position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083931_2026-01-22.083931_nNIkDc/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta -format fasta -sort -return html,chi,sig,distrib,graphs,rank,index -max_graphs 20 -1str -ovlp -seqtype dna -l 1 -ci 20 -img_format png -title hupA48h-sup3 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083931_2026-01-22.083931_nNIkDc/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab Citation: van Helden, et al. (2000). Nucleic Acids Res 28, 1000-1010. Sequence file $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083931_2026-01-22.083931_nNIkDc/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083931_2026-01-22.083931_nNIkDc/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab Oligo length 1 Occurrences counted on a single strands Conditions of applicability checked. Background model estimation: homogeneous repartition Sequence statistics: Nb of sequences 576 Sum of sequence lengths 273945 Min sequence length 0 Max sequence length 1000 Average sequence length 475 Possible positions 273945 Oligonucleotide statistics: Total occurrences 269078 Position interval parameters: Position interval 20 Number of windows 50 Total positions 273945 Degrees of freedom 49 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -25 [-499,-480] -489.5 12 204 2 -24 [-479,-460] -469.5 15 269 3 -23 [-459,-440] -449.5 22 369 4 -22 [-439,-420] -429.5 28 496 5 -21 [-419,-400] -409.5 38 656 6 -20 [-399,-380] -389.5 41 786 7 -19 [-379,-360] -369.5 49 909 8 -18 [-359,-340] -349.5 60 1069 9 -17 [-339,-320] -329.5 77 1379 10 -16 [-319,-300] -309.5 98 1702 11 -15 [-299,-280] -289.5 133 2322 12 -14 [-279,-260] -269.5 174 3093 13 -13 [-259,-240] -249.5 222 3978 14 -12 [-239,-220] -229.5 267 4916 15 -11 [-219,-200] -209.5 360 6273 16 -10 [-199,-180] -189.5 435 7993 17 -9 [-179,-160] -169.5 511 9499 18 -8 [-159,-140] -149.5 561 10792 19 -7 [-139,-120] -129.5 576 11442 20 -6 [-119,-100] -109.5 576 11520 21 -5 [-99,-80] -89.5 576 11520 22 -4 [-79,-60] -69.5 576 11520 23 -3 [-59,-40] -49.5 576 11520 24 -2 [-39,-20] -29.5 576 11520 25 -1 [-19,0] -9.5 576 11520 26 0 [1,20] 10.5 576 11520 27 1 [21,40] 30.5 576 11520 28 2 [41,60] 50.5 576 11520 29 3 [61,80] 70.5 576 11520 30 4 [81,100] 90.5 576 11520 31 5 [101,120] 110.5 576 11520 32 6 [121,140] 130.5 576 11424 33 7 [141,160] 150.5 557 10738 34 8 [161,180] 170.5 507 9420 35 9 [181,200] 190.5 430 7920 36 10 [201,220] 210.5 355 6173 37 11 [221,240] 230.5 261 4865 38 12 [241,260] 250.5 221 3938 39 13 [261,280] 270.5 174 3050 40 14 [281,300] 290.5 131 2285 41 15 [301,320] 310.5 96 1682 42 16 [321,340] 330.5 76 1362 43 17 [341,360] 350.5 59 1059 44 18 [361,380] 370.5 48 900 45 19 [381,400] 390.5 41 781 46 20 [401,420] 410.5 38 645 47 21 [421,440] 430.5 28 491 48 22 [441,460] 450.5 21 359 49 23 [461,480] 470.5 15 264 50 24 [481,500] 490.5 12 202 Column headers 1 seq pattern sequence 2 id pattern identifier 3 occ pattern occurrences 4 chi2 observed chi-square 5 df degrees of freedom 6 Pval P-value (probability for one word to be a false positive) 7 Eval E-value; expected number of false positives (Eval = Pval * nb_tests) 8 sig Significance (sig = -log10(Eval)) 9 rank rank of the pattern according to sorting criterion 10 -489.5 occurrences in window 1 [-499,-480] 11 -469.5 occurrences in window 2 [-479,-460] 12 -449.5 occurrences in window 3 [-459,-440] 13 -429.5 occurrences in window 4 [-439,-420] 14 -409.5 occurrences in window 5 [-419,-400] 15 -389.5 occurrences in window 6 [-399,-380] 16 -369.5 occurrences in window 7 [-379,-360] 17 -349.5 occurrences in window 8 [-359,-340] 18 -329.5 occurrences in window 9 [-339,-320] 19 -309.5 occurrences in window 10 [-319,-300] 20 -289.5 occurrences in window 11 [-299,-280] 21 -269.5 occurrences