One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 Myogenin_Rep1_motifs50/results/discovered_motifs/dyads_m23/peak-motifs_dyads_m23.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_Rep1_motifs50/results/discovered_motifs/dyads_m23/peak-motifs_dyads_m23_vs_db_jaspar_core_nonredundant_vertebrates

One-to-n matrix alignment; reference matrix: dyads_m23_shift3 ; 10 matrices ; sort_field=Ncor

Matrix nameAligned logoscor Ncor Aligned matrices
dyads_m23_shift3 (dyads_m23dyads_m23)     
; dyads_m23 (dyads_m23dyads_m23); m=0 (reference); ncol1=10; shift=3; ncol=15; ---ssCACAGGsv--
; Alignment reference
a	0	0	0	2720	2335	0	11005	0	11005	0	0	2479	3117	0	0
c	0	0	0	3052	3715	11005	0	11005	0	0	0	3646	2849	0	0
g	0	0	0	3539	3026	0	0	0	0	11005	11005	2852	3014	0	0
t	0	0	0	1694	1929	0	0	0	0	0	0	2028	2025	0	0
MA1108.2_shift3 (MXI1) 
; dyads_m23 versus MA1108.2 (MXI1); m=1/9; ncol2=10; w=10; offset=0; strand=D; shift=3; score=0.767155; ---rvCACATGkc--
; cor=; Ncor=
a	0	0	0	5786.0	6184.0	109.0	21870.0	10.0	20506.0	0.0	527.0	2833.0	4945.0	0	0
c	0	0	0	4724.0	5841.0	21382.0	1.0	21552.0	0.0	507.0	114.0	5329.0	6343.0	0	0
g	0	0	0	6326.0	6078.0	97.0	170.0	18.0	1542.0	0.0	21232.0	7228.0	5394.0	0	0
t	0	0	0	5212.0	3945.0	460.0	7.0	468.0	0.0	21541.0	175.0	6658.0	5366.0	0	0
MA0002.2_rc_shift1 (RUNX1_rc) 
; dyads_m23 versus MA0002.2_rc (RUNX1_rc); m=2/9; ncol2=11; w=9; offset=-2; strand=R; shift=1; score=0.580964; -waaCCACAram---
; cor=; Ncor=
a	0	1053.0	1325.0	1339.0	93.0	13.0	1716.0	53.0	1936.0	656.0	814.0	521.0	0	0	0
c	0	289.0	81.0	251.0	1848.0	1987.0	70.0	1872.0	7.0	149.0	467.0	696.0	0	0	0
g	0	158.0	463.0	400.0	42.0	0.0	127.0	75.0	0.0	1072.0	485.0	496.0	0	0	0
t	0	500.0	131.0	10.0	17.0	0.0	87.0	0.0	57.0	123.0	234.0	287.0	0	0	0
MA0745.2_rc_shift3 (SNAI2_rc) 
; dyads_m23 versus MA0745.2_rc (SNAI2_rc); m=3/9; ncol2=13; w=10; offset=0; strand=R; shift=3; score=0.552883; ---rykACAGGTGcr
; cor=; Ncor=
a	0	0	0	17906.0	8917.0	8747.0	37272.0	126.0	45229.0	344.0	234.0	227.0	622.0	2359.0	16344.0
c	0	0	0	8219.0	12297.0	6281.0	1263.0	45257.0	196.0	487.0	326.0	424.0	323.0	26742.0	9490.0
g	0	0	0	13476.0	11016.0	18771.0	6467.0	254.0	313.0	44739.0	45144.0	202.0	44463.0	6393.0	12314.0
t	0	0	0	6215.0	13586.0	12017.0	814.0	179.0	78.0	246.0	112.0	44963.0	408.0	10322.0	7668.0
MA0003.4_shift0 (TFAP2A) 
; dyads_m23 versus MA0003.4 (TFAP2A); m=4/9; ncol2=14; w=10; offset=-3; strand=D; shift=0; score=0.514101; vytgCCTCAGGsma-
; cor=; Ncor=
a	4335.0	2763.0	2842.0	1088.0	280.0	116.0	278.0	530.0	13567.0	186.0	154.0	1221.0	4220.0	5204.0	0
c	4092.0	4620.0	2634.0	3615.0	15321.0	15351.0	1173.0	13536.0	739.0	217.0	234.0	9445.0	4783.0	3915.0	0
g	4072.0	3374.0	3791.0	9961.0	187.0	212.0	750.0	1406.0	1229.0	15432.0	15422.0	4098.0	3051.0	3841.0	0
