position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/05/27/peak-motifs.2025-05-27.150858_2025-05-27.150858_qN5T3u/data/sequences/peak-motifs_ctrl_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 MT-CNT-146 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/05/27/peak-motifs.2025-05-27.150858_2025-05-27.150858_qN5T3u/results/composition/peak-motifs_ctrl_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/2025/05/27/peak-motifs.2025-05-27.150858_2025-05-27.150858_qN5T3u/data/sequences/peak-motifs_ctrl_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/05/27/peak-motifs.2025-05-27.150858_2025-05-27.150858_qN5T3u/results/composition/peak-motifs_ctrl_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 698 Sum of sequence lengths 621822 Min sequence length 0 Max sequence length 1000 Average sequence length 890 Possible positions 621822 Oligonucleotide statistics: Total occurrences 604180 Position interval parameters: Position interval 20 Number of windows 50 Total positions 621822 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] -489.5 439 8588 2 -24 [-479,-460] -469.5 454 8887 3 -23 [-459,-440] -449.5 470 9300 4 -22 [-439,-420] -429.5 487 9539 5 -21 [-419,-400] -409.5 506 9969 6 -20 [-399,-380] -389.5 526 10326 7 -19 [-379,-360] -369.5 550 10747 8 -18 [-359,-340] -349.5 575 11290 9 -17 [-339,-320] -329.5 611 11832 10 -16 [-319,-300] -309.5 637 12490 11 -15 [-299,-280] -289.5 669 13109 12 -14 [-279,-260] -269.5 685 13566 13 -13 [-259,-240] -249.5 698 13894 14 -12 [-239,-220] -229.5 698 13960 15 -11 [-219,-200] -209.5 698 13960 16 -10 [-199,-180] -189.5 698 13960 17 -9 [-179,-160] -169.5 698 13960 18 -8 [-159,-140] -149.5 698 13960 19 -7 [-139,-120] -129.5 698 13960 20 -6 [-119,-100] -109.5 698 13960 21 -5 [-99,-80] -89.5 698 13960 22 -4 [-79,-60] -69.5 698 13960 23 -3 [-59,-40] -49.5 698 13960 24 -2 [-39,-20] -29.5 698 13960 25 -1 [-19,0] -9.5 698 13960 26 0 [1,20] 10.5 698 13960 27 1 [21,40] 30.5 698 13960 28 2 [41,60] 50.5 698 13960 29 3 [61,80] 70.5 698 13960 30 4 [81,100] 90.5 698 13960 31 5 [101,120] 110.5 698 13960 32 6 [121,140] 130.5 698 13960 33 7 [141,160] 150.5 698 13960 34 8 [161,180] 170.5 698 13960 35 9 [181,200] 190.5 698 13960 36 10 [201,220] 210.5 698 13960 37 11 [221,240] 230.5 698 13960 38 12 [241,260] 250.5 698 13884 39 13 [261,280] 270.5 684 13548 40 14 [281,300] 290.5 669 13075 41 15 [301,320] 310.5 635 12460 42 16 [321,340] 330.5 607 11790 43 17 [341,360] 350.5 574 11262 44 18 [361,380] 370.5 549 10725 45 19 [381,400] 390.5 525 10306 46 20 [401,420] 410.5 505 9945 47 21 [421,440] 430.5 485 9522 48 22 [441,460] 450.5 470 9285 49 23 [461,480] 470.5 453 8873 50 24 [481,500] 490.5 437 8570 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 | 235043 | 52.5 | 49 | 3.4e-01 | 1.4 | -0.13 | 1 | 3242 | 3292 | 3561 | 3695 | 3731 | 3897 | 4098 | 4274 | 4511 | 4731 | 5071 | 5148 | 5327 | 5286 | 5304 | 5356 | 5266 | 5318 | 5247 | 5244 | 5286 | 5244 | 5337 | 5186 | 5194 | 5175 | 5186 | 5235 | 5291 | 5283 | 5415 | 5395 | 5276 | 5199 | 5394 | 5043 | 5317 | 5385 | 5192 | 4833 | 4627 | 4400 | 4277 | 4090 | 3896 | 3689 | 3541 | 3523 | 3292 | 3243 |
| g | g | 68204 | 52.2 | 49 | 3.5e-01 | 1.4 | -0.15 | 2 | 964 | 1001 | 995 | 1015 | 1079 | 1165 | 1178 | 1187 | 1206 | 1377 | 1447 | 1490 | 1501 | 1556 | 1580 | 1524 | 1479 | 1591 | 1566 | 1460 | 1494 | 1529 | 1509 | 1563 | 1553 | 1582 | 1606 | 1495 | 1515 | 1533 | 1486 | 1530 | 1532 | 1575 | 1475 | 1560 | 1490 | 1523 | 1497 | 1408 | 1345 | 1337 | 1200 | 1240 | 1082 | 1095 | 1064 | 1019 | 1007 | 999 |
| c | c | 67772 | 43.5 | 49 | 7.0e-01 | 2.8 | -0.44 | 3 | 909 | 940 | 1028 | 1013 | 1110 | 1142 | 1171 | 1213 | 1284 | 1363 | 1402 | 1532 | 1539 | 1599 | 1574 | 1576 | 1550 | 1505 | 1512 | 1583 | 1458 | 1516 | 1494 | 1568 | 1509 | 1536 | 1543 | 1538 | 1492 | 1490 | 1525 | 1471 | 1468 | 1490 | 1555 | 1573 | 1490 | 1479 | 1485 | 1475 | 1318 | 1274 | 1215 | 1090 | 1166 | 1092 | 1041 | 1001 | 973 | 902 |
| t | t | 233161 | 39.1 | 49 | 8.4e-01 | 3.4 | -0.53 | 4 | 3355 | 3456 | 3461 | 3560 | 3814 | 3856 | 4019 | 4298 | 4494 | 4682 | 4922 | 5116 | 5221 | 5225 | 5193 | 5168 | 5294 | 5186 | 5198 | 5250 | 5332 | 5318 | 5249 | 5227 | 5253 | 5237 | 5192 | 5251 | 5226 | 5225 | 5134 | 5113 | 5218 | 5245 | 5041 | 5259 | 5181 | 5110 | 5008 | 4930 | 4729 | 4399 | 4245 | 4038 | 3889 | 3772 | 3624 | 3444 | 3301 | 3203 |
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