; position-analysis -v 1 -i $RSAT/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.202657_2014-09-05.202657_8OTbPR/data/sequences/peak-motifs_test_maxlen1000_purged_ml30_mis0.fasta -format fasta -sort -return html,chi,sig,distrib,exp_occ,graphs,rank,index -max_graphs 100 -2str -noov -seqtype dna -l 7 -ci 50 -lth_occ 1 -lth_sig 0 -uth_rank 100 -img_format png -title ChIP-seq_FNR_E._coli_tunned_parameters_dyad -origin center -max_graphs 20 -o $RSAT/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.202657_2014-09-05.202657_8OTbPR/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab ; Citation: van Helden, et al. (2000). Nucleic Acids Res 28, 1000-1010. ; Sequence file /vh/rsat/rsat/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.202657_2014-09-05.202657_8OTbPR/data/sequences/peak-motifs_test_maxlen1000_purged_ml30_mis0.fasta ; Sequence format fasta ; Sequence type dna ; Output file /vh/rsat/rsat/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.202657_2014-09-05.202657_8OTbPR/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab ; Oligo length 7 ; Lower threshold on occurrences 1 ; Occurrences counted on both strands ; Grouping reverse complements ; Background model estimation: homogeneous repartition ; Sequence statistics: ; Nb of sequences 109 ; Sum of sequence lengths 108923 ; Min sequence length 0 ; Max sequence length 1000 ; Average sequence length 999 ; Possible positions 216538 ; Oligonucleotide statistics: ; Total occurrences 107112 ; Total overlaps 84 ; Position interval parameters: ; Position interval 50 ; Number of windows 20 ; Total positions 108269 ; 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 [-499,-450] -474.5 109 5412 ; 2 -9 [-449,-400] -424.5 109 5450 ; 3 -8 [-399,-350] -374.5 109 5450 ; 4 -7 [-349,-300] -324.5 109 5450 ; 5 -6 [-299,-250] -274.5 109 5450 ; 6 -5 [-249,-200] -224.5 109 5450 ; 7 -4 [-199,-150] -174.5 109 5450 ; 8 -3 [-149,-100] -124.5 109 5450 ; 9 -2 [-99,-50] -74.5 109 5450 ; 10 -1 [-49,0] -24.5 109 5450 ; 11 0 [1,50] 25.5 109 5450 ; 12 1 [51,100] 75.5 109 5450 ; 13 2 [101,150] 125.5 109 5450 ; 14 3 [151,200] 175.5 109 5450 ; 15 4 [201,250] 225.5 109 5450 ; 16 5 [251,300] 275.5 109 5450 ; 17 6 [301,350] 325.5 109 5450 ; 18 7 [351,400] 375.5 109 5450 ; 19 8 [401,450] 425.5 109 5450 ; 20 9 [451,500] 475.5 109 4757 ; ; Column headers ; 1 seq pattern sequence ; 2 id pattern identifier ; 3 occ pattern occurrences ; 4 over overlapping occurrences (discarded) ; 5 chi2 observed chi-square ; 6 df degrees of freedom ; 7 Pval P-value (probability for one word to be a false positive) ; 8 Eval E-value; expected number of false positives (Eval = Pval * nb_tests) ; 9 sig Significance (sig = -log10(Eval)) ; 10 rank rank of the pattern according to sorting criterion ; 11 -474.5 occurrences in window 1 [-499,-450] ; 12 -424.5 occurrences in window 2 [-449,-400] ; 13 -374.5 occurrences in window 3 [-399,-350] ; 14 -324.5 occurrences in window 4 [-349,-300] ; 15 -274.5 