One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep2_motifs50/results/discovered_motifs/local_words_7nt_m5/peak-motifs_local_words_7nt_m5.tf -format2 tf -file2 $RSAT/public_html/motif_databases/JASPAR/Jaspar_2020/nonredundant/JASPAR2020_CORE_vertebrates_non-redundant_pfms.tf -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 Myogenin_Rep2_motifs50/results/discovered_motifs/local_words_7nt_m5/peak-motifs_local_words_7nt_m5_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: local_words_7nt_m5_shift0 ; 12 matrices ; sort_field=Ncor

Matrix nameAligned logoscor Ncor Aligned matrices
local_words_7nt_m5_shift0 (local_words_7nt_m5local_words_7nt_m5)     
; local_words_7nt_m5 (local_words_7nt_m5local_words_7nt_m5); m=0 (reference); ncol1=19; shift=0; ncol=19; srGCAGCAGCTGCaGCtgc
; Alignment reference
a	38	66	21	9	193	9	1	204	1	0	16	4	4	152	8	7	33	32	27
c	94	43	12	179	8	3	220	3	1	219	1	0	209	15	13	194	31	38	98
g	58	69	183	30	14	211	1	5	222	6	2	221	6	16	198	11	29	122	51
t	35	47	9	7	10	2	3	13	1	0	206	0	6	42	6	13	132	33	49
MA1529.1_shift0 (NHLH2) 
; local_words_7nt_m5 versus MA1529.1 (NHLH2); m=1/11; ncol2=18; w=18; offset=0; strand=D; shift=0; score=0.666006; ggGyMGCAGCTGCGyCmc-
; cor=; Ncor=
a	4834.0	4312.0	3741.0	4921.0	5603.0	2378.0	2.0	21364.0	6.0	525.0	0.0	0.0	693.0	210.0	1184.0	3766.0	6392.0	3601.0	0
c	2655.0	2219.0	1065.0	6141.0	15451.0	2324.0	21359.0	0.0	2459.0	20268.0	14.0	2.0	20611.0	204.0	7207.0	18351.0	13462.0	11271.0	0
g	9732.0	13903.0	18450.0	4908.0	671.0	18930.0	2.0	26.0	20096.0	2266.0	3.0	21363.0	275.0	20977.0	1520.0	1183.0	1579.0	2264.0	0
t	4143.0	5198.0	2763.0	5394.0	151.0	2634.0	5.0	1.0	1054.0	0.0	21358.0	0.0	1230.0	740.0	13503.0	2533.0	3330.0	4228.0	0
MA1485.1_rc_shift2 (FERD3L_rc) 
; local_words_7nt_m5 versus MA1485.1_rc (FERD3L_rc); m=2/11; ncol2=14; w=14; offset=2; strand=R; shift=2; score=0.532638; --GTrACAGCTGkyrC---
; cor=; Ncor=
a	0	0	48.0	958.0	14919.0	21065.0	0.0	29605.0	0.0	4691.0	144.0	0.0	1710.0	74.0	9557.0	225.0	0	0	0
c	0	0	0.0	9815.0	5920.0	3395.0	29605.0	210.0	471.0	29605.0	118.0	0.0	3142.0	12703.0	348.0	29605.0	0	0	0
g	0	0	29605.0	809.0	8664.0	3878.0	0.0	129.0	29605.0	841.0	126.0	29605.0	9363.0	2443.0	20049.0	68.0	0	0	0
t	0	0	0.0	29605.0	103.0	1268.0	0.0	81.0	3649.0	0.0	29605.0	36.0	15390.0	14384.0	450.0	2158.0	0	0	0
MA0500.2_rc_shift3 (MYOG_rc) 
