; position-analysis -v 1 -i $RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/data/sequences/peak-motifs_test_maxlen400_purged_ml30_mis0.fasta -format fasta -sort -return html,chi,sig,distrib,graphs,rank,index -max_graphs 20 -1str -ovlp -seqtype dna -l 2 -ci 20 -img_format png -title CEBPa_ChIP-seq_in_dog_liver_test_parameters -origin center -o $RSAT/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab ; Citation: van Helden, et al. (2000). Nucleic Acids Res 28, 1000-1010. ; Sequence file /home/rsat/rsat/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/data/sequences/peak-motifs_test_maxlen400_purged_ml30_mis0.fasta ; Sequence format fasta ; Sequence type dna ; Output file /home/rsat/rsat/public_html/tmp/wwwrun/2014/09/03/peak-motifs.2014-09-03.182940_2014-09-03.182940_LkVj4M/results/composition/peak-motifs_test_profiles-1str-ovlp_2nt_ci20.tab ; Oligo length 2 ; Occurrences counted on a single strands ; Background model estimation: homogeneous repartition ; Sequence statistics: ; Nb of sequences 43038 ; Sum of sequence lengths 10681503 ; Min sequence length 0 ; Max sequence length 400 ; Average sequence length 248 ; Possible positions 10638465 ; Oligonucleotide statistics: ; Total occurrences 10541553 ; Position interval parameters: ; Position interval 20 ; Number of windows 20 ; Total positions 10638465 ; Degrees of freedom 19 ; K-mer clustering parameters: ; Number of clusters 0 ; Clustering method complete ; Position intervals: ; window [min,max] mid seq occ ; 1 -10 [-199,-180] -189.5 7263 112011 ; 2 -9 [-179,-160] -169.5 11516 189579 ; 3 -8 [-159,-140] -149.5 16242 281091 ; 4 -7 [-139,-120] -129.5 21130 376271 ; 5 -6 [-119,-100] -109.5 26913 483072 ; 6 -5 [-99,-80] -89.5 34107 615699 ; 7 -4 [-79,-60] -69.5 40202 752309 ; 8 -3 [-59,-40] -49.5 42438 833872 ; 9 -2 [-39,-20] -29.5 43038 855666 ; 10 -1 [-19,0] -9.5 43038 860760 ; 11 0 [1,20] 10.5 43038 860760 ; 12 1 [21,40] 30.5 43038 854428 ; 13 2 [41,60] 50.5 42373 829253 ; 14 3 [61,80] 70.5 39846 740043 ; 15 4 [81,100] 90.5 33538 601385 ; 16 5 [101,120] 110.5 26461 471542 ; 17 6 [121,140] 130.5 20755 366414 ; 18 7 [141,160] 150.5 15859 271693 ; 19 8 [161,180] 170.5 11185 181073 ; 20 9 [181,200] 190.5 6972 101544 ; ; 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 -189.5 occurrences in window 1 [-199,-180] ; 11 -169.5 occurrences in window 2 [-179,-160] ; 12 -149.5 occurrences in window 3 [-159,-140] ; 13 -129.5 occurrences in window 4 [-139,-120] ; 14 -109.5 occurrences in window 5 [-119,-100] ; 15 -89.5 occurrences in window 6 [-99,-80] ; 16 -69.5 occurrences in window 7 [-79,-60] ; 17 -49.5 occurrences in window 8 [-59,-40] ; 18 -29.5 occurrences in window 9 [-39,-20] ; 19 -9.5 occurrences in window 10 [-19,0] ; 20 10.5 occurrences in window 11 [1,20] ; 21 30.5 occurrences in window 12 [21,40] ; 22 50.5 occurrences in window 13 [41,60] ; 23 70.5 occurrences in window 14 [61,80] ; 24 90.5 occurrences in window 15 [81,100] ; 25 110.5 occurrences in