position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2026/01/08/peak-motifs.2026-01-08.113908_2026-01-08.113908_nI4Dk5/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 SMC5vsneg -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2026/01/08/peak-motifs.2026-01-08.113908_2026-01-08.113908_nI4Dk5/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/2026/01/08/peak-motifs.2026-01-08.113908_2026-01-08.113908_nI4Dk5/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2026/01/08/peak-motifs.2026-01-08.113908_2026-01-08.113908_nI4Dk5/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 26 Sum of sequence lengths 7763 Min sequence length 0 Max sequence length 587 Average sequence length 298 Possible positions 7737 Sequences: # length ID 1 275 GL000220.1:145272-145547 2 254 GL000224.1:8225-8479 3 225 JH636052.4:18079-18304 4 244 JH636052.4:79857-80101 5 587 chr1:121484801-121485388 6 310 chr16:46391320-46391630 7 269 chr16:46391905-46392174 8 219 chr16:46393984-46394203 9 237 chr16:46395181-46395418 10 220 chr16:46403580-46403800 11 236 chr16:46404950-46405186 12 239 chr16:46406799-46407038 13 413 chr16:46407388-46407801 14 323 chr16:46417083-46417406 15 354 chr16:46424701-46425055 16 352 chr21:9825913-9826265 17 299 chr21:9826868-9827167 18 248 chr22:20653324-20653572 19 282 chr6:58776462-58776744 20 419 chr6:58777449-58777868 21 238 chr6:58779092-58779330 22 243 chr7:61968812-61969055 23 339 chr7:61969277-61969616 24 232 chr8:46856115-46856347 25 483 chrX:61718606-61719089 26 223 chrY:58827277-58827500 Oligonucleotide statistics: Total occurrences 4996 Position interval parameters: Position interval 20 Number of windows 30 Total positions 7737 Degrees of freedom 29 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -15 [-299,-280] -289.5 1 14 2 -14 [-279,-260] -269.5 1 20 3 -13 [-259,-240] -249.5 2 22 4 -12 [-239,-220] -229.5 2 40 5 -11 [-219,-200] -209.5 4 57 6 -10 [-199,-180] -189.5 4 80 7 -9 [-179,-160] -169.5 8 126 8 -8 [-159,-140] -149.5 11 188 9 -7 [-139,-120] -129.5 17 269 10 -6 [-119,-100] -109.5 26 478 11 -5 [-99,-80] -89.5 26 520 12 -4 [-79,-60] -69.5 26 520 13 -3 [-59,-40] -49.5 26 520 14 -2 [-39,-20] -29.5 26 520 15 -1 [-19,0] -9.5 26 520 16 0 [1,20] 10.5 26 520 17 1 [21,40] 30.5 26 520 18 2 [41,60] 50.5 26 520 19 3 [61,80] 70.5 26 520 20 4 [81,100] 90.5 26 520 21 5 [101,120] 110.5 26 462 22 6 [121,140] 130.5 16 257 23 7 [141,160] 150.5 10 181 24 8 [161,180] 170.5 7 118 25 9 [181,200] 190.5 4 80 26 10 [201,220] 210.5 4 53 27 11 [221,240] 230.5 2 40 28 12 [241,260] 250.5 1 20 29 13 [261,280] 270.5 1 20 30 14 [281,300] 290.5 1 12 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 -289.5 occurrences in window 1 [-299,-280] 11 -269.5 occurrences in window 2 [-279,-260] 12 -249.5 occurrences in window 3 [-259,-240] 13 -229.5 occurrences in window 4 [-239,-220] 14 -209.5 occurrences in window 5 [-219,-200] 15 -189.5 occurrences in window 6 [-199,-180] 16 -169.5 occurrences in window 7 [-179,-160] 17 -149.5 occurrences in window 8 [-159,-140] 18 -129.5 occurrences in window 9 [-139,-120] 19 -109.5 occurrences in window 10 [-119,-100] 20 -89.5 occurrences in window 11 [-99,-80] 21 -69.5 occurrences in window 12 [-79,-60] 22 -49.5 occurrences in window 13 [-59,-40] 23 -29.5 occurrences in window 14 [-39,-20] 24 -9.5 occurrences in window 15 [-19,0] 25 10.5 occurrences in window 16 [1,20] 26 30.5 occurrences in window 17 [21,40] 27 50.5 occurrences in window 18 [41,60] 28 70.5 occurrences in window 19 [61,80] 29 90.5 occurrences in window 20 [81,100] 30 110.5 occurrences in window 21 [101,120] 31 130.5 occurrences in window 22 [121,140] 32 150.5 occurrences in window 23 [141,160] 33 170.5 occurrences in window 24 [161,180] 34 190.5 occurrences in window 25 [181,200] 35 210.5 occurrences in window 26 [201,220] 36 230.5 occurrences in window 27 [221,240] 37 250.5 occurrences in window 28 [241,260] 38 270.5 occurrences in window 29 [261,280] 39 290.5 occurrences in window 30 [281,300]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -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 | 499 | 37.3 | 29 | 1.4e-01 | 2.2 | -0.34 | 1 | 2 | 2 | 4 | 5 | 2 | 5 | 15 | 15 | 27 | 33 | 36 | 22 | 25 | 26 | 36 | 39 | 42 | 33 | 36 | 31 | 27 | 7 | 5 | 12 | 8 | 1 | 2 | 0 | 0 | 1 |
| aa | aa | 404 | 34.2 | 29 | 2.3e-01 | 3.7 | -0.57 | 2 | 0 | 2 | 3 | 4 | 9 | 7 | 4 | 5 | 11 | 24 | 47 | 19 | 21 | 27 | 23 | 23 | 21 | 19 | 29 | 29 | 33 | 18 | 13 | 5 | 2 | 6 | 0 | 0 | 0 | 0 |
| at | at | 468 | 32.9 | 29 | 2.8e-01 | 4.5 | -0.65 | 3 | 0 | 2 | 1 | 2 | 6 | 9 | 6 | 11 | 14 | 32 | 25 | 24 | 24 | 32 | 49 | 36 | 22 | 25 | 36 | 46 | 35 | 12 | 10 | 3 | 2 | 1 | 3 | 0 | 0 | 0 |
| ga | ga | 379 | 28.4 | 29 | 5.0e-01 | 7.9 | -0.90 | 4 | 2 | 2 | 0 | 1 | 4 | 7 | 9 | 4 | 13 | 20 | 18 | 25 | 17 | 15 | 40 | 31 | 22 | 26 | 29 | 33 | 25 | 15 | 7 | 4 | 5 | 3 | 1 | 0 | 0 | 1 |
