position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/12/19/peak-motifs.2025-12-19.115413_2025-12-19.115413_FZ7H1y/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 MAPK1_1_peak_motifs -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/12/19/peak-motifs.2025-12-19.115413_2025-12-19.115413_FZ7H1y/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/2025/12/19/peak-motifs.2025-12-19.115413_2025-12-19.115413_FZ7H1y/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/12/19/peak-motifs.2025-12-19.115413_2025-12-19.115413_FZ7H1y/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 9 Sum of sequence lengths 3440 Min sequence length 0 Max sequence length 603 Average sequence length 382 Possible positions 3431 Sequences: # length ID 1 602 chromosome_GRCh38_20_1_64444167_1:28518065-28518421() 2 364 chromosome_GRCh38_20_1_64444167_1:31060434-31060798() 3 231 chromosome_GRCh38_21_1_46709983_1:5217184-5217415() 4 233 chromosome_GRCh38_21_1_46709983_1:10361393-10361626() 5 251 chromosome_GRCh38_21_1_46709983_1:10806435-10806686() 6 400 chromosome_GRCh38_4_1_190214555_1:49709352-49709752() 7 474 chromosome_GRCh38_4_1_190214555_1:49710462-49710936() 8 603 chromosome_GRCh38_4_1_190214555_1:49711269-49711872() 9 282 chromosome_GRCh38_4_1_190214555_1:51107238-51107520() Oligonucleotide statistics: Total occurrences 1727 Position interval parameters: Position interval 20 Number of windows 31 Total positions 3431 Degrees of freedom 30 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -16 [-319,-300] -309.5 2 4 2 -15 [-299,-280] -289.5 2 40 3 -14 [-279,-260] -269.5 2 40 4 -13 [-259,-240] -249.5 2 40 5 -12 [-239,-220] -229.5 3 58 6 -11 [-219,-200] -209.5 3 60 7 -10 [-199,-180] -189.5 5 82 8 -9 [-179,-160] -169.5 5 100 9 -8 [-159,-140] -149.5 6 102 10 -7 [-139,-120] -129.5 7 126 11 -6 [-119,-100] -109.5 9 173 12 -5 [-99,-80] -89.5 9 180 13 -4 [-79,-60] -69.5 9 180 14 -3 [-59,-40] -49.5 9 180 15 -2 [-39,-20] -29.5 9 180 16 -1 [-19,0] -9.5 9 180 17 0 [1,20] 10.5 9 180 18 1 [21,40] 30.5 9 180 19 2 [41,60] 50.5 9 180 20 3 [61,80] 70.5 9 180 21 4 [81,100] 90.5 9 180 22 5 [101,120] 110.5 9 169 23 6 [121,140] 130.5 7 123 24 7 [141,160] 150.5 5 100 25 8 [161,180] 170.5 5 100 26 9 [181,200] 190.5 5 80 27 10 [201,220] 210.5 3 60 28 11 [221,240] 230.5 3 55 29 12 [241,260] 250.5 2 40 30 13 [261,280] 270.5 2 40 31 14 [281,300] 290.5 2 39 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 -309.5 occurrences in window 1 [-319,-300] 11 -289.5 occurrences in window 2 [-299,-280] 12 -269.5 occurrences in window 3 [-279,-260] 13 -249.5 occurrences in window 4 [-259,-240] 14 -229.5 occurrences in window 5 [-239,-220] 15 -209.5 occurrences in window 6 [-219,-200] 16 -189.5 occurrences in window 7 [-199,-180] 17 -169.5 occurrences in window 8 [-179,-160] 18 -149.5 occurrences in window 9 [-159,-140] 19 -129.5 occurrences in window 10 [-139,-120] 20 -109.5 occurrences in window 11 [-119,-100] 21 -89.5 occurrences in window 12 [-99,-80] 22 -69.5 occurrences in window 13 [-79,-60] 23 -49.5 occurrences in window 14 [-59,-40] 24 -29.5 occurrences in window 15 [-39,-20] 25 -9.5 occurrences in window 16 [-19,0] 26 10.5 occurrences in window 17 [1,20] 27 30.5 occurrences in window 18 [21,40] 28 50.5 occurrences in window 19 [41,60] 29 70.5 occurrences in window 20 [61,80] 30 90.5 occurrences in window 21 [81,100] 31 110.5 occurrences in window 22 [101,120] 32 130.5 occurrences in window 23 [121,140] 33 150.5 occurrences in window 24 [141,160] 34 170.5 occurrences in window 