; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/06/17/tmp_sequence_2026-06-17.100531_NsI0jE -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_2026-06-17.100531_kGiIXh_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_2026-06-17.100531_NsI0jE
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/06/17/oligo-analysis_2026-06-17.100531_kGiIXh_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
gtgaca gtgaca 0.0002584411267 92942 76823.67 0 0e+00 350.00 1 0 464530
gcagga gcagga 0.0003348127407 145963 99525.73 0 0e+00 350.00 2 0 729754
taaata taaata 0.0004585306735 194945 136301.86 0 0e+00 350.00 3 15460 974643
ctgcct ctgcct 0.0004488109174 229372 133412.59 0 0e+00 350.00 4 6808 1146635
atgtat atgtat 0.0002776955290 111796 82547.19 0 0e+00 350.00 5 2459 558961
cgggag cgggag 0.0000851010003 70174 25296.94 0 0e+00 350.00 6 0 350826
catcct catcct 0.0002791114877 100103 82968.09 0 0e+00 350.00 7 0 500471
accccg accccg 0.0000544768049 37596 16193.66 0 0e+00 350.00 8 0 187944
ggttgc ggttgc 0.0001394070797 83863 41439.85 0 0e+00 350.00 9 0 419104
aattat aattat 0.0004210744144 151742 125167.69 0 0e+00 350.00 10 0 758697
ttcatc ttcatc 0.0002453447414 89212 72930.66 0 0e+00 350.00 11 0 446036
taacaa taacaa 0.0002661658992 95783 79119.91 0 0e+00 350.00 12 0 478881
gcgatc gcgatc 0.0000302401288 25093 8989.12 0 0e+00 350.00 13 0 125414
ccaagg ccaagg 0.0002714586033 101915 80693.21 0 0e+00 350.00 14 0 509486
ccaaca ccaaca 0.0002823288906 122190 83924.49 0 0e+00 350.00 15 0 610886
ctggga ctggga 0.0004203409647 276565 124949.67 0 0e+00 350.00 16 0 1382617
gcactt gcactt 0.0002714217035 127413 80682.24 0 0e+00 350.00 17 0 637041
tgcaac tgcaac 0.0001752933614 92110 52107.34 0 0e+00 350.00 18 0 460383
gcctgt gcctgt 0.0003844458866 168510 114279.57 0 0e+00 350.00 19 0 842504
tctcct tctcct 0.0004907424277 187962 145877.06 0 0e+00 350.00 20 602 939637
gacgga gacgga 0.0000464992615 26605 13822.27 0 0e+00 350.00 21 61 133014
gggcgg gggcgg 0.0000776157428 41055 23071.89 0 0e+00 350.00 22 814 205258
acatgg acatgg 0.0002872263272 129415 85380.29 0 0e+00 350.00 23 0 646959
gcagtg gcagtg 0.0003166364393 219745 94122.68 0 0e+00 350.00 24 1109 1098214
ccgggc ccgggc 0.0000719537073 54341 21388.81 0 0e+00 350.00 25 156 271680
catctt catctt 0.0002904445795 106677 86336.94 0 0e+00 350.00 26 0 533365
tgcctc tgcctc 0.0003848207637 186806 114391.01 0 0e+00 350.00 27 0 933887
tcccaa tcccaa 0.0003481733806 190152 103497.29 0 0e+00 350.00 28 0 950492
ttcacc ttcacc 0.0003151450241 110097 93679.35 0 0e+00 350.00 29 0 550417
tcactt tcactt 0.0003455974965 143617 102731.58 0 0e+00 350.00 30 164 717947
aggaga aggaga 0.0004950201598 189813 147148.65 0 0e+00 350.00 31 629 948975
cagcac cagcac 0.0003164851973 143581 94077.72 0 0e+00 350.00 32 187 717811
caagcg caagcg 0.0000564175401 33987 16770.56 0 0e+00 350.00 33 0 169908
tggggt tggggt 0.0002785763157 102485 82809.01 0 0e+00 350.00 34 435 512393
ccatgt ccatgt 0.0002861006842 128369 85045.69 0 0e+00 350.00 35 0 641816
ggcaac ggcaac 0.0001696364341 81748 50425.77 0 0e+00 350.00 36 0 408411
cctagg cctagg 0.0001837855405 65696 54631.70 0 0e+00 350.00 37 0 328422
ctcggc ctcggc 0.0000651547045 71232 19367.75 0 0e+00 350.00 38 39 356054
aaatat aaatat 0.0006664456021 244977 198106.22 0 0e+00 350.00 39 0 1224867
tggcca tggcca 0.0005117230509 175135 152113.72 0 0e+00 350.00 40 0 875571
atgaag atgaag 0.0002710179408 102135 80562.22 0 0e+00 350.00 41 0 510650
caacct caacct 0.0002277461382 120617 67699.34 0 0e+00 350.00 42 0 602902
gtcacc gtcacc 0.0001698566519 74507 50491.23 0 0e+00 350.00 43 0 372478
aatgtt aatgtt 0.0003838985889 133021 114116.89 0 0e+00 350.00 44 0 665093
ggcctc ggcctc 0.0003723773580 133667 110692.11 0 0e+00 350.00 45 0 668262
gctgga gctgga 0.0003477024203 164484 103357.29 0 0e+00 350.00 46 0 822191
tatata tatata 0.0003313422805 176750 98494.11 0 0e+00 350.00 47 69226 883717
tggcta tggcta 0.0002675838657 98747 79541.42 0 0e+00 350.00 48 0 493700
tcagga tcagga 0.0004263533718 175774 126736.91 0 0e+00 350.00 49 0 878736
gaaata gaaata 0.0004421099658 145811 131420.68 0 0e+00 350.00 50 0 729045
; Host name rsat
; Job started 2026-06-17.100533
; Job done 2026-06-17.101558
; Seconds 624.55
; user 624.55
; system 0.17
; cuser 0
; csystem 0