; pattern-assembly -v 1 -i $RSAT/public_html/tmp/wwwrun/2013/01/11/peak-motifs.2013-01-11.110705_2013-01-11.110705_PdhmNx/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab -2str -maxfl 1 -subst 1 -toppat 50 -max_asmb_size 50 -max_asmb_nb 3 -o $RSAT/public_html/tmp/wwwrun/2013/01/11/peak-motifs.2013-01-11.110705_2013-01-11.110705_PdhmNx/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm.asmb ; Input file /home/rsat/rsa-tools/public_html/tmp/wwwrun/2013/01/11/peak-motifs.2013-01-11.110705_2013-01-11.110705_PdhmNx/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50.tab ; Output file /home/rsat/rsa-tools/public_html/tmp/wwwrun/2013/01/11/peak-motifs.2013-01-11.110705_2013-01-11.110705_PdhmNx/results/positions_7nt/peak-motifs_positions-2str-noov_7nt_ci50_pssm.asmb ; Input score column 9 ; Output score column 0 ; two strand assembly ; max flanking bases 1 ; max substitutions 1 ; max assembly size 50 ; top number of patterns 50 ; number of input patterns 50 ; ;assembly # 1 seed: tccagga 50 words length ; alignt rev_cpl score tgatttc.......... ..........gaaatca 9.57 tggtttc.......... ..........gaaacca 3.10 .gatttcc......... .........ggaaatc. 9.79 .ggtttcc......... .........ggaaacc. 5.90 .cgtttcc......... .........ggaaacg. 3.66 ..gtttcca........ ........tggaaac.. 4.06 ..atttcca........ ........tggaaat.. 2.90 ..gtttcct........ ........aggaaac.. 2.86 ..gtttccc........ ........gggaaac.. 2.32 ...ttcccag....... .......ctgggaa... 33.95 ...tttcctg....... .......caggaaa... 21.70 ...tttccag....... .......ctggaaa... 19.49 ...tttcccg....... .......cgggaaa... 13.79 ...cttccag....... .......ctggaag... 6.48 ...tttccgg....... .......ccggaaa... 5.33 ....ttcctgg...... ......ccaggaa.... 43.29 ....ttccagg...... ......cctggaa.... 41.26 ....ttcccgg...... ......ccgggaa.... 34.60 ....ttccggg...... ......cccggaa.... 22.82 ....ttacagg...... ......cctgtaa.... 6.74 .....tccagga..... .....tcctgga..... 44.06 .....tcctgga..... .....tccagga..... 44.06 .....tccggga..... .....tcccgga..... 28.58 .....tcccgga..... .....tccggga..... 28.58 .....tacagga..... .....tcctgta..... 6.49 .....tccaaga..... .....tcttgga..... 3.34 .....tccagta..... .....tactgga..... 2.38 ......ccaggaa.... ....ttcctgg...... 43.29 ......cctggaa.... ....ttccagg...... 41.26 ......ccgggaa.... ....ttcccgg...... 34.60 ......cccggaa.... ....ttccggg...... 22.82 ......ccagaaa.... ....tttctgg...... 9.72 ......acaggaa.... ....ttcctgt...... 5.43 .......caggaaa... ...tttcctg....... 21.70 .......ctggaaa... ...tttccag....... 19.49 .......cgggaaa... ...tttcccg....... 13.79 .......ccggaaa... ...tttccgg....... 5.33 .......caggaag... ...cttcctg....... 4.90 .......caggaat... ...attcctg....... 3.49 ........gggaaat.. ..atttccc........ 11.13 ........aggaaat.. ..atttcct........ 5.19 ........tggaaat.. ..atttcca........ 2.90 ........aggaaac.. ..gtttcct........ 2.86 .........ggaaatg. .catttcc......... 14.20 .........ggaaatc. .gatttcc......... 9.79 .........ggaaaag. .cttttcc......... 5.20 .........agaaatg. .catttct......... 