position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.084309_2026-01-22.084309_ujjUO0/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 WT24h-hupA_sensitive -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.084309_2026-01-22.084309_ujjUO0/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.2026-01-22.084309_2026-01-22.084309_ujjUO0/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.2026-01-22.084309_2026-01-22.084309_ujjUO0/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 551 Sum of sequence lengths 225925 Min sequence length 0 Max sequence length 1000 Average sequence length 410 Possible positions 225925 Oligonucleotide statistics: Total occurrences 223685 Position interval parameters: Position interval 20 Number of windows 50 Total positions 225925 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 11 200 2 -24 [-479,-460] -469.5 14 259 3 -23 [-459,-440] -449.5 17 316 4 -22 [-439,-420] -429.5 20 379 5 -21 [-419,-400] -409.5 24 442 6 -20 [-399,-380] -389.5 29 518 7 -19 [-379,-360] -369.5 33 628 8 -18 [-359,-340] -349.5 42 750 9 -17 [-339,-320] -329.5 55 1004 10 -16 [-319,-300] -309.5 77 1334 11 -15 [-299,-280] -289.5 95 1738 12 -14 [-279,-260] -269.5 124 2151 13 -13 [-259,-240] -249.5 158 2832 14 -12 [-239,-220] -229.5 186 3442 15 -11 [-219,-200] -209.5 229 4199 16 -10 [-199,-180] -189.5 276 5048 17 -9 [-179,-160] -169.5 339 6198 18 -8 [-159,-140] -149.5 421 7651 19 -7 [-139,-120] -129.5 478 9007 20 -6 [-119,-100] -109.5 534 10094 21 -5 [-99,-80] -89.5 551 10957 22 -4 [-79,-60] -69.5 551 11020 23 -3 [-59,-40] -49.5 551 11020 24 -2 [-39,-20] -29.5 551 11020 25 -1 [-19,0] -9.5 551 11020 26 0 [1,20] 10.5 551 11020 27 1 [21,40] 30.5 551 11020 28 2 [41,60] 50.5 551 11020 29 3 [61,80] 70.5 551 11020 30 4 [81,100] 90.5 551 10942 31 5 [101,120] 110.5 532 10041 32 6 [121,140] 130.5 476 8958 33 7 [141,160] 150.5 416 7574 34 8 [161,180] 170.5 332 6134 35 9 [181,200] 190.5 273 4998 36 10 [201,220] 210.5 228 4157 37 11 [221,240] 230.5 185 3414 38 12 [241,260] 250.5 157 2802 39 13 [261,280] 270.5 122 2117 40 14 [281,300] 290.5 95 1720 41 15 [301,320] 310.5 77 1312 42 16 [321,340] 330.5 55 991 43 17 [341,360] 350.5 41 740 44 18 [361,380] 370.5 33 624 45 19 [381,400] 390.5 29 515 46 20 [401,420] 410.5 23 436 47 21 [421,440] 430.5 20 376 48 22 [441,460] 450.5 17 313 49 23 [461,480] 470.5 14 255 50 24 [481,500] 490.5 11 199 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| a | a | 31778 | 61.0 | 49 | 1.2e-01 | 0.47 | 0.33 | 1 | 41 | 49 | 39 | 64 | 60 | 82 | 80 | 93 | 151 | 181 | 258 | 283 | 378 | 488 | 568 | 707 | 858 | 1081 | 1255 | 1398 | 1505 | 1583 | 1619 | 1613 | 1683 | 1613 | 1581 | 1491 | 1517 | 1478 | 1370 | 1288 | 1025 | 865 | 667 | 580 | 479 | 382 | 308 | 237 | 165 | 140 | 104 | 90 | 68 | 52 | 49 | 40 | 39 | 33 |
| g | g | 79531 | 50.7 | 49 | 4.1e-01 | 1.6 | -0.21 | 2 | 67 | 90 | 112 | 136 | 154 | 186 | 238 | 257 | 352 | 487 | 603 | 755 | 1045 | 1211 | 1466 | 1775 | 2204 | 2641 | 3165 | 3483 | 3849 | 3836 | 3746 | 3788 | 3758 | 3779 | 3927 | 3914 | 3862 | 3831 | 3569 | 3224 | 2720 | 2264 | 1836 | 1446 | 1299 | 1010 | 736 | 584 | 473 | 363 | 273 | 245 | 200 | 158 | 142 | 113 | 92 | 67 |
| t | t | 32337 | 47.3 | 49 | 5.4e-01 | 2.2 | -0.34 | 3 | 22 | 32 | 51 | 48 | 72 | 67 | 89 | 122 | 129 | 211 | 233 | 320 | 399 | 464 | 631 | 701 | 834 | 1078 | 1265 | 1457 | 1558 | 1527 | 1575 | 1604 | 1607 | 1683 | 1628 | 1630 | 1602 | 1551 | 1445 | 1265 | 1079 | 871 | 680 | 621 | 453 | 390 | 305 | 231 | 192 | 137 | 112 | 70 | 75 | 64 | 48 | 48 | 34 | 27 |
| c | c | 80039 | 33.5 | 49 | 9.5e-01 | 3.8 | -0.58 | 4 | 70 | 88 | 114 | 131 | 156 | 183 | 221 | 278 | 372 | 454 | 623 | 753 | 970 | 1250 | 1514 | 1839 | 2262 | 2772 | 3230 | 3642 | 3906 | 3934 | 3926 | 3855 | 3822 | 3805 | 3760 | 3865 | 3896 | 3922 | 3528 | 3103 | 2698 | 2127 | 1815 | 1510 | 1183 | 1020 | 754 | 648 | 474 | 351 | 251 | 219 | 172 | 162 | 137 | 112 | 90 | 72 |
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