One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.174600_2025-05-16.174600_au3zWU/results/discovered_motifs/oligos_7nt_mkv2_m3/peak-motifs_oligos_7nt_mkv2_m3.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/2025/05/16/peak-motifs.2025-05-16.174600_2025-05-16.174600_au3zWU/results/discovered_motifs/oligos_7nt_mkv2_m3/peak-motifs_oligos_7nt_mkv2_m3_vs_db_JASPAR2024_CORE_vertebrates_non-redundant

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 35 matrices ; sort_field=Ncor

Matrix nameAligned logoscor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)     
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; myAGCCAATww
; Alignment reference
a	11	4	26	1	2	2	25	26	4	9	8
c	7	8	1	1	22	24	0	1	0	5	6
g	3	4	0	25	1	0	1	0	0	5	3
t	6	11	0	0	2	1	1	0	23	8	10
MA0502.3_rc_shift2 (NFYB_rc) 
; oligos_7nt_mkv2_m3 versus MA0502.3_rc (NFYB_rc); m=1/34; ncol2=9; w=0; offset=2; strand=R; shift=2; score=0.636717; --GGCCAATGr
; cor=; Ncor=
a	0	0	1338.0	639.0	61.0	110.0	7231.0	6852.0	233.0	333.0	3410.0
c	0	0	139.0	173.0	7272.0	7250.0	102.0	227.0	57.0	1481.0	901.0
g	0	0	5823.0	6488.0	58.0	41.0	37.0	241.0	181.0	5447.0	2705.0
t	0	0	154.0	154.0	63.0	53.0	84.0	134.0	6983.0	193.0	438.0
MA1644.2_shift4 (NFYC) 
; oligos_7nt_mkv2_m3 versus MA1644.2 (NFYC); m=2/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.541999; ----CCAATCA
; cor=; Ncor=
a	0	0	0	0	287.0	380.0	12776.0	12317.0	259.0	532.0	11826.0
c	0	0	0	0	12507.0	12880.0	325.0	376.0	374.0	11224.0	711.0
g	0	0	0	0	394.0	111.0	103.0	549.0	71.0	1464.0	891.0
t	0	0	0	0	428.0	245.0	412.0	374.0	12912.0	396.0	188.0
MA0060.4_shift4 (NFYA) 
; oligos_7nt_mkv2_m3 versus MA0060.4 (NFYA); m=3/34; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.498829; ----CCAATCA
; cor=; Ncor=
a	0	0	0	0	23.0	31.0	4683.0	4584.0	37.0	166.0	4088.0
c	0	0	0	0	4657.0	4713.0	29.0	94.0	132.0	4215.0	213.0
g	0	0	0	0	34.0	28.0	17.0	124.0	11.0	319.0	489.0
t	0	0	0	0	111.0	53.0	96.0	23.0	4645.0	125.0	35.0
MA0650.4_shift4 (Hoxa13) 
; oligos_7nt_mkv2_m3 versus MA0650.4 (Hoxa13); m=4/34; ncol2=8; w=0; offset=4; strand=D; shift=4; score=0.481101; ----CCAATAA
; cor=; Ncor=
a	0	0	0	0	1442.0	1273.0	14069.0	15410.0	105.0	15804.0	16813.0
c	0	0	0	0	12600.0	14100.0	1594.0	243.0	249.0	205.0	125.0
g	0	0	0	0	1889.0	77.0	146.0	666.0	232.0	407.0	98.0
t	0	0	0	0	1317.0	1798.0	1439.0	929.0	16662.0	832.0	212.0
MA0642.3_shift4 (EN2) 
; oligos_7nt_mkv2_m3 versus MA0642.3 (EN2); m=5/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.477618; ----syAATTA
; cor=; Ncor=
a	0	0	0	0	115.0	0.0	898.0	898.0	0.0	28.0	898.0
c	0	0	0	0	898.0	577.0	198.0	0.0	0.0	0.0	4.0
g	0	0	0	0	474.0	0.0	44.0	31.0	0.0	0.0	168.0
