One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/04/28/peak-motifs.2025-04-28.044641_2025-04-28.044641_ntYsd5/results/discovered_motifs/oligos_6nt_mkv2_m2/peak-motifs_oligos_6nt_mkv2_m2.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/2025/04/28/peak-motifs.2025-04-28.044641_2025-04-28.044641_ntYsd5/results/discovered_motifs/oligos_6nt_mkv2_m2/peak-motifs_oligos_6nt_mkv2_m2_vs_db_DMMPMM_drosophila

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2)				; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=20; shift=0; ncol=20; hdmyatCGATAsTATCGayr ; Alignment reference a 22 19 19 14 32 6 0 2 62 0 61 1 1 59 2 2 3 35 14 22 c 18 10 24 22 10 11 63 0 0 1 0 25 3 2 3 59 1 13 16 9 g 6 18 10 9 12 7 0 60 1 3 1 35 0 1 1 0 59 10 12 18 t 18 17 11 19 10 40 1 2 1 60 2 3 60 2 58 3 1 6 22 15
Dref_shift2 (Dref)				; oligos_6nt_mkv2_m2 versus Dref; m=1/1; ncol2=10; w=0; offset=2; strand=D; shift=2; score=0.436093; --aTAwCGATAr-------- ; cor=; Ncor= a 0 0 6.66667 1.11111 7.77778 3.33333 0 1.11111 10 0 7.77778 3.33333 0 0 0 0 0 0 0 0 c 0 0 1.11111 0 1.11111 0 10 0 0 0 1.11111 0 0 0 0 0 0 0 0 0 g 0 0 0 1.11111 0 0 0 8.88889 0 0 1.11111 6.66667 0 0 0 0 0 0 0 0 t 0 0 2.22222 7.77778 1.11111 6.66667 0 0 0 10 0 0 0 0 0 0 0 0 0 0