One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.202657_2014-09-05.202657_8OTbPR/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/data/motif_databases/footprintDB/footprintDB.motif.tf -mode matches -DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.75 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,logoDP,NIcor,NsEucl,SSD,NSW,match_rank,width,strand,offset,consensus,alignments_1ton -sort Ncor -o $RSAT/public_html/tmp/apache/2014/09/05/peak-motifs.2014-09-05.202657_2014-09-05.202657_8OTbPR/results/discovered_vs_db/peak-motifs_motifs_vs_db_footprintDB.tab

One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift7 ; 52 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_6nt_m1_shift7 (positions_6nt_m1)																		; positions_6nt_m1; m=0 (reference); ncol1=10; shift=7; ncol=17; -------rkATCAAAsd ; Alignment reference a 0 0 0 0 0 0 0 8 0 12 0 0 12 12 12 0 4 c 0 0 0 0 0 0 0 1 0 0 0 12 0 0 0 3 0 g 0 0 0 0 0 0 0 3 4 0 0 0 0 0 0 7 3 t 0 0 0 0 0 0 0 0 8 0 12 0 0 0 0 2 5
6733_4euw_A_3D-footprint_20130124__shift10 (6733_4euw_A_3D-footprint_20130124_)		0.970	0.582	7.317	0.573	0.941	0.253	0.979	8	37	49	23	7	8	8	20.000	1	; positions_6nt_m1 versus 6733_4euw_A_3D-footprint_20130124_; m=1/51; ncol2=6; w=6; offset=3; strand=D; shift=10; score= 20; ----------TcAAAg- ; cor=0.970; Ncor=0.582; logoDP=7.317; NIcor=0.573; NsEucl=0.941; SSD=0.253; NSW=0.979; rcor=8; rNcor=37; rlogoDP=49; rNIcor=23; rNsEucl=7; rSSD=8; rNSW=8; rank_mean=20.000; match_rank=1 a 0 0 0 0 0 0 0 0 0 0 0 12 96 84 96 12 0 c 0 0 0 0 0 0 0 0 0 0 0 60 0 0 0 12 0 g 0 0 0 0 0 0 0 0 0 0 0 12 0 12 0 60 0 t 0 0 0 0 0 0 0 0 0 0 96 12 0 0 0 12 0
5900_Tcf7_DBD_HumanTF_1.0__shift5 (5900_Tcf7_DBD_HumanTF_1.0_)		0.885	0.737	10.861	0.744	0.919	1.320	0.934	63	5	4	2	35	141	76	46.571	2	; positions_6nt_m1 versus 5900_Tcf7_DBD_HumanTF_1.0_; m=2/51; ncol2=12; w=10; offset=-2; strand=D; shift=5; score=46.5714; -----aAASATCAAAGg ; cor=0.885; Ncor=0.737; logoDP=10.861; NIcor=0.744; NsEucl=0.919; SSD=1.320; NSW=0.934; rcor=63; rNcor=5; rlogoDP=4; rNIcor=2; rNsEucl=35; rSSD=141; rNSW=76; rank_mean=46.571; match_rank=2 a 0 0 0 0 0 552 791 906 5 912 0 21 919 921 915 32 159 c 0 0 0 0 0 68 31 4 277 2 5 1018 0 6 0 0 146 g 0 0 0 0 0 117 144 27 744 4 18 28 5 10 0 846 600 t 0 0 0 0 0 97 111 31 6 42 874 21 6 3 4 0 89
