position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/data/sequences/peak-motifs_ctrl_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 oxLDL_CD4+_T_cell_chromatin_accessibility -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/results/composition/peak-motifs_ctrl_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/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/data/sequences/peak-motifs_ctrl_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/results/composition/peak-motifs_ctrl_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 1572 Sum of sequence lengths 452357 Min sequence length 0 Max sequence length 1000 Average sequence length 287 Possible positions 452357 Oligonucleotide statistics: Total occurrences 447199 Position interval parameters: Position interval 20 Number of windows 50 Total positions 452357 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 19 348 2 -24 [-479,-460] -469.5 25 444 3 -23 [-459,-440] -449.5 30 558 4 -22 [-439,-420] -429.5 33 647 5 -21 [-419,-400] -409.5 40 739 6 -20 [-399,-380] -389.5 48 886 7 -19 [-379,-360] -369.5 55 1051 8 -18 [-359,-340] -349.5 65 1188 9 -17 [-339,-320] -329.5 83 1546 10 -16 [-319,-300] -309.5 103 1858 11 -15 [-299,-280] -289.5 129 2355 12 -14 [-279,-260] -269.5 161 2921 13 -13 [-259,-240] -249.5 191 3568 14 -12 [-239,-220] -229.5 229 4254 15 -11 [-219,-200] -209.5 279 5114 16 -10 [-199,-180] -189.5 346 6207 17 -9 [-179,-160] -169.5 439 7908 18 -8 [-159,-140] -149.5 584 10115 19 -7 [-139,-120] -129.5 768 13662 20 -6 [-119,-100] -109.5 964 17413 21 -5 [-99,-80] -89.5 1231 21821 22 -4 [-79,-60] -69.5 1560 28029 23 -3 [-59,-40] -49.5 1572 31440 24 -2 [-39,-20] -29.5 1572 31440 25 -1 [-19,0] -9.5 1572 31440 26 0 [1,20] 10.5 1572 31440 27 1 [21,40] 30.5 1572 31440 28 2 [41,60] 50.5 1572 31440 29 3 [61,80] 70.5 1543 27691 30 4 [81,100] 90.5 1217 21563 31 5 [101,120] 110.5 955 17218 32 6 [121,140] 130.5 760 13470 33 7 [141,160] 150.5 574 9985 34 8 [161,180] 170.5 435 7812 35 9 [181,200] 190.5 340 6140 36 10 [201,220] 210.5 274 5067 37 11 [221,240] 230.5 227 4213 38 12 [241,260] 250.5 191 3533 39 13 [261,280] 270.5 161 2885 40 14 [281,300] 290.5 129 2326 41 15 [301,320] 310.5 101 1840 42 16 [321,340] 330.5 83 1524 43 17 [341,360] 350.5 64 1176 44 18 [361,380] 370.5 55 1045 45 19 [381,400] 390.5 47 879 46 20 [401,420] 410.5 40 736 47 21 [421,440] 430.5 33 645 48 22 [441,460] 450.5 29 553 49 23 [461,480] 470.5 25 439 50 24 [481,500] 490.5 19 345 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 | 69529 | 142.5 | 49 | 4.7e-11 | 1.9e-10 | 9.72 | 1 | 46 | 60 | 72 | 83 | 94 | 108 | 153 | 185 | 216 | 252 | 313 | 433 | 531 | 644 | 680 | 884 | 1116 | 1491 | 2133 | 2555 | 3316 | 4324 | 4922 | 5081 | 4970 | 4918 | 4979 | 4860 | 4282 | 3277 | 2586 | 1955 | 1548 | 1129 | 927 | 795 | 653 | 571 | 459 | 370 | 274 | 257 | 202 | 171 | 137 | 155 | 120 | 111 | 77 | 54 |
| a | a | 70918 | 109.8 | 49 | 1.5e-06 | 5.8e-06 | 5.23 | 2 | 69 | 76 | 91 | 107 | 137 | 146 | 154 | 195 | 251 | 297 | 382 | 463 | 557 | 608 | 781 | 952 | 1232 | 1580 | 2156 | 2746 | 3522 | 4497 | 5029 | 4965 | 5062 | 5125 | 4995 | 5026 | 4338 | 3349 | 2574 | 2055 | 1467 | 1149 | 927 | 738 | 593 | 533 | 394 | 334 | 270 | 193 | 172 | 161 | 122 | 85 | 91 | 70 | 54 | 48 |
| c | c | 152963 | 89.8 | 49 | 3.4e-04 | 0.0014 | 2.87 | 3 | 127 | 160 | 189 | 214 | 253 | 348 | 391 | 396 | 515 | 660 | 829 | 1044 | 1267 | 1524 | 1811 | 2123 | 2768 | 3526 | 4700 | 6107 | 7461 | 9282 | 10698 | 10410 | 10486 | 10564 | 10451 | 10517 | 9195 | 7195 | 5902 | 4638 | 3352 | 2616 | 2007 | 1727 | 1402 | 1220 | 932 | 781 | 664 | 514 | 391 | 346 | 293 | 256 | 203 | 197 | 174 | 137 |
| g | g | 153789 | 79.8 | 49 | 3.6e-03 | 0.014 | 1.84 | 4 | 106 | 148 | 206 | 243 | 255 | 284 | 353 | 412 | 564 | 649 | 831 | 981 | 1213 | 1471 | 1807 | 2190 | 2744 | 3460 | 4602 | 5900 | 7335 | 9681 | 10510 | 10597 | 10493 | 10409 | 10535 | 10582 | 9470 | 7401 | 5871 | 4631 | 3470 | 2806 | 2200 | 1722 | 1469 | 1138 | 1054 | 813 | 632 | 560 | 411 | 367 | 327 | 240 | 231 | 175 | 134 | 106 |
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