; local_words_7nt_m5 versus MA0500.2_rc (MYOG_rc); m=3/11; ncol2=12; w=12; offset=3; strand=R; shift=3; score=0.531004; ---sarCAGCTGyts----
; cor=; Ncor=
a	0	0	0	5310.0	8475.0	7192.0	88.0	21777.0	95.0	169.0	163.0	182.0	1678.0	4692.0	5070.0	0	0	0	0
c	0	0	0	6369.0	3718.0	2706.0	21985.0	179.0	131.0	21963.0	236.0	101.0	10790.0	5483.0	5596.0	0	0	0	0
g	0	0	0	5660.0	5497.0	10792.0	102.0	238.0	21964.0	130.0	176.0	21988.0	2730.0	3754.0	6381.0	0	0	0	0
t	0	0	0	5018.0	4667.0	1667.0	182.0	163.0	167.0	95.0	21782.0	86.0	7159.0	8428.0	5310.0	0	0	0	0
MA1631.1_rc_shift2 (ASCL1(var.2)_rc) 
; local_words_7nt_m5 versus MA1631.1_rc (ASCL1(var.2)_rc); m=4/11; ncol2=13; w=13; offset=2; strand=R; shift=2; score=0.491841; --gsrGCAGGTGchg----
; cor=; Ncor=
a	0	0	8032.0	7779.0	9017.0	2394.0	249.0	32756.0	151.0	815.0	618.0	289.0	3290.0	8805.0	7347.0	0	0	0	0
c	0	0	8356.0	8939.0	2966.0	2719.0	33411.0	492.0	607.0	3209.0	860.0	321.0	18576.0	8601.0	8371.0	0	0	0	0
g	0	0	11996.0	10555.0	17883.0	28844.0	445.0	740.0	33402.0	30169.0	563.0	33562.0	6654.0	7998.0	11805.0	0	0	0	0
t	0	0	5972.0	7083.0	4490.0	399.0	251.0	368.0	196.0	163.0	32315.0	184.0	5836.0	8952.0	6833.0	0	0	0	0
MA0521.1_shift4 (Tcf12) 
; local_words_7nt_m5 versus MA0521.1 (Tcf12); m=5/11; ncol2=11; w=11; offset=4; strand=D; shift=4; score=0.481608; ----rRCAGCTGswg----
; cor=; Ncor=
a	0	0	0	0	6170.0	8820.0	0.0	12895.0	8.0	184.0	0.0	0.0	1875.0	3912.0	2863.0	0	0	0	0
c	0	0	0	0	1585.0	124.0	12895.0	0.0	0.0	10822.0	0.0	0.0	5527.0	2416.0	3005.0	0	0	0	0
g	0	0	0	0	5123.0	3951.0	0.0	0.0	12887.0	1889.0	0.0	12895.0	3811.0	2925.0	4836.0	0	0	0	0
t	0	0	0	0	17.0	0.0	0.0	0.0	0.0	0.0	12895.0	0.0	1682.0	3642.0	2191.0	0	0	0	0
MA0816.1_shift4 (Ascl2) 
; local_words_7nt_m5 versus MA0816.1 (Ascl2); m=6/11; ncol2=10; w=10; offset=4; strand=D; shift=4; score=0.477228; ----arCAGCTGyy-----
; cor=; Ncor=
a	0	0	0	0	237.0	128.0	3.0	300.0	7.0	3.0	4.0	0.0	6.0	34.0	0	0	0	0	0
c	0	0	0	0	36.0	41.0	300.0	0.0	23.0	300.0	0.0	1.0	206.0	101.0	0	0	0	0	0
g	0	0	0	0	63.0	172.0	0.0	0.0	300.0	2.0	0.0	300.0	15.0	28.0	0	0	0	0	0
t	0	0	0	0	16.0	1.0	1.0	15.0	18.0	1.0	300.0	2.0	94.0	199.0	0	0	0	0	0
MA1100.2_shift4 (ASCL1) 
; local_words_7nt_m5 versus MA1100.2 (ASCL1); m=7/11; ncol2=10; w=10; offset=4; strand=D; shift=4; score=0.462909; ----rrCAGCTGcy-----
; cor=; Ncor=
a	0	0	0	0	1267.0	1334.0	0.0	4413.0	107.0	729.0	118.0	52.0	177.0	843.0	0	0	0	0	0