1939_PB0082.1_JASPAR_CORE_2009__shift4 (1939_PB0082.1_JASPAR_CORE_2009_)		0.894	0.526	8.400	0.545	0.927	1.074	0.946	53	82	26	32	16	88	44	48.714	5	; positions_6nt_m1 versus 1939_PB0082.1_JASPAR_CORE_2009_; m=3/51; ncol2=17; w=10; offset=-3; strand=D; shift=4; score=48.7143; ----twwasATCAAAGg ; cor=0.894; Ncor=0.526; logoDP=8.400; NIcor=0.545; NsEucl=0.927; SSD=1.074; NSW=0.946; rcor=53; rNcor=82; rlogoDP=26; rNIcor=32; rNsEucl=16; rSSD=88; rNSW=44; rank_mean=48.714; match_rank=5 a 0 0 0 0 19 37 25 58 4 76 6 4 96 97 94 13 21 c 0 0 0 0 20 23 17 4 40 1 1 87 0 0 0 6 17 g 0 0 0 0 18 12 13 13 50 1 0 6 0 1 2 80 48 t 0 0 0 0 43 27 45 24 7 23 93 3 3 1 4 2 13
3755_UP00058_UniPROBE_20120919__shift4 (3755_UP00058_UniPROBE_20120919_)		0.893	0.525	8.396	0.544	0.926	1.087	0.946	55	85	27	33	19	91	47	51.000	10	; positions_6nt_m1 versus 3755_UP00058_UniPROBE_20120919_; m=4/51; ncol2=17; w=10; offset=-3; strand=D; shift=4; score= 51; ----twwwsATCAAAGg ; cor=0.893; Ncor=0.525; logoDP=8.396; NIcor=0.544; NsEucl=0.926; SSD=1.087; NSW=0.946; rcor=55; rNcor=85; rlogoDP=27; rNIcor=33; rNsEucl=19; rSSD=91; rNSW=47; rank_mean=51.000; match_rank=10 a 0 0 0 0 19 37 25 58 4 75 0.06 4 0.96 0.97 0.94 12 21 c 0 0 0 0 20 23 17 4 40 1 0.01 87 0 0 0 6 17 g 0 0 0 0 18 13 13 13 49 1 0 6 0 0.01 0.02 80 49 t 0 0 0 0 43 27 45 25 7 23 0.93 3 0.03 0.01 0.04 2 13
5494_LEF1_DBD_HumanTF_1.0__shift5 (5494_LEF1_DBD_HumanTF_1.0_)		0.885	0.590	11.169	0.590	0.918	1.343	0.933	62	31	2	17	36	152	78	54.000	12	; positions_6nt_m1 versus 5494_LEF1_DBD_HumanTF_1.0_; m=5/51; ncol2=15; w=10; offset=-2; strand=D; shift=5; score= 54; -----aAAGATCAAAGg ; cor=0.885; Ncor=0.590; logoDP=11.169; NIcor=0.590; NsEucl=0.918; SSD=1.343; NSW=0.933; rcor=62; rNcor=31; rlogoDP=2; rNIcor=17; rNsEucl=36; rSSD=152; rNSW=78; rank_mean=54.000; match_rank=12 a 0 0 0 0 0 601 655 697 5 699 9 14 711 709 712 33 197 c 0 0 0 0 0 139 26 7 242 0 3 935 0 0 0 24 184 g 0 0 0 0 0 215 207 34 1053 4 0 49 0 4 13 1068 851 t 0 0 0 0 0 138 63 14 3 15 898 5 4 0 4 0 124
7669_TF7L2_f1_HOCOMOCO_v9__shift7 (7669_TF7L2_f1_HOCOMOCO_v9_)		0.868	0.789	7.297	0.802	0.919	1.318	0.934	84	1	50	1	34	140	75	55.000	14	; positions_6nt_m1 versus 7669_TF7L2_f1_HOCOMOCO_v9_; m=6/51; ncol2=11; w=10; offset=0; strand=D; shift=7; score= 55; -------aswTCAAAGg ; cor=0.868; Ncor=0.789; logoDP=7.297; NIcor=0.802; NsEucl=0.919; SSD=1.318; NSW=0.934; rcor=84; rNcor=1; rlogoDP=50; rNIcor=1; rNsEucl=34; rSSD=140; rNSW=75; rank_mean=55.000; match_rank=14 a 0 0 0 0 0 0 0 727 128 854 206 98 1270 1244 1178 60 317 c 0 0 0 0 0 0 0 153 510 38 23 1047 7 18 0 27 314 g 0 0 0 0 0 0 0 286 557 12 80 124 0 17 58 1187 549 t 0 0 0 0 0 0 0 114 85 376 971 11 3 1 44 6 100
