; position-analysis -v 1 -i $RSAT/public_html/tmp/apache/2014/09/06/peak-motifs.2014-09-06.011249_2014-09-06.011249_H1RYPN/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 6 -ci 50 -lth_occ 1 -lth_sig 0 -uth_rank 100 -img_format png -title ChIP-seq_FNR_E._coli_tunned_parameters_dyad_summits_50bps -origin center -max_graphs 20 -o $RSAT/public_html/tmp/apache/2014/09/06/peak-motifs.2014-09-06.011249_2014-09-06.011249_H1RYPN/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab ; Citation: van Helden, et al. (2000). Nucleic Acids Res 28, 1000-1010. ; Sequence file /vh/rsat/rsat/public_html/tmp/apache/2014/09/06/peak-motifs.2014-09-06.011249_2014-09-06.011249_H1RYPN/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/2014/09/06/peak-motifs.2014-09-06.011249_2014-09-06.011249_H1RYPN/results/positions_6nt/peak-motifs_positions-2str-noov_6nt_ci50.tab ; Oligo length 6 ; 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 11009 ; Min sequence length 0 ; Max sequence length 101 ; Average sequence length 101 ; Possible positions 20928 ; Oligonucleotide statistics: ; Total occurrences 10437 ; Total overlaps 27 ; Position interval parameters: ; Position interval 50 ; Number of windows 3 ; Total positions 10464 ; Degrees of freedom 2 ; K-mer clustering parameters: ; Number of clusters 0 ; Clustering method complete ; Position intervals: ; window [min,max] mid seq occ ; 1 -2 [-99,-50] -74.5 109 109 ; 2 -1 [-49,0] -24.5 109 5450 ; 3 0 [1,50] 25.5 109 4905 ; ; 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 -74.5 occurrences in window 1 [-99,-50] ; 12 -24.5 occurrences in window 2 [-49,0] ; 13 25.5 occurrences in window 3 [1,50] #seq id occ over chi2 df Pval Eval sig rank -74.5 -24.5 25.5 ; Host name biow ; Job started 2014-09-06.011335 ; Job done 2014-09-06.011335 ; Seconds 0.95 ; user 0.95 ; system 0.03 ; cuser 0 ; csystem 0