position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.162114_2026-01-05.162114_sWmD3V/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_2 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.162114_2026-01-05.162114_sWmD3V/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/2026/01/05/peak-motifs.2026-01-05.162114_2026-01-05.162114_sWmD3V/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.162114_2026-01-05.162114_sWmD3V/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 1000 Sum of sequence lengths 405261 Min sequence length 0 Max sequence length 1000 Average sequence length 405 Possible positions 405261 Oligonucleotide statistics: Total occurrences 395916 Position interval parameters: Position interval 20 Number of windows 50 Total positions 405261 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 15 256 2 -24 [-479,-460] -469.5 21 373 3 -23 [-459,-440] -449.5 24 456 4 -22 [-439,-420] -429.5 29 552 5 -21 [-419,-400] -409.5 38 666 6 -20 [-399,-380] -389.5 46 838 7 -19 [-379,-360] -369.5 59 1073 8 -18 [-359,-340] -349.5 88 1530 9 -17 [-339,-320] -329.5 115 1992 10 -16 [-319,-300] -309.5 172 2956 11 -15 [-299,-280] -289.5 242 4209 12 -14 [-279,-260] -269.5 294 5399 13 -13 [-259,-240] -249.5 359 6539 14 -12 [-239,-220] -229.5 406 7651 15 -11 [-219,-200] -209.5 472 8803 16 -10 [-199,-180] -189.5 526 10047 17 -9 [-179,-160] -169.5 573 10951 18 -8 [-159,-140] -149.5 676 12475 19 -7 [-139,-120] -129.5 753 14376 20 -6 [-119,-100] -109.5 823 15807 21 -5 [-99,-80] -89.5 896 17219 22 -4 [-79,-60] -69.5 998 18956 23 -3 [-59,-40] -49.5 1000 20000 24 -2 [-39,-20] -29.5 1000 20000 25 -1 [-19,0] -9.5 1000 20000 26 0 [1,20] 10.5 1000 20000 27 1 [21,40] 30.5 1000 20000 28 2 [41,60] 50.5 1000 20000 29 3 [61,80] 70.5 992 18854 30 4 [81,100] 90.5 894 17152 31 5 [101,120] 110.5 820 15734 32 6 [121,140] 130.5 749 14296 33 7 [141,160] 150.5 672 12385 34 8 [161,180] 170.5 568 10905 35 9 [181,200] 190.5 522 9990 36 10 [201,220] 210.5 466 8732 37 11 [221,240] 230.5 404 7604 38 12 [241,260] 250.5 351 6477 39 13 [261,280] 270.5 289 5342 40 14 [281,300] 290.5 238 4135 41 15 [301,320] 310.5 170 2891 42 16 [321,340] 330.5 111 1963 43 17 [341,360] 350.5 87 1506 44 18 [361,380] 370.5 59 1064 45 19 [381,400] 390.5 45 830 46 20 [401,420] 410.5 37 656 47 21 [421,440] 430.5 29 547 48 22 [441,460] 450.5 24 453 49 23 [461,480] 470.5 21 370 50 24 [481,500] 490.5 14 251 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| c | c | 80681 | 76.7 | 49 | 6.9e-03 | 0.027 | 1.56 | 1 | 57 | 75 | 88 | 88 | 131 | 178 | 221 | 315 | 389 | 561 | 846 | 1090 | 1258 | 1549 | 1781 | 1896 | 2121 | 2434 | 2785 | 3174 | 3504 | 3836 | 4019 | 3989 | 3999 | 4001 | 4097 | 3904 | 3681 | 3421 | 3270 | 2941 | 2479 | 2152 | 1961 | 1694 | 1492 | 1320 | 987 | 792 | 619 | 377 | 267 | 203 | 139 | 138 | 115 | 92 | 78 | 77 |
| g | g | 81135 | 71.4 | 49 | 2.0e-02 | 0.08 | 1.10 | 2 | 38 | 69 | 78 | 95 | 115 | 157 | 206 | 288 | 403 | 619 | 885 | 1041 | 1318 | 1504 | 1755 | 2030 | 2143 | 2481 | 2821 | 3212 | 3424 | 3820 | 3950 | 4057 | 4068 | 4062 | 3913 | 4094 | 3925 | 3439 | 3142 | 2906 | 2495 | 2214 | 2006 | 1773 | 1432 | 1279 | 1047 | 802 | 536 | 444 | 276 | 202 | 182 | 115 | 102 | 73 | 68 | 31 |
| a | a | 117629 | 62.5 | 49 | 9.3e-02 | 0.37 | 0.43 | 3 | 72 | 112 | 125 | 151 | 178 | 231 | 308 | 429 | 545 | 827 | 1215 | 1548 | 1886 | 2245 | 2583 | 3062 | 3274 | 3638 | 4328 | 4472 | 4908 | 5590 | 5895 | 5857 | 5796 | 5818 | 5805 | 5847 | 5493 | 4964 | 4437 | 4044 | 3512 | 3049 | 2923 | 2506 | 2237 | 1889 | 1607 | 1184 | 818 | 522 | 468 | 319 | 247 | 211 | 173 | 127 | 88 | 66 |
| t | t | 116471 | 53.1 | 49 | 3.2e-01 | 1.3 | -0.11 | 4 | 83 | 84 | 118 | 142 | 182 | 231 | 318 | 431 | 569 | 830 | 1128 | 1563 | 1883 | 2182 | 2519 | 2842 | 3099 | 3504 | 4009 | 4568 | 4996 | 5324 | 5724 | 5707 | 5786 | 5755 | 5741 | 5720 | 5378 | 5017 | 4657 | 4147 | 3661 | 3270 | 2923 | 2534 | 2215 | 1837 | 1567 | 1232 | 814 | 544 | 423 | 288 | 243 | 192 | 152 | 141 | 121 | 77 |
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