5863_TCF7L1_full_HumanTF_1.0__shift5 (5863_TCF7L1_full_HumanTF_1.0_)		0.876	0.730	10.106	0.717	0.917	1.394	0.930	75	6	8	3	48	171	83	56.286	16	; positions_6nt_m1 versus 5863_TCF7L1_full_HumanTF_1.0_; m=7/51; ncol2=12; w=10; offset=-2; strand=D; shift=5; score=56.2857; -----AAAGATCAAAGG ; cor=0.876; Ncor=0.730; logoDP=10.106; NIcor=0.717; NsEucl=0.917; SSD=1.394; NSW=0.930; rcor=75; rNcor=6; rlogoDP=8; rNIcor=3; rNsEucl=48; rSSD=171; rNSW=83; rank_mean=56.286; match_rank=16 a 0 0 0 0 0 109 159 159 0 159 0 5 159 159 159 0 28 c 0 0 0 0 0 20 7 0 33 9 6 159 2 0 0 9 9 g 0 0 0 0 0 6 30 0 126 13 9 0 1 0 2 159 113 t 0 0 0 0 0 24 7 5 6 18 159 0 0 0 0 5 9
3751_UP00054_UniPROBE_20120919__shift4 (3751_UP00054_UniPROBE_20120919_)		0.883	0.520	7.753	0.540	0.923	1.175	0.941	65	93	39	37	25	109	61	61.286	19	; positions_6nt_m1 versus 3751_UP00054_UniPROBE_20120919_; m=8/51; ncol2=17; w=10; offset=-3; strand=D; shift=4; score=61.2857; ----twwasWTCAAAGg ; cor=0.883; Ncor=0.520; logoDP=7.753; NIcor=0.540; NsEucl=0.923; SSD=1.175; NSW=0.941; rcor=65; rNcor=93; rlogoDP=39; rNIcor=37; rNsEucl=25; rSSD=109; rNSW=61; rank_mean=61.286; match_rank=19 a 0 0 0 0 17 34 30 60 4 72 0.07 4 96 0.96 93 16 23 c 0 0 0 0 20 23 17 5 38 1 0.01 82 1 0 1 6 15 g 0 0 0 0 22 14 14 14 53 1 0 10 0 0.02 2 76 53 t 0 0 0 0 41 29 39 21 5 26 0.92 4 3 0.02 4 2 9
1940_PB0083.1_JASPAR_CORE_2009__shift4 (1940_PB0083.1_JASPAR_CORE_2009_)		0.883	0.520	7.643	0.540	0.923	1.175	0.941	66	94	45	36	26	110	62	62.714	20	; positions_6nt_m1 versus 1940_PB0083.1_JASPAR_CORE_2009_; m=9/51; ncol2=17; w=10; offset=-3; strand=D; shift=4; score=62.7143; ----twwasWTCAAAGg ; cor=0.883; Ncor=0.520; logoDP=7.643; NIcor=0.540; NsEucl=0.923; SSD=1.175; NSW=0.941; rcor=66; rNcor=94; rlogoDP=45; rNIcor=36; rNsEucl=26; rSSD=110; rNSW=62; rank_mean=62.714; match_rank=20 a 0 0 0 0 17 34 30 60 4 73 7 5 96 96 94 16 23 c 0 0 0 0 20 23 17 5 38 1 1 82 1 0 1 6 15 g 0 0 0 0 22 14 14 13 53 1 0 10 1 2 2 76 52 t 0 0 0 0 41 29 38 21 5 26 92 4 3 2 4 2 9
2526_MA0151.1_JASPAR_CORE_2009__shift9 (2526_MA0151.1_JASPAR_CORE_2009_)		0.887	0.532	8.694	0.516	0.885	0.960	0.920	61	74	17	52	183	77	111	82.143	31	; positions_6nt_m1 versus 2526_MA0151.1_JASPAR_CORE_2009_; m=10/51; ncol2=6; w=6; offset=2; strand=D; shift=9; score=82.1429; ---------ATyAAA-- ; cor=0.887; Ncor=0.532; logoDP=8.694; NIcor=0.516; NsEucl=0.885; SSD=0.960; NSW=0.920; rcor=61; rNcor=74; rlogoDP=17; rNIcor=52; rNsEucl=183; rSSD=77; rNSW=111; rank_mean=82.143; match_rank=31 a 0 0 0 0 0 0 0 0 0 27 0 1 27 27 20 0 0 c 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 t 0 0 0 0 0 0 0 0 0 0 27 17 0 0 6 0 0