t	3469.0	5211.0	6701.0	1304.0	180.0	289.0	13767.0	496.0	433.0	133.0	158.0	1204.0	3914.0	3008.0	0
MA1621.1_rc_shift3 (Rbpjl_rc) 
; dyads_m23 versus MA1621.1_rc (Rbpjl_rc); m=5/9; ncol2=14; w=10; offset=0; strand=R; shift=3; score=0.511419; ---grsaCAGGTGtk
; cor=; Ncor=
a	0	0	0	2286.0	2537.0	2179.0	5784.0	124.0	9313.0	96.0	363.0	86.0	137.0	782.0	1364.0
c	0	0	0	2281.0	1958.0	2687.0	1581.0	9295.0	132.0	317.0	672.0	110.0	103.0	1492.0	1802.0
g	0	0	0	3003.0	2884.0	3247.0	1718.0	131.0	144.0	9005.0	8533.0	70.0	9273.0	1373.0	3117.0
t	0	0	0	2082.0	2273.0	1539.0	569.0	102.0	63.0	234.0	84.0	9386.0	139.0	6005.0	3369.0
MA0814.2_rc_shift0 (TFAP2C(var.2)_rc) 
; dyads_m23 versus MA0814.2_rc (TFAP2C(var.2)_rc); m=6/9; ncol2=14; w=10; offset=-3; strand=R; shift=0; score=0.510286; sbcGCCTCAGGccv-
; cor=; Ncor=
a	14898.0	10705.0	10707.0	3881.0	614.0	464.0	1084.0	1238.0	49003.0	660.0	702.0	4622.0	14497.0	16609.0	0
c	17367.0	18680.0	27373.0	9867.0	57916.0	57995.0	3944.0	55222.0	4910.0	2060.0	2273.0	37729.0	20129.0	17038.0	0
g	16468.0	15252.0	12553.0	42758.0	1575.0	1486.0	4733.0	3036.0	5539.0	57617.0	57108.0	14686.0	12565.0	15858.0	0
t	12086.0	16182.0	10186.0	4313.0	714.0	874.0	51058.0	1323.0	1367.0	482.0	736.0	3782.0	13628.0	11314.0	0
MA1620.1_rc_shift4 (Ptf1a(var.3)_rc) 
; dyads_m23 versus MA1620.1_rc (Ptf1a(var.3)_rc); m=7/9; ncol2=12; w=9; offset=1; strand=R; shift=4; score=0.505019; ----rmaCAGGTGtk
; cor=; Ncor=
a	0	0	0	0	2811.0	2745.0	6633.0	142.0	10014.0	129.0	426.0	114.0	107.0	826.0	1599.0
c	0	0	0	0	2183.0	3341.0	1516.0	9972.0	98.0	294.0	1182.0	84.0	113.0	1410.0	2379.0
g	0	0	0	0	3004.0	2527.0	1615.0	109.0	94.0	9612.0	8567.0	60.0	9887.0	1188.0	3700.0
t	0	0	0	0	2293.0	1678.0	527.0	68.0	85.0	256.0	116.0	10033.0	184.0	6867.0	2613.0
MA0761.2_shift4 (ETV1) 
; dyads_m23 versus MA0761.2 (ETV1); m=8/9; ncol2=14; w=9; offset=1; strand=D; shift=4; score=0.434408; ----rraCAGGAAGT
; cor=; Ncor=
a	0	0	0	0	12622.0	11359.0	22801.0	1848.0	33305.0	231.0	378.0	36130.0	33368.0	4235.0	3343.0
c	0	0	0	0	7468.0	8638.0	4339.0	32139.0	3064.0	275.0	271.0	471.0	486.0	1307.0	3889.0
g	0	0	0	0	9643.0	10407.0	6015.0	2389.0	573.0	36483.0	36121.0	375.0	412.0	31256.0	3146.0
t	0	0	0	0	7606.0	6935.0	4184.0	963.0	397.0	350.0	569.0	363.0	3073.0	541.0	26961.0
MA0062.3_rc_shift4 (GABPA_rc) 
; dyads_m23 versus MA0062.3_rc (GABPA_rc); m=9/9; ncol2=14; w=9; offset=1; strand=R; shift=4; score=0.431052; ----rraCAGGAAGT
; cor=; Ncor=
a	0	0	0	0	21388.0	20341.0	40409.0	5012.0	57654.0	859.0	1558.0	61754.0	59186.0	6717.0	4358.0
c	0	0	0	0	13187.0	15081.0	7720.0	51920.0	4561.0	520.0	1150.0	1633.0	965.0	2169.0	4873.0
g	0	0	0	0	17382.0	18154.0	12006.0	6328.0	1542.0	63107.0	61373.0	1230.0	1443.0	55664.0	3988.0
t	0	0	0	0	13522.0	11903.0	5344.0	2219.0	1722.0	993.0	1398.0	862.0	3885.0	929.0	52260.0