c	0	0	0	0	926.0	521.0	4413.0	157.0	1288.0	4413.0	24.0	0.0	3065.0	1487.0	0	0	0	0	0
g	0	0	0	0	1495.0	3079.0	0.0	60.0	4413.0	1320.0	121.0	4413.0	814.0	889.0	0	0	0	0	0
t	0	0	0	0	726.0	354.0	14.0	218.0	625.0	20.0	4413.0	29.0	1349.0	1194.0	0	0	0	0	0
MA0048.2_rc_shift4 (NHLH1_rc) 
; local_words_7nt_m5 versus MA0048.2_rc (NHLH1_rc); m=8/11; ncol2=10; w=10; offset=4; strand=R; shift=4; score=0.460084; ----mGCAGCTGCg-----
; cor=; Ncor=
a	0	0	0	0	1489.0	350.0	1.0	2166.0	0.0	114.0	0.0	0.0	142.0	111.0	0	0	0	0	0
c	0	0	0	0	2166.0	102.0	2166.0	4.0	124.0	2166.0	1.0	0.0	2166.0	181.0	0	0	0	0	0
g	0	0	0	0	736.0	2166.0	4.0	4.0	2166.0	301.0	3.0	2166.0	179.0	2166.0	0	0	0	0	0
t	0	0	0	0	308.0	296.0	2.0	0.0	96.0	0.0	2166.0	3.0	461.0	788.0	0	0	0	0	0
MA1635.1_rc_shift4 (BHLHE22(var.2)_rc) 
; local_words_7nt_m5 versus MA1635.1_rc (BHLHE22(var.2)_rc); m=9/11; ncol2=10; w=10; offset=4; strand=R; shift=4; score=0.447194; ----csCAGCTGsg-----
; cor=; Ncor=
a	0	0	0	0	3886.0	4449.0	0.0	18267.0	1.0	14.0	0.0	14.0	1526.0	4402.0	0	0	0	0	0
c	0	0	0	0	5625.0	5112.0	18327.0	37.0	53.0	18288.0	52.0	11.0	7267.0	4447.0	0	0	0	0	0
g	0	0	0	0	4447.0	7269.0	15.0	52.0	18288.0	53.0	37.0	18331.0	5110.0	5621.0	0	0	0	0	0
t	0	0	0	0	4398.0	1526.0	14.0	0.0	14.0	1.0	18267.0	0.0	4453.0	3886.0	0	0	0	0	0
MA1472.1_shift4 (BHLHA15(var.2)) 
; local_words_7nt_m5 versus MA1472.1 (BHLHA15(var.2)); m=10/11; ncol2=10; w=10; offset=4; strand=D; shift=4; score=0.422826; ----avCAGCTGyy-----
; cor=; Ncor=
a	0	0	0	0	697.0	897.0	47.0	1504.0	11.0	445.0	54.0	0.0	54.0	202.0	0	0	0	0	0
c	0	0	0	0	281.0	607.0	1504.0	33.0	30.0	1504.0	4.0	0.0	610.0	410.0	0	0	0	0	0
g	0	0	0	0	357.0	591.0	6.0	33.0	1504.0	72.0	0.0	1504.0	489.0	316.0	0	0	0	0	0
t	0	0	0	0	170.0	81.0	33.0	137.0	467.0	11.0	1504.0	0.0	1015.0	577.0	0	0	0	0	0
MA1648.1_rc_shift3 (TCF12(var.2)_rc) 
; local_words_7nt_m5 versus MA1648.1_rc (TCF12(var.2)_rc); m=11/11; ncol2=11; w=11; offset=3; strand=R; shift=3; score=0.407507; ---srGCAGGTGss-----
; cor=; Ncor=
a	0	0	0	12248.0	16113.0	3412.0	1047.0	53985.0	662.0	1754.0	1733.0	1887.0	10887.0	12473.0	0	0	0	0	0
c	0	0	0	20060.0	14293.0	2314.0	55922.0	2625.0	3536.0	3780.0	5607.0	1186.0	18560.0	16996.0	0	0	0	0	0
g	0	0	0	18154.0	17603.0	55061.0	2088.0	3886.0	55765.0	55598.0	2007.0	57848.0	17594.0	19393.0	0	0	0	0	0
t	0	0	0	11414.0	13867.0	1089.0	2819.0	1380.0	1913.0	744.0	52529.0	955.0	14835.0	13014.0	0	0	0	0	0