position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083823_2026-01-22.083823_ivLZA5/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_hupA_sensitive -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/01/22/peak-motifs.2026-01-22.083823_2026-01-22.083823_ivLZA5/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.2026-01-22.083823_2026-01-22.083823_ivLZA5/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.2026-01-22.083823_2026-01-22.083823_ivLZA5/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 493 Sum of sequence lengths 202951 Min sequence length 0 Max sequence length 1000 Average sequence length 411 Possible positions 202951 Oligonucleotide statistics: Total occurrences 199996 Position interval parameters: Position interval 20 Number of windows 50 Total positions 202951 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 6 102 2 -24 [-479,-460] -469.5 9 149 3 -23 [-459,-440] -449.5 12 216 4 -22 [-439,-420] -429.5 16 286 5 -21 [-419,-400] -409.5 23 374 6 -20 [-399,-380] -389.5 25 480 7 -19 [-379,-360] -369.5 29 553 8 -18 [-359,-340] -349.5 34 613 9 -17 [-339,-320] -329.5 40 738 10 -16 [-319,-300] -309.5 52 890 11 -15 [-299,-280] -289.5 67 1196 12 -14 [-279,-260] -269.5 84 1527 13 -13 [-259,-240] -249.5 116 1987 14 -12 [-239,-220] -229.5 149 2652 15 -11 [-219,-200] -209.5 208 3570 16 -10 [-199,-180] -189.5 270 4785 17 -9 [-179,-160] -169.5 339 6087 18 -8 [-159,-140] -149.5 415 7588 19 -7 [-139,-120] -129.5 467 8897 20 -6 [-119,-100] -109.5 493 9740 21 -5 [-99,-80] -89.5 493 9860 22 -4 [-79,-60] -69.5 493 9860 23 -3 [-59,-40] -49.5 493 9860 24 -2 [-39,-20] -29.5 493 9860 25 -1 [-19,0] -9.5 493 9860 26 0 [1,20] 10.5 493 9860 27 1 [21,40] 30.5 493 9860 28 2 [41,60] 50.5 493 9860 29 3 [61,80] 70.5 493 9860 30 4 [81,100] 90.5 493 9860 31 5 [101,120] 110.5 493 9715 32 6 [121,140] 130.5 465 8847 33 7 [141,160] 150.5 408 7505 34 8 [161,180] 170.5 335 6021 35 9 [181,200] 190.5 265 4720 36 10 [201,220] 210.5 204 3504 37 11 [221,240] 230.5 147 2610 38 12 [241,260] 250.5 113 1960 39 13 [261,280] 270.5 84 1505 40 14 [281,300] 290.5 67 1182 41 15 [301,320] 310.5 52 882 42 16 [321,340] 330.5 40 729 43 17 [341,360] 350.5 34 611 44 18 [361,380] 370.5 29 549 45 19 [381,400] 390.5 25 476 46 20 [401,420] 410.5 23 367 47 21 [421,440] 430.5 16 283 48 22 [441,460] 450.5 11 210 49 23 [461,480] 470.5 9 144 50 24 [481,500] 490.5 6 101 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 | 29223 | 69.6 | 49 | 2.8e-02 | 0.11 | 0.95 | 1 | 19 | 20 | 43 | 45 | 56 | 75 | 88 | 84 | 106 | 126 | 177 | 209 | 282 | 379 | 506 | 722 | 817 | 1106 | 1188 | 1402 | 1404 | 1424 | 1439 | 1531 | 1525 | 1472 | 1424 | 1429 | 1418 | 1340 | 1421 | 1256 | 1020 | 870 | 657 | 451 | 405 | 286 | 207 | 166 | 134 | 93 | 79 | 88 | 72 | 57 | 37 | 21 | 29 | 18 |
| c | c | 70660 | 63.9 | 49 | 7.5e-02 | 0.3 | 0.52 | 2 | 27 | 43 | 68 | 97 | 103 | 154 | 183 | 192 | 237 | 301 | 395 | 484 | 657 | 877 | 1234 | 1634 | 2196 | 2701 | 3228 | 3413 | 3588 | 3512 | 3471 | 3370 | 3470 | 3293 | 3347 | 3431 | 3432 | 3484 | 3447 | 3091 | 2632 | 2083 | 1635 | 1204 | 885 | 669 | 514 | 383 | 281 | 267 | 215 | 191 | 161 | 130 | 104 | 68 | 46 | 32 |
| t | t | 29698 | 61.2 | 49 | 1.1e-01 | 0.45 | 0.34 | 3 | 7 | 16 | 25 | 32 | 52 | 81 | 73 | 98 | 109 | 127 | 166 | 252 | 303 | 393 | 535 | 726 | 893 | 1079 | 1302 | 1356 | 1376 | 1414 | 1458 | 1436 | 1523 | 1545 | 1525 | 1468 | 1427 | 1419 | 1402 | 1260 | 1068 | 863 | 667 | 556 | 356 | 264 | 217 | 177 | 141 | 102 | 101 | 77 | 78 | 45 | 38 | 35 | 20 | 15 |
| g | g | 70415 | 47.8 | 49 | 5.2e-01 | 2.1 | -0.32 | 4 | 29 | 50 | 60 | 92 | 143 | 150 | 189 | 214 | 260 | 304 | 399 | 522 | 685 | 943 | 1235 | 1643 | 2121 | 2642 | 3100 | 3459 | 3353 | 3378 | 3388 | 3416 | 3222 | 3432 | 3464 | 3406 | 3432 | 3474 | 3333 | 3159 | 2711 | 2145 | 1694 | 1213 | 890 | 681 | 507 | 396 | 275 | 227 | 211 | 193 | 165 | 135 | 104 | 86 | 49 | 36 |
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