t	0	0	0	0	313.0	321.0	103.0	0.0	898.0	898.0	0.0
MA0889.2_shift4 (GBX1) 
; oligos_7nt_mkv2_m3 versus MA0889.2 (GBX1); m=6/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.470008; ----syAATTA
; cor=; Ncor=
a	0	0	0	0	1674.0	243.0	27339.0	27339.0	45.0	312.0	27339.0
c	0	0	0	0	14978.0	13543.0	589.0	172.0	128.0	438.0	50.0
g	0	0	0	0	6964.0	15.0	758.0	29.0	1.0	246.0	8.0
t	0	0	0	0	3723.0	13796.0	157.0	23.0	27339.0	27339.0	321.0
MA0701.3_shift4 (LHX9) 
; oligos_7nt_mkv2_m3 versus MA0701.3 (LHX9); m=7/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.456163; ----CyAATTA
; cor=; Ncor=
a	0	0	0	0	390.0	0.0	6075.0	6075.0	0.0	0.0	6075.0
c	0	0	0	0	6075.0	2093.0	505.0	0.0	0.0	0.0	0.0
g	0	0	0	0	1056.0	0.0	0.0	0.0	0.0	170.0	305.0
t	0	0	0	0	1219.0	3983.0	20.0	0.0	6075.0	6075.0	0.0
MA0644.3_shift4 (ESX1) 
; oligos_7nt_mkv2_m3 versus MA0644.3 (ESX1); m=8/34; ncol2=7; w=0; offset=4; strand=D; shift=4; score=0.453691; ----yyAATTA
; cor=; Ncor=
a	0	0	0	0	1070.0	589.0	19670.0	19670.0	0.0	47.0	19670.0
c	0	0	0	0	11980.0	7595.0	634.0	95.0	0.0	1009.0	0.0
g	0	0	0	0	2110.0	0.0	821.0	0.0	0.0	225.0	925.0
t	0	0	0	0	7690.0	12075.0	181.0	0.0	19670.0	19670.0	557.0
MA0671.2_shift2 (NFIX) 
; oligos_7nt_mkv2_m3 versus MA0671.2 (NFIX); m=9/34; ncol2=6; w=0; offset=2; strand=D; shift=2; score=0.451743; --tGCCAr---
; cor=; Ncor=
a	0	0	11279.0	132.0	3.0	0.0	32864.0	32864.0	0	0	0
c	0	0	9695.0	186.0	32864.0	32864.0	2230.0	1356.0	0	0	0
g	0	0	5911.0	32864.0	3257.0	0.0	180.0	12688.0	0	0	0
t	0	0	32864.0	2539.0	29.0	0.0	110.0	2399.0	0	0	0
MA0901.3_shift4 (HOXB13) 
; oligos_7nt_mkv2_m3 versus MA0901.3 (HOXB13); m=10/34; ncol2=9; w=0; offset=4; strand=D; shift=4; score=0.440985; ----cCAATAA
; cor=; Ncor=
a	0	0	0	0	11896.0	4212.0	66409.0	73044.0	421.0	73612.0	75997.0
c	0	0	0	0	47674.0	65312.0	4611.0	726.0	550.0	523.0	599.0
g	0	0	0	0	9096.0	582.0	351.0	1913.0	586.0	1083.0	490.0
t	0	0	0	0	10048.0	8608.0	7343.0	3031.0	77157.0	3496.0	1628.0
MA0700.3_shift5 (LHX2) 
; oligos_7nt_mkv2_m3 versus MA0700.3 (LHX2); m=11/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.440572; -----CAATTA
; cor=; Ncor=
a	0	0	0	0	0	44.0	5790.0	6022.0	129.0	67.0	6275.0
c	0	0	0	0	0	5612.0	71.0	101.0	58.0	5.0	13.0
g	0	0	0	0	0	37.0	52.0	77.0	64.0	5.0	6.0
t	0	0	0	0	0	640.0	420.0	133.0	6082.0	6256.0	39.0
MA0708.3_shift5 (MSX2) 
; oligos_7nt_mkv2_m3 versus MA0708.3 (MSX2); m=12/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.436355; -----YAATTA
; cor=; Ncor=
a	0	0	0	0	0	220.0	6353.0	6353.0	0.0	62.0	6353.0
c	0	0	0	0	0	6353.0	175.0	112.0	0.0	600.0	0.0
g	0	0	0	0	0	0.0	259.0	0.0	0.0	0.0	243.0
t	0	0	0	0	0	2737.0	0.0	0.0	6353.0	6353.0	0.0
MA0709.2_shift5 (Msx3) 
