position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/12/18/peak-motifs.2025-12-18.224716_2025-12-18.224716_XiuaJ3/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 Top_10%_Promotor -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/12/18/peak-motifs.2025-12-18.224716_2025-12-18.224716_XiuaJ3/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/2025/12/18/peak-motifs.2025-12-18.224716_2025-12-18.224716_XiuaJ3/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/12/18/peak-motifs.2025-12-18.224716_2025-12-18.224716_XiuaJ3/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 473 Sum of sequence lengths 272409 Min sequence length 0 Max sequence length 1000 Average sequence length 575 Possible positions 272409 Oligonucleotide statistics: Total occurrences 264410 Position interval parameters: Position interval 20 Number of windows 50 Total positions 272409 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 86 1630 2 -24 [-479,-460] -469.5 95 1787 3 -23 [-459,-440] -449.5 107 2017 4 -22 [-439,-420] -429.5 116 2259 5 -21 [-419,-400] -409.5 120 2376 6 -20 [-399,-380] -389.5 134 2534 7 -19 [-379,-360] -369.5 147 2765 8 -18 [-359,-340] -349.5 158 3036 9 -17 [-339,-320] -329.5 177 3364 10 -16 [-319,-300] -309.5 199 3807 11 -15 [-299,-280] -289.5 223 4194 12 -14 [-279,-260] -269.5 242 4685 13 -13 [-259,-240] -249.5 261 5075 14 -12 [-239,-220] -229.5 289 5532 15 -11 [-219,-200] -209.5 312 6044 16 -10 [-199,-180] -189.5 337 6513 17 -9 [-179,-160] -169.5 362 6990 18 -8 [-159,-140] -149.5 386 7456 19 -7 [-139,-120] -129.5 425 8153 20 -6 [-119,-100] -109.5 465 8947 21 -5 [-99,-80] -89.5 473 9403 22 -4 [-79,-60] -69.5 473 9460 23 -3 [-59,-40] -49.5 473 9460 24 -2 [-39,-20] -29.5 473 9460 25 -1 [-19,0] -9.5 473 9460 26 0 [1,20] 10.5 473 9460 27 1 [21,40] 30.5 473 9460 28 2 [41,60] 50.5 473 9460 29 3 [61,80] 70.5 473 9460 30 4 [81,100] 90.5 472 9395 31 5 [101,120] 110.5 465 8912 32 6 [121,140] 130.5 422 8115 33 7 [141,160] 150.5 384 7433 34 8 [161,180] 170.5 361 6962 35 9 [181,200] 190.5 336 6488 36 10 [201,220] 210.5 312 6023 37 11 [221,240] 230.5 288 5499 38 12 [241,260] 250.5 261 5056 39 13 [261,280] 270.5 241 4665 40 14 [281,300] 290.5 218 4165 41 15 [301,320] 310.5 198 3788 42 16 [321,340] 330.5 175 3346 43 17 [341,360] 350.5 158 3027 44 18 [361,380] 370.5 146 2750 45 19 [381,400] 390.5 132 2519 46 20 [401,420] 410.5 120 2371 47 21 [421,440] 430.5 116 2251 48 22 [441,460] 450.5 107 2006 49 23 [461,480] 470.5 94 1777 50 24 [481,500] 490.5 86 1614 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 | 58282 | 104.1 | 49 | 7.6e-06 | 3e-05 | 4.52 | 1 | 372 | 482 | 470 | 523 | 518 | 539 | 634 | 710 | 765 | 824 | 938 | 1017 | 1067 | 1172 | 1301 | 1423 | 1506 | 1563 | 1750 | 1980 | 2073 | 2033 | 2066 | 1993 | 2087 | 2077 | 1988 | 2069 | 2002 | 2080 | 1851 | 1672 | 1586 | 1461 | 1376 | 1255 | 1115 | 997 | 949 | 865 | 774 | 687 | 572 | 565 | 492 | 495 | 456 | 410 | 347 | 335 |
| g | g | 74413 | 84.8 | 49 | 1.1e-03 | 0.0045 | 2.34 | 2 | 420 | 454 | 555 | 575 | 586 | 651 | 679 | 785 | 863 | 1056 | 1083 | 1316 | 1470 | 1541 | 1667 | 1913 | 1972 | 2106 | 2287 | 2499 | 2664 | 2554 | 2591 | 2614 | 2589 | 2601 | 2598 | 2529 | 2565 | 2575 | 2447 | 2195 | 2107 | 1921 | 1718 | 1689 | 1456 | 1310 | 1198 | 1113 | 1027 | 881 | 815 | 753 | 661 | 635 | 604 | 573 | 516 | 436 |
| t | t | 57511 | 74.9 | 49 | 1.0e-02 | 0.04 | 1.40 | 3 | 390 | 365 | 406 | 489 | 500 | 565 | 615 | 640 | 703 | 782 | 834 | 908 | 977 | 1152 | 1223 | 1336 | 1511 | 1569 | 1774 | 1905 | 2007 | 2057 | 1959 | 1950 | 2067 | 2010 | 2023 | 2035 | 2022 | 1923 | 1879 | 1753 | 1532 | 1457 | 1421 | 1231 | 1232 | 1103 | 1011 | 897 | 800 | 709 | 658 | 540 | 541 | 501 | 457 | 359 | 360 | 373 |
| c | c | 74204 | 69.2 | 49 | 3.0e-02 | 0.12 | 0.92 | 4 | 448 | 470 | 526 | 573 | 639 | 656 | 715 | 781 | 910 | 989 | 1139 | 1264 | 1371 | 1503 | 1689 | 1659 | 1843 | 2048 | 2170 | 2388 | 2445 | 2538 | 2520 | 2592 | 2485 | 2567 | 2601 | 2562 | 2601 | 2562 | 2508 | 2322 | 2046 | 1984 | 1848 | 1702 | 1532 | 1439 | 1311 | 1150 | 1066 | 914 | 840 | 789 | 725 | 640 | 643 | 551 | 479 | 461 |
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