One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/results/discovered_motifs/oligos_6nt_mkv4_m1/peak-motifs_oligos_6nt_mkv4_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/2025/11/25/peak-motifs.2025-11-25.143236_2025-11-25.143236_C5OFib/results/discovered_motifs/oligos_6nt_mkv4_m1/peak-motifs_oligos_6nt_mkv4_m1_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m1_shift4 ; 16 matrices ; sort_field=Ncor

Matrix nameAligned logoscor Ncor Aligned matrices
oligos_6nt_mkv4_m1_shift4 (oligos_6nt_mkv4_m1)    
; oligos_6nt_mkv4_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----wyATTTTCawt
; Alignment reference
a	0	0	0	0	3044	2292	10859	90	536	472	470	445	6607	3433	2463
c	0	0	0	0	1685	3133	12	34	50	69	66	10225	2621	1826	1842
g	0	0	0	0	1579	2146	54	32	151	98	49	47	120	2520	1854
t	0	0	0	0	5156	3893	539	11308	10727	10825	10879	747	2116	3685	5305
MA0052.5_rc_shift4 (MEF2A_rc)
; oligos_6nt_mkv4_m1 versus MA0052.5_rc (MEF2A_rc); m=1/15; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.645453; ----CTATTTTTAg-
; cor=; Ncor=
a	0	0	0	0	1432.0	108.0	15157.0	831.0	1237.0	835.0	2167.0	1646.0	12325.0	2252.0	0
c	0	0	0	0	11104.0	422.0	215.0	202.0	241.0	506.0	610.0	1066.0	236.0	1007.0	0
g	0	0	0	0	1060.0	50.0	349.0	173.0	231.0	141.0	253.0	1013.0	2974.0	10919.0	0
t	0	0	0	0	2566.0	15582.0	441.0	14956.0	14453.0	14680.0	13132.0	12437.0	627.0	1984.0	0
MA1525.3_rc_shift6 (NFATC4_rc)
; oligos_6nt_mkv4_m1 versus MA1525.3_rc (NFATC4_rc); m=2/15; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.606657; ------wkTTTCCrt
; cor=; Ncor=
a	0	0	0	0	0	0	3012.0	1164.0	107.0	0.0	0.0	0.0	0.0	4553.0	1505.0
c	0	0	0	0	0	0	138.0	1149.0	42.0	0.0	0.0	7139.0	7139.0	43.0	2590.0
g	0	0	0	0	0	0	1280.0	6522.0	460.0	0.0	0.0	0.0	0.0	2586.0	715.0
t	0	0	0	0	0	0	2709.0	7139.0	7139.0	7139.0	7139.0	0.0	0.0	16.0	7139.0
MA0606.3_rc_shift7 (Nfat5_rc)
; oligos_6nt_mkv4_m1 versus MA0606.3_rc (Nfat5_rc); m=3/15; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.605097; -------TTTTCCAT
; cor=; Ncor=
a	0	0	0	0	0	0	0	14.0	10.0	9.0	5.0	7.0	11.0	302.0	13.0
c	0	0	0	0	0	0	0	19.0	8.0	10.0	15.0	325.0	332.0	9.0	47.0
g	0	0	0	0	0	0	0	8.0	4.0	1.0	8.0	8.0	0.0	10.0	17.0
t	0	0	0	0	0	0	0	315.0	334.0	336.0	328.0	16.0	13.0	35.0	279.0
MA0041.3_rc_shift1 (FOXD3_rc)
; oligos_6nt_mkv4_m1 versus MA0041.3_rc (FOXD3_rc); m=4/15; ncol2=14; w=-3; offset=-3; strand=R; shift=1; score=0.584918; -tGTTTRTTTdywtw
; cor=; Ncor=
a	0	47.0	30.0	35.0	11.0	7.0	128.0	2.0	7.0	2.0	171.0	10.0	81.0	22.0	85.0
c	0	30.0	13.0	20.0	8.0	2.0	0.0	7.0	0.0	1.0	8.0	115.0	45.0	52.0	13.0
