position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/01/04/peak-motifs.2025-01-04.134936_2025-01-04.134936_03J25g/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 p53_peaks -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/01/04/peak-motifs.2025-01-04.134936_2025-01-04.134936_03J25g/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/2025/01/04/peak-motifs.2025-01-04.134936_2025-01-04.134936_03J25g/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/01/04/peak-motifs.2025-01-04.134936_2025-01-04.134936_03J25g/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 169 Sum of sequence lengths 36481 Min sequence length 0 Max sequence length 844 Average sequence length 215 Possible positions 36481 Oligonucleotide statistics: Total occurrences 31641 Position interval parameters: Position interval 20 Number of windows 44 Total positions 36481 Degrees of freedom 43 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -22 [-439,-420] -429.5 1 2 2 -21 [-419,-400] -409.5 1 20 3 -20 [-399,-380] -389.5 2 23 4 -19 [-379,-360] -369.5 3 46 5 -18 [-359,-340] -349.5 3 60 6 -17 [-339,-320] -329.5 3 60 7 -16 [-319,-300] -309.5 3 60 8 -15 [-299,-280] -289.5 5 85 9 -14 [-279,-260] -269.5 7 111 10 -13 [-259,-240] -249.5 10 180 11 -12 [-239,-220] -229.5 15 271 12 -11 [-219,-200] -209.5 25 396 13 -10 [-199,-180] -189.5 33 569 14 -9 [-179,-160] -169.5 44 761 15 -8 [-159,-140] -149.5 56 991 16 -7 [-139,-120] -129.5 61 1188 17 -6 [-119,-100] -109.5 76 1383 18 -5 [-99,-80] -89.5 86 1614 19 -4 [-79,-60] -69.5 103 1862 20 -3 [-59,-40] -49.5 128 2232 21 -2 [-39,-20] -29.5 169 3037 22 -1 [-19,0] -9.5 169 3380 23 0 [1,20] 10.5 169 3380 24 1 [21,40] 30.5 169 2995 25 2 [41,60] 50.5 124 2209 26 3 [61,80] 70.5 103 1848 27 4 [81,100] 90.5 86 1603 28 5 [101,120] 110.5 75 1363 29 6 [121,140] 130.5 61 1181 30 7 [141,160] 150.5 55 978 31 8 [161,180] 170.5 43 747 32 9 [181,200] 190.5 33 560 33 10 [201,220] 210.5 24 384 34 11 [221,240] 230.5 15 266 35 12 [241,260] 250.5 10 177 36 13 [261,280] 270.5 7 109 37 14 [281,300] 290.5 5 82 38 15 [301,320] 310.5 3 60 39 16 [321,340] 330.5 3 60 40 17 [341,360] 350.5 3 60 41 18 [361,380] 370.5 3 44 42 19 [381,400] 390.5 2 22 43 20 [401,420] 410.5 1 20 44 21 [421,440] 430.5 1 2 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 -429.5 occurrences in window 1 [-439,-420] 11 -409.5 occurrences in window 2 [-419,-400] 12 -389.5 occurrences in window 3 [-399,-380] 13 -369.5 occurrences in window 4 [-379,-360] 14 -349.5 occurrences in window 5 [-359,-340] 15 -329.5 occurrences in window 6 [-339,-320] 16 -309.5 occurrences in window 7 [-319,-300] 17 -289.5 occurrences in window 8 [-299,-280] 18 -269.5 occurrences in window 9 [-279,-260] 19 -249.5 occurrences in window 10 [-259,-240] 20 -229.5 occurrences in window 11 [-239,-220] 21 -209.5 occurrences in window 12 [-219,-200] 22 -189.5 occurrences in window 13 [-199,-180] 23 -169.5 occurrences in window 14 [-179,-160] 24 -149.5 occurrences in window 15 [-159,-140] 25 -129.5 occurrences in window 16 [-139,-120] 26 -109.5 occurrences in window 17 [-119,-100] 27 -89.5 occurrences in window 18 [-99,-80] 28 -69.5 occurrences in window 19 [-79,-60] 29 -49.5 occurrences in window 20 [-59,-40] 30 -29.5 occurrences in window 21 [-39,-20] 31 -9.5 occurrences in window 22 [-19,0] 32 10.5 occurrences in window 23 [1,20] 33 30.5 occurrences in window 24 [21,40] 34 50.5 occurrences in window 25 [41,60] 35 70.5 occurrences in window 26 [61,80] 36 90.5 occurrences in window 27 [81,100] 37 110.5 occurrences in window 28 [101,120] 38 130.5 occurrences in window 29 [121,140] 39 150.5 occurrences in window 30 [141,160] 40 170.5 occurrences in window 31 [161,180] 41 190.5 occurrences in window 32 [181,200] 42 210.5 occurrences in window 33 [201,220] 43 230.5 occurrences in window 34 [221,240] 44 250.5 occurrences in window 35 [241,260] 45 270.5 occurrences in window 36 [261,280] 46 290.5 occurrences in window 37 [281,300] 47 310.5 occurrences in window 38 [301,320] 48 330.5 occurrences in window 39 [321,340] 49 350.5 occurrences in window 40 [341,360] 50 370.5 occurrences in window 41 [361,380] 51 390.5 occurrences in window 42 [381,400] 52 410.5 occurrences in window 43 [401,420] 53 430.5 occurrences in window 44 [421,440]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| a | a | 8362 | 163.9 | 43 | 5.2e-16 | 2.1e-15 | 14.68 | 1 | 0 | 5 | 3 | 7 | 11 | 13 | 10 | 17 | 28 | 43 | 74 | 91 | 130 | 199 | 270 | 314 | 319 | 378 | 442 | 500 | 623 | 644 | 702 | 606 | 441 | 397 | 391 | 399 | 355 | 269 | 181 | 150 | 103 | 65 | 49 | 36 | 23 | 11 | 18 | 16 | 14 | 9 | 5 | 1 |
| t | t | 8068 | 121.3 | 43 | 2.2e-09 | 8.6e-09 | 8.06 | 2 | 2 | 8 | 9 | 18 | 16 | 14 | 17 | 23 | 27 | 50 | 78 | 108 | 150 | 191 | 238 | 261 | 378 | 360 | 409 | 465 | 644 | 739 | 673 | 568 | 420 | 379 | 329 | 296 | 291 | 258 | 202 | 121 | 103 | 72 | 46 | 22 | 16 | 18 | 10 | 17 | 13 | 4 | 5 | 0 |
| c | c | 7390 | 85.2 | 43 | 1.3e-04 | 0.00054 | 3.27 | 3 | 0 | 2 | 6 | 13 | 16 | 16 | 16 | 19 | 26 | 45 | 57 | 96 | 119 | 157 | 220 | 267 | 319 | 378 | 388 | 493 | 631 | 730 | 624 | 544 | 381 | 322 | 294 | 253 | 222 | 189 | 170 | 128 | 67 | 43 | 37 | 23 | 12 | 13 | 17 | 15 | 12 | 3 | 7 | 0 |
| g | g | 7821 | 69.6 | 43 | 6.3e-03 | 0.025 | 1.60 | 4 | 0 | 5 | 5 | 8 | 17 | 17 | 17 | 26 | 30 | 42 | 59 | 77 | 103 | 149 | 209 | 277 | 285 | 340 | 391 | 445 | 660 | 682 | 766 | 618 | 459 | 382 | 328 | 277 | 280 | 222 | 157 | 141 | 97 | 86 | 45 | 28 | 31 | 18 | 15 | 12 | 5 | 6 | 3 | 1 |
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