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_m4/peak-motifs_oligos_6nt_mkv3_m4.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_m4/peak-motifs_oligos_6nt_mkv3_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m4_shift1 ; 11 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv3_m4_shift1 (oligos_6nt_mkv3_m4)
; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssGCGCCGCss ; Alignment reference a 0 41 47 7 8 8 8 9 13 13 35 35 c 0 132 113 34 279 46 250 253 21 255 141 114 g 0 93 100 254 18 243 42 39 261 31 102 109 t 0 42 48 13 3 11 8 7 13 9 30 50

MA2328.1_shift0 (ZBED4)
; oligos_6nt_mkv3_m4 versus MA2328.1 (ZBED4); m=1/10; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.628028; CcCGCyCCGC-- ; cor=; Ncor= a 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 0 c 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 0 g 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 0 t 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0 0

MA1713.2_shift3 (ZNF610)
; oligos_6nt_mkv3_m4 versus MA1713.2 (ZNF610); m=2/10; ncol2=10; w=0; offset=2; strand=D; shift=3; score=0.552671; ---scGCCGCTC ; cor=; Ncor= a 0 0 0 176.0 354.0 68.0 37.0 18.0 18.0 4.0 18.0 6.0 c 0 0 0 1222.0 1347.0 121.0 2245.0 2312.0 45.0 2357.0 34.0 2315.0 g 0 0 0 738.0 392.0 2118.0 84.0 41.0 2312.0 21.0 45.0 62.0 t 0 0 0 250.0 293.0 79.0 20.0 15.0 11.0 4.0 2289.0 3.0

MA1959.2_rc_shift4 (KLF7_rc)
; oligos_6nt_mkv3_m4 versus MA1959.2_rc (KLF7_rc); m=3/10; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.549378; ----CcMCGCCC ; cor=; Ncor= a 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 c 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 g 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 t 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0

MA1513.2_shift4 (KLF15)
; oligos_6nt_mkv3_m4 versus MA1513.2 (KLF15); m=4/10; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.52124; ----cCCCGCCC ; cor=; Ncor= a 0 0 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 c 0 0 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 g 0 0 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 t 0 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0

MA1727.2_rc_shift1 (ZNF417_rc)
; oligos_6nt_mkv3_m4 versus MA1727.2_rc (ZNF417_rc); m=5/10; ncol2=7; w=0; offset=0; strand=R; shift=1; score=0.51636; -TGGCGCC---- ; cor=; Ncor= a 0 1.0 13.0 7.0 1.0 55.0 1.0 1.0 0 0 0 0 c 0 1.0 1.0 1.0 996.0 1.0 996.0 996.0 0 0 0 0 g 0 13.0 954.0 990.0 1.0 936.0 1.0 1.0 0 0 0 0 t 0 984.0 31.0 1.0 1.0 7.0 1.0 1.0 0 0 0 0

MA0685.2_rc_shift4 (SP4_rc)
; oligos_6nt_mkv3_m4 versus MA0685.2_rc (SP4_rc); m=6/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.502543; ----CyCCKCCC ; cor=; Ncor= a 0 0 0 0 0.686813 50.1374 77.6099 0.686813 0.686813 0.686813 0.686813 0.686813 c 0 0 0 0 997.94 660.027 921.016 997.94 0.686813 997.94 997.94 997.94 g 0 0 0 0 0.686813 0.686813 0.686813 0.686813 723.214 0.686813 0.686813 0.686813 t 0 0 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813

MA0079.5_rc_shift4 (SP1_rc)
; oligos_6nt_mkv3_m4 versus MA0079.5_rc (SP1_rc); m=7/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.500756; ----CyCCKCCC ; cor=; Ncor= a 0 0 0 0 1.05485 34.8101 1.05485 1.05485 1.05485 1.05485 1.05485 1.05485 c 0 0 0 0 836.498 659.283 912.447 996.835 1.05485 996.835 996.835 996.835 g 0 0 0 0 1.05485 51.6878 85.443 1.05485 731.013 1.05485 1.05485 1.05485 t 0 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485