g	0	20.0	171.0	17.0	11.0	4.0	43.0	1.0	8.0	37.0	109.0	17.0	45.0	17.0	22.0
t	0	125.0	13.0	171.0	171.0	171.0	0.0	171.0	171.0	171.0	99.0	56.0	91.0	120.0	86.0
MA2124.1_shift6 (Hmga1)
; oligos_6nt_mkv4_m1 versus MA2124.1 (Hmga1); m=5/15; ncol2=8; w=0; offset=2; strand=D; shift=6; score=0.57936; ------ATTTTTAw-
; cor=; Ncor=
a	0	0	0	0	0	0	25051.0	820.0	1034.0	695.0	651.0	770.0	24433.0	9680.0	0
c	0	0	0	0	0	0	71.0	393.0	200.0	194.0	264.0	409.0	473.0	2348.0	0
g	0	0	0	0	0	0	188.0	421.0	303.0	138.0	237.0	294.0	358.0	2438.0	0
t	0	0	0	0	0	0	496.0	24172.0	24269.0	24779.0	24654.0	24333.0	542.0	11340.0	0
MA0627.3_rc_shift6 (POU2F3_rc)
; oligos_6nt_mkv4_m1 versus MA0627.3_rc (POU2F3_rc); m=6/15; ncol2=9; w=0; offset=2; strand=R; shift=6; score=0.573047; ------ATTTGCATa
; cor=; Ncor=
a	0	0	0	0	0	0	43338.0	330.0	3276.0	896.0	3716.0	2827.0	53366.0	931.0	37593.0
c	0	0	0	0	0	0	4098.0	233.0	804.0	138.0	1079.0	51971.0	1251.0	354.0	3029.0
g	0	0	0	0	0	0	3478.0	164.0	567.0	80.0	50288.0	251.0	322.0	194.0	6885.0
t	0	0	0	0	0	0	5115.0	55302.0	51382.0	54915.0	946.0	980.0	1090.0	54550.0	8522.0
MA0050.4_rc_shift2 (Irf1_rc)
; oligos_6nt_mkv4_m1 versus MA0050.4_rc (Irf1_rc); m=7/15; ncol2=11; w=-2; offset=-2; strand=R; shift=2; score=0.519092; --TTTCAgTTTCa--
; cor=; Ncor=
a	0	0	496.0	364.0	422.0	296.0	12533.0	564.0	346.0	334.0	483.0	660.0	8589.0	0	0
c	0	0	607.0	499.0	775.0	14013.0	274.0	3315.0	240.0	258.0	1024.0	12682.0	2035.0	0	0
g	0	0	365.0	353.0	298.0	314.0	933.0	9822.0	176.0	253.0	361.0	637.0	1292.0	0	0
t	0	0	14172.0	14424.0	14145.0	1017.0	1900.0	1939.0	14878.0	14795.0	13772.0	1661.0	3724.0	0	0
MA0152.3_rc_shift7 (Nfatc2_rc)
; oligos_6nt_mkv4_m1 versus MA0152.3_rc (Nfatc2_rc); m=8/15; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.514543; -------TTTCCATt
; cor=; Ncor=
a	0	0	0	0	0	0	0	112.0	35.0	41.0	46.0	26.0	2844.0	121.0	321.0
c	0	0	0	0	0	0	0	79.0	45.0	65.0	3133.0	3118.0	101.0	329.0	292.0
g	0	0	0	0	0	0	0	104.0	19.0	38.0	27.0	17.0	124.0	206.0	460.0
t	0	0	0	0	0	0	0	2944.0	3140.0	3095.0	33.0	78.0	170.0	2583.0	2166.0
MA0772.2_rc_shift6 (IRF7_rc)
; oligos_6nt_mkv4_m1 versus MA0772.2_rc (IRF7_rc); m=9/15; ncol2=13; w=0; offset=2; strand=R; shift=6; score=0.470661; ------AbTTTCryT
; cor=; Ncor=
a	0	0	0	0	0	0	804.0	301.0	41.0	1.0	5.0	7.0	375.0	17.0	1.0
c	0	0	0	0	0	0	31.0	1235.0	7.0	3.0	4.0	957.0	2.0	505.0	1.0
g	0	0	0	0	0	0	153.0	957.0	10.0	3.0	16.0	3.0	582.0	156.0	2.0
t	0	0	0	0	0	0	160.0	1184.0	957.0	957.0	957.0	30.0	8.0	279.0	957.0
MA0517.2_shift6 (STAT1::STAT2)
