One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2.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/2026/01/05/peak-motifs.2026-01-05.052000_2026-01-05.052000_2qIqyX/results/discovered_motifs/oligos_7nt_mkv4_m2/peak-motifs_oligos_7nt_mkv4_m2_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m2_shift4 ; 15 matrices ; sort_field=Ncor

Matrix nameAligned logoscor Ncor Aligned matrices
oligos_7nt_mkv4_m2_shift4 (oligos_7nt_mkv4_m2)    
; oligos_7nt_mkv4_m2; m=0 (reference); ncol1=12; shift=4; ncol=16; ----tgCCCAGACAtg
; Alignment reference
a	0	0	0	0	115	78	22	24	13	580	21	494	21	602	145	125
c	0	0	0	0	108	128	556	594	620	9	21	32	586	17	125	80
g	0	0	0	0	99	362	23	6	1	19	595	106	30	7	127	366
t	0	0	0	0	327	81	48	25	15	41	12	17	12	23	252	78
MA1979.2_rc_shift4 (ZNF416_rc)
; oligos_7nt_mkv4_m2 versus MA1979.2_rc (ZNF416_rc); m=1/14; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.73695; ----tGCCCAGAtA--
; cor=; Ncor=
a	0	0	0	0	66.0	18.0	3.0	3.0	2.0	336.0	3.0	254.0	46.0	240.0	0	0
c	0	0	0	0	29.0	3.0	341.0	335.0	335.0	1.0	7.0	15.0	77.0	26.0	0	0
g	0	0	0	0	38.0	320.0	1.0	5.0	7.0	6.0	334.0	28.0	25.0	32.0	0	0
t	0	0	0	0	212.0	4.0	0.0	2.0	1.0	2.0	1.0	48.0	197.0	47.0	0	0
MA2121.1_shift5 (ZNF213)
; oligos_7nt_mkv4_m2 versus MA2121.1 (ZNF213); m=2/14; ncol2=12; w=0; offset=1; strand=D; shift=5; score=0.640537; -----gCCCAGGCwGs
; cor=; Ncor=
a	0	0	0	0	0	119.0	26.0	18.0	15.0	577.0	10.0	12.0	16.0	229.0	42.0	61.0
c	0	0	0	0	0	89.0	581.0	603.0	630.0	34.0	13.0	25.0	642.0	97.0	76.0	319.0
g	0	0	0	0	0	403.0	52.0	34.0	34.0	54.0	661.0	639.0	22.0	124.0	519.0	260.0
t	0	0	0	0	0	76.0	28.0	32.0	8.0	22.0	3.0	11.0	7.0	237.0	50.0	47.0
MA2125.1_shift4 (Zfp809)
; oligos_7nt_mkv4_m2 versus MA2125.1 (Zfp809); m=3/14; ncol2=9; w=0; offset=0; strand=D; shift=4; score=0.571705; ----wTCCCAGCc---
; cor=; Ncor=
a	0	0	0	0	828.0	23.0	15.0	20.0	10.0	1529.0	32.0	287.0	217.0	0	0	0
c	0	0	0	0	66.0	41.0	1607.0	1610.0	1621.0	26.0	35.0	1218.0	1091.0	0	0	0
g	0	0	0	0	81.0	23.0	18.0	14.0	16.0	73.0	1572.0	99.0	115.0	0	0	0
t	0	0	0	0	690.0	1578.0	25.0	21.0	18.0	37.0	26.0	61.0	242.0	0	0	0
MA0092.2_rc_shift4 (Hand1::Tcf3_rc)
; oligos_7nt_mkv4_m2 versus MA0092.2_rc (Hand1::Tcf3_rc); m=4/14; ncol2=9; w=0; offset=0; strand=R; shift=4; score= 0.5495; ----awkCCAGAy---
