One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/02/26/peak-motifs.2026-02-26.234316_2026-02-26.234316_5Dj251/results/discovered_motifs/oligos_7nt_mkv1_m1/peak-motifs_oligos_7nt_mkv1_m1.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/2026/02/26/peak-motifs.2026-02-26.234316_2026-02-26.234316_5Dj251/results/discovered_motifs/oligos_7nt_mkv1_m1/peak-motifs_oligos_7nt_mkv1_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m1_shift0 ; 13 matrices ; sort_field=Ncor

Matrix nameAligned logoscor Ncor Aligned matrices
oligos_7nt_mkv1_m1_shift0 (oligos_7nt_mkv1_m1)     
; oligos_7nt_mkv1_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; srAGAGTCAAmw
; Alignment reference
a	0	1	2	0	2	0	0	0	2	2	1	1
c	1	0	0	0	0	0	0	2	0	0	1	0
g	1	1	0	2	0	2	0	0	0	0	0	0
t	0	0	0	0	0	0	2	0	0	0	0	1
MA0676.1_shift1 (Nr2e1) 
; oligos_7nt_mkv1_m1 versus MA0676.1 (Nr2e1); m=1/12; ncol2=9; w=0; offset=1; strand=D; shift=1; score=0.594694; -aaAAGTCAA--
; cor=; Ncor=
a	0	1118.0	1118.0	1118.0	1118.0	40.0	0.0	11.0	1118.0	1118.0	0	0
c	0	244.0	89.0	1.0	0.0	0.0	58.0	1118.0	0.0	131.0	0	0
g	0	191.0	448.0	101.0	74.0	1118.0	0.0	12.0	0.0	117.0	0	0
t	0	401.0	369.0	19.0	5.0	8.0	1118.0	112.0	0.0	247.0	0	0
MA1657.2_shift1 (ZNF652) 
; oligos_7nt_mkv1_m1 versus MA1657.2 (ZNF652); m=2/12; ncol2=9; w=0; offset=1; strand=D; shift=1; score=0.576976; -AAGrGTTAA--
; cor=; Ncor=
a	0	11418.0	11220.0	267.0	7606.0	178.0	220.0	240.0	11708.0	9189.0	0	0
c	0	372.0	89.0	573.0	106.0	109.0	155.0	274.0	215.0	1216.0	0	0
g	0	317.0	660.0	10998.0	4279.0	11940.0	182.0	249.0	205.0	1032.0	0	0
t	0	266.0	404.0	535.0	382.0	146.0	11816.0	11610.0	245.0	936.0	0	0
MA0489.3_rc_shift1 (Jun_rc) 
; oligos_7nt_mkv1_m1 versus MA0489.3_rc (Jun_rc); m=3/12; ncol2=8; w=0; offset=1; strand=R; shift=1; score=0.526491; -aTGAGTCA---
; cor=; Ncor=
a	0	61451.0	1633.0	969.0	89140.0	4185.0	1648.0	2739.0	91503.0	0	0	0
c	0	13040.0	1147.0	1228.0	1009.0	14953.0	1717.0	88928.0	718.0	0	0	0
g	0	14637.0	1827.0	88215.0	920.0	71105.0	1493.0	1468.0	716.0	0	0	0
t	0	4975.0	89496.0	3691.0	3034.0	3860.0	89245.0	968.0	1166.0	0	0	0
MA0476.2_rc_shift1 (FOS_rc) 
; oligos_7nt_mkv1_m1 versus MA0476.2_rc (FOS_rc); m=4/12; ncol2=8; w=0; offset=1; strand=R; shift=1; score=0.500416; -ATGAsTCA---
; cor=; Ncor=
a	0	21777.0	0.0	0.0	29396.0	3113.0	0.0	2288.0	29396.0	0	0	0
c	0	1538.0	0.0	0.0	0.0	11206.0	0.0	27108.0	0.0	0	0	0
g	0	5823.0	0.0	29396.0	0.0	14079.0	0.0	0.0	0.0	0	0	0
t	0	258.0	29396.0	0.0	0.0	998.0	29396.0	0.0	0.0	0	0	0
MA0835.3_rc_shift2 (BATF3_rc) 
; oligos_7nt_mkv1_m1 versus MA0835.3_rc (BATF3_rc); m=5/12; ncol2=7; w=0; offset=2; strand=R; shift=2; score=0.465653; --TGAGTCA---
; cor=; Ncor=
a	0	0	235.0	282.0	11502.0	408.0	116.0	1238.0	11737.0	0	0	0
c	0	0	117.0	88.0	117.0	560.0	87.0	10420.0	37.0	0	0	0
g	0	0	84.0	10347.0	79.0	10589.0	92.0	62.0	59.0	0	0	0