| tg | tg | 367 | 25.8 | 29 | 6.4e-01 | 10 | -1.01 | 5 | 0 | 1 | 4 | 3 | 2 | 4 | 9 | 13 | 11 | 25 | 20 | 17 | 24 | 21 | 31 | 40 | 20 | 22 | 27 | 25 | 23 | 10 | 2 | 6 | 4 | 1 | 1 | 0 | 0 | 1 |
| gt | gt | 243 | 24.7 | 29 | 7.0e-01 | 11 | -1.05 | 6 | 1 | 0 | 3 | 3 | 1 | 1 | 4 | 14 | 11 | 21 | 16 | 17 | 16 | 13 | 11 | 21 | 11 | 17 | 10 | 15 | 16 | 4 | 5 | 7 | 3 | 2 | 0 | 0 | 0 | 0 |
| tc | tc | 438 | 22.7 | 29 | 7.9e-01 | 13 | -1.10 | 7 | 1 | 1 | 0 | 3 | 5 | 6 | 6 | 14 | 19 | 36 | 24 | 26 | 23 | 40 | 35 | 26 | 19 | 25 | 28 | 33 | 34 | 9 | 9 | 6 | 3 | 4 | 2 | 0 | 0 | 1 |
| ca | ca | 357 | 21.9 | 29 | 8.2e-01 | 13 | -1.12 | 8 | 1 | 2 | 3 | 3 | 7 | 3 | 5 | 10 | 12 | 30 | 28 | 12 | 16 | 21 | 27 | 23 | 26 | 21 | 26 | 31 | 25 | 8 | 10 | 1 | 1 | 2 | 3 | 0 | 0 | 0 |
| ct | ct | 276 | 17.6 | 29 | 9.5e-01 | 15 | -1.18 | 9 | 1 | 2 | 0 | 3 | 1 | 4 | 6 | 8 | 11 | 15 | 16 | 17 | 17 | 31 | 23 | 16 | 14 | 14 | 17 | 19 | 19 | 5 | 3 | 6 | 2 | 2 | 1 | 0 | 0 | 3 |
| cc | cc | 312 | 17.2 | 29 | 9.6e-01 | 15 | -1.19 | 10 | 2 | 0 | 0 | 0 | 1 | 2 | 6 | 14 | 17 | 22 | 22 | 23 | 25 | 20 | 23 | 15 | 20 | 20 | 13 | 19 | 23 | 9 | 6 | 1 | 3 | 1 | 3 | 0 | 0 | 2 |
| gg | gg | 221 | 16.0 | 29 | 9.8e-01 | 16 | -1.19 | 11 | 0 | 0 | 0 | 2 | 2 | 0 | 6 | 1 | 13 | 16 | 18 | 12 | 11 | 16 | 18 | 12 | 19 | 13 | 14 | 16 | 11 | 12 | 5 | 1 | 1 | 1 | 0 | 0 | 0 | 1 |
| ag | ag | 254 | 15.9 | 29 | 9.8e-01 | 16 | -1.19 | 12 | 2 | 2 | 1 | 5 | 3 | 3 | 3 | 5 | 11 | 15 | 17 | 20 | 13 | 5 | 25 | 16 | 16 | 20 | 17 | 17 | 14 | 6 | 6 | 3 | 5 | 2 | 1 | 0 | 0 | 1 |
| cg | cg | 207 | 15.0 | 29 | 9.9e-01 | 16 | -1.20 | 13 | 0 | 0 | 0 | 1 | 0 | 2 | 5 | 9 | 14 | 12 | 15 | 17 | 14 | 12 | 9 | 13 | 11 | 13 | 13 | 13 | 16 | 9 | 4 | 4 | 1 | 0 | 0 | 0 | 0 | 0 |
| ta | ta | 173 | 12.8 | 29 | 1.0e+00 | 16 | -1.20 | 14 | 1 | 1 | 1 | 1 | 1 | 3 | 2 | 6 | 5 | 9 | 12 | 14 | 10 | 13 | 17 | 10 | 6 | 12 | 8 | 19 | 9 | 5 | 3 | 3 | 1 | 0 | 1 | 0 | 0 | 0 |
| gc | gc | 206 | 10.4 | 29 | 1.0e+00 | 16 | -1.20 | 15 | 0 | 1 | 2 | 4 | 1 | 1 | 5 | 9 | 11 | 10 | 17 | 13 | 15 | 12 | 14 | 16 | 14 | 9 | 17 | 11 | 12 | 6 | 1 | 3 | 0 | 0 | 1 | 0 | 0 | 1 |
| ac | ac | 192 | 10.2 | 29 | 1.0e+00 | 16 | -1.20 | 16 | 1 | 2 | 0 | 0 | 2 | 3 | 5 | 3 | 7 | 12 | 15 | 9 | 8 | 11 | 12 | 8 | 17 | 14 | 14 | 18 | 11 | 9 | 5 | 3 | 0 | 2 | 1 | 0 | 0 | 0 |
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