; oligos_6nt_mkv4_m1 versus MA0517.2 (STAT1::STAT2); m=10/15; ncol2=13; w=0; offset=2; strand=D; shift=6; score=0.441144; ------AGTTTCrkT
; cor=; Ncor=
a	0	0	0	0	0	0	430.0	3.0	0.0	3.0	3.0	0.0	255.0	107.0	4.0
c	0	0	0	0	0	0	7.0	148.0	2.0	2.0	13.0	581.0	75.0	111.0	13.0
g	0	0	0	0	0	0	151.0	467.0	0.0	0.0	4.0	0.0	191.0	161.0	10.0
t	0	0	0	0	0	0	32.0	2.0	618.0	615.0	600.0	39.0	99.0	241.0	593.0
MA0624.3_rc_shift8 (Nfatc1_rc)
; oligos_6nt_mkv4_m1 versus MA0624.3_rc (Nfatc1_rc); m=11/15; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.436371; --------TTTCCA-
; cor=; Ncor=
a	0	0	0	0	0	0	0	0	124.0	39.0	54.0	55.0	17.0	5771.0	0
c	0	0	0	0	0	0	0	0	43.0	32.0	27.0	6058.0	6106.0	65.0	0
g	0	0	0	0	0	0	0	0	77.0	13.0	30.0	16.0	13.0	227.0	0
t	0	0	0	0	0	0	0	0	5947.0	6107.0	6080.0	62.0	55.0	128.0	0
MA0625.3_rc_shift8 (NFATC3_rc)
; oligos_6nt_mkv4_m1 versus MA0625.3_rc (NFATC3_rc); m=12/15; ncol2=6; w=0; offset=4; strand=R; shift=8; score=0.424044; --------tTTCCr-
; cor=; Ncor=
a	0	0	0	0	0	0	0	0	1089.0	0.0	8.0	0.0	0.0	3553.0	0
c	0	0	0	0	0	0	0	0	475.0	184.0	825.0	5866.0	5866.0	451.0	0
g	0	0	0	0	0	0	0	0	1586.0	0.0	261.0	0.0	0.0	2313.0	0
t	0	0	0	0	0	0	0	0	5866.0	5866.0	5866.0	0.0	0.0	289.0	0
MA1125.2_rc_shift3 (ZNF384_rc)
; oligos_6nt_mkv4_m1 versus MA1125.2_rc (ZNF384_rc); m=13/15; ncol2=8; w=-1; offset=-1; strand=R; shift=3; score=0.411367; ---ttTTTTTT----
; cor=; Ncor=
a	0	0	0	4656.0	4436.0	21.0	191.0	153.0	314.0	188.0	59.0	0	0	0	0
c	0	0	0	2898.0	2767.0	0.0	14.0	15.0	26.0	19.0	13.0	0	0	0	0
g	0	0	0	3963.0	2908.0	6.0	26.0	13.0	21.0	35.0	7.0	0	0	0	0
t	0	0	0	18916.0	20322.0	30406.0	30202.0	30252.0	30072.0	30191.0	30354.0	0	0	0	0
MA1623.2_rc_shift8 (Stat2_rc)
; oligos_6nt_mkv4_m1 versus MA1623.2_rc (Stat2_rc); m=14/15; ncol2=10; w=0; offset=4; strand=R; shift=8; score=0.405568; --------TTTCTGT
; cor=; Ncor=
a	0	0	0	0	0	0	0	0	141.0	69.0	47.0	55.0	588.0	242.0	62.0
c	0	0	0	0	0	0	0	0	157.0	98.0	163.0	3707.0	74.0	524.0	87.0
g	0	0	0	0	0	0	0	0	147.0	45.0	49.0	45.0	151.0	2907.0	72.0
t	0	0	0	0	0	0	0	0	3514.0	3747.0	3700.0	152.0	3146.0	286.0	3738.0
MA0757.2_rc_shift0 (ONECUT3_rc)
; oligos_6nt_mkv4_m1 versus MA0757.2_rc (ONECUT3_rc); m=15/15; ncol2=12; w=-4; offset=-4; strand=R; shift=0; score=0.404906; tTATyGATTTTt---
; cor=; Ncor=
a	1182.0	345.0	6080.0	22.0	11.0	5.0	6080.0	11.0	54.0	1221.0	878.0	709.0	0	0	0
c	417.0	187.0	7.0	9.0	2130.0	3.0	14.0	41.0	102.0	112.0	498.0	1141.0	0	0	0
g	861.0	105.0	6.0	6.0	20.0	6080.0	103.0	5.0	28.0	173.0	274.0	379.0	0	0	0
t	3620.0	6080.0	43.0	6080.0	3950.0	23.0	32.0	6080.0	6080.0	6080.0	6080.0	3851.0	0	0	0