position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/03/20/peak-motifs.2025-03-20.143238_2025-03-20.143238_XEBOsR/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 test1 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/03/20/peak-motifs.2025-03-20.143238_2025-03-20.143238_XEBOsR/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/2025/03/20/peak-motifs.2025-03-20.143238_2025-03-20.143238_XEBOsR/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/03/20/peak-motifs.2025-03-20.143238_2025-03-20.143238_XEBOsR/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 192 Sum of sequence lengths 69583 Min sequence length 0 Max sequence length 1000 Average sequence length 362 Possible positions 69583 Oligonucleotide statistics: Total occurrences 68743 Position interval parameters: Position interval 20 Number of windows 50 Total positions 69583 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 9 180 2 -24 [-479,-460] -469.5 9 180 3 -23 [-459,-440] -449.5 11 202 4 -22 [-439,-420] -429.5 13 232 5 -21 [-419,-400] -409.5 16 263 6 -20 [-399,-380] -389.5 16 320 7 -19 [-379,-360] -369.5 20 384 8 -18 [-359,-340] -349.5 24 444 9 -17 [-339,-320] -329.5 28 504 10 -16 [-319,-300] -309.5 36 568 11 -15 [-299,-280] -289.5 36 720 12 -14 [-279,-260] -269.5 42 816 13 -13 [-259,-240] -249.5 45 873 14 -12 [-239,-220] -229.5 53 948 15 -11 [-219,-200] -209.5 60 1067 16 -10 [-199,-180] -189.5 60 1200 17 -9 [-179,-160] -169.5 74 1424 18 -8 [-159,-140] -149.5 94 1700 19 -7 [-139,-120] -129.5 120 2036 20 -6 [-119,-100] -109.5 158 2438 21 -5 [-99,-80] -89.5 158 3160 22 -4 [-79,-60] -69.5 192 3704 23 -3 [-59,-40] -49.5 192 3840 24 -2 [-39,-20] -29.5 192 3840 25 -1 [-19,0] -9.5 192 3840 26 0 [1,20] 10.5 192 3840 27 1 [21,40] 30.5 192 3840 28 2 [41,60] 50.5 192 3840 29 3 [61,80] 70.5 192 3670 30 4 [81,100] 90.5 158 3160 31 5 [101,120] 110.5 120 2400 32 6 [121,140] 130.5 120 2010 33 7 [141,160] 150.5 94 1680 34 8 [161,180] 170.5 74 1410 35 9 [181,200] 190.5 60 1200 36 10 [201,220] 210.5 53 1060 37 11 [221,240] 230.5 53 940 38 12 [241,260] 250.5 45 870 39 13 [261,280] 270.5 42 810 40 14 [281,300] 290.5 36 720 41 15 [301,320] 310.5 28 560 42 16 [321,340] 330.5 28 500 43 17 [341,360] 350.5 24 440 44 18 [361,380] 370.5 20 380 45 19 [381,400] 390.5 16 320 46 20 [401,420] 410.5 13 260 47 21 [421,440] 430.5 13 230 48 22 [441,460] 450.5 11 200 49 23 [461,480] 470.5 9 180 50 24 [481,500] 490.5 9 180 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| g | g | 13073 | 55.0 | 49 | 2.6e-01 | 1 | -0.01 | 1 | 30 | 27 | 49 | 60 | 57 | 57 | 81 | 80 | 103 | 96 | 132 | 150 | 161 | 162 | 226 | 219 | 240 | 282 | 387 | 449 | 596 | 704 | 712 | 705 | 694 | 736 | 717 | 702 | 710 | 613 | 488 | 363 | 319 | 254 | 228 | 190 | 201 | 165 | 147 | 149 | 114 | 116 | 77 | 76 | 52 | 60 | 35 | 32 | 39 | 31 |
| t | t | 22036 | 51.2 | 49 | 3.9e-01 | 1.6 | -0.19 | 2 | 50 | 57 | 67 | 80 | 63 | 97 | 115 | 131 | 156 | 193 | 210 | 244 | 270 | 306 | 339 | 368 | 466 | 581 | 691 | 810 | 973 | 1068 | 1216 | 1255 | 1247 | 1228 | 1196 | 1247 | 1097 | 953 | 764 | 677 | 541 | 466 | 395 | 320 | 310 | 282 | 266 | 229 | 172 | 155 | 149 | 121 | 102 | 78 | 58 | 61 | 53 | 63 |
| a | a | 20626 | 50.6 | 49 | 4.1e-01 | 1.6 | -0.21 | 3 | 59 | 62 | 53 | 53 | 94 | 110 | 117 | 137 | 150 | 157 | 221 | 252 | 271 | 282 | 297 | 393 | 453 | 526 | 611 | 722 | 967 | 1137 | 1141 | 1094 | 1177 | 1112 | 1127 | 1090 | 1074 | 939 | 694 | 593 | 504 | 416 | 347 | 319 | 266 | 235 | 215 | 190 | 171 | 132 | 125 | 112 | 98 | 78 | 89 | 67 | 46 | 51 |
| c | c | 13008 | 46.6 | 49 | 5.7e-01 | 2.3 | -0.36 | 4 | 41 | 34 | 33 | 39 | 49 | 56 | 71 | 96 | 95 | 122 | 157 | 170 | 171 | 198 | 205 | 220 | 265 | 311 | 347 | 453 | 584 | 735 | 725 | 752 | 694 | 696 | 685 | 688 | 688 | 569 | 414 | 354 | 296 | 269 | 230 | 231 | 163 | 171 | 162 | 132 | 103 | 97 | 89 | 71 | 68 | 44 | 48 | 40 | 42 | 35 |
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