; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.081151_17zmap -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_2026-06-17.081151_WwOzYt_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_2026-06-17.081151_17zmap
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.081151_WwOzYt_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
tgactt tgactt 0.0002581552776 95427 76738.69 0 0e+00 350.00 1 127 477112
ctcgaa ctcgaa 0.0000584112694 32774 17363.21 0 0e+00 350.00 2 0 163823
tactcg tactcg 0.0000430982720 27533 12811.30 0 0e+00 350.00 3 0 137636
cttcta cttcta 0.0002259996595 79335 67180.18 0 0e+00 350.00 4 0 396652
catcct catcct 0.0002791114877 100103 82968.09 0 0e+00 350.00 5 0 500471
atatac atatac 0.0002412075562 91639 71700.85 0 0e+00 350.00 6 0 458165
ctctac ctctac 0.0002090533508 119851 62142.76 0 0e+00 350.00 7 60 598991
aacaac aacaac 0.0001989693474 79238 59145.21 0 0e+00 350.00 8 7058 396113
gaggtg gaggtg 0.0003419029795 123767 101633.36 0 0e+00 350.00 9 177 618755
tccagc tccagc 0.0003471449792 165725 103191.59 0 0e+00 350.00 10 0 828107
tagaaa tagaaa 0.0004473193423 152740 132969.21 0 0e+00 350.00 11 0 763662
cgcgcc cgcgcc 0.0000198802976 28900 5909.58 0 0e+00 350.00 12 62 144444
cgcctg cgcctg 0.0001054844964 86746 31356.10 0 0e+00 350.00 13 0 433715
ccagcc ccagcc 0.0003773942602 251414 112183.42 0 0e+00 350.00 14 1713 1256531
ctcggg ctcggg 0.0000663803373 40819 19732.08 0 0e+00 350.00 15 0 204075
aggcat aggcat 0.0003430226838 128627 101966.20 0 0e+00 350.00 16 0 643110
ccactg ccactg 0.0004213723543 176710 125256.26 0 0e+00 350.00 17 0 883224
cgtgag cgtgag 0.0000766978197 44329 22799.03 0 0e+00 350.00 18 0 221627
ccccgc ccccgc 0.0000653763790 30561 19433.64 0 0e+00 350.00 19 405 152790
acctca acctca 0.0003483102190 136605 103537.96 0 0e+00 350.00 20 133 682979
agatca agatca 0.0002747331017 118059 81666.58 0 0e+00 350.00 21 97 590064
ggatta ggatta 0.0002246542438 166324 66780.25 0 0e+00 350.00 22 0 831515
ggcggg ggcggg 0.0000776157428 63533 23071.89 0 0e+00 350.00 23 910 317626
gctcac gctcac 0.0002745657599 170035 81616.84 0 0e+00 350.00 24 0 850062
gtcgcc gtcgcc 0.0000369651749 23090 10988.19 0 0e+00 350.00 25 0 115437
gccccg gccccg 0.0000622809102 26322 18513.49 0 0e+00 350.00 26 298 131594
gtctca gtctca 0.0002875254676 166011 85469.21 0 0e+00 350.00 27 0 829610
aaaata aaaata 0.0009146381301 411328 271883.40 0 0e+00 350.00 28 7198 2056451
ctcact ctcact 0.0004116297959 186710 122360.21 0 0e+00 350.00 29 1150 933362
ccaagg ccaagg 0.0002714586033 101915 80693.21 0 0e+00 350.00 30 0 509486
ggagtt ggagtt 0.0003074483332 137251 91391.44 0 0e+00 350.00 31 0 686112
gacttc gacttc 0.0001572217525 61658 46735.41 0 0e+00 350.00 32 0 308263
cccatc cccatc 0.0002139222610 98685 63590.08 0 0e+00 350.00 33 170 493347
gcaacc gcaacc 0.0001397312233 82874 41536.21 0 0e+00 350.00 34 0 414184
gtcagg gtcagg 0.0002521204451 120267 74944.79 0 0e+00 350.00 35 73 601247
caagca caagca 0.0002436433478 101380 72424.91 0 0e+00 350.00 36 568 506864
ctggag ctggag 0.0005168965902 184497 153651.59 0 0e+00 350.00 37 0 922166
aattag aattag 0.0002951472470 151314 87734.85 0 0e+00 350.00 38 0 756533
ccccgt ccccgt 0.0000565814723 38310 16819.29 0 0e+00 350.00 39 0 191499
ttgttt ttgttt 0.0005249407509 227365 156042.78 0 0e+00 350.00 40 20900 1136806
gtaatc gtaatc 0.0001526730154 147941 45383.26 0 0e+00 350.00 41 0 739476
taacat taacat 0.0002440127410 94905 72534.71 0 0e+00 350.00 42 247 474494
tcttgg tcttgg 0.0002974394992 109415 88416.24 0 0e+00 350.00 43 0 547001
ccagct ccagct 0.0003942962390 202833 117207.67 0 0e+00 350.00 44 0 1014094
attcat attcat 0.0003179337763 113682 94508.32 0 0e+00 350.00 45 3052 568398
tagctg tagctg 0.0002487404591 156931 73940.07 0 0e+00 350.00 46 0 784616
aactcc aactcc 0.0003073041212 136400 91348.58 0 0e+00 350.00 47 0 681858
tgaagt tgaagt 0.0002637175491 94956 78392.12 0 0e+00 350.00 48 145 474752
gaagac gaagac 0.0001787168571 67514 53125.00 0 0e+00 350.00 49 0 337550
tcgaac tcgaac 0.0000285849106 27570 8497.09 0 0e+00 350.00 50 0 137800
; Host name rsat
; Job started 2026-06-17.081152
; Job done 2026-06-17.082226
; Seconds 634.21
; user 634.21
; system 0.17
; cuser 0
; csystem 0