One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.024047_2026-04-21.024047_gRzMOf/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.024047_2026-04-21.024047_gRzMOf/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: positions_6nt_m2_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m2_shift0 (positions_6nt_m2)				; positions_6nt_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; wrTTCAAAaw ; Alignment reference a 44 46 0 0 0 142 142 142 94 58 c 30 24 0 0 142 0 0 0 15 13 g 8 40 0 0 0 0 0 0 7 23 t 60 32 142 142 0 0 0 0 26 48
positions_6nt_m2_shift0 (positions_6nt_m2)				; positions_6nt_m2 versus positions_6nt_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; wrTTCAAAaw ; cor=; Ncor= a 44 46 0 0 0 142 142 142 94 58 c 30 24 0 0 142 0 0 0 15 13 g 8 40 0 0 0 0 0 0 7 23 t 60 32 142 142 0 0 0 0 26 48

One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
positions_6nt_m1_shift0 (positions_6nt_m1)				; positions_6nt_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; ywAAAAATwaw ; Alignment reference a 80 211 443 443 443 441 443 0 181 178 172 c 122 89 0 0 0 0 0 0 58 81 25 g 79 25 0 0 0 0 0 0 6 82 39 t 162 118 0 0 0 2 0 443 198 102 207
positions_6nt_m1_shift0 (positions_6nt_m1)				; positions_6nt_m1 versus positions_6nt_m1; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ywAAAAATwaw ; cor=; Ncor= a 80 211 443 443 443 441 443 0 181 178 172 c 122 89 0 0 0 0 0 0 58 81 25 g 79 25 0 0 0 0 0 0 6 82 39 t 162 118 0 0 0 2 0 443 198 102 207