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_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3.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_7nt_mkv4_m3/peak-motifs_oligos_7nt_mkv4_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m3_shift1 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv4_m3_shift1 (oligos_7nt_mkv4_m3)
; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGCkCGCss ; Alignment reference a 0 22 16 9 5 7 10 2 10 7 26 22 c 0 65 56 146 8 156 21 155 6 153 60 68 g 0 54 74 16 159 6 68 12 149 10 62 57 t 0 36 31 6 5 8 78 8 12 7 29 30

MA0632.3_shift2 (TCFL5)
; oligos_7nt_mkv4_m3 versus MA0632.3 (TCFL5); m=1/7; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.571416; --kCrCGCGC-- ; cor=; Ncor= a 0 0 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 c 0 0 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 g 0 0 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 t 0 0 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0

MA1513.2_shift0 (KLF15)
; oligos_7nt_mkv4_m3 versus MA1513.2 (KLF15); m=2/7; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.435986; cCCCGCCC---- ; cor=; Ncor= a 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 0 c 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 0 g 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 0 t 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0 0

MA1959.2_rc_shift0 (KLF7_rc)
; oligos_7nt_mkv4_m3 versus MA1959.2_rc (KLF7_rc); m=3/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.433988; CcMCGCCC---- ; cor=; Ncor= a 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 0 c 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 0 g 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 0 t 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0 0

MA2126.1_rc_shift0 (Zfp961_rc)
; oligos_7nt_mkv4_m3 versus MA2126.1_rc (Zfp961_rc); m=4/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.42668; TGGCGCCC---- ; cor=; Ncor= a 61.0 26.0 16.0 15.0 182.0 116.0 71.0 8.0 0 0 0 0 c 69.0 30.0 23.0 1372.0 9.0 1278.0 1312.0 1372.0 0 0 0 0 g 74.0 1353.0 1367.0 8.0 1219.0 13.0 22.0 20.0 0 0 0 0 t 1214.0 9.0 12.0 23.0 8.0 11.0 13.0 18.0 0 0 0 0

MA1650.2_shift0 (ZBTB14)
; oligos_7nt_mkv4_m3 versus MA1650.2 (ZBTB14); m=5/7; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.41354; CCGCGCAC---- ; cor=; Ncor= a 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 0 0 0 0 c 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 0 0 0 0 g 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 0 0 0 0 t 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 0 0 0 0

MA1099.3_rc_shift5 (HES1_rc)
; oligos_7nt_mkv4_m3 versus MA1099.3_rc (HES1_rc); m=6/7; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.409227; -----CACGyGc ; cor=; Ncor= a 0 0 0 0 0 53.0 18526.0 0.0 791.0 232.0 18.0 8007.0 c 0 0 0 0 0 18526.0 0.0 18526.0 0.0 9081.0 0.0 18526.0 g 0 0 0 0 0 0.0 4057.0 0.0 18526.0 0.0 18526.0 2072.0 t 0 0 0 0 0 1.0 253.0 21.0 0.0 9446.0 464.0 5858.0

