position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083843_2026-01-22.083843_1j8mZJ/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-constitutive -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083843_2026-01-22.083843_1j8mZJ/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.2026-01-22.083843_2026-01-22.083843_1j8mZJ/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.2026-01-22.083843_2026-01-22.083843_1j8mZJ/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 711 Sum of sequence lengths 298399 Min sequence length 0 Max sequence length 1000 Average sequence length 419 Possible positions 298399 Oligonucleotide statistics: Total occurrences 295283 Position interval parameters: Position interval 20 Number of windows 50 Total positions 298399 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 10 182 2 -24 [-479,-460] -469.5 13 229 3 -23 [-459,-440] -449.5 19 315 4 -22 [-439,-420] -429.5 25 436 5 -21 [-419,-400] -409.5 33 568 6 -20 [-399,-380] -389.5 36 686 7 -19 [-379,-360] -369.5 43 791 8 -18 [-359,-340] -349.5 48 897 9 -17 [-339,-320] -329.5 66 1169 10 -16 [-319,-300] -309.5 84 1446 11 -15 [-299,-280] -289.5 112 1955 12 -14 [-279,-260] -269.5 147 2590 13 -13 [-259,-240] -249.5 192 3392 14 -12 [-239,-220] -229.5 237 4300 15 -11 [-219,-200] -209.5 325 5640 16 -10 [-199,-180] -189.5 404 7312 17 -9 [-179,-160] -169.5 490 8973 18 -8 [-159,-140] -149.5 592 10809 19 -7 [-139,-120] -129.5 669 12769 20 -6 [-119,-100] -109.5 711 14016 21 -5 [-99,-80] -89.5 711 14220 22 -4 [-79,-60] -69.5 711 14220 23 -3 [-59,-40] -49.5 711 14220 24 -2 [-39,-20] -29.5 711 14220 25 -1 [-19,0] -9.5 711 14220 26 0 [1,20] 10.5 711 14220 27 1 [21,40] 30.5 711 14220 28 2 [41,60] 50.5 711 14220 29 3 [61,80] 70.5 711 14220 30 4 [81,100] 90.5 711 14220 31 5 [101,120] 110.5 711 13977 32 6 [121,140] 130.5 667 12684 33 7 [141,160] 150.5 581 10692 34 8 [161,180] 170.5 485 8883 35 9 [181,200] 190.5 397 7228 36 10 [201,220] 210.5 320 5545 37 11 [221,240] 230.5 230 4244 38 12 [241,260] 250.5 189 3355 39 13 [261,280] 270.5 147 2552 40 14 [281,300] 290.5 110 1926 41 15 [301,320] 310.5 83 1429 42 16 [321,340] 330.5 66 1150 43 17 [341,360] 350.5 47 892 44 18 [361,380] 370.5 42 784 45 19 [381,400] 390.5 36 681 46 20 [401,420] 410.5 33 559 47 21 [421,440] 430.5 25 431 48 22 [441,460] 450.5 18 307 49 23 [461,480] 470.5 13 224 50 24 [481,500] 490.5 10 181 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 | 43590 | 89.0 | 49 | 4.1e-04 | 0.0016 | 2.78 | 1 | 26 | 30 | 38 | 51 | 74 | 105 | 109 | 150 | 177 | 203 | 287 | 393 | 502 | 634 | 834 | 1079 | 1221 | 1513 | 1823 | 1958 | 2012 | 2030 | 2100 | 2126 | 2179 | 2272 | 2182 | 2166 | 2086 | 2020 | 2034 | 1836 | 1493 | 1271 | 1013 | 838 | 631 | 445 | 389 | 313 | 239 | 153 | 128 | 113 | 100 | 69 | 55 | 43 | 28 | 19 |
| a | a | 43245 | 77.6 | 49 | 5.7e-03 | 0.023 | 1.64 | 2 | 22 | 24 | 54 | 73 | 74 | 112 | 119 | 118 | 164 | 214 | 301 | 356 | 471 | 607 | 787 | 1084 | 1219 | 1568 | 1814 | 2019 | 2060 | 2056 | 2096 | 2217 | 2219 | 2119 | 2118 | 2123 | 2058 | 1993 | 2027 | 1811 | 1507 | 1295 | 993 | 730 | 614 | 476 | 344 | 287 | 201 | 167 | 129 | 111 | 95 | 67 | 52 | 29 | 29 | 22 |
| c | c | 104745 | 71.9 | 49 | 1.8e-02 | 0.073 | 1.14 | 3 | 59 | 71 | 101 | 141 | 171 | 225 | 272 | 297 | 407 | 501 | 670 | 877 | 1168 | 1466 | 1995 | 2496 | 3246 | 3820 | 4581 | 4965 | 5151 | 5136 | 5031 | 4944 | 5019 | 4722 | 4878 | 4889 | 4988 | 5039 | 5000 | 4463 | 3809 | 3148 | 2574 | 1976 | 1468 | 1210 | 917 | 635 | 476 | 411 | 301 | 261 | 223 | 205 | 134 | 90 | 68 | 50 |
| g | g | 103703 | 60.0 | 49 | 1.3e-01 | 0.54 | 0.27 | 4 | 55 | 84 | 102 | 151 | 229 | 224 | 271 | 312 | 401 | 508 | 677 | 915 | 1191 | 1533 | 1959 | 2570 | 3187 | 3808 | 4432 | 4934 | 4844 | 4847 | 4869 | 4832 | 4703 | 5007 | 4942 | 4933 | 4968 | 5049 | 4816 | 4511 | 3843 | 3129 | 2600 | 1941 | 1471 | 1172 | 862 | 651 | 473 | 379 | 294 | 259 | 223 | 178 | 150 | 105 | 59 | 50 |
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