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_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 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_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/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2026/01/04/peak-motifs.2026-01-04.175405_2026-01-04.175405_YulKOI/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 15572 Sum of sequence lengths 4867484 Min sequence length 0 Max sequence length 1000 Average sequence length 312 Possible positions 4867484 Oligonucleotide statistics: Total occurrences 4659405 Position interval parameters: Position interval 20 Number of windows 50 Total positions 4867484 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 40 671 2 -24 [-479,-460] -469.5 59 999 3 -23 [-459,-440] -449.5 85 1400 4 -22 [-439,-420] -429.5 108 1930 5 -21 [-419,-400] -409.5 148 2556 6 -20 [-399,-380] -389.5 203 3528 7 -19 [-379,-360] -369.5 269 4798 8 -18 [-359,-340] -349.5 403 6819 9 -17 [-339,-320] -329.5 568 9660 10 -16 [-319,-300] -309.5 827 13868 11 -15 [-299,-280] -289.5 1255 21124 12 -14 [-279,-260] -269.5 1748 30312 13 -13 [-259,-240] -249.5 2376 41425 14 -12 [-239,-220] -229.5 3008 54169 15 -11 [-219,-200] -209.5 3819 68648 16 -10 [-199,-180] -189.5 4664 85243 17 -9 [-179,-160] -169.5 5762 104550 18 -8 [-159,-140] -149.5 7867 134901 19 -7 [-139,-120] -129.5 9653 177318 20 -6 [-119,-100] -109.5 11303 210948 21 -5 [-99,-80] -89.5 13144 244986 22 -4 [-79,-60] -69.5 15511 287219 23 -3 [-59,-40] -49.5 15572 311440 24 -2 [-39,-20] -29.5 15572 311440 25 -1 [-19,0] -9.5 15572 311440 26 0 [1,20] 10.5 15572 311440 27 1 [21,40] 30.5 15572 311440 28 2 [41,60] 50.5 15572 311440 29 3 [61,80] 70.5 15381 284931 30 4 [81,100] 90.5 13040 243128 31 5 [101,120] 110.5 11224 209285 32 6 [121,140] 130.5 9562 175540 33 7 [141,160] 150.5 7765 132886 34 8 [161,180] 170.5 5704 103447 35 9 [181,200] 190.5 4596 84403 36 10 [201,220] 210.5 3777 67824 37 11 [221,240] 230.5 2978 53570 38 12 [241,260] 250.5 2338 40806 39 13 [261,280] 270.5 1719 29824 40 14 [281,300] 290.5 1236 20699 41 15 [301,320] 310.5 813 13598 42 16 [321,340] 330.5 555 9492 43 17 [341,360] 350.5 398 6685 44 18 [361,380] 370.5 267 4735 45 19 [381,400] 390.5 200 3477 46 20 [401,420] 410.5 145 2515 47 21 [421,440] 430.5 106 1908 48 22 [441,460] 450.5 84 1376 49 23 [461,480] 470.5 58 985 50 24 [481,500] 490.5 39 658 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| g | g | 1011463 | 507.1 | 49 | 0.0e+00 | 0 | 300 | 1 | 122 | 172 | 260 | 371 | 496 | 741 | 965 | 1285 | 1801 | 2739 | 4189 | 5979 | 8220 | 10575 | 13538 | 17102 | 20890 | 27569 | 36562 | 44043 | 50881 | 60557 | 65455 | 65450 | 65554 | 65877 | 65593 | 65934 | 60501 | 51109 | 43712 | 36517 | 27165 | 20814 | 16870 | 13510 | 10583 | 8239 | 6062 | 4155 | 2769 | 2027 | 1358 | 957 | 711 | 493 | 387 | 280 | 213 | 111 |
| c | c | 1011176 | 441.2 | 49 | 0.0e+00 | 0 | 300 | 2 | 128 | 202 | 252 | 336 | 526 | 723 | 968 | 1390 | 1981 | 2770 | 4279 | 6195 | 8328 | 10927 | 13712 | 16924 | 21141 | 27457 | 36570 | 43453 | 51149 | 60692 | 66197 | 65327 | 65156 | 65399 | 65314 | 65577 | 60482 | 51035 | 43909 | 36387 | 27404 | 20882 | 16620 | 13487 | 10773 | 7967 | 5962 | 4053 | 2748 | 1862 | 1319 | 968 | 705 | 523 | 420 | 255 | 181 | 161 |
| t | t | 1318459 | 254.0 | 49 | 1.8e-29 | 7.3e-29 | 28.13 | 3 | 184 | 248 | 344 | 485 | 681 | 932 | 1297 | 1852 | 2743 | 3882 | 5811 | 8476 | 11392 | 15016 | 19111 | 23478 | 28483 | 36515 | 47724 | 56317 | 65361 | 76986 | 83248 | 83871 | 83987 | 83853 | 84260 | 83973 | 76817 | 65689 | 56768 | 47939 | 36512 | 28772 | 23545 | 19062 | 15045 | 11226 | 8089 | 5830 | 3724 | 2627 | 1823 | 1311 | 1012 | 698 | 554 | 416 | 288 | 202 |
| a | a | 1318307 | 204.3 | 49 | 7.2e-21 | 2.9e-20 | 19.54 | 4 | 194 | 253 | 392 | 573 | 693 | 989 | 1297 | 1847 | 2589 | 3836 | 5980 | 8415 | 11558 | 14956 | 18894 | 23558 | 29118 | 37304 | 48432 | 57201 | 66363 | 77200 | 84021 | 84099 | 84012 | 83676 | 83500 | 83811 | 75993 | 65378 | 56224 | 47288 | 36019 | 28127 | 23258 | 18426 | 14786 | 11404 | 8316 | 5751 | 3802 | 2582 | 1867 | 1273 | 911 | 752 | 520 | 405 | 283 | 181 |
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