occurrences in window 5 [-299,-250] ; 16 -224.5 occurrences in window 6 [-249,-200] ; 17 -174.5 occurrences in window 7 [-199,-150] ; 18 -124.5 occurrences in window 8 [-149,-100] ; 19 -74.5 occurrences in window 9 [-99,-50] ; 20 -24.5 occurrences in window 10 [-49,0] ; 21 25.5 occurrences in window 11 [1,50] ; 22 75.5 occurrences in window 12 [51,100] ; 23 125.5 occurrences in window 13 [101,150] ; 24 175.5 occurrences in window 14 [151,200] ; 25 225.5 occurrences in window 15 [201,250] ; 26 275.5 occurrences in window 16 [251,300] ; 27 325.5 occurrences in window 17 [301,350] ; 28 375.5 occurrences in window 18 [351,400] ; 29 425.5 occurrences in window 19 [401,450] ; 30 475.5 occurrences in window 20 [451,500] #seq id occ over chi2 df Pval Eval sig rank -474.5 -424.5 -374.5 -324.5 -274.5 -224.5 -174.5 -124.5 -74.5 -24.5 25.5 75.5 125.5 175.5 225.5 275.5 325.5 375.5 425.5 475.5 attttaa attttaa|ttaaaat 21 0 50.7 16 1.7e-05 0.14 0.85 1 0 0 2 0 2 1 1 2 2 2 10 3 3 1 1 2 1 1 0 0 atttgtg atttgtg|cacaaat 11 0 49.5 15 1.4e-05 0.12 0.93 2 0 0 0 0 1 0 0 1 1 4 3 0 5 5 0 0 0 0 1 1 ctcaggc ctcaggc|gcctgag 6 0 49.3 9 1.5e-07 0.0012 2.92 3 1 0 0 0 1 0 0 1 0 0 0 0 0 5 2 0 0 0 0 0 aggggcc aggggcc|ggcccct 4 0 47.8 3 2.4e-10 1.9e-06 5.71 4 0 0 1 0 0 0 0 0 0 0 0 0 0 0 1 0 0 4 0 0 tgatcaa tgatcaa|ttgatca 11 0 46.8 16 7.4e-05 0.6 0.22 5 0 1 0 1 1 0 1 1 0 0 6 0 0 2 1 0 4 3 5 0 aagggaa aagggaa|ttccctt 7 0 45.6 14 3.3e-05 0.27 0.57 6 0 2 0 0 0 1 0 0 0 6 3 2 0 1 0 0 0 0 1 1 atcgtta atcgtta|taacgat 18 0 44.2 15 1.0e-04 0.82 0.09 7 0 2 0 0 0 3 0 0 2 1 7 0 0 3 1 0 1 1 1 1 aataccg aataccg|cggtatt 12 0 42.8 14 9.1e-05 0.74 0.13 8 3 0 2 0 0 0 1 1 0 0 0 1 0 2 0 1 1 1 7 0 atataag atataag|cttatat 1 0 42.0 5 5.9e-08 0.00047 3.32 9 0 0 0 0 0 1 0 0 0 0 0 0 1 0 1 0 4 0 0 0 aggcgca aggcgca|tgcgcct 12 0 41.5 13 7.9e-05 0.64 0.19 10 0 0 0 1 1 1 1 0 0 0 1 0 0 1 4 0 0 5 1 0 aacttgt aacttgt|acaagtt 6 0 41.2 10 1.0e-05 0.084 1.08 11 0 1 0 0 0 1 0 0 1 0 0 0 0 5 0 1 1 0 1 0 cccgggc cccgggc|gcccggg 4 0 38.1 8 7.2e-06 0.058 1.23 12 1 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 4 2 1 0 accaatg accaatg|cattggt 7 0 37.3 11 1.0e-04 0.82 0.09 13 0 0 1 0 0 0 0 0 0 0 0 0 0 0 5 1 1 1 0 3 atggggc atggggc|gccccat 5 0 36.8 8 1.2e-05 0.1 1.00 14 0 0 0 1 0 0 0 0 0 1 0 0 0 0 0 0 2 0 4 1 gcgacta gcgacta|tagtcgc 3 0 34.4 9 7.5e-05 0.61 0.22 15 0 0 1 0 0 0 0 1 0 0 1 0 2 1 0 0 0 4 0 0 agaatag agaatag|ctattct 5 0 33.7 8 4.6e-05 0.38 0.43 16 0 1 0 0 0 0 1 0 0 0 0 0 0 1 0 1 0 4 1 0 aagcttg aagcttg|caagctt 7 0 33.4 9 1.2e-04 0.93 0.03 17 0 0 0 0 2 0 0 0 0 0 0 0 1 4 0 0 2 0 0 1 cgagatc cgagatc|gatctcg 5 0 32.4 8 7.9e-05 0.64 0.20 18 0 0 0 0 0 2 0 0 0 0 0 4 0 0 0 1 0 1 0 1 cgaacca cgaacca|tggttcg 7 0 31.5 8 1.1e-04 0.93 0.03 19 1 0 1 0 0 1 0 0 1 0 0 1 0 0 0 0 0 0 4 0 ctccgtc ctccgtc|gacggag 3 0 31.5 8 1.1e-04 0.93 0.03 20 1 0 0 1 0 1 0 0 0 0 0 0 1 0 0 4 0 0 0 1 actcagc actcagc|gctgagt 4 0 31.5 8 1.1e-04 0.93 0.03 21 0 0 0 1 0 1 0 1 0 0 0 0 0 0 0 0 1 4 0 1 gatggga gatggga|tcccatc 