position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085523_2025-06-19.085523_UdMRwA/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 m2 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085523_2025-06-19.085523_UdMRwA/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/2025/06/19/peak-motifs.2025-06-19.085523_2025-06-19.085523_UdMRwA/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.085523_2025-06-19.085523_UdMRwA/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 721 Sum of sequence lengths 337168 Min sequence length 0 Max sequence length 1000 Average sequence length 467 Possible positions 337168 Oligonucleotide statistics: Total occurrences 322227 Position interval parameters: Position interval 20 Number of windows 50 Total positions 337168 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] -489.5 104 2064 2 -24 [-479,-460] -469.5 109 2128 3 -23 [-459,-440] -449.5 113 2227 4 -22 [-439,-420] -429.5 120 2354 5 -21 [-419,-400] -409.5 127 2475 6 -20 [-399,-380] -389.5 134 2589 7 -19 [-379,-360] -369.5 143 2795 8 -18 [-359,-340] -349.5 152 2970 9 -17 [-339,-320] -329.5 163 3154 10 -16 [-319,-300] -309.5 172 3361 11 -15 [-299,-280] -289.5 181 3529 12 -14 [-279,-260] -269.5 197 3768 13 -13 [-259,-240] -249.5 207 4070 14 -12 [-239,-220] -229.5 222 4313 15 -11 [-219,-200] -209.5 235 4526 16 -10 [-199,-180] -189.5 271 4975 17 -9 [-179,-160] -169.5 445 6759 18 -8 [-159,-140] -149.5 626 11137 19 -7 [-139,-120] -129.5 718 13216 20 -6 [-119,-100] -109.5 721 14382 21 -5 [-99,-80] -89.5 721 14420 22 -4 [-79,-60] -69.5 721 14420 23 -3 [-59,-40] -49.5 721 14420 24 -2 [-39,-20] -29.5 721 14420 25 -1 [-19,0] -9.5 721 14420 26 0 [1,20] 10.5 721 14420 27 1 [21,40] 30.5 721 14420 28 2 [41,60] 50.5 721 14420 29 3 [61,80] 70.5 721 14420 30 4 [81,100] 90.5 721 14420 31 5 [101,120] 110.5 719 14378 32 6 [121,140] 130.5 718 13130 33 7 [141,160] 150.5 626 10961 34 8 [161,180] 170.5 404 6584 35 9 [181,200] 190.5 263 4936 36 10 [201,220] 210.5 231 4514 37 11 [221,240] 230.5 220 4298 38 12 [241,260] 250.5 207 4059 39 13 [261,280] 270.5 195 3752 40 14 [281,300] 290.5 180 3521 41 15 [301,320] 310.5 172 3350 42 16 [321,340] 330.5 161 3141 43 17 [341,360] 350.5 151 2963 44 18 [361,380] 370.5 143 2787 45 19 [381,400] 390.5 133 2582 46 20 [401,420] 410.5 126 2468 47 21 [421,440] 430.5 120 2347 48 22 [441,460] 450.5 113 2223 49 23 [461,480] 470.5 108 2121 50 24 [481,500] 490.5 104 2061 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 | 70875 | 736.4 | 49 | 0.0e+00 | 0 | 300 | 1 | 371 | 400 | 385 | 384 | 473 | 471 | 463 | 503 | 545 | 558 | 566 | 685 | 735 | 730 | 796 | 857 | 1365 | 2409 | 2656 | 2764 | 2943 | 3167 | 3453 | 3504 | 3357 | 3116 | 3218 | 3215 | 3157 | 3197 | 3138 | 2717 | 2076 | 1255 | 1033 | 946 | 895 | 908 | 838 | 719 | 647 | 680 | 592 | 677 | 700 | 603 | 582 | 515 | 436 | 475 |
| a | a | 70093 | 571.0 | 49 | 0.0e+00 | 0 | 300 | 2 | 372 | 362 | 397 | 429 | 414 | 469 | 438 | 488 | 553 | 544 | 640 | 656 | 718 | 805 | 795 | 942 | 1488 | 2605 | 2796 | 2966 | 2827 | 2908 | 3168 | 3481 | 3394 | 3184 | 3014 | 2867 | 2948 | 3144 | 3110 | 2650 | 2216 | 1350 | 1024 | 932 | 924 | 920 | 823 | 700 | 660 | 567 | 613 | 610 | 637 | 597 | 516 | 510 | 479 | 443 |
| g | g | 90045 | 449.9 | 49 | 0.0e+00 | 0 | 300 | 3 | 584 | 577 | 578 | 625 | 624 | 645 | 761 | 797 | 765 | 839 | 899 | 982 | 1070 | 1170 | 1249 | 1367 | 1784 | 2985 | 3844 | 4157 | 3955 | 3631 | 3417 | 3400 | 3558 | 3736 | 3692 | 3877 | 3861 | 3820 | 3989 | 3871 | 3281 | 1914 | 1371 | 1261 | 1185 | 1091 | 988 | 1062 | 1052 | 910 | 842 | 664 | 534 | 589 | 572 | 540 | 552 | 528 |
| c | c | 91214 | 257.7 | 49 | 4.1e-30 | 1.6e-29 | 28.78 | 4 | 577 | 586 | 590 | 624 | 672 | 661 | 744 | 763 | 820 | 874 | 886 | 981 | 1104 | 1168 | 1228 | 1321 | 1617 | 2584 | 3350 | 3826 | 4041 | 4145 | 3910 | 3690 | 3768 | 4050 | 4192 | 4184 | 4129 | 3933 | 3796 | 3598 | 3119 | 1837 | 1299 | 1216 | 1165 | 1002 | 976 | 924 | 913 | 904 | 861 | 815 | 691 | 651 | 619 | 603 | 626 | 581 |
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