position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/01/20/peak-motifs.2025-01-20.102316_2025-01-20.102316_0UnV3d/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 cficifolia -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/01/20/peak-motifs.2025-01-20.102316_2025-01-20.102316_0UnV3d/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/2025/01/20/peak-motifs.2025-01-20.102316_2025-01-20.102316_0UnV3d/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/01/20/peak-motifs.2025-01-20.102316_2025-01-20.102316_0UnV3d/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 1007 Sum of sequence lengths 918450 Min sequence length 0 Max sequence length 1000 Average sequence length 912 Possible positions 918450 Oligonucleotide statistics: Total occurrences 442406 Position interval parameters: Position interval 20 Number of windows 50 Total positions 918450 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] -489.5 855 17050 2 -24 [-479,-460] -469.5 856 17106 3 -23 [-459,-440] -449.5 861 17173 4 -22 [-439,-420] -429.5 868 17299 5 -21 [-419,-400] -409.5 874 17428 6 -20 [-399,-380] -389.5 878 17535 7 -19 [-379,-360] -369.5 879 17570 8 -18 [-359,-340] -349.5 892 17717 9 -17 [-339,-320] -329.5 895 17874 10 -16 [-319,-300] -309.5 903 17996 11 -15 [-299,-280] -289.5 908 18115 12 -14 [-279,-260] -269.5 913 18243 13 -13 [-259,-240] -249.5 914 18270 14 -12 [-239,-220] -229.5 917 18311 15 -11 [-219,-200] -209.5 923 18428 16 -10 [-199,-180] -189.5 927 18502 17 -9 [-179,-160] -169.5 934 18612 18 -8 [-159,-140] -149.5 953 18854 19 -7 [-139,-120] -129.5 955 19085 20 -6 [-119,-100] -109.5 960 19155 21 -5 [-99,-80] -89.5 969 19273 22 -4 [-79,-60] -69.5 981 19524 23 -3 [-59,-40] -49.5 1007 19898 24 -2 [-39,-20] -29.5 1007 20140 25 -1 [-19,0] -9.5 1007 20140 26 0 [1,20] 10.5 1007 20140 27 1 [21,40] 30.5 1007 20140 28 2 [41,60] 50.5 1007 19876 29 3 [61,80] 70.5 980 19514 30 4 [81,100] 90.5 969 19263 31 5 [101,120] 110.5 960 19150 32 6 [121,140] 130.5 955 19083 33 7 [141,160] 150.5 953 18836 34 8 [161,180] 170.5 934 18606 35 9 [181,200] 190.5 927 18498 36 10 [201,220] 210.5 923 18426 37 11 [221,240] 230.5 917 18309 38 12 [241,260] 250.5 914 18269 39 13 [261,280] 270.5 913 18237 40 14 [281,300] 290.5 908 18110 41 15 [301,320] 310.5 903 17989 42 16 [321,340] 330.5 895 17872 43 17 [341,360] 350.5 892 17702 44 18 [361,380] 370.5 879 17568 45 19 [381,400] 390.5 877 17530 46 20 [401,420] 410.5 874 17422 47 21 [421,440] 430.5 868 17293 48 22 [441,460] 450.5 861 17166 49 23 [461,480] 470.5 856 17106 50 24 [481,500] 490.5 855 17047 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| a | a | 139328 | 198.5 | 49 | 6.8e-20 | 2.7e-19 | 18.56 | 1 | 3003 | 2677 | 2698 | 2613 | 2706 | 2680 | 2611 | 2715 | 2750 | 2722 | 2709 | 2733 | 2737 | 2743 | 2745 | 2870 | 2906 | 2984 | 3021 | 2937 | 2904 | 2914 | 2973 | 3036 | 2999 | 3084 | 3052 | 2967 | 2913 | 2925 | 2879 | 2826 | 2689 | 2650 | 2730 | 2585 | 2715 | 2689 | 2689 | 2730 | 2773 | 2724 | 2622 | 2556 | 2579 | 2604 | 2620 | 2740 | 2750 | 2851 |
| t | t | 135414 | 179.9 | 49 | 7.6e-17 | 3e-16 | 15.52 | 2 | 2867 | 2671 | 2577 | 2656 | 2568 | 2513 | 2521 | 2515 | 2591 | 2638 | 2634 | 2673 | 2704 | 2710 | 2721 | 2690 | 2718 | 2737 | 2677 | 2721 | 2788 | 2985 | 2933 | 3046 | 3112 | 2997 | 2957 | 2966 | 2895 | 2798 | 2872 | 2824 | 2783 | 2701 | 2642 | 2713 | 2530 | 2560 | 2597 | 2582 | 2586 | 2694 | 2550 | 2609 | 2560 | 2600 | 2555 | 2466 | 2560 | 2851 |
| c | c | 82695 | 124.8 | 49 | 1.5e-08 | 6.1e-08 | 7.21 | 3 | 1815 | 1561 | 1555 | 1593 | 1540 | 1518 | 1542 | 1565 | 1553 | 1564 | 1624 | 1574 | 1582 | 1617 | 1748 | 1660 | 1684 | 1689 | 1742 | 1728 | 1730 | 1755 | 1907 | 1859 | 1836 | 1784 | 1839 | 1840 | 1819 | 1779 | 1738 | 1787 | 1702 | 1672 | 1636 | 1665 | 1626 | 1596 | 1603 | 1588 | 1580 | 1529 | 1531 | 1494 | 1548 | 1499 | 1588 | 1535 | 1497 | 1679 |
| g | g | 84969 | 124.4 | 49 | 1.7e-08 | 7e-08 | 7.16 | 4 | 1804 | 1668 | 1601 | 1602 | 1619 | 1634 | 1594 | 1634 | 1627 | 1633 | 1571 | 1649 | 1734 | 1740 | 1628 | 1721 | 1767 | 1821 | 1828 | 1774 | 1797 | 1890 | 1918 | 1848 | 1777 | 1855 | 1914 | 1849 | 1829 | 1727 | 1700 | 1727 | 1736 | 1748 | 1699 | 1681 | 1622 | 1642 | 1630 | 1660 | 1633 | 1616 | 1612 | 1514 | 1567 | 1598 | 1583 | 1580 | 1582 | 1786 |
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