position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124321_2025-04-03.124321_p2X2cO/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 6h_As_N3 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124321_2025-04-03.124321_p2X2cO/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/2025/04/03/peak-motifs.2025-04-03.124321_2025-04-03.124321_p2X2cO/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124321_2025-04-03.124321_p2X2cO/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 101 Sum of sequence lengths 10100 Min sequence length 0 Max sequence length 100 Average sequence length 100 Possible positions 9999 Oligonucleotide statistics: Total occurrences 6368 Position interval parameters: Position interval 20 Number of windows 6 Total positions 9999 Degrees of freedom 5 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -3 [-59,-40] -49.5 101 1010 2 -2 [-39,-20] -29.5 101 2020 3 -1 [-19,0] -9.5 101 2020 4 0 [1,20] 10.5 101 2020 5 1 [21,40] 30.5 101 2020 6 2 [41,60] 50.5 101 909 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 -49.5 occurrences in window 1 [-59,-40] 11 -29.5 occurrences in window 2 [-39,-20] 12 -9.5 occurrences in window 3 [-19,0] 13 10.5 occurrences in window 4 [1,20] 14 30.5 occurrences in window 5 [21,40] 15 50.5 occurrences in window 6 [41,60]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -49.5 | -29.5 | -9.5 | 10.5 | 30.5 | 50.5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| tg | tg | 433 | 18.1 | 5 | 2.8e-03 | 0.045 | 1.34 | 1 | 38 | 75 | 63 | 102 | 108 | 47 |
| tt | tt | 427 | 16.7 | 5 | 5.1e-03 | 0.082 | 1.09 | 2 | 32 | 81 | 74 | 78 | 113 | 49 |
| gg | gg | 448 | 16.4 | 5 | 5.7e-03 | 0.092 | 1.04 | 3 | 48 | 76 | 70 | 97 | 98 | 59 |
| cc | cc | 403 | 14.4 | 5 | 1.3e-02 | 0.21 | 0.68 | 4 | 40 | 94 | 104 | 70 | 67 | 28 |
| ag | ag | 501 | 14.1 | 5 | 1.5e-02 | 0.24 | 0.61 | 5 | 61 | 90 | 109 | 98 | 81 | 62 |
| aa | aa | 371 | 11.6 | 5 | 4.1e-02 | 0.65 | 0.18 | 6 | 47 | 84 | 61 | 66 | 68 | 45 |
| at | at | 425 | 11.3 | 5 | 4.5e-02 | 0.72 | 0.14 | 7 | 50 | 85 | 61 | 99 | 94 | 36 |
| tc | tc | 427 | 9.7 | 5 | 8.3e-02 | 1.3 | -0.12 | 8 | 44 | 97 | 104 | 71 | 80 | 31 |
| gt | gt | 353 | 8.9 | 5 | 1.1e-01 | 1.8 | -0.25 | 9 | 38 | 57 | 67 | 65 | 85 | 41 |
| ga | ga | 385 | 8.9 | 5 | 1.1e-01 | 1.8 | -0.26 | 10 | 47 | 76 | 60 | 89 | 72 | 41 |
| ta | ta | 425 | 7.6 | 5 | 1.8e-01 | 2.9 | -0.46 | 11 | 49 | 83 | 73 | 83 | 85 | 52 |
| ca | ca | 376 | 6.6 | 5 | 2.5e-01 | 4.1 | -0.61 | 12 | 43 | 75 | 91 | 62 | 74 | 31 |
| ct | ct | 505 | 4.4 | 5 | 5.0e-01 | 7.9 | -0.90 | 13 | 48 | 107 | 113 | 89 | 108 | 40 |
| cg | cg | 218 | 4.3 | 5 | 5.1e-01 | 8.1 | -0.91 | 14 | 29 | 38 | 38 | 47 | 47 | 19 |
| ac | ac | 259 | 2.7 | 5 | 7.5e-01 | 12 | -1.08 | 15 | 30 | 56 | 52 | 44 | 56 | 21 |
| gc | gc | 412 | 2.3 | 5 | 8.1e-01 | 13 | -1.11 | 16 | 43 | 74 | 85 | 83 | 83 | 44 |
Host name rsat Job started 2025-04-03.124325 Job done 2025-04-03.124325 Seconds 0.14 user 0.14 system 0.02 cuser 0.01 ; csystem 0