position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/04/14/peak-motifs.2025-04-14.163727_2025-04-14.163727_pR8P2w/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 TG -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/04/14/peak-motifs.2025-04-14.163727_2025-04-14.163727_pR8P2w/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/2025/04/14/peak-motifs.2025-04-14.163727_2025-04-14.163727_pR8P2w/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/04/14/peak-motifs.2025-04-14.163727_2025-04-14.163727_pR8P2w/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 40 Min sequence length 0 Max sequence length 40 Average sequence length 40 Possible positions 39 Sequences: # length ID 1 40 TG Oligonucleotide statistics: Total occurrences 39 Position interval parameters: Position interval 20 Number of windows 2 Total positions 39 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 1 20 2 0 [1,20] 10.5 1 19 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 |
|---|---|---|---|---|---|---|---|---|---|---|
| tc | tc | 2 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 1 | 1 | 1 |
| aa | aa | 2 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 2 | 2 | 0 |
| gg | gg | 4 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 3 | 2 | 2 |
| ct | ct | 3 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 4 | 3 | 0 |
| gt | gt | 2 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 5 | 0 | 2 |
| ac | ac | 3 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 6 | 3 | 0 |
| ag | ag | 4 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 7 | 1 | 3 |
| ca | ca | 5 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 8 | 2 | 3 |
| tt | tt | 1 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 9 | 1 | 0 |
| ga | ga | 4 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 10 | 2 | 2 |
| tg | tg | 4 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 11 | 2 | 2 |
| cc | cc | 1 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 12 | 0 | 1 |
| gc | gc | 2 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 13 | 1 | 1 |
| at | at | 2 | 0.0 | 1 | 1.0e+00 | 14 | -1.15 | 14 | 0 | 2 |
Host name rsat Job started 2025-04-14.163730 Job done 2025-04-14.163730 Seconds 0.11 user 0.11 system 0.01 cuser 0 ; csystem 0