; oligos_7nt_mkv2_m3 versus MA0709.2 (Msx3); m=13/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.433822; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	312.0	8380.0	8380.0	0.0	121.0	8380.0
c	0	0	0	0	0	5798.0	160.0	89.0	0.0	215.0	59.0
g	0	0	0	0	0	29.0	237.0	38.0	0.0	105.0	88.0
t	0	0	0	0	0	2582.0	94.0	5.0	8380.0	8380.0	213.0
MA0666.3_shift5 (MSX1) 
; oligos_7nt_mkv2_m3 versus MA0666.3 (MSX1); m=14/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.430842; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	227.0	5064.0	5064.0	0.0	0.0	5064.0
c	0	0	0	0	0	5064.0	125.0	42.0	0.0	280.0	0.0
g	0	0	0	0	0	0.0	146.0	0.0	0.0	0.0	159.0
t	0	0	0	0	0	2415.0	0.0	0.0	5064.0	5064.0	0.0
MA0879.3_shift5 (DLX1) 
; oligos_7nt_mkv2_m3 versus MA0879.3 (DLX1); m=15/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.42198; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	265.0	6231.0	6231.0	0.0	0.0	6231.0
c	0	0	0	0	0	4059.0	1212.0	222.0	0.0	639.0	0.0
g	0	0	0	0	0	0.0	954.0	0.0	0.0	155.0	168.0
t	0	0	0	0	0	2171.0	540.0	0.0	6231.0	6231.0	614.0
MA0909.4_shift5 (Hoxd13) 
; oligos_7nt_mkv2_m3 versus MA0909.4 (Hoxd13); m=16/34; ncol2=7; w=0; offset=5; strand=D; shift=5; score=0.419281; -----CAATAA
; cor=; Ncor=
a	0	0	0	0	0	16.0	5775.0	5923.0	0.0	5955.0	5923.0
c	0	0	0	0	0	5866.0	5.0	13.0	2.0	4.0	37.0
g	0	0	0	0	0	34.0	148.0	11.0	3.0	7.0	2.0
t	0	0	0	0	0	61.0	49.0	30.0	5972.0	11.0	15.0
MA0717.2_shift5 (RAX2) 
; oligos_7nt_mkv2_m3 versus MA0717.2 (RAX2); m=17/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.41769; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	3558.0	38860.0	38860.0	270.0	2167.0	38860.0
c	0	0	0	0	0	19645.0	3060.0	1523.0	738.0	4232.0	2644.0
g	0	0	0	0	0	1688.0	4490.0	757.0	125.0	2513.0	360.0
t	0	0	0	0	0	19215.0	2421.0	1030.0	38860.0	38860.0	4258.0
MA0881.2_shift5 (Dlx4) 
; oligos_7nt_mkv2_m3 versus MA0881.2 (Dlx4); m=18/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.417678; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	724.0	12054.0	12054.0	88.0	440.0	12054.0
c	0	0	0	0	0	6841.0	1500.0	744.0	85.0	868.0	316.0
g	0	0	0	0	0	145.0	739.0	55.0	38.0	542.0	134.0
t	0	0	0	0	0	5213.0	883.0	499.0	12054.0	12054.0	1127.0
MA0890.2_shift5 (GBX2) 
; oligos_7nt_mkv2_m3 versus MA0890.2 (GBX2); m=19/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.417072; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	699.0	27366.0	27366.0	0.0	318.0	27366.0
c	0	0	0	0	0	15511.0	570.0	250.0	61.0	570.0	73.0
g	0	0	0	0	0	106.0	1113.0	114.0	65.0	673.0	30.0
t	0	0	0	0	0	11855.0	227.0	25.0	27366.0	27366.0	650.0
MA0894.2_rc_shift5 (HESX1_rc) 
; oligos_7nt_mkv2_m3 versus MA0894.2_rc (HESX1_rc); m=20/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.416604; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	97.0	4072.0	4072.0	0.0	31.0	4072.0