window 16 [101,120] ; 26 130.5 occurrences in window 17 [121,140] ; 27 150.5 occurrences in window 18 [141,160] ; 28 170.5 occurrences in window 19 [161,180] ; 29 190.5 occurrences in window 20 [181,200] #seq id occ chi2 df Pval Eval sig rank -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 ca ca 798037 1770.0 19 0.0e+00 0 300 1 7954 13682 20211 26527 34272 44350 55206 63497 66885 68999 69324 67483 63157 54384 43377 33583 26077 19131 12703 7235 tg tg 800050 1700.7 19 0.0e+00 0 300 2 7828 13459 19729 26730 34617 44750 56029 64120 67968 69297 68759 66777 62762 54570 43560 33740 25910 19305 12830 7310 ta ta 604352 1481.0 19 0.0e+00 0 300 3 6880 11714 17055 22473 28852 36098 43220 46562 46335 45114 45293 46353 46892 42491 35152 28006 22119 16424 11135 6184 aa aa 999220 878.2 19 0.0e+00 0 300 4 11234 18855 28319 37119 46692 59012 70695 76873 77203 77305 78574 78893 78260 69770 56884 44750 35256 25899 17827 9800 gc gc 492361 793.9 19 0.0e+00 0 300 5 4773 8198 12194 16612 21486 27928 34470 39076 41232 42298 41835 41308 38384 34058 27296 20991 16148 11911 7726 4437 tt tt 1003403 739.1 19 0.0e+00 0 300 6 10932 17946 26927 36117 46380 58964 71638 78497 78962 78655 77304 78015 77585 70561 58059 46536 35819 26402 17950 10154 gg gg 567690 737.9 19 0.0e+00 0 300 7 5885 9962 15119 20792 26633 33724 40829 44409 43910 43098 43508 44163 44271 40409 33353 26209 20613 15213 10126 5464 ac ac 555122 649.2 19 0.0e+00 0 300 8 5520 9668 14115 18816 24441 31275 38735 44284 46180 46339 47040 46479 44293 38158 30627 23647 18345 13196 8930 5034 gt gt 556161 591.4 19 0.0e+00 0 300 9 5512 9471 13893 18720 24254 31690 39661 44848 46635 46793 46466 45755 43668 38344 30558 23919 18258 13613 9015 5088 cc cc 568479 556.6 19 0.0e+00 0 300 10 6155 10541 15695 20987 26614 34200 41045 44685 44384 44004 43207 44652 43904 40405 32873 25593 19714 14842 9550 5429 ag ag 744305 354.5 19 1.2e-63 1.9e-62 61.72 11 7956 13297 19853 26819 34477 43846 53793 58501 58758 57461 58131 59021 57882 52471 42803 33465 26176 19318 12938 7339 ct ct 747439 319.9 19 1.7e-56 2.7e-55 54.57 12 7984 13449 19861 26966 34326 43915 53150 58547 59219 58236 57874 59528 58701 53031 43223 33946 26076 19354 12786 7267 ga ga 623977 215.2 19 3.1e-35 5e-34 33.30 13 6719 11195 16668 22598 29142 36376 44719 49001 49488 48476 49340 49387 48547 43692 35766 27769 21721 16243 10917 6213 at at 726983 210.9 19 2.3e-34 3.7e-33 32.43 14 8136 13636 19875 26036 33398 41588 50875 56195 57792 58712 58845 57640 56606 49806 40830 32319 25373 19239 12891 7191 tc tc 625699 179.4 19 4.0e-28 6.4e-27 26.19 15 6900 11408 16837 22358 28548 36463 44321 48759 49521 49450 49012 49674 49152 44101 35846 28387 21737 16425 10766 6034 cg cg 128275 172.2 19 1.0e-26 1.7e-25 24.78 16 1208 2127 3203 4357 5804 7435 9044 10230 10530 10842 10810 10539 10026 9009 7276 5523 4247 3084 1921 1060 ; Host name rsat ; Job started 2014-09-03.183216 ; Job done 2014-09-03.183442 ; Seconds 145.88 ; user 145.88 ; system 0.02 ; cuser 0 ; csystem 0