position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/10/28/peak-motifs.2025-10-28.145428_2025-10-28.145428_er30Hd/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 Lesson_Exercise -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/10/28/peak-motifs.2025-10-28.145428_2025-10-28.145428_er30Hd/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/2025/10/28/peak-motifs.2025-10-28.145428_2025-10-28.145428_er30Hd/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/10/28/peak-motifs.2025-10-28.145428_2025-10-28.145428_er30Hd/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 101 Sum of sequence lengths 26512 Min sequence length 0 Max sequence length 583 Average sequence length 262 Possible positions 26512 Oligonucleotide statistics: Total occurrences 25825 Position interval parameters: Position interval 20 Number of windows 30 Total positions 26512 Degrees of freedom 29 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -15 [-299,-280] -289.5 3 23 2 -14 [-279,-260] -269.5 7 91 3 -13 [-259,-240] -249.5 10 179 4 -12 [-239,-220] -229.5 12 219 5 -11 [-219,-200] -209.5 15 262 6 -10 [-199,-180] -189.5 23 418 7 -9 [-179,-160] -169.5 31 533 8 -8 [-159,-140] -149.5 38 700 9 -7 [-139,-120] -129.5 48 863 10 -6 [-119,-100] -109.5 60 1099 11 -5 [-99,-80] -89.5 78 1428 12 -4 [-79,-60] -69.5 91 1688 13 -3 [-59,-40] -49.5 95 1868 14 -2 [-39,-20] -29.5 98 1934 15 -1 [-19,0] -9.5 101 2002 16 0 [1,20] 10.5 101 1999 17 1 [21,40] 30.5 98 1929 18 2 [41,60] 50.5 95 1863 19 3 [61,80] 70.5 89 1671 20 4 [81,100] 90.5 77 1407 21 5 [101,120] 110.5 59 1087 22 6 [121,140] 130.5 48 855 23 7 [141,160] 150.5 38 695 24 8 [161,180] 170.5 31 527 25 9 [181,200] 190.5 23 411 26 10 [201,220] 210.5 15 258 27 11 [221,240] 230.5 12 216 28 12 [241,260] 250.5 10 177 29 13 [261,280] 270.5 7 89 30 14 [281,300] 290.5 3 21 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 -289.5 occurrences in window 1 [-299,-280] 11 -269.5 occurrences in window 2 [-279,-260] 12 -249.5 occurrences in window 3 [-259,-240] 13 -229.5 occurrences in window 4 [-239,-220] 14 -209.5 occurrences in window 5 [-219,-200] 15 -189.5 occurrences in window 6 [-199,-180] 16 -169.5 occurrences in window 7 [-179,-160] 17 -149.5 occurrences in window 8 [-159,-140] 18 -129.5 occurrences in window 9 [-139,-120] 19 -109.5 occurrences in window 10 [-119,-100] 20 -89.5 occurrences in window 11 [-99,-80] 21 -69.5 occurrences in window 12 [-79,-60] 22 -49.5 occurrences in window 13 [-59,-40] 23 -29.5 occurrences in window 14 [-39,-20] 24 -9.5 occurrences in window 15 [-19,0] 25 10.5 occurrences in window 16 [1,20] 26 30.5 occurrences in window 17 [21,40] 27 50.5 occurrences in window 18 [41,60] 28 70.5 occurrences in window 19 [61,80] 29 90.5 occurrences in window 20 [81,100] 30 110.5 occurrences in window 21 [101,120] 31 130.5 occurrences in window 22 [121,140] 32 150.5 occurrences in window 23 [141,160] 33 170.5 occurrences in window 24 [161,180] 34 190.5 occurrences in window 25 [181,200] 35 210.5 occurrences in window 26 [201,220] 36 230.5 occurrences in window 27 [221,240] 37 250.5 occurrences in window 28 [241,260] 38 270.5 occurrences in window 29 [261,280] 39 290.5 occurrences in window 30 [281,300]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| a | a | 5896 | 60.6 | 29 | 5.2e-04 | 0.0021 | 2.68 | 1 | 4 | 17 | 39 | 54 | 68 | 102 | 119 | 153 | 176 | 275 | 328 | 363 | 325 | 423 | 418 | 437 | 422 | 380 | 437 | 309 | 268 | 187 | 169 | 146 | 103 | 56 | 52 | 45 | 16 | 5 |
| g | g | 6971 | 37.7 | 29 | 1.3e-01 | 0.52 | 0.29 | 2 | 11 | 28 | 51 | 68 | 90 | 109 | 131 | 188 | 241 | 264 | 344 | 451 | 543 | 470 | 504 | 518 | 470 | 513 | 448 | 393 | 293 | 208 | 185 | 141 | 107 | 71 | 58 | 47 | 19 | 7 |
| t | t | 5979 | 31.4 | 29 | 3.5e-01 | 1.4 | -0.14 | 3 | 2 | 16 | 34 | 46 | 42 | 95 | 118 | 157 | 209 | 237 | 358 | 384 | 447 | 431 | 455 | 434 | 440 | 425 | 342 | 348 | 228 | 208 | 140 | 120 | 100 | 50 | 48 | 36 | 26 | 3 |
| c | c | 6979 | 22.3 | 29 | 8.1e-01 | 3.2 | -0.51 | 4 | 6 | 30 | 55 | 51 | 62 | 112 | 165 | 202 | 230 | 303 | 378 | 444 | 473 | 513 | 514 | 490 | 516 | 493 | 437 | 357 | 285 | 232 | 188 | 120 | 101 | 81 | 58 | 49 | 28 | 6 |
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