t	0	0	11529.0	1248.0	267.0	408.0	11670.0	245.0	132.0	0	0	0
MA1928.2_shift2 (BNC2) 
; oligos_7nt_mkv1_m1 versus MA1928.2 (BNC2); m=6/12; ncol2=7; w=0; offset=2; strand=D; shift=2; score=0.465373; --TGAGTCA---
; cor=; Ncor=
a	0	0	147.0	134.0	5303.0	227.0	86.0	216.0	5483.0	0	0	0
c	0	0	66.0	72.0	117.0	838.0	106.0	5238.0	54.0	0	0	0
g	0	0	96.0	5184.0	61.0	4332.0	80.0	112.0	56.0	0	0	0
t	0	0	5363.0	282.0	191.0	275.0	5400.0	106.0	79.0	0	0	0
MA1988.2_rc_shift2 (Atf3_rc) 
; oligos_7nt_mkv1_m1 versus MA1988.2_rc (Atf3_rc); m=7/12; ncol2=7; w=0; offset=2; strand=R; shift=2; score=0.464102; --TGAGTCA---
; cor=; Ncor=
a	0	0	887.0	2087.0	50485.0	2262.0	547.0	3914.0	53085.0	0	0	0
c	0	0	1086.0	574.0	1365.0	4498.0	471.0	48774.0	357.0	0	0	0
g	0	0	673.0	46610.0	504.0	45670.0	356.0	443.0	669.0	0	0	0
t	0	0	52046.0	5421.0	2338.0	2262.0	53318.0	1561.0	581.0	0	0	0
MA0462.3_rc_shift2 (BATF::JUN_rc) 
; oligos_7nt_mkv1_m1 versus MA0462.3_rc (BATF::JUN_rc); m=8/12; ncol2=7; w=0; offset=2; strand=R; shift=2; score=0.461896; --TGAGTCA---
; cor=; Ncor=
a	0	0	558.0	907.0	36619.0	1399.0	320.0	3785.0	37330.0	0	0	0
c	0	0	424.0	522.0	539.0	4188.0	350.0	33135.0	182.0	0	0	0
g	0	0	318.0	32770.0	241.0	31168.0	204.0	400.0	275.0	0	0	0
t	0	0	36854.0	3955.0	755.0	1399.0	37280.0	834.0	367.0	0	0	0
MA1634.2_rc_shift2 (BATF_rc) 
; oligos_7nt_mkv1_m1 versus MA1634.2_rc (BATF_rc); m=9/12; ncol2=7; w=0; offset=2; strand=R; shift=2; score=0.460907; --TGAGTCA---
; cor=; Ncor=
a	0	0	754.0	1276.0	44736.0	2051.0	471.0	4682.0	45887.0	0	0	0
c	0	0	507.0	711.0	836.0	5573.0	341.0	40617.0	283.0	0	0	0
g	0	0	431.0	40279.0	306.0	37333.0	250.0	570.0	355.0	0	0	0
t	0	0	45316.0	4742.0	1130.0	2051.0	45946.0	1139.0	483.0	0	0	0
MA0848.1_shift5 (FOXO4) 
; oligos_7nt_mkv1_m1 versus MA0848.1 (FOXO4); m=10/12; ncol2=7; w=0; offset=5; strand=D; shift=5; score=0.421496; -----GTAAACA
; cor=; Ncor=
a	0	0	0	0	0	1669.0	345.0	5378.0	5378.0	5378.0	58.0	5378.0
c	0	0	0	0	0	13.0	69.0	1259.0	146.0	0.0	5378.0	10.0
g	0	0	0	0	0	5378.0	123.0	32.0	19.0	90.0	33.0	10.0
t	0	0	0	0	0	0.0	5378.0	20.0	20.0	10.0	958.0	40.0
MA0849.1_shift5 (FOXO6) 
; oligos_7nt_mkv1_m1 versus MA0849.1 (FOXO6); m=11/12; ncol2=7; w=0; offset=5; strand=D; shift=5; score=0.41787; -----GTAAACA
; cor=; Ncor=
a	0	0	0	0	0	1445.0	154.0	7025.0	7025.0	7025.0	0.0	7025.0
c	0	0	0	0	0	0.0	0.0	1147.0	195.0	0.0	7025.0	0.0
g	0	0	0	0	0	7025.0	32.0	7.0	0.0	0.0	31.0	13.0
t	0	0	0	0	0	0.0	7025.0	0.0	26.0	0.0	385.0	0.0
MA0042.2_shift5 (FOXI1) 
; oligos_7nt_mkv1_m1 versus MA0042.2 (FOXI1); m=12/12; ncol2=7; w=0; offset=5; strand=D; shift=5; score=0.415589; -----GTAAACA
; cor=; Ncor=
a	0	0	0	0	0	618.0	74.0	5175.0	5175.0	5175.0	157.0	5175.0
c	0	0	0	0	0	39.0	60.0	540.0	23.0	23.0	5175.0	12.0
g	0	0	0	0	0	5175.0	35.0	37.0	0.0	29.0	48.0	25.0
t	0	0	0	0	0	0.0	5175.0	0.0	0.0	66.0	810.0	0.0