; cor=; Ncor=
a	0	0	0	0	16.0	10.0	5.0	1.0	0.0	29.0	1.0	24.0	4.0	0	0	0
c	0	0	0	0	4.0	3.0	1.0	25.0	29.0	0.0	0.0	1.0	15.0	0	0	0
g	0	0	0	0	4.0	0.0	14.0	3.0	0.0	0.0	28.0	2.0	0.0	0	0	0
t	0	0	0	0	5.0	16.0	9.0	0.0	0.0	0.0	0.0	2.0	10.0	0	0	0
MA2123.1_shift6 (Hand1)
; oligos_7nt_mkv4_m2 versus MA2123.1 (Hand1); m=5/14; ncol2=9; w=0; offset=2; strand=D; shift=6; score=0.537978; ------tCCAGACCt-
; cor=; Ncor=
a	0	0	0	0	0	0	177.0	84.0	8.0	1016.0	8.0	908.0	28.0	40.0	153.0	0
c	0	0	0	0	0	0	128.0	850.0	1036.0	16.0	24.0	33.0	955.0	962.0	235.0	0
g	0	0	0	0	0	0	148.0	101.0	12.0	10.0	1016.0	104.0	46.0	46.0	61.0	0
t	0	0	0	0	0	0	609.0	27.0	6.0	20.0	14.0	17.0	33.0	14.0	613.0	0
MA0155.1_rc_shift2 (INSM1_rc)
; oligos_7nt_mkv4_m2 versus MA0155.1_rc (INSM1_rc); m=6/14; ncol2=12; w=-2; offset=-2; strand=R; shift=2; score=0.523587; --ygmCCCCwkrCA--
; cor=; Ncor=
a	0	0	2.0	5.0	6.0	0.0	0.0	0.0	0.0	8.0	3.0	13.0	4.0	19.0	0	0
c	0	0	12.0	0.0	16.0	24.0	24.0	23.0	24.0	0.0	0.0	3.0	20.0	4.0	0	0
g	0	0	0.0	16.0	2.0	0.0	0.0	1.0	0.0	0.0	15.0	8.0	0.0	0.0	0	0
t	0	0	10.0	3.0	0.0	0.0	0.0	0.0	0.0	16.0	6.0	0.0	0.0	1.0	0	0
MA1153.2_rc_shift7 (Smad4_rc)
; oligos_7nt_mkv4_m2 versus MA1153.2_rc (Smad4_rc); m=7/14; ncol2=7; w=0; offset=3; strand=R; shift=7; score=0.515258; -------CyAGACr--
; cor=; Ncor=
a	0	0	0	0	0	0	0	0.0	0.0	1000.0	0.0	1000.0	0.0	581.0	0	0
c	0	0	0	0	0	0	0	1000.0	404.0	0.0	0.0	0.0	1000.0	81.0	0	0
g	0	0	0	0	0	0	0	0.0	0.0	0.0	1000.0	0.0	0.0	250.0	0	0
t	0	0	0	0	0	0	0	0.0	596.0	0.0	0.0	0.0	0.0	88.0	0	0
MA0106.3_shift0 (TP53)
; oligos_7nt_mkv4_m2 versus MA0106.3 (TP53); m=8/14; ncol2=18; w=-4; offset=-4; strand=D; shift=0; score=0.510222; rACATGyCcgGrCATG
; cor=; Ncor=
a	7544.0	10514.0	45.0	11931.0	1710.0	8.0	244.0	1228.0	1145.0	3851.0	3584.0	7104.0	0.0	12925.0	1825.0	327.0
c	1037.0	116.0	19689.0	204.0	374.0	2.0	12014.0	17286.0	11875.0	1474.0	756.0	26.0	19350.0	250.0	118.0	33.0
g	6563.0	2433.0	13.0	653.0	137.0	20393.0	109.0	417.0	2151.0	9954.0	17846.0	8821.0	4.0	157.0	89.0	20549.0
t	2268.0	735.0	837.0	739.0	18893.0	0.0	7106.0	2642.0	3774.0	2118.0	1546.0	190.0	1.0	1155.0	17864.0	68.0
MA1964.2_shift7 (SMAD2)
; oligos_7nt_mkv4_m2 versus MA1964.2 (SMAD2); m=9/14; ncol2=6; w=0; offset=3; strand=D; shift=7; score=0.494778; -------CCAGAC---
; cor=; Ncor=