c	0	0	0	0	0	2180.0	0.0	15.0	9.0	53.0	34.0
g	0	0	0	0	0	38.0	15.0	0.0	7.0	0.0	0.0
t	0	0	0	0	0	1892.0	0.0	0.0	4072.0	4072.0	187.0
MA0718.2_shift5 (RAX) 
; oligos_7nt_mkv2_m3 versus MA0718.2 (RAX); m=21/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.416302; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	214.0	2412.0	2412.0	123.0	71.0	2412.0
c	0	0	0	0	0	1281.0	17.0	38.0	0.0	71.0	0.0
g	0	0	0	0	0	25.0	3.0	12.0	0.0	49.0	20.0
t	0	0	0	0	0	1131.0	40.0	24.0	2412.0	2412.0	126.0
MA0880.2_shift5 (Dlx3) 
; oligos_7nt_mkv2_m3 versus MA0880.2 (Dlx3); m=22/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.416197; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	572.0	7323.0	7323.0	173.0	399.0	7323.0
c	0	0	0	0	0	4133.0	995.0	536.0	66.0	535.0	202.0
g	0	0	0	0	0	164.0	587.0	62.0	60.0	452.0	101.0
t	0	0	0	0	0	3190.0	643.0	299.0	7323.0	7323.0	691.0
MA0027.3_shift5 (EN1) 
; oligos_7nt_mkv2_m3 versus MA0027.3 (EN1); m=23/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.415118; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	104.0	2891.0	2891.0	0.0	57.0	2891.0
c	0	0	0	0	0	1328.0	99.0	28.0	0.0	483.0	0.0
g	0	0	0	0	0	5.0	71.0	0.0	0.0	162.0	30.0
t	0	0	0	0	0	1562.0	0.0	0.0	2891.0	2891.0	132.0
MA0720.2_shift5 (Shox2) 
; oligos_7nt_mkv2_m3 versus MA0720.2 (Shox2); m=24/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.412461; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	979.0	18179.0	18179.0	29.0	597.0	18179.0
c	0	0	0	0	0	9027.0	626.0	138.0	12.0	545.0	193.0
g	0	0	0	0	0	228.0	426.0	3.0	0.0	870.0	36.0
t	0	0	0	0	0	9152.0	766.0	79.0	18179.0	18179.0	895.0
MA0670.2_shift2 (NFIA) 
; oligos_7nt_mkv2_m3 versus MA0670.2 (NFIA); m=25/34; ncol2=6; w=0; offset=2; strand=D; shift=2; score=0.411894; --TGCCAA---
; cor=; Ncor=
a	0	0	0.0	0.0	0.0	0.0	89071.0	89418.0	0	0	0
c	0	0	0.0	0.0	93597.0	93394.0	0.0	0.0	0	0	0
g	0	0	0.0	98253.0	0.0	0.0	0.0	0.0	0	0	0
t	0	0	95496.0	0.0	0.0	0.0	0.0	0.0	0	0	0
MA0699.2_shift5 (LBX2) 
; oligos_7nt_mkv2_m3 versus MA0699.2 (LBX2); m=26/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.410228; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	157.0	2996.0	2996.0	0.0	150.0	2996.0
c	0	0	0	0	0	1634.0	338.0	290.0	29.0	258.0	34.0
g	0	0	0	0	0	109.0	325.0	130.0	118.0	293.0	106.0
t	0	0	0	0	0	1362.0	57.0	89.0	2996.0	2996.0	148.0
MA0721.2_shift5 (UNCX) 
; oligos_7nt_mkv2_m3 versus MA0721.2 (UNCX); m=27/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.410058; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	3975.0	36926.0	36926.0	481.0	3111.0	36926.0
c	0	0	0	0	0	16800.0	2540.0	1302.0	806.0	3958.0	2211.0