8 0 31.5 8 1.1e-04 0.93 0.03 22 0 1 0 0 0 0 0 1 1 0 0 0 0 1 0 4 0 0 0 1 cactcca cactcca|tggagtg 2 0 27.9 3 3.8e-06 0.031 1.51 23 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 3 1 0 0 acctcat acctcat|atgaggt 3 0 27.9 3 3.8e-06 0.031 1.51 24 0 0 0 1 0 0 0 0 0 0 1 0 0 0 0 0 1 3 0 0 acgggta acgggta|tacccgt 1 0 25.6 3 1.2e-05 0.095 1.02 25 0 0 1 1 0 0 0 0 1 0 0 0 0 0 0 0 0 3 0 0 ctagcca ctagcca|tggctag 2 0 23.8 1 1.0e-06 0.0085 2.07 26 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 2 0 cgccggc cgccggc|gccggcg 3 0 21.3 3 9.2e-05 0.75 0.13 27 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 0 2 2 0 tcactag tcactag|ctagtga 1 0 18.9 1 1.4e-05 0.11 0.94 28 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 acctagc acctagc|gctaggt 1 0 18.9 1 1.4e-05 0.11 0.94 29 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 cgagctc cgagctc|gagctcg 1 0 18.9 1 1.4e-05 0.11 0.94 30 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 atagtcc atagtcc|ggactat 1 0 18.9 1 1.4e-05 0.11 0.94 31 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 tgctagt tgctagt|actagca 1 0 18.9 1 1.4e-05 0.11 0.94 32 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 cagccta cagccta|taggctg 1 0 18.9 1 1.4e-05 0.11 0.94 33 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 ctagtaa ctagtaa|ttactag 1 0 18.9 1 1.4e-05 0.11 0.94 34 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 ctagtta ctagtta|taactag 1 0 18.9 1 1.4e-05 0.11 0.94 35 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 gagctca gagctca|tgagctc 1 0 18.9 1 1.4e-05 0.11 0.94 36 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 ggctagc ggctagc|gctagcc 1 0 18.9 1 1.4e-05 0.11 0.94 37 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 aggagtc aggagtc|gactcct 1 0 18.9 1 1.4e-05 0.11 0.94 38 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 cctagcc cctagcc|ggctagg 1 0 18.9 1 1.4e-05 0.11 0.94 39 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 cctatta cctatta|taatagg 1 0 18.9 1 1.4e-05 0.11 0.94 40 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 cactagt cactagt|actagtg 1 0 18.9 1 1.4e-05 0.11 0.94 41 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 cccctag cccctag|ctagggg 1 0 18.9 1 1.4e-05 0.11 0.94 42 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 gcgtagg gcgtagg|cctacgc 1 0 18.9 1 1.4e-05 0.11 0.94 43 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 ccctagc ccctagc|gctaggg 1 0 18.9 1 1.4e-05 0.11 0.94 44 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 tggacta tggacta|tagtcca 1 0 18.9 1 1.4e-05 0.11 0.94 45 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 ccccccg ccccccg|cgggggg 1 0 18.9 1 1.4e-05 0.11 0.94 46 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 cctacta cctacta|tagtagg 1 0 18.9 1 1.4e-05 0.11 0.94 47 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 ; Host name biow ; Job started 2014-09-05.202818 ; Job done 2014-09-05.202830 ; Seconds 12.91 ; user 12.91 ; system 0.1 ; cuser 0 ; csystem 0