e+00 350.00 7 0 699969
tgaaac tgaaac 0.0003539719735 144616 105220.96 0 0e+00 350.00 8 0 722799
ccactg ccactg 0.0004213723543 176710 125256.26 0 0e+00 350.00 9 0 883224
aggaga aggaga 0.0004950201598 189813 147148.65 0 0e+00 350.00 10 629 948975
ctcggc ctcggc 0.0000651547045 71232 19367.75 0 0e+00 350.00 11 39 356054
aacttc aacttc 0.0002262090253 81029 67242.42 0 0e+00 350.00 12 0 405113
acccca acccca 0.0002798261623 103832 83180.54 0 0e+00 350.00 13 442 519111
gcaaga gcaaga 0.0002247696747 95985 66814.56 0 0e+00 350.00 14 0 479787
ggcgcg ggcgcg 0.0000199411268 28733 5927.66 0 0e+00 350.00 15 56 143651
cacgtg cacgtg 0.0000672307494 31252 19984.87 0 0e+00 350.00 16 0 156247
gctggg gctggg 0.0003187737942 286464 94758.03 0 0e+00 350.00 17 569 1432134
tcgatc tcgatc 0.0000249868391 14985 7427.54 0 0e+00 350.00 18 15 74904
cgcttg cgcttg 0.0000561146269 34107 16680.52 0 0e+00 350.00 19 0 170422
cttcta cttcta 0.0002259996595 79335 67180.18 0 0e+00 350.00 20 0 396652
cggggt cggggt 0.0000544050251 37140 16172.32 0 0e+00 350.00 21 0 185695
ttacag ttacag 0.0003891326530 196895 115672.75 0 0e+00 350.00 22 0 984322
aaagtg aaagtg 0.0005365160428 179857 159483.63 0 0e+00 350.00 23 0 899167
cccagc cccagc 0.0003191818121 287595 94879.31 0 0e+00 350.00 24 529 1437784
gactac gactac 0.0000972881777 59358 28919.68 0 0e+00 350.00 25 0 296744
aactaa aactaa 0.0002384156173 84960 70870.92 0 0e+00 350.00 26 499 424785
ccacca ccacca 0.0003715976323 178559 110460.33 0 0e+00 350.00 27 9894 892743
aatata aatata 0.0004184942504 167255 124400.72 0 0e+00 350.00 28 631 836258
agatca agatca 0.0002747331017 118059 81666.58 0 0e+00 350.00 29 97 590064
gattct gattct 0.0002859762085 110557 85008.69 0 0e+00 350.00 30 0 552635
tggtgg tggtgg 0.0003704506183 179246 110119.37 0 0e+00 350.00 31 10002 896140
gacggg gacggg 0.0000426767635 38374 12686.00 0 0e+00 350.00 32 28 191870
cgtctc cgtctc 0.0000525729719 55826 15627.73 0 0e+00 350.00 33 18 278956
aagaca aagaca 0.0003449089654 128062 102526.91 0 0e+00 350.00 34 212 640302
acgcct acgcct 0.0000779562663 54312 23173.12 0 0e+00 350.00 35 0 271544
tgggac tgggac 0.0002295310165 92397 68229.91 0 0e+00 350.00 36 0 461940
gagacc gagacc 0.0002226875619 122529 66195.64 0 0e+00 350.00 37 0 612407
cggatc cggatc 0.0000432792162 21946 12865.09 0 0e+00 350.00 38 2 109716
accaac accaac 0.0001634255221 60162 48579.53 0 0e+00 350.00 39 446 300766
tgggcg tgggcg 0.0000905156374 53811 26906.49 0 0e+00 350.00 40 0 268972
gagaag gagaag 0.0003403281511 114547 101165.23 0 0e+00 350.00 41 598 572688
tcgccc tcgccc 0.0000570074228 27654 16945.91 0 0e+00 350.00 42 0 138231
gatggt gatggt 0.0001830443532 76636 54411.38 0 0e+00 350.00 43 0 383157
accacg accacg 0.0000556976463 44958 16556.57 0 0e+00 350.00 44 0 224767
ggaggc ggaggc 0.0003361354511 271886 99918.92 0 0e+00 350.00 45 0 1359173
tagtta tagtta 0.0001532718600 58061 45561.27 0 0e+00 350.00 46 234 290304
aggcgg aggcgg 0.0001017773469 71764 30254.12 0 0e+00 350.00 47 0 358709
ataatt ataatt 0.0004208413903 152241 125098.43 0 0e+00 350.00 48 0 761189
aaatga aaatga 0.0005622871259 186025 167144.29 0 0e+00 350.00 49 661 930069
attgct attgct 0.0002796908513 104681 83140.31 0 0e+00 350.00 50 0 523362
; Host name rsat
; Job started 2026-06-17.085041
; Job done 2026-06-17.090103
; Seconds 622.52
; user 622.52
; system 0.17
; cuser 0
; csystem 0