7627_SOX10_si_HOCOMOCO_v9__shift11 (7627_SOX10_si_HOCOMOCO_v9_)		0.863	0.518	5.805	0.510	0.891	0.858	0.929	88	98	108	53	139	63	87	90.857	37	; positions_6nt_m1 versus 7627_SOX10_si_HOCOMOCO_v9_; m=11/51; ncol2=6; w=6; offset=4; strand=D; shift=11; score=90.8571; -----------CAAwGr ; cor=0.863; Ncor=0.518; logoDP=5.805; NIcor=0.510; NsEucl=0.891; SSD=0.858; NSW=0.929; rcor=88; rNcor=98; rlogoDP=108; rNIcor=53; rNsEucl=139; rSSD=63; rNSW=87; rank_mean=90.857; match_rank=37 a 0 0 0 0 0 0 0 0 0 0 0 0 32 31 15 2 13 c 0 0 0 0 0 0 0 0 0 0 0 31 0 0 0 0 7 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 29 10 t 0 0 0 0 0 0 0 0 0 0 0 1 0 1 14 1 2
1795_MA0237.1_JASPAR_CORE_2009__rc_shift8 (1795_MA0237.1_JASPAR_CORE_2009__rc)		0.930	0.744	2.118	0.115	0.917	0.872	0.945	21	4	235	256	42	65	48	95.857	45	; positions_6nt_m1 versus 1795_MA0237.1_JASPAR_CORE_2009__rc; m=12/51; ncol2=8; w=8; offset=1; strand=R; shift=8; score=95.8571; --------kWTCAAAr- ; cor=0.930; Ncor=0.744; logoDP=2.118; NIcor=0.115; NsEucl=0.917; SSD=0.872; NSW=0.945; rcor=21; rNcor=4; rlogoDP=235; rNIcor=256; rNsEucl=42; rSSD=65; rNSW=48; rank_mean=95.857; match_rank=45 a 0 0 0 0 0 0 0 0 4 17 3 3 23 22 20 8 0 c 0 0 0 0 0 0 0 0 3 0 5 20 0 1 0 3 0 g 0 0 0 0 0 0 0 0 11 0 0 2 0 0 3 10 0 t 0 0 0 0 0 0 0 0 7 8 17 0 2 2 2 4 0
1804_MA0246.1_JASPAR_CORE_2009__rc_shift7 (1804_MA0246.1_JASPAR_CORE_2009__rc)		0.910	0.546	3.914	0.146	0.902	0.694	0.942	32	59	180	243	96	45	59	102.000	53	; positions_6nt_m1 versus 1804_MA0246.1_JASPAR_CORE_2009__rc; m=13/51; ncol2=6; w=6; offset=0; strand=R; shift=7; score= 102; -------GTATCA---- ; cor=0.910; Ncor=0.546; logoDP=3.914; NIcor=0.146; NsEucl=0.902; SSD=0.694; NSW=0.942; rcor=32; rNcor=59; rlogoDP=180; rNIcor=243; rNsEucl=96; rSSD=45; rNSW=59; rank_mean=102.000; match_rank=53 a 0 0 0 0 0 0 0 3 0 26 0 0 26 0 0 0 0 c 0 0 0 0 0 0 0 0 0 1 0 27 1 0 0 0 0 g 0 0 0 0 0 0 0 10 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 27 0 27 0 0 0 0 0 0
1758_MA0199.1_JASPAR_CORE_2009__rc_shift8 (1758_MA0199.1_JASPAR_CORE_2009__rc)		0.960	0.480	2.009	0.036	0.927	0.269	0.973	13	159	242	274	17	13	13	104.429	55	; positions_6nt_m1 versus 1758_MA0199.1_JASPAR_CORE_2009__rc; m=14/51; ncol2=5; w=5; offset=1; strand=R; shift=8; score=104.429; --------TATCA---- ; cor=0.960; Ncor=0.480; logoDP=2.009; NIcor=0.036; NsEucl=0.927; SSD=0.269; NSW=0.973; rcor=13; rNcor=159; rlogoDP=242; rNIcor=274; rNsEucl=17; rSSD=13; rNSW=13; rank_mean=104.429; match_rank=55 a 0 0 0 0 0 0 0 0 0 27 0 0 22 0 0 0 0 c 0 0 0 0 0 0 0 0 1 0 0 27 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 t 0 0 0 0 0 0 0 0 26 0 27 0 0 0 0 0 0
