position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/01/11/peak-motifs.2026-01-11.111536_2026-01-11.111536_IpNTs3/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 2 -ci 20 -img_format png -title mot -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/01/11/peak-motifs.2026-01-11.111536_2026-01-11.111536_IpNTs3/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab Citation: van Helden, et al. (2000). Nucleic Acids Res 28, 1000-1010. Sequence file $RSAT/public_html/tmp/www-data/2026/01/11/peak-motifs.2026-01-11.111536_2026-01-11.111536_IpNTs3/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2026/01/11/peak-motifs.2026-01-11.111536_2026-01-11.111536_IpNTs3/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab Oligo length 2 Occurrences counted on a single strands Conditions of applicability checked. Background model estimation: homogeneous repartition Sequence statistics: Nb of sequences 1 Sum of sequence lengths 484 Min sequence length 0 Max sequence length 484 Average sequence length 484 Possible positions 483 Sequences: # length ID 1 484 2 Oligonucleotide statistics: Total occurrences 483 Position interval parameters: Position interval 20 Number of windows 26 Total positions 483 Degrees of freedom 25 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -13 [-259,-240] -249.5 1 2 2 -12 [-239,-220] -229.5 1 20 3 -11 [-219,-200] -209.5 1 20 4 -10 [-199,-180] -189.5 1 20 5 -9 [-179,-160] -169.5 1 20 6 -8 [-159,-140] -149.5 1 20 7 -7 [-139,-120] -129.5 1 20 8 -6 [-119,-100] -109.5 1 20 9 -5 [-99,-80] -89.5 1 20 10 -4 [-79,-60] -69.5 1 20 11 -3 [-59,-40] -49.5 1 20 12 -2 [-39,-20] -29.5 1 20 13 -1 [-19,0] -9.5 1 20 14 0 [1,20] 10.5 1 20 15 1 [21,40] 30.5 1 20 16 2 [41,60] 50.5 1 20 17 3 [61,80] 70.5 1 20 18 4 [81,100] 90.5 1 20 19 5 [101,120] 110.5 1 20 20 6 [121,140] 130.5 1 20 21 7 [141,160] 150.5 1 20 22 8 [161,180] 170.5 1 20 23 9 [181,200] 190.5 1 20 24 10 [201,220] 210.5 1 20 25 11 [221,240] 230.5 1 20 26 12 [241,260] 250.5 1 1 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 -249.5 occurrences in window 1 [-259,-240] 11 -229.5 occurrences in window 2 [-239,-220] 12 -209.5 occurrences in window 3 [-219,-200] 13 -189.5 occurrences in window 4 [-199,-180] 14 -169.5 occurrences in window 5 [-179,-160] 15 -149.5 occurrences in window 6 [-159,-140] 16 -129.5 occurrences in window 7 [-139,-120] 17 -109.5 occurrences in window 8 [-119,-100] 18 -89.5 occurrences in window 9 [-99,-80] 19 -69.5 occurrences in window 10 [-79,-60] 20 -49.5 occurrences in window 11 [-59,-40] 21 -29.5 occurrences in window 12 [-39,-20] 22 -9.5 occurrences in window 13 [-19,0] 23 10.5 occurrences in window 14 [1,20] 24 30.5 occurrences in window 15 [21,40] 25 50.5 occurrences in window 16 [41,60] 26 70.5 occurrences in window 17 [61,80] 27 90.5 occurrences in window 18 [81,100] 28 110.5 occurrences in window 19 [101,120] 29 130.5 occurrences in window 20 [121,140] 30 150.5 occurrences in window 21 [141,160] 31 170.5 occurrences in window 22 [161,180] 32 190.5 occurrences in window 23 [181,200] 33 210.5 occurrences in window 24 [201,220] 34 230.5 occurrences in window 25 [221,240] 35 250.5 occurrences in window 26 [241,260]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ca | ca | 30 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 1 | 0 | 2 | 0 | 1 | 0 | 1 | 5 | 1 | 1 | 1 | 2 | 1 | 0 | 1 | 0 | 1 | 1 | 1 | 3 | 0 | 1 | 4 | 0 | 2 | 1 | 0 |
