position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/08/17/peak-motifs.2025-08-17.121501_2025-08-17.121501_7wfl8K/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 Set_4_TOP150 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/08/17/peak-motifs.2025-08-17.121501_2025-08-17.121501_7wfl8K/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/2025/08/17/peak-motifs.2025-08-17.121501_2025-08-17.121501_7wfl8K/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/08/17/peak-motifs.2025-08-17.121501_2025-08-17.121501_7wfl8K/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 150 Sum of sequence lengths 15000 Min sequence length 0 Max sequence length 100 Average sequence length 100 Possible positions 14850 Oligonucleotide statistics: Total occurrences 14585 Position interval parameters: Position interval 20 Number of windows 6 Total positions 14850 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] -49.5 150 1500 2 -2 [-39,-20] -29.5 150 3000 3 -1 [-19,0] -9.5 150 3000 4 0 [1,20] 10.5 150 3000 5 1 [21,40] 30.5 150 3000 6 2 [41,60] 50.5 150 1350 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| aa | aa | 788 | 20.1 | 5 | 1.2e-03 | 0.019 | 1.72 | 1 | 63 | 153 | 161 | 130 | 191 | 90 |
| ca | ca | 1071 | 11.1 | 5 | 5.0e-02 | 0.79 | 0.10 | 2 | 118 | 216 | 219 | 247 | 186 | 85 |
| gg | gg | 1050 | 9.1 | 5 | 1.0e-01 | 1.7 | -0.22 | 3 | 124 | 217 | 188 | 223 | 193 | 105 |
| tt | tt | 788 | 8.0 | 5 | 1.5e-01 | 2.5 | -0.39 | 4 | 85 | 145 | 136 | 172 | 168 | 82 |
| ac | ac | 787 | 7.9 | 5 | 1.6e-01 | 2.6 | -0.42 | 5 | 88 | 166 | 175 | 149 | 155 | 54 |
| ta | ta | 491 | 5.5 | 5 | 3.5e-01 | 5.6 | -0.75 | 6 | 57 | 100 | 92 | 95 | 112 | 35 |
| tc | tc | 910 | 5.2 | 5 | 3.9e-01 | 6.2 | -0.79 | 7 | 82 | 200 | 195 | 178 | 167 | 88 |
| ga | ga | 888 | 4.8 | 5 | 4.4e-01 | 7 | -0.84 | 8 | 78 | 187 | 166 | 175 | 196 | 86 |
| at | at | 719 | 4.2 | 5 | 5.2e-01 | 8.3 | -0.92 | 9 | 75 | 131 | 138 | 146 | 152 | 77 |
| ag | ag | 952 | 3.7 | 5 | 5.9e-01 | 9.5 | -0.98 | 10 | 95 | 201 | 176 | 209 | 183 | 88 |
| ct | ct | 927 | 3.5 | 5 | 6.2e-01 | 9.9 | -1.00 | 11 | 97 | 186 | 207 | 180 | 181 | 76 |
| tg | tg | 1078 | 2.7 | 5 | 7.4e-01 | 12 | -1.07 | 12 | 105 | 201 | 230 | 215 | 229 | 98 |
| gt | gt | 841 | 2.7 | 5 | 7.5e-01 | 12 | -1.08 | 13 | 76 | 185 | 165 | 174 | 167 | 74 |
| cg | cg | 1008 | 2.1 | 5 | 8.4e-01 | 13 | -1.13 | 14 | 102 | 210 | 212 | 186 | 206 | 92 |
| gc | gc | 1299 | 1.5 | 5 | 9.2e-01 | 15 | -1.17 | 15 | 135 | 256 | 271 | 271 | 255 | 111 |
| cc | cc | 988 | 1.3 | 5 | 9.3e-01 | 15 | -1.17 | 16 | 100 | 205 | 209 | 190 | 199 | 85 |
Host name rsat Job started 2025-08-17.121504 Job done 2025-08-17.121505 Seconds 0.15 user 0.15 system 0.02 cuser 0 ; csystem 0