; oligo-analysis -v 1 -sort -i $RSAT/public_html/tmp/www-data/2026/05/02/tmp_sequence_2026-05-02.224300_aU9YyQ.fasta.purged -format fasta -lth occ_sig 0 -uth rank 50 -return occ,proba,rank -1str -noov -quick_if_possible -seqtype dna -bg upstream-noorf -org Homo_sapiens_GRCh38 -pseudo 0.01 -l 4 -o $RSAT/public_html/tmp/www-data/2026/05/02/oligo-analysis_2026-05-02.224300_t2l33k_4nt.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 4
; Input file $RSAT/public_html/tmp/www-data/2026/05/02/tmp_sequence_2026-05-02.224300_aU9YyQ.fasta.purged
; Input format fasta
; Output file $RSAT/public_html/tmp/www-data/2026/05/02/oligo-analysis_2026-05-02.224300_t2l33k_4nt.tab
; Discard overlapping matches
; Counted on a single strand
; Background model upstream-noorf
; Organism Homo_sapiens_GRCh38
; Background estimation method Frequency file
; Expected frequency file $RSAT/public_html/data/genomes/Homo_sapiens_GRCh38/oligo-frequencies/4nt_upstream-noorf_Homo_sapiens_GRCh38-noov-1str.freq
; Pseudo-frequency 0.01
; Pseudo-frequency per oligo 3.90625e-05
; Sequence type DNA
; Nb of sequences 3205
; Sum of sequence lengths 99355
; 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 89740
; total overlapping occurrences 2392
; total non overlapping occ 87348
; alphabet size 4
; nb possible oligomers 256
; oligomers tested for significance 256
;
; 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
taaa taaa 0.0071564882806 2781 642.22 0 0e+00 350.00 1 0 8343
aaat aaat 0.0087707085475 2619 787.08 0 0e+00 350.00 2 0 7857
aata aata 0.0061745157995 2171 554.10 0 0e+00 350.00 3 55 6513
ataa ataa 0.0055105383204 2018 494.52 0 0e+00 350.00 4 113 6054
ttaa ttaa 0.0056973613736 1370 511.28 8e-218 2e-215 214.66 5 0 4110
aaaa aaaa 0.0085717736607 1694 769.23 1e-183 2e-181 180.61 6 892 5082
aatt aatt 0.0064547575759 1332 579.25 1e-158 3e-156 155.48 7 0 3996
taat taat 0.0049782437468 1034 446.75 5e-125 1e-122 121.90 8 19 3102
ttgt ttgt 0.0048528434501 945 435.49 1.2e-99 3.1e-97 96.51 9 30 2835
ttta ttta 0.0069422174954 1218 622.99 1.9e-99 4.8e-97 96.32 10 0 3654
attt attt 0.0085264280498 1398 765.16 2e-94 5.1e-92 91.29 11 0 4194
tgtt tgtt 0.0053225710120 983 477.65 1.3e-91 3.4e-89 88.47 12 15 2949
tatt tatt 0.0059966668737 1047 538.14 1.4e-84 3.5e-82 81.46 13 33 3141
atta atta 0.0050087428261 905 449.48 4.8e-80 1.2e-77 76.91 14 27 2715
ttat ttat 0.0053384682433 883 479.07 1e-61 2.6e-59 58.59 15 32 2649
tttt tttt 0.0081520406963 1189 731.56 6.8e-55 1.7e-52 51.76 16 615 3567
aatg aatg 0.0051888154932 821 465.64 2.1e-50 5.4e-48 47.27 17 0 2463
attg attg 0.0036970305347 619 331.77 2.6e-45 6.7e-43 42.17 18 0 1857
tttg tttg 0.0064770669544 951 581.25 2.7e-45 6.8e-43 42.17 19 0 2853
gttt gttt 0.0050483599644 780 453.04 1.7e-44 4.2e-42 41.37 20 0 2340
aaac aaac 0.0052412281395 794 470.35 1.9e-42 5.0e-40 39.30 21 0 2382
tttc tttc 0.0066788013083 958 599.36 7.1e-42 1.8e-39 38.74 22 0 2874
atgt atgt 0.0046867609223 725 420.59 1.2e-41 3.1e-39 38.52 23 0 2175
cttt cttt 0.0065206637978 927 585.16 3.2e-39 8.2e-37 36.09 24 0 2781
attc attc 0.0041475936208 649 372.21 7.5e-39 1.9e-36 35.71 25 0 1947
tgaa tgaa 0.0057265866594 834 513.90 8.8e-39 2.2e-36 35.65 26 0 2502
ttct ttct 0.0068076415672 956 610.92 1.6e-38 4.1e-36 35.38 27 21 2868
ttga ttga 0.0045874554019 697 411.68 7.8e-38 2.0e-35 34.70 28 0 2091
catt catt 0.0051018664899 753 457.84 6.8e-37 1.7e-34 33.76 29 0 2259
actt actt 0.0045446285918 687 407.83 1.1e-36 2.8e-34 33.56 30 0 2061
tctt tctt 0.0058890709004 830 528.49 3.8e-34 9.9e-32 31.01 31 17 2490
aact aact 0.0042820831901 637 384.27 2.4e-32 6.1e-30 29.21 32 0 1911
atat atat 0.0049684636032 715 445.87 4.5e-32 1.2e-29 28.94 33 86 2145
tata tata 0.0042120245452 618 377.99 5.7e-30 1.5e-27 26.83 34 64 1854
tgta tgta 0.0043039391844 626 386.24 2.1e-29 5.3e-27 26.27 35 0 1878
gaat gaat 0.0041884773560 581 375.87 5.8e-23 1.5e-20 19.83 36 0 1743
tcat tcat 0.0044575068706 600 400.02 6.2e-21 1.6e-18 17.80 37 9 1800
gtgt gtgt 0.0035086314320 486 314.86 2.2e-19 5.6e-17 16.25 38 52 1458
caat caat 0.0037625697314 514 337.65 2.6e-19 6.7e-17 16.18 39 0 1542
gtat gtat 0.0028927918343 414 259.60 6.3e-19 1.6e-16 15.79 40 0 1242
ttca ttca 0.0056612705565 708 508.04 2.6e-17 6.7e-15 14.18 41 0 2124
tact tact 0.0033990851871 457 305.03 2.8e-16 7.2e-14 13.14 42 11 1371
ctta ctta 0.0033099988013 443 297.04 1.6e-15 4.0e-13 12.40 43 0 1329
tatg tatg 0.0034591118083 458 310.42 2.7e-15 6.9e-13 12.16 44 0 1374
tgtg tgtg 0.0049498172808 615 444.20 9.2e-15 2.4e-12 11.63 45 62 1845
tgat tgat 0.0040331968853 511 361.94 8.2e-14 2.1e-11 10.68 46 8 1533
ttac ttac 0.0032559957122 423 292.19 3.9e-13 1.0e-10 10.00 47 0 1269
atac atac 0.0029517605592 388 264.89 8.1e-13 2.1e-10 9.68 48 0 1164
aaag aaag 0.0067581939094 782 606.48 4.2e-12 1.1e-09 8.97 49 0 2346
ctaa ctaa 0.0036144282618 442 324.36 3.1e-10 8.0e-08 7.09 50 0 1326
; Host name rsat
; Job started 2026-05-02.224301
; Job done 2026-05-02.224302
; Seconds 0.18
; user 0.18
; system 0.03
; cuser 0.13
; csystem 0.02