in window 12 [-279,-260] 22 -249.5 occurrences in window 13 [-259,-240] 23 -229.5 occurrences in window 14 [-239,-220] 24 -209.5 occurrences in window 15 [-219,-200] 25 -189.5 occurrences in window 16 [-199,-180] 26 -169.5 occurrences in window 17 [-179,-160] 27 -149.5 occurrences in window 18 [-159,-140] 28 -129.5 occurrences in window 19 [-139,-120] 29 -109.5 occurrences in window 20 [-119,-100] 30 -89.5 occurrences in window 21 [-99,-80] 31 -69.5 occurrences in window 22 [-79,-60] 32 -49.5 occurrences in window 23 [-59,-40] 33 -29.5 occurrences in window 24 [-39,-20] 34 -9.5 occurrences in window 25 [-19,0] 35 10.5 occurrences in window 26 [1,20] 36 30.5 occurrences in window 27 [21,40] 37 50.5 occurrences in window 28 [41,60] 38 70.5 occurrences in window 29 [61,80] 39 90.5 occurrences in window 30 [81,100] 40 110.5 occurrences in window 31 [101,120] 41 130.5 occurrences in window 32 [121,140] 42 150.5 occurrences in window 33 [141,160] 43 170.5 occurrences in window 34 [161,180] 44 190.5 occurrences in window 35 [181,200] 45 210.5 occurrences in window 36 [201,220] 46 230.5 occurrences in window 37 [221,240] 47 250.5 occurrences in window 38 [241,260] 48 270.5 occurrences in window 39 [261,280] 49 290.5 occurrences in window 40 [281,300] 50 310.5 occurrences in window 41 [301,320] 51 330.5 occurrences in window 42 [321,340] 52 350.5 occurrences in window 43 [341,360] 53 370.5 occurrences in window 44 [361,380] 54 390.5 occurrences in window 45 [381,400] 55 410.5 occurrences in window 46 [401,420] 56 430.5 occurrences in window 47 [421,440] 57 450.5 occurrences in window 48 [441,460] 58 470.5 occurrences in window 49 [461,480] 59 490.5 occurrences in window 50 [481,500]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -489.5 | -469.5 | -449.5 | -429.5 | -409.5 | -389.5 | -369.5 | -349.5 | -329.5 | -309.5 | -289.5 | -269.5 | -249.5 | -229.5 | -209.5 | -189.5 | -169.5 | -149.5 | -129.5 | -109.5 | -89.5 | -69.5 | -49.5 | -29.5 | -9.5 | 10.5 | 30.5 | 50.5 | 70.5 | 90.5 | 110.5 | 130.5 | 150.5 | 170.5 | 190.5 | 210.5 | 230.5 | 250.5 | 270.5 | 290.5 | 310.5 | 330.5 | 350.5 | 370.5 | 390.5 | 410.5 | 430.5 | 450.5 | 470.5 | 490.5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| t | t | 39607 | 87.8 | 49 | 5.6e-04 | 0.0022 | 2.65 | 1 | 31 | 37 | 47 | 60 | 93 | 128 | 129 | 175 | 199 | 233 | 327 | 472 | 592 | 717 | 932 | 1196 | 1291 | 1536 | 1575 | 1544 | 1616 | 1610 | 1693 | 1681 | 1747 | 1829 | 1774 | 1721 | 1636 | 1638 | 1676 | 1626 | 1503 | 1346 | 1096 | 949 | 708 | 524 | 441 | 374 | 261 | 182 | 157 | 127 | 117 | 81 | 64 | 56 | 35 | 25 |
| c | c | 95536 | 79.5 | 49 | 3.8e-03 | 0.015 | 1.82 | 2 | 63 | 85 | 122 | 160 | 197 | 260 | 315 | 352 | 484 | 574 | 783 | 1021 | 1337 | 1657 | 2184 | 2719 | 3440 | 3819 | 4147 | 4073 | 4132 | 4106 | 4070 | 4043 | 4062 | 3782 | 3901 | 3994 | 4035 | 4036 | 4100 | 3958 | 3789 | 3313 | 2796 | 2170 | 1654 | 1403 | 1073 | 741 | 558 | 478 | 361 | 306 | 263 | 232 | 155 | 99 | 78 | 56 |
| a | a | 39242 | 71.3 | 49 | 2.0e-02 | 0.081 | 1.09 | 3 | 27 | 29 | 61 | 83 | 91 | 123 | 137 | 145 | 193 | 257 | 351 | 417 | 558 | 689 | 868 | 1157 | 1282 | 1518 | 1585 | 1617 | 1636 | 1709 | 1684 | 1800 | 1779 | 1703 | 1659 | 1694 | 1668 | 1628 | 1676 | 1631 | 1494 | 1338 | 1086 | 810 | 708 | 549 | 427 | 323 | 235 | 194 | 151 | 129 | 108 | 84 | 58 | 34 | 35 | 24 |
| g | g | 94693 | 71.1 | 49 | 2.1e-02 | 0.085 | 1.07 | 4 | 63 | 98 | 119 | 173 | 255 | 255 | 308 | 372 | 463 | 586 | 782 | 1074 | 1371 | 1733 | 2164 | 2778 | 3326 | 3759 | 3957 | 4106 | 3962 | 3924 | 3913 | 3848 | 3767 | 4028 | 4028 | 3954 | 4021 | 4071 | 3928 | 4087 | 3852 | 3323 | 2834 | 2124 | 1675 | 1350 | 1009 | 747 | 537 | 428 | 345 | 298 | 253 | 208 | 174 | 130 | 76 | 57 |
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