MA0742.2_rc_shift4 (KLF12_rc)
; oligos_6nt_mkv3_m4 versus MA0742.2_rc (KLF12_rc); m=8/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.499257; ----CCCCGCCC ; cor=; Ncor= a 0 0 0 0 29.2208 0.649351 190.26 0.649351 0.649351 0.649351 0.649351 0.649351 c 0 0 0 0 969.481 930.519 725.325 998.052 0.649351 998.052 998.052 912.338 g 0 0 0 0 0.649351 0.649351 78.5714 0.649351 951.299 0.649351 0.649351 0.649351 t 0 0 0 0 0.649351 68.1818 5.84416 0.649351 47.4026 0.649351 0.649351 86.3636

MA0516.3_rc_shift4 (SP2_rc)
; oligos_6nt_mkv3_m4 versus MA0516.3_rc (SP2_rc); m=9/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.485368; ----cCCCGCCC ; cor=; Ncor= a 0 0 0 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 c 0 0 0 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 g 0 0 0 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 t 0 0 0 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889

MA1511.2_rc_shift4 (KLF10_rc)
; oligos_6nt_mkv3_m4 versus MA1511.2_rc (KLF10_rc); m=10/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.477347; ----CCMCGCCC ; cor=; Ncor= a 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 c 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 g 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 t 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv3_m4_shift1 (oligos_6nt_mkv3_m4)				; oligos_6nt_mkv3_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -ssGCGCCGCss ; Alignment reference a 0 41 47 7 8 8 8 9 13 13 35 35 c 0 132 113 34 279 46 250 253 21 255 141 114 g 0 93 100 254 18 243 42 39 261 31 102 109 t 0 42 48 13 3 11 8 7 13 9 30 50
MA2328.1_shift0 (ZBED4)				; oligos_6nt_mkv3_m4 versus MA2328.1 (ZBED4); m=1/10; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.628028; CcCGCyCCGC-- ; cor=; Ncor= a 41.0 26.0 29.0 17.0 6.0 11.0 14.0 12.0 22.0 19.0 0 0 c 479.0 419.0 549.0 14.0 621.0 391.0 598.0 604.0 19.0 589.0 0 0 g 80.0 65.0 62.0 608.0 26.0 28.0 34.0 23.0 580.0 35.0 0 0 t 60.0 150.0 20.0 21.0 7.0 230.0 14.0 21.0 39.0 17.0 0 0
MA1713.2_shift3 (ZNF610)				; oligos_6nt_mkv3_m4 versus MA1713.2 (ZNF610); m=2/10; ncol2=10; w=0; offset=2; strand=D; shift=3; score=0.552671; ---scGCCGCTC ; cor=; Ncor= a 0 0 0 176.0 354.0 68.0 37.0 18.0 18.0 4.0 18.0 6.0 c 0 0 0 1222.0 1347.0 121.0 2245.0 2312.0 45.0 2357.0 34.0 2315.0 g 0 0 0 738.0 392.0 2118.0 84.0 41.0 2312.0 21.0 45.0 62.0 t 0 0 0 250.0 293.0 79.0 20.0 15.0 11.0 4.0 2289.0 3.0
MA1959.2_rc_shift4 (KLF7_rc)				; oligos_6nt_mkv3_m4 versus MA1959.2_rc (KLF7_rc); m=3/10; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.549378; ----CcMCGCCC ; cor=; Ncor= a 0 0 0 0 1.0 167.0 254.0 1.0 167.0 1.0 1.0 1.0 c 0 0 0 0 997.0 642.0 720.0 997.0 1.0 997.0 997.0 997.0 g 0 0 0 0 1.0 42.0 25.0 1.0 788.0 1.0 1.0 1.0 t 0 0 0 0 1.0 150.0 1.0 1.0 45.0 1.0 1.0 1.0