MA2328.1_shift5 (ZBED4)
; oligos_7nt_mkv4_m3 versus MA2328.1 (ZBED4); m=7/7; ncol2=10; w=0; offset=4; strand=D; shift=5; score=0.405485; -----CcCGCyC ; cor=; Ncor= a 0 0 0 0 0 41.0 26.0 29.0 17.0 6.0 11.0 14.0 c 0 0 0 0 0 479.0 419.0 549.0 14.0 621.0 391.0 598.0 g 0 0 0 0 0 80.0 65.0 62.0 608.0 26.0 28.0 34.0 t 0 0 0 0 0 60.0 150.0 20.0 21.0 7.0 230.0 14.0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv4_m3_shift1 (oligos_7nt_mkv4_m3)				; oligos_7nt_mkv4_m3; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssCGCkCGCss ; Alignment reference a 0 22 16 9 5 7 10 2 10 7 26 22 c 0 65 56 146 8 156 21 155 6 153 60 68 g 0 54 74 16 159 6 68 12 149 10 62 57 t 0 36 31 6 5 8 78 8 12 7 29 30
MA0632.3_shift2 (TCFL5)				; oligos_7nt_mkv4_m3 versus MA0632.3 (TCFL5); m=1/7; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.571416; --kCrCGCGC-- ; cor=; Ncor= a 0 0 2810.0 0.0 72543.0 0.0 1566.0 1765.0 3520.0 1593.0 0 0 c 0 0 10582.0 72543.0 0.0 72543.0 0.0 57092.0 657.0 72543.0 0 0 g 0 0 22297.0 0.0 29710.0 0.0 72543.0 0.0 72543.0 4594.0 0 0 t 0 0 36854.0 0.0 9359.0 1643.0 0.0 15451.0 0.0 635.0 0 0
MA1513.2_shift0 (KLF15)				; oligos_7nt_mkv4_m3 versus MA1513.2 (KLF15); m=2/7; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.435986; cCCCGCCC---- ; cor=; Ncor= a 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 0 0 0 0 c 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 0 0 0 0 g 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 0 0 0 0 t 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0 0 0 0 0
MA1959.2_rc_shift0 (KLF7_rc)				; oligos_7nt_mkv4_m3 versus MA1959.2_rc (KLF7_rc); m=3/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.433988; CcMCGCCC---- ; cor=; Ncor= a 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 0 0 0 0 c 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 0 0 0 0 g 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 0 0 0 0 t 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0 0 0 0 0
MA2126.1_rc_shift0 (Zfp961_rc)				; oligos_7nt_mkv4_m3 versus MA2126.1_rc (Zfp961_rc); m=4/7; ncol2=8; w=-1; offset=-1; strand=R; shift=0; score=0.42668; TGGCGCCC---- ; cor=; Ncor= a 61.0 26.0 16.0 15.0 182.0 116.0 71.0 8.0 0 0 0 0 c 69.0 30.0 23.0 1372.0 9.0 1278.0 1312.0 1372.0 0 0 0 0 g 74.0 1353.0 1367.0 8.0 1219.0 13.0 22.0 20.0 0 0 0 0 t 1214.0 9.0 12.0 23.0 8.0 11.0 13.0 18.0 0 0 0 0
MA1650.2_shift0 (ZBTB14)				; oligos_7nt_mkv4_m3 versus MA1650.2 (ZBTB14); m=5/7; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.41354; CCGCGCAC---- ; cor=; Ncor= a 335.0 41.0 93.0 68.0 132.0 56.0 4500.0 99.0 0 0 0 0 c 3525.0 4292.0 294.0 4078.0 305.0 4178.0 37.0 3674.0 0 0 0 0 g 614.0 155.0 4098.0 319.0 4043.0 261.0 10.0 651.0 0 0 0 0 t 73.0 59.0 62.0 82.0 67.0 52.0 0.0 123.0 0 0 0 0
MA1099.3_rc_shift5 (HES1_rc)				; oligos_7nt_mkv4_m3 versus MA1099.3_rc (HES1_rc); m=6/7; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.409227; -----CACGyGc ; cor=; Ncor= a 0 0 0 0 0 53.0 18526.0 0.0 791.0 232.0 18.0 8007.0 c 0 0 0 0 0 18526.0 0.0 18526.0 0.0 9081.0 0.0 18526.0 g 0 0 0 0 0 0.0 4057.0 0.0 18526.0 0.0 18526.0 2072.0 t 0 0 0 0 0 1.0 253.0 21.0 0.0 9446.0 464.0 5858.0
MA2328.1_shift5 (ZBED4)				; oligos_7nt_mkv4_m3 versus MA2328.1 (ZBED4); m=7/7; ncol2=10; w=0; offset=4; strand=D; shift=5; score=0.405485; -----CcCGCyC ; cor=; Ncor= a 0 0 0 0 0 41.0 26.0 29.0 17.0 6.0 11.0 14.0 c 0 0 0 0 0 479.0 419.0 549.0 14.0 621.0 391.0 598.0 g 0 0 0 0 0 80.0 65.0 62.0 608.0 26.0 28.0 34.0 t 0 0 0 0 0 60.0 150.0 20.0 21.0 7.0 230.0 14.0