position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/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 wt_ssD_motifs -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/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/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/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 401806 Sum of sequence lengths 8036120 Min sequence length 0 Max sequence length 20 Average sequence length 20 Possible positions 7634314 Oligonucleotide statistics: Total occurrences 7634314 Position interval parameters: Position interval 20 Number of windows 2 Total positions 7634314 Degrees of freedom 1 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -1 [-19,0] -9.5 401806 4018060 2 0 [1,20] 10.5 401806 3616254 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 -9.5 occurrences in window 1 [-19,0] 11 10.5 occurrences in window 2 [1,20]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -9.5 | 10.5 |
|---|---|---|---|---|---|---|---|---|---|---|
| gg | gg | 424094 | 2461.3 | 1 | 0.0e+00 | 0 | 300 | 1 | 239339 | 184755 |
| cc | cc | 409721 | 1990.6 | 1 | 0.0e+00 | 0 | 300 | 2 | 201383 | 208338 |
| ag | ag | 565399 | 478.0 | 1 | 0.0e+00 | 0 | 300 | 3 | 305787 | 259612 |
| ca | ca | 585662 | 317.5 | 1 | 5.2e-71 | 8.3e-70 | 69.08 | 4 | 301435 | 284227 |
| ct | ct | 551982 | 196.3 | 1 | 1.3e-44 | 2.1e-43 | 42.68 | 5 | 285319 | 266663 |
| tc | tc | 475634 | 172.3 | 1 | 2.3e-39 | 3.6e-38 | 37.44 | 6 | 245813 | 229821 |
| ga | ga | 495962 | 162.6 | 1 | 3.0e-37 | 4.8e-36 | 35.32 | 7 | 265517 | 230445 |
| gt | gt | 415021 | 150.3 | 1 | 1.5e-34 | 2.4e-33 | 32.61 | 8 | 222375 | 192646 |
| ac | ac | 415918 | 107.1 | 1 | 4.1e-25 | 6.6e-24 | 23.18 | 9 | 215571 | 200347 |
| aa | aa | 686723 | 54.2 | 1 | 1.9e-13 | 3e-12 | 11.53 | 10 | 364478 | 322245 |
| ta | ta | 450880 | 39.9 | 1 | 2.6e-10 | 4.2e-09 | 8.37 | 11 | 235187 | 215693 |
| gc | gc | 317250 | 19.9 | 1 | 8.1e-06 | 0.00013 | 3.89 | 12 | 165719 | 151531 |
| at | at | 528035 | 9.8 | 1 | 1.7e-03 | 0.028 | 1.55 | 13 | 279049 | 248986 |
| cg | cg | 79696 | 7.0 | 1 | 8.2e-03 | 0.13 | 0.88 | 14 | 42318 | 37378 |
| tg | tg | 570387 | 5.4 | 1 | 2.0e-02 | 0.31 | 0.50 | 15 | 301084 | 269303 |
| tt | tt | 661950 | 3.0 | 1 | 8.1e-02 | 1.3 | -0.11 | 16 | 347686 | 314264 |
Host name rsat Job started 2025-11-25.143503 Job done 2025-11-25.143549 Seconds 46.49 user 46.49 system 0.07 cuser 0 ; csystem 0