3780_UP00083_UniPROBE_20120919__rc_shift4 (3780_UP00083_UniPROBE_20120919__rc)		0.896	0.527	3.381	0.051	0.927	1.078	0.946	47	78	196	266	18	89	45	105.571	56	; positions_6nt_m1 versus 3780_UP00083_UniPROBE_20120919__rc; m=15/51; ncol2=17; w=10; offset=-3; strand=R; shift=4; score=105.571; ----tawasATCAAAGg ; cor=0.896; Ncor=0.527; logoDP=3.381; NIcor=0.051; NsEucl=0.927; SSD=1.078; NSW=0.946; rcor=47; rNcor=78; rlogoDP=196; rNIcor=266; rNsEucl=18; rSSD=89; rNSW=45; rank_mean=105.571; match_rank=56 a 0 0 0 0 17 39 25 59 4 0.89 0.05 3 0.97 0.98 0.96 7 20 c 0 0 0 0 23 24 22 4 35 0 0 93 0 0 0 3 18 g 0 0 0 0 24 14 17 15 57 0 0 3 0 0.01 0.02 88 53 t 0 0 0 0 36 23 36 22 4 0.11 0.95 1 0.03 0.01 0.02 2 9
2684_PB0084.1_JASPAR_CORE_2009__rc_shift4 (2684_PB0084.1_JASPAR_CORE_2009__rc)		0.895	0.526	3.370	0.051	0.926	1.092	0.945	51	80	199	265	20	93	49	108.143	59	; positions_6nt_m1 versus 2684_PB0084.1_JASPAR_CORE_2009__rc; m=16/51; ncol2=17; w=10; offset=-3; strand=R; shift=4; score=108.143; ----tawasATCAAAGg ; cor=0.895; Ncor=0.526; logoDP=3.370; NIcor=0.051; NsEucl=0.926; SSD=1.092; NSW=0.945; rcor=51; rNcor=80; rlogoDP=199; rNIcor=265; rNsEucl=20; rSSD=93; rNSW=49; rank_mean=108.143; match_rank=59 a 0 0 0 0 17 39 25 59 3 89 5 3 97 98 96 7 20 c 0 0 0 0 23 23 22 4 35 0 0 93 0 0 0 3 18 g 0 0 0 0 24 14 17 14 57 0 0 3 0 1 2 88 53 t 0 0 0 0 35 23 36 22 4 11 95 1 3 1 2 1 9
2760_PF0073.1_JASPAR_CORE_2009__rc_shift10 (2760_PF0073.1_JASPAR_CORE_2009__rc)		0.971	0.583	0.000	-0.189	0.939	0.264	0.978	7	34	351	352	8	10	9	110.143	62	; positions_6nt_m1 versus 2760_PF0073.1_JASPAR_CORE_2009__rc; m=17/51; ncol2=6; w=6; offset=3; strand=R; shift=10; score=110.143; ----------TCAAAG- ; cor=0.971; Ncor=0.583; logoDP=0.000; NIcor=-0.189; NsEucl=0.939; SSD=0.264; NSW=0.978; rcor=7; rNcor=34; rlogoDP=351; rNIcor=352; rNsEucl=8; rSSD=10; rNSW=9; rank_mean=110.143; match_rank=62 a 0 0 0 0 0 0 0 0 0 0 0 0 4260 4260 4260 0 0 c 0 0 0 0 0 0 0 0 0 0 0 4260 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 4260 0 t 0 0 0 0 0 0 0 0 0 0 4260 0 0 0 0 0 0
7260_RVE1_2_ArabidopsisPBM_20140210__shift5 (7260_RVE1_2_ArabidopsisPBM_20140210_)		0.861	0.574	4.351	0.556	0.894	1.448	0.909	93	45	159	26	129	184	138	110.571	63	; positions_6nt_m1 versus 7260_RVE1_2_ArabidopsisPBM_20140210_; m=18/51; ncol2=10; w=8; offset=-2; strand=D; shift=5; score=110.571; -----smatATCwaw-- ; cor=0.861; Ncor=0.574; logoDP=4.351; NIcor=0.556; NsEucl=0.894; SSD=1.448; NSW=0.909; rcor=93; rNcor=45; rlogoDP=159; rNIcor=26; rNsEucl=129; rSSD=184; rNSW=138; rank_mean=110.571; match_rank=63 a 0 0 0 0 0 20 55 65 23 91 2 6 30 61 50 0 0 c 0 0 0 0 0 31 30 9 3 4 3 89 20 16 16 0 0 g 0 0 0 0 0 29 4 16 15 3 4 4 5 13 6 0 0 t 0 0 0 0 0 20 11 10 59 2 91 1 45 10 28 0 0