MA1513.2_shift4 (KLF15)				; oligos_6nt_mkv3_m4 versus MA1513.2 (KLF15); m=4/10; ncol2=8; w=0; offset=3; strand=D; shift=4; score=0.52124; ----cCCCGCCC ; cor=; Ncor= a 0 0 0 0 937.0 40.0 93.0 0.0 0.0 11.0 55.0 12.0 c 0 0 0 0 6506.0 11234.0 10940.0 11368.0 0.0 11345.0 10954.0 11254.0 g 0 0 0 0 2117.0 86.0 333.0 1.0 11369.0 2.0 359.0 100.0 t 0 0 0 0 1809.0 9.0 3.0 0.0 0.0 11.0 1.0 3.0
MA1727.2_rc_shift1 (ZNF417_rc)				; oligos_6nt_mkv3_m4 versus MA1727.2_rc (ZNF417_rc); m=5/10; ncol2=7; w=0; offset=0; strand=R; shift=1; score=0.51636; -TGGCGCC---- ; cor=; Ncor= a 0 1.0 13.0 7.0 1.0 55.0 1.0 1.0 0 0 0 0 c 0 1.0 1.0 1.0 996.0 1.0 996.0 996.0 0 0 0 0 g 0 13.0 954.0 990.0 1.0 936.0 1.0 1.0 0 0 0 0 t 0 984.0 31.0 1.0 1.0 7.0 1.0 1.0 0 0 0 0
MA0685.2_rc_shift4 (SP4_rc)				; oligos_6nt_mkv3_m4 versus MA0685.2_rc (SP4_rc); m=6/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.502543; ----CyCCKCCC ; cor=; Ncor= a 0 0 0 0 0.686813 50.1374 77.6099 0.686813 0.686813 0.686813 0.686813 0.686813 c 0 0 0 0 997.94 660.027 921.016 997.94 0.686813 997.94 997.94 997.94 g 0 0 0 0 0.686813 0.686813 0.686813 0.686813 723.214 0.686813 0.686813 0.686813 t 0 0 0 0 0.686813 289.148 0.686813 0.686813 275.412 0.686813 0.686813 0.686813
MA0079.5_rc_shift4 (SP1_rc)				; oligos_6nt_mkv3_m4 versus MA0079.5_rc (SP1_rc); m=7/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.500756; ----CyCCKCCC ; cor=; Ncor= a 0 0 0 0 1.05485 34.8101 1.05485 1.05485 1.05485 1.05485 1.05485 1.05485 c 0 0 0 0 836.498 659.283 912.447 996.835 1.05485 996.835 996.835 996.835 g 0 0 0 0 1.05485 51.6878 85.443 1.05485 731.013 1.05485 1.05485 1.05485 t 0 0 0 0 161.392 254.219 1.05485 1.05485 266.878 1.05485 1.05485 1.05485
MA0742.2_rc_shift4 (KLF12_rc)				; oligos_6nt_mkv3_m4 versus MA0742.2_rc (KLF12_rc); m=8/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.499257; ----CCCCGCCC ; cor=; Ncor= a 0 0 0 0 29.2208 0.649351 190.26 0.649351 0.649351 0.649351 0.649351 0.649351 c 0 0 0 0 969.481 930.519 725.325 998.052 0.649351 998.052 998.052 912.338 g 0 0 0 0 0.649351 0.649351 78.5714 0.649351 951.299 0.649351 0.649351 0.649351 t 0 0 0 0 0.649351 68.1818 5.84416 0.649351 47.4026 0.649351 0.649351 86.3636
MA0516.3_rc_shift4 (SP2_rc)				; oligos_6nt_mkv3_m4 versus MA0516.3_rc (SP2_rc); m=9/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.485368; ----cCCCGCCC ; cor=; Ncor= a 0 0 0 0 18.3284 0.733138 24.1935 0.733138 0.733138 0.733138 0.733138 0.733138 c 0 0 0 0 610.704 877.566 974.34 997.801 0.733138 997.801 997.801 830.645 g 0 0 0 0 164.956 0.733138 0.733138 0.733138 886.364 0.733138 0.733138 0.733138 t 0 0 0 0 206.012 120.968 0.733138 0.733138 112.17 0.733138 0.733138 167.889
MA1511.2_rc_shift4 (KLF10_rc)				; oligos_6nt_mkv3_m4 versus MA1511.2_rc (KLF10_rc); m=10/10; ncol2=9; w=0; offset=3; strand=R; shift=4; score=0.477347; ----CCMCGCCC ; cor=; Ncor= a 0 0 0 0 49.3528 26.699 253.236 0.809061 152.913 0.809061 0.809061 0.809061 c 0 0 0 0 884.304 906.958 693.366 997.573 0.809061 997.573 997.573 997.573 g 0 0 0 0 0.809061 0.809061 52.589 0.809061 803.398 0.809061 0.809061 0.809061 t 0 0 0 0 65.534 65.534 0.809061 0.809061 42.8803 0.809061 0.809061 0.809061