a	0	0	0	0	0	0	0	42.0	6.0	3447.0	7.0	3747.0	1.0	0	0	0
c	0	0	0	0	0	0	0	3610.0	3484.0	149.0	30.0	0.0	3757.0	0	0	0
g	0	0	0	0	0	0	0	86.0	171.0	154.0	3703.0	0.0	0.0	0	0	0
t	0	0	0	0	0	0	0	20.0	97.0	8.0	18.0	11.0	0.0	0	0	0
MA1731.2_rc_shift8 (ZNF768_rc)
; oligos_7nt_mkv4_m2 versus MA1731.2_rc (ZNF768_rc); m=10/14; ncol2=9; w=0; offset=4; strand=R; shift=8; score=0.46407; --------CAGAGAgG
; cor=; Ncor=
a	0	0	0	0	0	0	0	0	1.0	987.0	1.0	945.0	20.0	917.0	123.0	141.0
c	0	0	0	0	0	0	0	0	973.0	11.0	11.0	43.0	29.0	11.0	179.0	62.0
g	0	0	0	0	0	0	0	0	25.0	1.0	987.0	6.0	950.0	39.0	655.0	768.0
t	0	0	0	0	0	0	0	0	1.0	1.0	1.0	6.0	1.0	34.0	43.0	29.0
MA0161.3_rc_shift4 (NFIC_rc)
; oligos_7nt_mkv4_m2 versus MA0161.3_rc (NFIC_rc); m=11/14; ncol2=7; w=0; offset=0; strand=R; shift=4; score=0.422108; ----TGCCAAG-----
; cor=; Ncor=
a	0	0	0	0	574.0	530.0	290.0	81.0	10745.0	10781.0	324.0	0	0	0	0	0
c	0	0	0	0	478.0	88.0	10973.0	11087.0	177.0	369.0	329.0	0	0	0	0	0
g	0	0	0	0	397.0	10725.0	121.0	129.0	333.0	303.0	10542.0	0	0	0	0	0
t	0	0	0	0	10158.0	264.0	223.0	310.0	352.0	154.0	412.0	0	0	0	0	0
MA1986.2_shift3 (ZNF692)
; oligos_7nt_mkv4_m2 versus MA1986.2 (ZNF692); m=12/14; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.413506; ---gGGCCCAs-----
; cor=; Ncor=
a	0	0	0	1403.0	0.0	31.0	27.0	41.0	3.0	10535.0	852.0	0	0	0	0	0
c	0	0	0	1314.0	90.0	4.0	10689.0	10446.0	10545.0	0.0	4998.0	0	0	0	0	0
g	0	0	0	6833.0	10642.0	10684.0	7.0	241.0	176.0	210.0	3703.0	0	0	0	0	0
t	0	0	0	1195.0	13.0	26.0	22.0	17.0	21.0	0.0	1192.0	0	0	0	0	0
MA2002.2_shift7 (Zfp335)
; oligos_7nt_mkv4_m2 versus MA2002.2 (Zfp335); m=13/14; ncol2=7; w=0; offset=3; strand=D; shift=7; score=0.409952; -------tCAGGCA--
; cor=; Ncor=
a	0	0	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	0	0	5.0	82.0	3.0	2.0	0.0	81.0	1.0	0	0
g	0	0	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	0	0	52.0	0.0	3.0	1.0	2.0	0.0	1.0	0	0
MA1116.2_rc_shift4 (RBPJ_rc)
; oligos_7nt_mkv4_m2 versus MA1116.2_rc (RBPJ_rc); m=14/14; ncol2=6; w=0; offset=0; strand=R; shift=4; score=0.405779; ----TTCCCA------
; cor=; Ncor=
a	0	0	0	0	4.0	29.0	78.0	60.0	1.0	2386.0	0	0	0	0	0	0
c	0	0	0	0	1.0	4.0	2309.0	2313.0	2341.0	2.0	0	0	0	0	0	0
g	0	0	0	0	15.0	0.0	8.0	20.0	25.0	12.0	0	0	0	0	0	0
t	0	0	0	0	2382.0	2369.0	7.0	9.0	35.0	2.0	0	0	0	0	0	0