3764_UP00067_UniPROBE_20120919__rc_shift4 (3764_UP00067_UniPROBE_20120919__rc)		0.891	0.524	3.477	0.048	0.924	1.154	0.942	56	86	195	268	23	102	57	112.429	69	; positions_6nt_m1 versus 3764_UP00067_UniPROBE_20120919__rc; m=19/51; ncol2=17; w=10; offset=-3; strand=R; shift=4; score=112.429; ----kwwasATCAAAGg ; cor=0.891; Ncor=0.524; logoDP=3.477; NIcor=0.048; NsEucl=0.924; SSD=1.154; NSW=0.942; rcor=56; rNcor=86; rlogoDP=195; rNIcor=268; rNsEucl=23; rSSD=102; rNSW=57; rank_mean=112.429; match_rank=69 a 0 0 0 0 19 40 26 62 2 0.92 0.03 2 0.97 0.99 0.97 5 17 c 0 0 0 0 22 17 22 6 28 0 0 95 0 0 0 4 14 g 0 0 0 0 34 15 17 12 67 0 0 3 0 0.01 0.02 90 62 t 0 0 0 0 25 28 35 20 3 0.08 0.97 0 0.02 0.01 0.02 1 7
1904_PB0040.1_JASPAR_CORE_2009__rc_shift4 (1904_PB0040.1_JASPAR_CORE_2009__rc)		0.891	0.524	3.492	0.046	0.924	1.157	0.942	57	87	193	269	24	104	58	113.143	70	; positions_6nt_m1 versus 1904_PB0040.1_JASPAR_CORE_2009__rc; m=20/51; ncol2=17; w=10; offset=-3; strand=R; shift=4; score=113.143; ----kwwasATCAAAGg ; cor=0.891; Ncor=0.524; logoDP=3.492; NIcor=0.046; NsEucl=0.924; SSD=1.157; NSW=0.942; rcor=57; rNcor=87; rlogoDP=193; rNIcor=269; rNsEucl=24; rSSD=104; rNSW=58; rank_mean=113.143; match_rank=70 a 0 0 0 0 19 40 27 62 2 92 3 2 97 99 97 5 17 c 0 0 0 0 22 17 22 6 28 0 0 95 0 0 0 4 14 g 0 0 0 0 34 15 17 12 68 0 0 3 0 1 2 91 62 t 0 0 0 0 25 28 35 20 3 8 97 1 2 1 2 1 7
7482_LEF1_f1_HOCOMOCO_v9__rc_shift9 (7482_LEF1_f1_HOCOMOCO_v9__rc)		0.917	0.550	2.545	0.030	0.900	0.726	0.939	31	58	222	276	104	50	64	115.000	72	; positions_6nt_m1 versus 7482_LEF1_f1_HOCOMOCO_v9__rc; m=21/51; ncol2=6; w=6; offset=2; strand=R; shift=9; score= 115; ---------wwCAAA-- ; cor=0.917; Ncor=0.550; logoDP=2.545; NIcor=0.030; NsEucl=0.900; SSD=0.726; NSW=0.939; rcor=31; rNcor=58; rlogoDP=222; rNIcor=276; rNsEucl=104; rSSD=50; rNSW=64; rank_mean=115.000; match_rank=72 a 0 0 0 0 0 0 0 0 0 38 28 0 67 67 65 0 0 c 0 0 0 0 0 0 0 0 0 3 0 67 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 2 4 0 0 0 1 0 0 t 0 0 0 0 0 0 0 0 0 24 35 0 0 0 1 0 0
