# RSA-tools - compare-matrices result

### Analysis: result (11/01/2013 11:10)

`Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/wwwrun/2013/01/11/peak-motifs.2013-01-11.110705_2013-01-11.110705_PdhmNx/results/discovered_motifs/local_words_7nt_m3/peak-motifs_local_words_7nt_m3.tf -format2 tf -file2 $RSAT/public_html/data/motif_databases/JASPAR/jaspar_core_vertebrates_2009_10.tf -mode matches -DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.75 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,logoDP,NIcor,NsEucl,SSD,NSW,match_rank,width,strand,offset,consensus,alignments_1ton -sort Ncor -o $RSAT/public_html/tmp/wwwrun/2013/01/11/peak-motifs.2013-01-11.110705_2013-01-11.110705_PdhmNx/results/discovered_motifs/local_words_7nt_m3/peak-motifs_local_words_7nt_m3_vs_db_jaspar_core_vertebrates`

## Output files

Type | File
--- | ---
match_table_txt | peak-motifs_local_words_7nt_m3_vs_db_jaspar_core_vertebrates.tab
match_table_html | peak-motifs_local_words_7nt_m3_vs_db_jaspar_core_vertebrates.html
alignments_1ton | peak-motifs_local_words_7nt_m3_vs_db_jaspar_core_vertebrates_alignments_1ton.tab
alignments_1ton_html | peak-motifs_local_words_7nt_m3_vs_db_jaspar_core_vertebrates_alignments_1ton.html

## Directories

Type | Directory
--- | ---
output | .
logos | peak-motifs_local_words_7nt_m3_vs_db_jaspar_core_vertebrates_aligned_logos