position-analysis -v 1 -i $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.171454_2025-04-13.171454_sCyCBp/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 VENE_df2 -origin center -offset 0 -o $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.171454_2025-04-13.171454_sCyCBp/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/2025/04/13/peak-motifs.2025-04-13.171454_2025-04-13.171454_sCyCBp/data/sequences/peak-motifs_test_maxlen1000_purged_ml40_mis3.fasta Sequence format fasta Sequence type dna Output file $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.171454_2025-04-13.171454_sCyCBp/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 159 Sum of sequence lengths 66485 Min sequence length 0 Max sequence length 1000 Average sequence length 418 Possible positions 66485 Oligonucleotide statistics: Total occurrences 63400 Position interval parameters: Position interval 20 Number of windows 50 Total positions 66485 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 19 378 2 -24 [-479,-460] -469.5 21 414 3 -23 [-459,-440] -449.5 23 444 4 -22 [-439,-420] -429.5 24 475 5 -21 [-419,-400] -409.5 25 486 6 -20 [-399,-380] -389.5 25 500 7 -19 [-379,-360] -369.5 26 510 8 -18 [-359,-340] -349.5 27 540 9 -17 [-339,-320] -329.5 29 552 10 -16 [-319,-300] -309.5 30 592 11 -15 [-299,-280] -289.5 33 641 12 -14 [-279,-260] -269.5 35 685 13 -13 [-259,-240] -249.5 41 774 14 -12 [-239,-220] -229.5 46 877 15 -11 [-219,-200] -209.5 53 977 16 -10 [-199,-180] -189.5 59 1121 17 -9 [-179,-160] -169.5 75 1311 18 -8 [-159,-140] -149.5 90 1692 19 -7 [-139,-120] -129.5 111 1971 20 -6 [-119,-100] -109.5 144 2534 21 -5 [-99,-80] -89.5 159 3118 22 -4 [-79,-60] -69.5 159 3180 23 -3 [-59,-40] -49.5 159 3180 24 -2 [-39,-20] -29.5 159 3180 25 -1 [-19,0] -9.5 159 3180 26 0 [1,20] 10.5 159 3180 27 1 [21,40] 30.5 159 3180 28 2 [41,60] 50.5 159 3180 29 3 [61,80] 70.5 159 3180 30 4 [81,100] 90.5 159 3105 31 5 [101,120] 110.5 139 2501 32 6 [121,140] 130.5 110 1950 33 7 [141,160] 150.5 90 1679 34 8 [161,180] 170.5 73 1296 35 9 [181,200] 190.5 59 1117 36 10 [201,220] 210.5 53 966 37 11 [221,240] 230.5 46 871 38 12 [241,260] 250.5 41 769 39 13 [261,280] 270.5 35 682 40 14 [281,300] 290.5 33 638 41 15 [301,320] 310.5 30 590 42 16 [321,340] 330.5 29 552 43 17 [341,360] 350.5 27 539 44 18 [361,380] 370.5 26 508 45 19 [381,400] 390.5 25 500 46 20 [401,420] 410.5 25 484 47 21 [421,440] 430.5 24 474 48 22 [441,460] 450.5 23 443 49 23 [461,480] 470.5 21 411 50 24 [481,500] 490.5 19 378 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 | 19335 | 134.1 | 49 | 7.6e-10 | 3.1e-09 | 8.52 | 1 | 93 | 98 | 107 | 114 | 135 | 120 | 146 | 155 | 154 | 162 | 180 | 201 | 207 | 250 | 298 | 371 | 415 | 548 | 636 | 865 | 967 | 992 | 966 | 887 | 877 | 876 | 904 | 911 | 952 | 946 | 717 | 576 | 501 | 388 | 329 | 289 | 242 | 212 | 196 | 162 | 137 | 142 | 133 | 111 | 120 | 118 | 109 | 117 | 109 | 94 |
| t | t | 11921 | 109.7 | 49 | 1.5e-06 | 6.2e-06 | 5.21 | 2 | 53 | 66 | 58 | 97 | 80 | 90 | 79 | 82 | 96 | 110 | 106 | 120 | 103 | 159 | 165 | 197 | 241 | 291 | 336 | 456 | 561 | 568 | 610 | 636 | 644 | 682 | 613 | 625 | 596 | 511 | 446 | 326 | 281 | 227 | 180 | 152 | 150 | 126 | 114 | 106 | 91 | 93 | 83 | 90 | 79 | 88 | 75 | 58 | 59 | 66 |
| a | a | 11995 | 92.5 | 49 | 1.7e-04 | 0.00069 | 3.16 | 3 | 63 | 69 | 69 | 77 | 75 | 80 | 94 | 96 | 88 | 97 | 111 | 101 | 152 | 155 | 153 | 178 | 214 | 281 | 354 | 407 | 548 | 577 | 602 | 649 | 648 | 660 | 652 | 599 | 564 | 569 | 447 | 334 | 311 | 208 | 203 | 164 | 134 | 117 | 114 | 111 | 113 | 96 | 104 | 100 | 79 | 83 | 82 | 76 | 75 | 62 |
| c | c | 20149 | 54.0 | 49 | 2.9e-01 | 1.2 | -0.06 | 4 | 109 | 121 | 150 | 134 | 143 | 150 | 131 | 147 | 171 | 183 | 204 | 223 | 272 | 273 | 321 | 335 | 401 | 532 | 606 | 773 | 963 | 966 | 942 | 939 | 931 | 882 | 931 | 963 | 968 | 979 | 801 | 645 | 526 | 413 | 345 | 301 | 267 | 232 | 178 | 179 | 171 | 161 | 159 | 147 | 162 | 135 | 148 | 132 | 108 | 96 |
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