One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/03/30/peak-motifs.2026-03-30.203809_2026-03-30.203809_WvTw0s/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_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/2026/03/30/peak-motifs.2026-03-30.203809_2026-03-30.203809_WvTw0s/results/discovered_motifs/oligos_6nt_mkv3_m5/peak-motifs_oligos_6nt_mkv3_m5_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m5_shift1 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m5_shift1 (oligos_6nt_mkv3_m5)
; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=10; shift=1; ncol=11; -svCGaGCGss ; Alignment reference a 0 55 62 14 11 160 7 9 11 52 54 c 0 66 69 208 13 26 5 216 11 78 73 g 0 81 70 8 219 45 233 13 216 72 77 t 0 45 46 17 4 16 2 9 9 45 43

MA1959.2_shift4 (KLF7)
; oligos_6nt_mkv3_m5 versus MA1959.2 (KLF7); m=1/6; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.48369; ----GGGCGKg ; cor=; Ncor= a 0 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0

MA1713.2_rc_shift3 (ZNF610_rc)
; oligos_6nt_mkv3_m5 versus MA1713.2_rc (ZNF610_rc); m=2/6; ncol2=10; w=0; offset=2; strand=R; shift=3; score=0.482325; ---GGAGCGGC ; cor=; Ncor= a 0 0 0 101.0 3.0 2289.0 4.0 11.0 15.0 20.0 79.0 c 0 0 0 186.0 62.0 45.0 21.0 2312.0 41.0 84.0 2118.0 g 0 0 0 1976.0 2315.0 34.0 2357.0 45.0 2312.0 2245.0 121.0 t 0 0 0 123.0 6.0 18.0 4.0 18.0 18.0 37.0 68.0

MA1513.2_rc_shift4 (KLF15_rc)
; oligos_6nt_mkv3_m5 versus MA1513.2_rc (KLF15_rc); m=3/6; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.468533; ----GGGCGGG ; cor=; Ncor= a 0 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 c 0 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 g 0 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 t 0 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0

MA0632.3_shift0 (TCFL5)
; oligos_6nt_mkv3_m5 versus MA0632.3 (TCFL5); m=4/6; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.463928; kCrCGCGC--- ; cor=; Ncor= a 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 0 c 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 0 g 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 0 t 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0 0

MA2126.1_shift4 (Zfp961)
; oligos_6nt_mkv3_m5 versus MA2126.1 (Zfp961); m=5/6; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.45427; ----GGGCGCC ; cor=; Ncor= a 0 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0

MA1515.2_rc_shift4 (KLF2_rc)
; oligos_6nt_mkv3_m5 versus MA1515.2_rc (KLF2_rc); m=6/6; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.449516; ----GGGyGkG ; cor=; Ncor= a 0 0 0 0 444.0 9.0 22.0 167.0 78.0 214.0 312.0 c 0 0 0 0 105.0 195.0 49.0 2920.0 0.0 1060.0 186.0 g 0 0 0 0 4622.0 4622.0 4622.0 274.0 4622.0 2265.0 4622.0 t 0 0 0 0 68.0 128.0 0.0 1702.0 0.0 4622.0 403.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m5_shift1 (oligos_6nt_mkv3_m5)				; oligos_6nt_mkv3_m5; m=0 (reference); ncol1=10; shift=1; ncol=11; -svCGaGCGss ; Alignment reference a 0 55 62 14 11 160 7 9 11 52 54 c 0 66 69 208 13 26 5 216 11 78 73 g 0 81 70 8 219 45 233 13 216 72 77 t 0 45 46 17 4 16 2 9 9 45 43
MA1959.2_shift4 (KLF7)				; oligos_6nt_mkv3_m5 versus MA1959.2 (KLF7); m=1/6; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.48369; ----GGGCGKg ; cor=; Ncor= a 0 0 0 0 1.0 1.0 1.0 45.0 1.0 1.0 150.0 c 0 0 0 0 1.0 1.0 1.0 788.0 1.0 25.0 42.0 g 0 0 0 0 997.0 997.0 997.0 1.0 997.0 720.0 642.0 t 0 0 0 0 1.0 1.0 1.0 167.0 1.0 254.0 167.0
MA1713.2_rc_shift3 (ZNF610_rc)				; oligos_6nt_mkv3_m5 versus MA1713.2_rc (ZNF610_rc); m=2/6; ncol2=10; w=0; offset=2; strand=R; shift=3; score=0.482325; ---GGAGCGGC ; cor=; Ncor= a 0 0 0 101.0 3.0 2289.0 4.0 11.0 15.0 20.0 79.0 c 0 0 0 186.0 62.0 45.0 21.0 2312.0 41.0 84.0 2118.0 g 0 0 0 1976.0 2315.0 34.0 2357.0 45.0 2312.0 2245.0 121.0 t 0 0 0 123.0 6.0 18.0 4.0 18.0 18.0 37.0 68.0
MA1513.2_rc_shift4 (KLF15_rc)				; oligos_6nt_mkv3_m5 versus MA1513.2_rc (KLF15_rc); m=3/6; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.468533; ----GGGCGGG ; cor=; Ncor= a 0 0 0 0 3.0 1.0 11.0 0.0 0.0 3.0 9.0 c 0 0 0 0 100.0 359.0 2.0 11369.0 1.0 333.0 86.0 g 0 0 0 0 11254.0 10954.0 11345.0 0.0 11368.0 10940.0 11234.0 t 0 0 0 0 12.0 55.0 11.0 0.0 0.0 93.0 40.0
MA0632.3_shift0 (TCFL5)				; oligos_6nt_mkv3_m5 versus MA0632.3 (TCFL5); m=4/6; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.463928; kCrCGCGC--- ; cor=; Ncor= a 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 0 c 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 0 g 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 0 t 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0 0
MA2126.1_shift4 (Zfp961)				; oligos_6nt_mkv3_m5 versus MA2126.1 (Zfp961); m=5/6; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.45427; ----GGGCGCC ; cor=; Ncor= a 0 0 0 0 18.0 13.0 11.0 8.0 23.0 12.0 9.0 c 0 0 0 0 20.0 22.0 13.0 1219.0 8.0 1367.0 1353.0 g 0 0 0 0 1372.0 1312.0 1278.0 9.0 1372.0 23.0 30.0 t 0 0 0 0 8.0 71.0 116.0 182.0 15.0 16.0 26.0
MA1515.2_rc_shift4 (KLF2_rc)				; oligos_6nt_mkv3_m5 versus MA1515.2_rc (KLF2_rc); m=6/6; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.449516; ----GGGyGkG ; cor=; Ncor= a 0 0 0 0 444.0 9.0 22.0 167.0 78.0 214.0 312.0 c 0 0 0 0 105.0 195.0 49.0 2920.0 0.0 1060.0 186.0 g 0 0 0 0 4622.0 4622.0 4622.0 274.0 4622.0 2265.0 4622.0 t 0 0 0 0 68.0 128.0 0.0 1702.0 0.0 4622.0 403.0