| gc | gc | 14 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 2 | 0 | 0 | 0 | 0 | 1 | 0 | 1 | 0 | 0 | 0 | 1 | 1 | 1 | 1 | 2 | 1 | 0 | 0 | 1 | 0 | 0 | 2 | 1 | 0 | 1 | 0 |
| ac | ac | 18 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 3 | 0 | 0 | 0 | 0 | 1 | 0 | 2 | 1 | 1 | 1 | 0 | 0 | 0 | 0 | 2 | 1 | 1 | 1 | 0 | 1 | 1 | 2 | 1 | 2 | 0 | 0 |
| tc | tc | 30 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 4 | 0 | 3 | 1 | 1 | 0 | 2 | 1 | 2 | 1 | 1 | 2 | 1 | 1 | 1 | 0 | 1 | 1 | 2 | 2 | 2 | 1 | 1 | 0 | 2 | 1 | 0 |
| cg | cg | 7 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 5 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 3 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 |
| ct | ct | 25 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 6 | 0 | 1 | 1 | 0 | 1 | 1 | 0 | 2 | 0 | 1 | 2 | 1 | 0 | 2 | 0 | 1 | 1 | 2 | 0 | 3 | 1 | 0 | 2 | 2 | 1 | 0 |
| aa | aa | 72 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 7 | 0 | 1 | 4 | 5 | 3 | 1 | 5 | 2 | 1 | 0 | 2 | 6 | 2 | 3 | 4 | 7 | 8 | 2 | 5 | 1 | 0 | 2 | 3 | 1 | 3 | 1 |
| ga | ga | 18 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 8 | 0 | 0 | 1 | 0 | 1 | 0 | 0 | 1 | 1 | 2 | 2 | 1 | 1 | 0 | 2 | 1 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 2 | 0 | 0 |
| tt | tt | 53 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 9 | 0 | 8 | 2 | 1 | 1 | 3 | 1 | 2 | 2 | 4 | 3 | 1 | 4 | 1 | 2 | 0 | 2 | 4 | 0 | 1 | 2 | 1 | 5 | 1 | 2 | 0 |
| cc | cc | 21 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 10 | 0 | 0 | 0 | 0 | 2 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 4 | 1 | 1 | 0 | 2 | 1 | 1 | 0 | 2 | 0 | 1 | 2 | 0 |
| tg | tg | 21 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 11 | 0 | 0 | 0 | 0 | 2 | 0 | 2 | 1 | 2 | 2 | 0 | 2 | 0 | 1 | 1 | 0 | 0 | 0 | 1 | 0 | 3 | 0 | 1 | 2 | 1 | 0 |
| ag | ag | 24 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 12 | 0 | 0 | 1 | 1 | 1 | 1 | 0 | 1 | 0 | 2 | 3 | 0 | 2 | 0 | 0 | 1 | 1 | 0 | 1 | 3 | 0 | 2 | 2 | 1 | 1 | 0 |
| gg | gg | 13 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 13 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 1 | 1 | 2 | 0 | 1 | 0 | 0 | 0 | 2 | 3 | 0 | 0 | 0 | 1 | 0 |
| at | at | 61 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 14 | 1 | 3 | 5 | 5 | 3 | 3 | 3 | 2 | 5 | 2 | 2 | 3 | 3 | 2 | 2 | 0 | 2 | 3 | 4 | 0 | 3 | 2 | 0 | 1 | 2 | 0 |
| gt | gt | 20 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 15 | 0 | 0 | 0 | 1 | 1 | 1 | 0 | 2 | 1 | 2 | 0 | 0 | 1 | 0 | 0 | 1 | 1 | 0 | 0 | 2 | 2 | 0 | 2 | 2 | 1 | 0 |
| ta | ta | 56 | 0.0 | 25 | 1.0e+00 | 16 | -1.20 | 16 | 1 | 2 | 5 | 5 | 3 | 3 | 0 | 3 | 3 | 2 | 1 | 2 | 3 | 2 | 1 | 1 | 2 | 3 | 2 | 3 | 2 | 1 | 3 | 0 | 3 | 0 |
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