25 [161,180] 35 190.5 occurrences in window 26 [181,200] 36 210.5 occurrences in window 27 [201,220] 37 230.5 occurrences in window 28 [221,240] 38 250.5 occurrences in window 29 [241,260] 39 270.5 occurrences in window 30 [261,280] 40 290.5 occurrences in window 31 [281,300]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -309.5 | -289.5 | -269.5 | -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 | 270.5 | 290.5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| tt | tt | 149 | 26.2 | 30 | 6.6e-01 | 11 | -1.03 | 1 | 1 | 0 | 1 | 1 | 2 | 3 | 5 | 3 | 2 | 4 | 18 | 11 | 8 | 9 | 3 | 7 | 9 | 6 | 7 | 8 | 9 | 1 | 4 | 6 | 6 | 4 | 5 | 4 | 0 | 0 | 2 |
| aa | aa | 228 | 15.2 | 30 | 9.9e-01 | 16 | -1.20 | 2 | 0 | 5 | 4 | 2 | 1 | 3 | 6 | 9 | 8 | 3 | 7 | 14 | 12 | 13 | 17 | 15 | 11 | 8 | 12 | 15 | 16 | 15 | 6 | 6 | 6 | 6 | 2 | 6 | 0 | 0 | 0 |
| tg | tg | 138 | 14.2 | 30 | 9.9e-01 | 16 | -1.20 | 3 | 1 | 0 | 0 | 0 | 6 | 0 | 2 | 8 | 4 | 5 | 5 | 7 | 7 | 15 | 7 | 5 | 6 | 11 | 9 | 11 | 7 | 6 | 3 | 2 | 3 | 2 | 3 | 2 | 0 | 0 | 1 |
| ca | ca | 122 | 10.0 | 30 | 1.0e+00 | 16 | -1.20 | 4 | 0 | 1 | 2 | 4 | 0 | 2 | 3 | 2 | 3 | 2 | 8 | 5 | 8 | 5 | 11 | 7 | 10 | 7 | 4 | 10 | 6 | 6 | 4 | 2 | 4 | 3 | 1 | 2 | 0 | 0 | 0 |
| ta | ta | 117 | 8.4 | 30 | 1.0e+00 | 16 | -1.20 | 5 | 0 | 1 | 2 | 1 | 1 | 1 | 4 | 6 | 1 | 0 | 7 | 7 | 7 | 5 | 3 | 7 | 5 | 4 | 7 | 5 | 11 | 8 | 3 | 4 | 5 | 4 | 6 | 2 | 0 | 0 | 0 |
| at | at | 161 | 8.2 | 30 | 1.0e+00 | 16 | -1.20 | 6 | 0 | 0 | 2 | 2 | 1 | 0 | 4 | 8 | 4 | 4 | 11 | 12 | 7 | 9 | 6 | 7 | 9 | 9 | 11 | 12 | 11 | 9 | 4 | 3 | 5 | 4 | 4 | 3 | 0 | 0 | 0 |
| ga | ga | 124 | 7.4 | 30 | 1.0e+00 | 16 | -1.20 | 7 | 0 | 4 | 0 | 3 | 1 | 1 | 3 | 5 | 4 | 6 | 5 | 8 | 5 | 5 | 7 | 8 | 6 | 8 | 12 | 6 | 6 | 8 | 2 | 3 | 3 | 1 | 1 | 3 | 0 | 0 | 0 |
| ac | ac | 111 | 6.2 | 30 | 1.0e+00 | 16 | -1.20 | 8 | 0 | 1 | 3 | 2 | 2 | 2 | 2 | 3 | 1 | 3 | 5 | 6 | 4 | 7 | 8 | 8 | 8 | 5 | 5 | 3 | 5 | 8 | 4 | 3 | 6 | 2 | 2 | 3 | 0 | 0 | 0 |
| ct | ct | 111 | 5.9 | 30 | 1.0e+00 | 16 | -1.20 | 9 | 0 | 0 | 2 | 0 | 2 | 1 | 2 | 4 | 1 | 4 | 5 | 6 | 8 | 8 | 6 | 8 | 8 | 8 | 4 | 6 | 6 | 8 | 2 | 3 | 3 | 4 | 1 | 1 | 0 | 0 | 0 |
| cc | cc | 71 | 0.0 | 30 | 1.0e+00 | 16 | -1.20 | 10 | 0 | 1 | 0 | 0 | 0 | 0 | 3 | 1 | 0 | 3 | 1 | 5 | 9 | 6 | 7 | 6 | 4 | 6 | 3 | 3 | 6 | 2 | 0 | 2 | 0 | 0 | 1 | 2 | 0 | 0 | 0 |
| ag | ag | 92 | 0.0 | 30 | 1.0e+00 | 16 | -1.20 | 11 | 0 | 4 | 0 | 3 | 0 | 2 | 3 | 1 | 4 | 3 | 3 | 3 | 7 | 1 | 7 | 6 | 5 | 4 | 8 | 5 | 6 | 4 | 3 | 3 | 1 | 3 | 1 | 1 | 0 | 0 | 1 |
| tc | tc | 91 | 0.0 | 30 | 1.0e+00 | 16 | -1.20 | 12 | 0 | 0 | 2 | 2 | 0 | 2 | 2 | 2 | 1 | 4 | 7 | 6 | 8 | 1 | 6 | 7 | 9 | 8 | 1 | 7 | 3 | 5 | 3 | 1 | 0 | 4 | 0 | 0 | 0 | 0 | 0 |
| gg | gg | 78 | 0.0 | 30 | 1.0e+00 | 16 | -1.20 | 13 | 0 | 2 | 0 | 0 | 0 | 1 | 1 | 4 | 3 | 3 | 5 | 5 | 2 | 5 | 3 | 3 | 4 | 8 | 7 | 4 | 5 | 4 | 1 | 0 | 2 | 0 | 2 | 4 | 0 | 0 | 0 |
| gt | gt | 75 | 0.0 | 30 | 1.0e+00 | 16 | -1.20 | 14 | 0 | 1 | 1 | 0 | 4 | 2 | 2 | 4 | 1 | 0 | 4 | 3 | 5 | 5 | 4 | 4 | 4 | 5 | 4 | 3 | 5 | 2 | 3 | 2 | 0 | 2 | 4 | 0 | 0 | 0 | 1 |
| gc | gc | 45 | 0.0 | 30 | 1.0e+00 | 16 | -1.20 | 15 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 3 | 1 | 1 | 1 | 3 | 6 | 4 | 1 | 1 | 4 | 4 | 5 | 3 | 2 | 0 | 0 | 1 | 1 | 1 | 1 | 0 | 0 | 1 |
| cg | cg | 14 | 0.0 | 30 | 1.0e+00 | 16 | -1.20 | 16 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 1 | 1 | 1 | 1 | 0 | 0 | 1 | 1 | 1 | 1 | 2 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 1 | 1 | 0 | 0 | 0 |
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