One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.184320_2025-05-16.184320_WEQUPM/results/discovered_motifs/oligos_6nt_mkv1_m5/peak-motifs_oligos_6nt_mkv1_m5.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2024/JASPAR2024_CORE_vertebrates_non-redundant_pfms_transfac.txt -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/2025/05/16/peak-motifs.2025-05-16.184320_2025-05-16.184320_WEQUPM/results/discovered_motifs/oligos_6nt_mkv1_m5/peak-motifs_oligos_6nt_mkv1_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m5_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m5_shift0 (oligos_6nt_mkv1_m5)
; oligos_6nt_mkv1_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCCCGGCsc ; Alignment reference a 7 5 1 0 0 0 3 0 7 5 c 10 13 33 34 34 0 0 34 13 14 g 10 12 0 0 0 34 31 0 11 8 t 7 4 0 0 0 0 0 0 3 7

MA0516.3_rc_shift1 (SP2_rc)
; oligos_6nt_mkv1_m5 versus MA0516.3_rc (SP2_rc); m=1/3; ncol2=9; w=0; offset=1; strand=R; shift=1; score=0.660411; -cCCCGCCCC ; cor=; Ncor= a 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 79.912 c 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 766.129 g 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 0.733138 t 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889 153.226

MA1513.2_shift1 (KLF15)
; oligos_6nt_mkv1_m5 versus MA1513.2 (KLF15); m=2/3; ncol2=8; w=0; offset=1; strand=D; shift=1; score=0.599675; -cCCCGCCC- ; cor=; Ncor= a 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 c 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 g 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 t 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0

MA2121.1_shift0 (ZNF213)
; oligos_6nt_mkv1_m5 versus MA2121.1 (ZNF213); m=3/3; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.587897; gCCCAGGCwG ; cor=; Ncor= a 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 c 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 g 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 t 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv1_m5_shift0 (oligos_6nt_mkv1_m5)				; oligos_6nt_mkv1_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; ssCCCGGCsc ; Alignment reference a 7 5 1 0 0 0 3 0 7 5 c 10 13 33 34 34 0 0 34 13 14 g 10 12 0 0 0 34 31 0 11 8 t 7 4 0 0 0 0 0 0 3 7
MA0516.3_rc_shift1 (SP2_rc)				; oligos_6nt_mkv1_m5 versus MA0516.3_rc (SP2_rc); m=1/3; ncol2=9; w=0; offset=1; strand=R; shift=1; score=0.660411; -cCCCGCCCC ; cor=; Ncor= a 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 79.912 c 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 766.129 g 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 0.733138 t 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889 153.226
MA1513.2_shift1 (KLF15)				; oligos_6nt_mkv1_m5 versus MA1513.2 (KLF15); m=2/3; ncol2=8; w=0; offset=1; strand=D; shift=1; score=0.599675; -cCCCGCCC- ; cor=; Ncor= a 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 c 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 g 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 t 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0
MA2121.1_shift0 (ZNF213)				; oligos_6nt_mkv1_m5 versus MA2121.1 (ZNF213); m=3/3; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.587897; gCCCAGGCwG ; cor=; Ncor= a 119.0 26.0 18.0 15.0 577.0 10.0 12.0 16.0 229.0 42.0 c 89.0 581.0 603.0 630.0 34.0 13.0 25.0 642.0 97.0 76.0 g 403.0 52.0 34.0 34.0 54.0 661.0 639.0 22.0 124.0 519.0 t 76.0 28.0 32.0 8.0 22.0 3.0 11.0 7.0 237.0 50.0