4.14 .........ggaaacg. .cgtttcc......... 3.66 ..........gaaatca tgatttc.......... 9.57 ..........gaaatga tcatttc.......... 3.55 tggtttccaggaaatga tcatttcctggaaacca 44.06 best consensus ;assembly # 2 seed: tcccaga 33 words length 17 ; alignt rev_cpl score tgatttc.......... ..........gaaatca 9.57 tcatttc.......... ..........gaaatga 3.55 .catttcc......... .........ggaaatg. 14.20 .gatttcc......... .........ggaaatc. 9.79 .cttttcc......... .........ggaaaag. 5.20 .catttct......... .........agaaatg. 4.14 .cgtttcc......... .........ggaaacg. 3.66 ..atttccc........ ........gggaaat.. 11.13 ..atttcct........ ........aggaaat.. 5.19 ..acttccc........ ........gggaagt.. 3.16 ..atttcca........ ........tggaaat.. 2.90 ..gtttccc........ ........gggaaac.. 2.32 ..ctttccc........ ........gggaaag.. 2.29 ...tttccca....... .......tgggaaa... 14.94 ...tttcccg....... .......cgggaaa... 13.79 ....ttcccgg...... ......ccgggaa.... 34.60 ....ttcccag...... ......ctgggaa.... 33.95 ....tttccag...... ......ctggaaa.... 19.49 .....tcccgga..... .....tccggga..... 28.58 .....tcccaga..... .....tctggga..... 28.21 .....tccaaga..... .....tcttgga..... 3.34 ......cccagaa.... ....ttctggg...... 27.08 ......cccggaa.... ....ttccggg...... 22.82 .......ccaggaa... ...ttcctgg....... 43.29 .......ccagaaa... ...tttctgg....... 9.72 .......ccggaaa... ...tttccgg....... 5.33 ........caggaat.. ..attcctg........ 3.49 ........cagaaat.. ..atttctg........ 2.75 .........ggaaatg. .catttcc......... 14.20 .........agaaatg. .catttct......... 4.14 .........agaaatc. .gatttct......... 2.50 ..........gaaatca tgatttc.......... 9.57 ..........gaaatga tcatttc.......... 3.55 tcatttcccagaaatga tcatttctgggaaatga 43.29 best consensus ;assembly # 3 seed: cgggaag 30 words length 17 ; alignt rev_cpl score tttcctg..... .....caggaaa 21.70 tttccag..... .....ctggaaa 19.49 tttcccg..... .....cgggaaa 13.79 tttctgg..... .....ccagaaa 9.72 tttccgg..... .....ccggaaa 5.33 attccgg..... .....ccggaat 4.40 .ttcctgg.... ....ccaggaa. 43.29 .ttccagg.... ....cctggaa. 41.26 .ttcccgg.... ....ccgggaa. 34.60 .ttctggg.... ....cccagaa. 27.08 .ttccggg.... ....cccggaa. 22.82 ..tcctgga... ...tccagga.. 44.06 ..tccagga... ...tcctgga.. 44.06 ..tccggga... ...tcccgga.. 28.58 ..tcccgga... ...tccggga.. 28.58 ..tctggga... ...tcccaga.. 28.21 ...ccaggaa.. ..ttcctgg... 43.29 ...cctggaa.. ..ttccagg... 41.26 ...ccgggaa.. ..ttcccgg... 34.60 ...ctgggaa.. ..ttcccag... 33.95 ...cccggaa.. ..ttccggg... 22.82 ...ccggaaa.. ..tttccgg... 5.33 ...acgggaa.. ..ttcccgt... 3.90 ....cgggaag. .cttcccg.... 15.69 ....cgggaaa. .tttcccg.... 13.79 ....ctggaag. .cttccag.... 6.48 ....caggaag. .cttcctg.... 4.90 ....cgggaat. .attcccg.... 2.95 .....gggaaat atttccc..... 11.13 .....gggaagt acttccc..... 3.16 tttccgggaagt acttcccggaaa 44.06 best consensus ; Maximal number of assemblies is reached (3). Remaining patterns: 3. ; Host name rsat ; Job started 2013-01-11.110757 ; Job done 2013-01-11.110807 ; Seconds 9.56 ; user 9.56 ; system 0.01 ; cuser 0 ; csystem 0