position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/06/27/peak-motifs.2025-06-27.165408_2025-06-27.165408_kPhdjj/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 1 -ci 20 -img_format png -title motifs_DEGs_post-c -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/06/27/peak-motifs.2025-06-27.165408_2025-06-27.165408_kPhdjj/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab Citation: van Helden, et al. (2000). Nucleic Acids Res 28, 1000-1010. Sequence file $RSAT/public_html/tmp/www-data/2025/06/27/peak-motifs.2025-06-27.165408_2025-06-27.165408_kPhdjj/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/06/27/peak-motifs.2025-06-27.165408_2025-06-27.165408_kPhdjj/results/composition/peak-motifs_test_profiles-1str-ovlp_1nt_ci20.tab Oligo length 1 Occurrences counted on a single strands Conditions of applicability checked. Background model estimation: homogeneous repartition Sequence statistics: Nb of sequences 226 Sum of sequence lengths 91329 Min sequence length 0 Max sequence length 1000 Average sequence length 404 Possible positions 91329 Oligonucleotide statistics: Total occurrences 86720 Position interval parameters: Position interval 20 Number of windows 50 Total positions 91329 Degrees of freedom 49 K-mer clustering parameters: Number of clusters 0 Clustering method complete Position intervals: window [min,max] mid seq occ 1 -25 [-499,-480] -489.5 45 900 2 -24 [-479,-460] -469.5 47 922 3 -23 [-459,-440] -449.5 49 961 4 -22 [-439,-420] -429.5 49 980 5 -21 [-419,-400] -409.5 52 996 6 -20 [-399,-380] -389.5 53 1043 7 -19 [-379,-360] -369.5 54 1077 8 -18 [-359,-340] -349.5 56 1106 9 -17 [-339,-320] -329.5 64 1217 10 -16 [-319,-300] -309.5 69 1338 11 -15 [-299,-280] -289.5 73 1421 12 -14 [-279,-260] -269.5 76 1488 13 -13 [-259,-240] -249.5 81 1576 14 -12 [-239,-220] -229.5 83 1631 15 -11 [-219,-200] -209.5 87 1685 16 -10 [-199,-180] -189.5 91 1794 17 -9 [-179,-160] -169.5 97 1892 18 -8 [-159,-140] -149.5 102 2001 19 -7 [-139,-120] -129.5 106 2084 20 -6 [-119,-100] -109.5 111 2176 21 -5 [-99,-80] -89.5 120 2320 22 -4 [-79,-60] -69.5 152 2689 23 -3 [-59,-40] -49.5 203 3687 24 -2 [-39,-20] -29.5 226 4254 25 -1 [-19,0] -9.5 226 4520 26 0 [1,20] 10.5 226 4520 27 1 [21,40] 30.5 226 4229 28 2 [41,60] 50.5 203 3647 29 3 [61,80] 70.5 150 2646 30 4 [81,100] 90.5 120 2312 31 5 [101,120] 110.5 111 2169 32 6 [121,140] 130.5 106 2079 33 7 [141,160] 150.5 102 1996 34 8 [161,180] 170.5 97 1886 35 9 [181,200] 190.5 91 1792 36 10 [201,220] 210.5 86 1680 37 11 [221,240] 230.5 83 1628 38 12 [241,260] 250.5 81 1573 39 13 [261,280] 270.5 76 1486 40 14 [281,300] 290.5 73 1416 41 15 [301,320] 310.5 69 1331 42 16 [321,340] 330.5 64 1206 43 17 [341,360] 350.5 56 1104 44 18 [361,380] 370.5 54 1076 45 19 [381,400] 390.5 53 1042 46 20 [401,420] 410.5 51 994 47 21 [421,440] 430.5 49 980 48 22 [441,460] 450.5 49 960 49 23 [461,480] 470.5 47 919 50 24 [481,500] 490.5 45 900 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 -489.5 occurrences in window 1 [-499,-480] 11 -469.5 occurrences in window 2 [-479,-460] 12 -449.5 occurrences in window 3 [-459,-440] 13 -429.5 occurrences in window 4 [-439,-420] 14 -409.5 occurrences in window 5 [-419,-400] 15 -389.5 occurrences in window 6 [-399,-380] 16 -369.5 occurrences in window 7 [-379,-360] 17 -349.5 occurrences in window 8 [-359,-340] 18 -329.5 occurrences in window 9 [-339,-320] 19 -309.5 occurrences in window 10 [-319,-300] 20 -289.5 occurrences in window 11 [-299,-280] 21 -269.5 occurrences in window 12 [-279,-260] 22 -249.5 occurrences in window 13 [-259,-240] 23 -229.5 occurrences in window 14 [-239,-220] 24 -209.5 occurrences in window 15 [-219,-200] 25 -189.5 occurrences in window 16 [-199,-180] 26 -169.5 occurrences in window 17 [-179,-160] 27 -149.5 occurrences in window 18 [-159,-140] 28 -129.5 occurrences in window 19 [-139,-120] 29 -109.5 occurrences in window 20 [-119,-100] 30 -89.5 occurrences in window 21 [-99,-80] 31 -69.5 occurrences in window 22 [-79,-60] 32 -49.5 occurrences in window 23 [-59,-40] 33 -29.5 occurrences in window 24 [-39,-20] 34 -9.5 occurrences in window 25 [-19,0] 35 10.5 occurrences in window 26 [1,20] 36 30.5 occurrences in window 27 [21,40] 37 50.5 occurrences in window 28 [41,60] 38 70.5 occurrences in window 29 [61,80] 39 90.5 occurrences in window 30 [81,100] 40 110.5 occurrences in window 31 [101,120] 41 130.5 occurrences in window 32 [121,140] 42 150.5 occurrences in window 33 [141,160] 43 170.5 occurrences in window 34 [161,180] 44 190.5 occurrences in window 35 [181,200] 45 210.5 occurrences in window 36 [201,220] 46 230.5 occurrences in window 37 [221,240] 47 250.5 occurrences in window 38 [241,260] 48 270.5 occurrences in window 39 [261,280] 49 290.5 occurrences in window 40 [281,300] 50 310.5 occurrences in window 41 [301,320] 51 330.5 occurrences in window 42 [321,340] 52 350.5 occurrences in window 43 [341,360] 53 370.5 occurrences in window 44 [361,380] 54 390.5 occurrences in window 45 [381,400] 55 410.5 occurrences in window 46 [401,420] 56 430.5 occurrences in window 47 [421,440] 57 450.5 occurrences in window 48 [441,460] 58 470.5 occurrences in window 49 [461,480] 59 490.5 occurrences in window 50 [481,500]
| seq | id | occ | chi2 | df | Pval | Eval | sig | rank | -489.5 | -469.5 | -449.5 | -429.5 | -409.5 | -389.5 | -369.5 | -349.5 | -329.5 | -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 | 310.5 | 330.5 | 350.5 | 370.5 | 390.5 | 410.5 | 430.5 | 450.5 | 470.5 | 490.5 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| t | t | 17628 | 71.6 | 49 | 1.9e-02 | 0.077 | 1.12 | 1 | 156 | 174 | 184 | 181 | 175 | 181 | 198 | 207 | 232 | 248 | 271 | 279 | 312 | 304 | 290 | 321 | 357 | 351 | 397 | 404 | 454 | 533 | 710 | 831 | 835 | 844 | 905 | 827 | 545 | 423 | 463 | 393 | 387 | 373 | 349 | 317 | 309 | 306 | 297 | 266 | 267 | 267 | 207 | 218 | 183 | 173 | 196 | 178 | 181 | 169 |
| a | a | 18014 | 68.1 | 49 | 3.7e-02 | 0.15 | 0.83 | 2 | 152 | 183 | 169 | 195 | 190 | 196 | 226 | 220 | 237 | 245 | 253 | 255 | 293 | 321 | 327 | 365 | 402 | 425 | 436 | 423 | 421 | 552 | 787 | 831 | 901 | 915 | 889 | 780 | 551 | 432 | 408 | 401 | 380 | 382 | 373 | 340 | 354 | 317 | 287 | 279 | 248 | 205 | 200 | 214 | 205 | 178 | 167 | 177 | 160 | 167 |
| g | g | 25225 | 60.7 | 49 | 1.2e-01 | 0.49 | 0.31 | 3 | 259 | 247 | 291 | 293 | 271 | 273 | 264 | 297 | 346 | 402 | 398 | 423 | 405 | 473 | 461 | 502 | 487 | 567 | 567 | 588 | 653 | 709 | 991 | 1223 | 1332 | 1266 | 1061 | 905 | 722 | 664 | 583 | 597 | 570 | 520 | 500 | 474 | 436 | 460 | 426 | 403 | 370 | 347 | 315 | 293 | 282 | 292 | 262 | 248 | 249 | 258 |
| c | c | 25853 | 57.8 | 49 | 1.8e-01 | 0.73 | 0.14 | 4 | 295 | 278 | 290 | 274 | 287 | 298 | 302 | 302 | 338 | 365 | 399 | 431 | 492 | 481 | 544 | 531 | 582 | 598 | 602 | 648 | 637 | 727 | 1003 | 1147 | 1234 | 1295 | 1174 | 970 | 688 | 673 | 626 | 596 | 579 | 533 | 510 | 488 | 454 | 430 | 416 | 408 | 386 | 327 | 323 | 294 | 292 | 271 | 275 | 277 | 249 | 234 |
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