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_m4/peak-motifs_oligos_7nt_mkv4_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_7nt_mkv4_m4/peak-motifs_oligos_7nt_mkv4_m4_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m4_shift3 ; 8 matrices ; sort_field=Ncor

Matrix nameAligned logoscor Ncor Aligned matrices
oligos_7nt_mkv4_m4_shift3 (oligos_7nt_mkv4_m4)     
; oligos_7nt_mkv4_m4; m=0 (reference); ncol1=11; shift=3; ncol=14; ---dtAAAGGCAyr
; Alignment reference
a	0	0	0	52	44	181	150	181	3	16	4	187	39	66
c	0	0	0	30	30	3	25	3	3	2	179	0	50	33
g	0	0	0	49	30	1	4	2	179	162	3	3	38	49
t	0	0	0	63	90	9	15	8	9	14	8	4	67	46
MA0676.1_shift4 (Nr2e1) 
; oligos_7nt_mkv4_m4 versus MA0676.1 (Nr2e1); m=1/7; ncol2=9; w=0; offset=1; strand=D; shift=4; score=0.599264; ----aaAAGTCAA-
; cor=; Ncor=
a	0	0	0	0	1118.0	1118.0	1118.0	1118.0	40.0	0.0	11.0	1118.0	1118.0	0
c	0	0	0	0	244.0	89.0	1.0	0.0	0.0	58.0	1118.0	0.0	131.0	0
g	0	0	0	0	191.0	448.0	101.0	74.0	1118.0	0.0	12.0	0.0	117.0	0
t	0	0	0	0	401.0	369.0	19.0	5.0	8.0	1118.0	112.0	0.0	247.0	0
MA0768.3_rc_shift2 (Lef1_rc) 
; oligos_7nt_mkv4_m4 versus MA0768.3_rc (Lef1_rc); m=2/7; ncol2=8; w=-1; offset=-1; strand=R; shift=2; score=0.48662; --ATCAAAGG----
; cor=; Ncor=
a	0	0	872.0	41.0	51.0	1030.0	976.0	1036.0	45.0	90.0	0	0	0	0
c	0	0	51.0	25.0	882.0	15.0	39.0	14.0	21.0	130.0	0	0	0	0
g	0	0	28.0	28.0	75.0	18.0	47.0	19.0	989.0	788.0	0	0	0	0
t	0	0	130.0	987.0	73.0	18.0	19.0	12.0	26.0	73.0	0	0	0	0
MA2002.2_shift5 (Zfp335) 
; oligos_7nt_mkv4_m4 versus MA2002.2 (Zfp335); m=3/7; ncol2=7; w=0; offset=2; strand=D; shift=5; score=0.451937; -----tCAGGCA--
; cor=; Ncor=
a	0	0	0	0	0	12.0	2.0	78.0	0.0	0.0	2.0	72.0	0	0
c	0	0	0	0	0	5.0	82.0	3.0	2.0	0.0	81.0	1.0	0	0
g	0	0	0	0	0	15.0	0.0	0.0	81.0	82.0	1.0	10.0	0	0
t	0	0	0	0	0	52.0	0.0	3.0	1.0	2.0	0.0	1.0	0	0
MA1730.2_rc_shift7 (ZNF708_rc) 
; oligos_7nt_mkv4_m4 versus MA1730.2_rc (ZNF708_rc); m=4/7; ncol2=9; w=0; offset=4; strand=R; shift=7; score=0.427426; -------AGGyACA
; cor=; Ncor=
a	0	0	0	0	0	0	0	800.0	5.0	24.0	6.0	791.0	2.0	780.0
c	0	0	0	0	0	0	0	13.0	12.0	49.0	436.0	19.0	827.0	8.0
g	0	0	0	0	0	0	0	31.0	828.0	771.0	4.0	28.0	7.0	54.0
t	0	0	0	0	0	0	0	5.0	4.0	5.0	403.0	11.0	13.0	7.0
MA0442.3_shift3 (SOX10) 
; oligos_7nt_mkv4_m4 versus MA0442.3 (SOX10); m=5/7; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.421309; ---ACAAAG-----
; cor=; Ncor=
a	0	0	0	2023.0	3.0	2029.0	1968.0	1959.0	10.0	0	0	0	0	0
c	0	0	0	4.0	1989.0	7.0	28.0	23.0	13.0	0	0	0	0	0
g	0	0	0	3.0	11.0	7.0	20.0	12.0	2012.0	0	0	0	0	0
t	0	0	0	25.0	52.0	12.0	39.0	61.0	20.0	0	0	0	0	0
MA1991.2_rc_shift0 (Hnf1A_rc) 
; oligos_7nt_mkv4_m4 versus MA1991.2_rc (Hnf1A_rc); m=6/7; ncol2=10; w=-3; offset=-3; strand=R; shift=0; score=0.407055; asATCAAAGg----
; cor=; Ncor=
a	784.0	98.0	1092.0	73.0	68.0	1210.0	1122.0	1193.0	62.0	198.0	0	0	0	0
c	99.0	377.0	31.0	16.0	1033.0	12.0	60.0	7.0	39.0	204.0	0	0	0	0
g	210.0	689.0	21.0	35.0	118.0	11.0	51.0	30.0	1130.0	744.0	0	0	0	0
t	156.0	85.0	105.0	1125.0	30.0	16.0	16.0	19.0	18.0	103.0	0	0	0	0
MA0738.2_rc_shift7 (HIC2_rc) 
; oligos_7nt_mkv4_m4 versus MA0738.2_rc (HIC2_rc); m=7/7; ncol2=6; w=0; offset=4; strand=R; shift=7; score=0.404179; -------KGGCAy-
; cor=; Ncor=
a	0	0	0	0	0	0	0	0.0	59.0	0.0	151.0	4891.0	367.0	0
c	0	0	0	0	0	0	0	0.0	0.0	14.0	4891.0	0.0	2285.0	0
g	0	0	0	0	0	0	0	3425.0	4891.0	4891.0	354.0	117.0	394.0	0
t	0	0	0	0	0	0	0	1466.0	435.0	23.0	494.0	0.0	2606.0	0