position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.173152_2025-04-13.173152_WAHiVU/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 SAM_MP5_24_df2 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.173152_2025-04-13.173152_WAHiVU/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/2025/04/13/peak-motifs.2025-04-13.173152_2025-04-13.173152_WAHiVU/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.173152_2025-04-13.173152_WAHiVU/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 683 Sum of sequence lengths 323241 Min sequence length 0 Max sequence length 1000 Average sequence length 473 Possible positions 323241 Oligonucleotide statistics: Total occurrences 317962 Position interval parameters: Position interval 20 Number of windows 50 Total positions 323241 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 92 1814 2 -24 [-479,-460] -469.5 103 1971 3 -23 [-459,-440] -449.5 109 2147 4 -22 [-439,-420] -429.5 114 2230 5 -21 [-419,-400] -409.5 121 2365 6 -20 [-399,-380] -389.5 130 2485 7 -19 [-379,-360] -369.5 143 2738 8 -18 [-359,-340] -349.5 153 2969 9 -17 [-339,-320] -329.5 168 3217 10 -16 [-319,-300] -309.5 185 3536 11 -15 [-299,-280] -289.5 207 3922 12 -14 [-279,-260] -269.5 225 4325 13 -13 [-259,-240] -249.5 246 4699 14 -12 [-239,-220] -229.5 278 5162 15 -11 [-219,-200] -209.5 308 5817 16 -10 [-199,-180] -189.5 345 6539 17 -9 [-179,-160] -169.5 397 7491 18 -8 [-159,-140] -149.5 473 8752 19 -7 [-139,-120] -129.5 550 10267 20 -6 [-119,-100] -109.5 619 11696 21 -5 [-99,-80] -89.5 683 13124 22 -4 [-79,-60] -69.5 683 13660 23 -3 [-59,-40] -49.5 683 13660 24 -2 [-39,-20] -29.5 683 13660 25 -1 [-19,0] -9.5 683 13660 26 0 [1,20] 10.5 683 13660 27 1 [21,40] 30.5 683 13660 28 2 [41,60] 50.5 683 13660 29 3 [61,80] 70.5 683 13660 30 4 [81,100] 90.5 683 13070 31 5 [101,120] 110.5 616 11635 32 6 [121,140] 130.5 547 10193 33 7 [141,160] 150.5 471 8674 34 8 [161,180] 170.5 394 7436 35 9 [181,200] 190.5 343 6507 36 10 [201,220] 210.5 302 5784 37 11 [221,240] 230.5 275 5136 38 12 [241,260] 250.5 244 4677 39 13 [261,280] 270.5 225 4308 40 14 [281,300] 290.5 206 3897 41 15 [301,320] 310.5 183 3521 42 16 [321,340] 330.5 167 3198 43 17 [341,360] 350.5 152 2959 44 18 [361,380] 370.5 143 2730 45 19 [381,400] 390.5 127 2476 46 20 [401,420] 410.5 121 2357 47 21 [421,440] 430.5 113 2225 48 22 [441,460] 450.5 109 2143 49 23 [461,480] 470.5 103 1959 50 24 [481,500] 490.5 92 1810 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 | 56394 | 193.3 | 49 | 5.0e-19 | 2e-18 | 17.70 | 1 | 310 | 339 | 355 | 386 | 417 | 444 | 471 | 458 | 569 | 620 | 615 | 754 | 754 | 920 | 1034 | 1094 | 1287 | 1490 | 1720 | 2051 | 2288 | 2441 | 2553 | 2704 | 2646 | 2616 | 2482 | 2459 | 2368 | 2206 | 1933 | 1629 | 1479 | 1241 | 1076 | 969 | 879 | 762 | 698 | 625 | 612 | 540 | 501 | 467 | 408 | 390 | 369 | 347 | 339 | 279 |
| a | a | 55755 | 183.4 | 49 | 2.1e-17 | 8.3e-17 | 16.08 | 2 | 296 | 324 | 361 | 363 | 388 | 393 | 449 | 480 | 550 | 564 | 640 | 726 | 778 | 823 | 963 | 1064 | 1274 | 1434 | 1709 | 1958 | 2280 | 2438 | 2430 | 2494 | 2650 | 2630 | 2608 | 2447 | 2330 | 2351 | 1943 | 1701 | 1421 | 1248 | 1090 | 948 | 854 | 744 | 747 | 649 | 578 | 543 | 475 | 418 | 435 | 405 | 366 | 349 | 336 | 310 |
| c | c | 102376 | 180.8 | 49 | 5.4e-17 | 2.2e-16 | 15.66 | 3 | 590 | 635 | 703 | 717 | 782 | 803 | 874 | 1015 | 1064 | 1153 | 1278 | 1395 | 1540 | 1684 | 1855 | 2147 | 2383 | 2833 | 3353 | 3751 | 4178 | 4245 | 4105 | 4059 | 4041 | 3966 | 4016 | 4158 | 4266 | 4140 | 3732 | 3348 | 2763 | 2396 | 2144 | 1848 | 1667 | 1529 | 1427 | 1292 | 1180 | 1100 | 984 | 927 | 795 | 799 | 755 | 722 | 634 | 605 |
| g | g | 103437 | 89.5 | 49 | 3.7e-04 | 0.0015 | 2.83 | 4 | 618 | 673 | 728 | 764 | 778 | 828 | 924 | 996 | 1004 | 1139 | 1340 | 1382 | 1547 | 1655 | 1887 | 2147 | 2427 | 2867 | 3376 | 3776 | 4175 | 4308 | 4335 | 4159 | 4061 | 4194 | 4274 | 4321 | 4401 | 4121 | 3804 | 3296 | 2858 | 2413 | 2066 | 1847 | 1609 | 1538 | 1362 | 1259 | 1101 | 995 | 979 | 898 | 818 | 743 | 715 | 705 | 630 | 596 |
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