; matrix-scan -quick -v 1 -seq_format fasta -i $RSAT/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.194903_2014-09-05.194903_oebJl9/data/sequences/peak-motifs_test_maxlen1000.fasta -matrix_format transfac -m $RSAT/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.194903_2014-09-05.194903_oebJl9/results/discovered_motifs/positions_7nt_m4/peak-motifs_positions_7nt_m4.tf -bg_format inclusive -bgfile $RSAT/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.194903_2014-09-05.194903_oebJl9/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt -pseudo 1 -2str -decimals 1 -bg_pseudo 0.01 -n score -lth score 7.5 -origin center -return sites -o $RSAT/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.194903_2014-09-05.194903_oebJl9/results/discovered_motifs/positions_7nt_m4/peak-motifs_positions_7nt_m4_sites.tab ; Quick counting mode ; Input files ; input /vh/rsat/rsat/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.194903_2014-09-05.194903_oebJl9/data/sequences/peak-motifs_test_maxlen1000.fasta ; bg /vh/rsat/rsat/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.194903_2014-09-05.194903_oebJl9/results/composition/peak-motifs_test_inclusive-1str-ovlp_2nt.txt ; Matrix files ; matrix 1 /vh/rsat/rsat/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.194903_2014-09-05.194903_oebJl9/results/discovered_motifs/positions_7nt_m4/peak-motifs_positions_7nt_m4.tf ; Sequence format fasta ; Output files ; output /vh/rsat/rsat/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.194903_2014-09-05.194903_oebJl9/results/discovered_motifs/positions_7nt_m4/peak-motifs_positions_7nt_m4_sites.tab ; Pseudo counts 1 ; Background model ; Method file ; Markov order 1 ; Strand undef ; Background pseudo-frequency 0.01 ; Residue probabilities ; a 0.26267 ; c 0.23953 ; g 0.23490 ; t 0.26291 ; Thresholds lower upper ; score 7.5 NA ; Output columns ; 1 seq_id ; 2 ft_type ; 3 ft_name ; 4 strand ; 5 start ; 6 end ; 7 sequence ; 8 weight #seq_id ft_type ft_name strand start end sequence weight gi|49175990|ref|NC_000913.2|:280823-281963 site positions_7nt_m4 D -491 -478 GTCCTCGAGCCAGC 8.4 gi|49175990|ref|NC_000913.2|:695647-696755 site positions_7nt_m4 R -438 -425 GTACCCCAGCCAAT 11.5 gi|49175990|ref|NC_000913.2|:695647-696755 site positions_7nt_m4 R -224 -211 GTACCCCAGCCATC 14.0 gi|49175990|ref|NC_000913.2|:695647-696755 site positions_7nt_m4 R -115 -102 GTACCCCAGCCATC 14.0 gi|49175990|ref|NC_000913.2|:695647-696755 site positions_7nt_m4 D 145 158 GCTACGTAGCCATC 8.9 gi|49175990|ref|NC_000913.2|:695647-696755 site positions_7nt_m4 D 326 339 ACCCTACAGCCATT 8.0 gi|49175990|ref|NC_000913.2|:1278431-1279507 site positions_7nt_m4 D -349 -336 TCACCCCAGTCACT 8.9 gi|49175990|ref|NC_000913.2|:1514602-1515991 site positions_7nt_m4 R 357 370 TCTCCTTAGCCACT 9.9 gi|49175990|ref|NC_000913.2|:1752104-1753248 site positions_7nt_m4 R -19 -6 TTCTCCTAACCATA 7.9 gi|49175990|ref|NC_000913.2|:1830825-1831894 site positions_7nt_m4 R 366 379 ACGTCCCAGCCAGC 8.2 gi|49175990|ref|NC_000913.2|:1989336-1990607 site positions_7nt_m4 D 383 396 GTACCGCAGCCACA 10.3 gi|49175990|ref|NC_000913.2|:2560997-2563106 site positions_7nt_m4 R -238 -225 TCACCAAAGCCACC 7.5 gi|49175990|ref|NC_000913.2|:3150987-3152126 site positions_7nt_m4 R 275 288 ATAACTTAGCCAGC 7.8 gi|49175990|ref|NC_000913.2|:3150987-3152126 site positions_7nt_m4 R 299 312 ATTCCCTAACCAGC 8.8 gi|49175990|ref|NC_000913.2|:3351516-3353255 site positions_7nt_m4 D 426 439 CGAACCTAGCCACA 7.7 gi|49175990|ref|NC_000913.2|:3450219-3451899 site positions_7nt_m4 D -250 -237 GCACGGTAGCCATC 7.6 gi|49175990|ref|NC_000913.2|:3651216-3657402 site positions_7nt_m4 R 205 218 TAACCCCAGCTATC 8.4 gi|49175990|ref|NC_000913.2|:3782659-3783794 site positions_7nt_m4 R 95 108 TAGCCATAGCCATC 8.6 gi|49175990|ref|NC_000913.2|:3917503-3921947 site positions_7nt_m4 R 239 252 ACCCCCCAGCCACC 12.8 gi|49175990|ref|NC_000913.2|:4010401-4012453 site positions_7nt_m4 R 151 164 TTTCCCCAGCCACA 10.7 gi|49175990|ref|NC_000913.2|:4131123-4132281 site positions_7nt_m4 D 180 193 ACACCACAGCCACT 10.4 gi|49175990|ref|NC_000913.2|:4172889-4174240 site positions_7nt_m4 D 152 165 TTACCTCAGCCTTC 7.7 gi|49175990|ref|NC_000913.2|:4367959-4369215 site positions_7nt_m4 R 328 341 ACACCGTAGCCATC 11.3 gi|49175990|ref|NC_000913.2|:4603264-4604888 site positions_7nt_m4 R -228 -215 ACTCCCCAGCCACT 11.8 gi|49175990|ref|NC_000913.2|:4637448-4639202 site positions_7nt_m4 D 211 224 TCATCCTAACCATT 8.0 ; ; Matrices ; matrix name ncol nrow pseudo Wmin Wmax Wrange ; 1 positions_7nt_m4 14 4 0 -26.800 13.300 40.100 a:0.263 c:0.240 g:0.235 t:0.263 ; Number of sequences scanned 109 ; Sum of sequence lengths 108923 ; N residues 0 ; Matches per matrix ; matrix name matches scored ; 1 positions_7nt_m4 25 0 ; TOTAL 25 0 ; Host name biow ; Job started 2014-09-05.195301 ; Job done 2014-09-05.195301 ; Seconds 0.3 ; user 0.3 ; system 0.02 ; cuser 0.23 ; csystem 0.02