One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/25/peak-motifs.2026-01-25.181000_2026-01-25.181000_CpuIe4/results/discovered_motifs/oligos_6-8nt_m9/peak-motifs_oligos_6-8nt_m9.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/dmmpmm_PCM.tf -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/2026/01/25/peak-motifs.2026-01-25.181000_2026-01-25.181000_CpuIe4/results/discovered_motifs/oligos_6-8nt_m9/peak-motifs_oligos_6-8nt_m9_vs_db_DMMPMM_drosophila

One-to-n matrix alignment; reference matrix: oligos_6-8nt_m9_shift1 ; 3 matrices ; sort_field=Ncor

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6-8nt_m9_shift1 (oligos_6-8nt_m9)				; oligos_6-8nt_m9; m=0 (reference); ncol1=11; shift=1; ncol=12; -ctCCCTCTCyc ; Alignment reference a 0 663 699 92 206 224 211 67 97 58 630 753 c 0 1705 928 3668 2848 3367 155 3713 116 3769 1224 1621 g 0 830 1002 125 388 197 240 107 155 103 915 822 t 0 847 1416 160 603 257 3439 158 3677 115 1276 849
Trl_shift0 (Trl)				; oligos_6-8nt_m9 versus Trl; m=1/2; ncol2=13; w=-1; offset=-1; strand=D; shift=0; score=0.650596; TtkykCTCtCtc ; cor=; Ncor= a 10 15 4 0 7 0 4 2 6 13 9 4 c 10 8 19 41 3 72 0 56 12 56 16 47 g 0 13 24 10 27 5 11 8 9 1 6 9 t 57 41 30 26 40 0 62 11 50 7 46 17
z_rc_shift5 (z_rc)				; oligos_6-8nt_m9 versus z_rc; m=2/2; ncol2=6; w=0; offset=4; strand=R; shift=5; score=0.426975; -----CaCTCA- ; cor=; Ncor= a 0 0 0 0 0 5.12195 24.5854 0 0 0 29.7073 0 c 0 0 0 0 0 30.7317 0 42 0 42 3.07317 0 g 0 0 0 0 0 5.12195 10.2439 0 0 0 7.17073 0 t 0 0 0 0 0 1.02439 7.17073 0 42 0 2.04878 0