g	0	0	0	0	0	2086.0	4582.0	420.0	117.0	1782.0	731.0
t	0	0	0	0	0	20126.0	2629.0	890.0	36926.0	36926.0	3885.0
MA0882.2_shift5 (DLX6) 
; oligos_7nt_mkv2_m3 versus MA0882.2 (DLX6); m=28/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.409874; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	137.0	2623.0	2623.0	12.0	48.0	2623.0
c	0	0	0	0	0	1410.0	273.0	124.0	0.0	140.0	30.0
g	0	0	0	0	0	21.0	143.0	0.0	0.0	68.0	16.0
t	0	0	0	0	0	1212.0	184.0	56.0	2623.0	2623.0	193.0
MA0716.2_shift5 (PRRX1) 
; oligos_7nt_mkv2_m3 versus MA0716.2 (PRRX1); m=29/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.408552; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	2373.0	23897.0	23897.0	0.0	1264.0	23897.0
c	0	0	0	0	0	11122.0	1088.0	503.0	3.0	2302.0	644.0
g	0	0	0	0	0	1121.0	1776.0	202.0	0.0	1004.0	136.0
t	0	0	0	0	0	12775.0	810.0	209.0	23897.0	23897.0	1229.0
MA0662.2_shift5 (MIXL1) 
; oligos_7nt_mkv2_m3 versus MA0662.2 (MIXL1); m=30/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.40831; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	2635.0	27042.0	27042.0	0.0	1385.0	27042.0
c	0	0	0	0	0	11639.0	1911.0	662.0	510.0	4270.0	1903.0
g	0	0	0	0	0	1245.0	3660.0	556.0	181.0	2031.0	115.0
t	0	0	0	0	0	15403.0	1038.0	736.0	27042.0	27042.0	2895.0
MA0125.2_rc_shift5 (Nobox_rc) 
; oligos_7nt_mkv2_m3 versus MA0125.2_rc (Nobox_rc); m=31/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.407366; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	1.0	32.0	34.0	0.0	2.0	37.0
c	0	0	0	0	0	22.0	4.0	2.0	0.0	0.0	0.0
g	0	0	0	0	0	0.0	0.0	1.0	0.0	0.0	1.0
t	0	0	0	0	0	15.0	2.0	1.0	38.0	36.0	0.0
MA0630.2_rc_shift5 (SHOX_rc) 
; oligos_7nt_mkv2_m3 versus MA0630.2_rc (SHOX_rc); m=32/34; ncol2=6; w=0; offset=5; strand=R; shift=5; score=0.406559; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	111.0	768.0	943.0	2.0	45.0	886.0
c	0	0	0	0	0	424.0	84.0	27.0	5.0	55.0	9.0
g	0	0	0	0	0	48.0	50.0	15.0	2.0	48.0	30.0
t	0	0	0	0	0	416.0	98.0	15.0	991.0	852.0	74.0
MA0634.2_shift5 (ALX3) 
; oligos_7nt_mkv2_m3 versus MA0634.2 (ALX3); m=33/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.405277; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	794.0	7877.0	7877.0	76.0	697.0	7877.0
c	0	0	0	0	0	3367.0	506.0	317.0	72.0	729.0	449.0
g	0	0	0	0	0	345.0	885.0	141.0	8.0	239.0	87.0
t	0	0	0	0	0	4510.0	629.0	231.0	7877.0	7877.0	977.0
MA0654.2_shift5 (ISX) 
; oligos_7nt_mkv2_m3 versus MA0654.2 (ISX); m=34/34; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.403616; -----yAATTA
; cor=; Ncor=
a	0	0	0	0	0	10.0	2065.0	2065.0	0.0	0.0	2065.0
c	0	0	0	0	0	1003.0	48.0	16.0	0.0	0.0	0.0
g	0	0	0	0	0	0.0	5.0	0.0	0.0	24.0	0.0
t	0	0	0	0	0	1061.0	24.0	10.0	2065.0	2065.0	49.0