2455_MA0064.1_JASPAR_CORE_2009__shift12 (2455_MA0064.1_JASPAR_CORE_2009_)		0.883	0.441	6.129	0.457	0.882	0.700	0.930	68	241	89	99	201	46	84	118.286	75	; positions_6nt_m1 versus 2455_MA0064.1_JASPAR_CORE_2009_; m=22/51; ncol2=5; w=5; offset=5; strand=D; shift=12; score=118.286; ------------AAAGy ; cor=0.883; Ncor=0.441; logoDP=6.129; NIcor=0.457; NsEucl=0.882; SSD=0.700; NSW=0.930; rcor=68; rNcor=241; rlogoDP=89; rNIcor=99; rNsEucl=201; rSSD=46; rNSW=84; rank_mean=118.286; match_rank=75 a 0 0 0 0 0 0 0 0 0 0 0 0 16 16 16 0 1 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 1 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5
2415_MA0021.1_JASPAR_CORE_2009__shift12 (2415_MA0021.1_JASPAR_CORE_2009_)		0.897	0.408	6.134	0.421	0.889	0.615	0.939	42	328	87	140	150	40	66	121.857	77	; positions_6nt_m1 versus 2415_MA0021.1_JASPAR_CORE_2009_; m=23/51; ncol2=6; w=5; offset=5; strand=D; shift=12; score=121.857; ------------AAAGy ; cor=0.897; Ncor=0.408; logoDP=6.134; NIcor=0.421; NsEucl=0.889; SSD=0.615; NSW=0.939; rcor=42; rNcor=328; rlogoDP=87; rNIcor=140; rNsEucl=150; rSSD=40; rNSW=66; rank_mean=121.857; match_rank=77 a 0 0 0 0 0 0 0 0 0 0 0 0 21 21 21 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 10 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 21 3 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8
6289_1qrv_A_3D-footprint_20130124__shift6 (6289_1qrv_A_3D-footprint_20130124_)		0.897	0.408	5.451	0.403	0.893	0.569	0.943	43	330	116	155	130	33	52	122.714	79	; positions_6nt_m1 versus 6289_1qrv_A_3D-footprint_20130124_; m=24/51; ncol2=6; w=5; offset=-1; strand=D; shift=6; score=122.714; ------gnTATC----- ; cor=0.897; Ncor=0.408; logoDP=5.451; NIcor=0.403; NsEucl=0.893; SSD=0.569; NSW=0.943; rcor=43; rNcor=330; rlogoDP=116; rNIcor=155; rNsEucl=130; rSSD=33; rNSW=52; rank_mean=122.714; match_rank=79 a 0 0 0 0 0 0 20 24 0 96 0 0 0 0 0 0 0 c 0 0 0 0 0 0 19 24 0 0 0 76 0 0 0 0 0 g 0 0 0 0 0 0 38 24 0 0 0 1 0 0 0 0 0 t 0 0 0 0 0 0 19 24 96 0 96 19 0 0 0 0 0
7663_TCF7_f1_HOCOMOCO_v9__shift8 (7663_TCF7_f1_HOCOMOCO_v9_)		0.802	0.601	6.511	0.603	0.894	1.818	0.899	187	27	76	14	126	275	194	128.429	83	; positions_6nt_m1 versus 7663_TCF7_f1_HOCOMOCO_v9_; m=25/51; ncol2=11; w=9; offset=1; strand=D; shift=8; score=128.429; --------swwCAAAGs ; cor=0.802; Ncor=0.601; logoDP=6.511; NIcor=0.603; NsEucl=0.894; SSD=1.818; NSW=0.899; rcor=187; rNcor=27; rlogoDP=76; rNIcor=14; rNsEucl=126; rSSD=275; rNSW=194; rank_mean=128.429; match_rank=83 a 0 0 0 0 0 0 0 0 0 9 7 1 15 16 15 0 1 c 0 0 0 0 0 0 0 0 5 0 1 13 0 0 1 2 8 g 0 0 0 0 0 0 0 0 9 2 1 1 0 0 0 13 5 t 0 0 0 0 0 0 0 0 2 5 7 1 1 0 0 1 2
2445_MA0053.1_JASPAR_CORE_2009__shift12 (2445_MA0053.1_JASPAR_CORE_2009_)		0.875	0.437	6.131	0.453	0.877	0.751	0.925	80	254	88	104	232	54	97	129.857	86	; positions_6nt_m1 versus 2445_MA0053.1_JASPAR_CORE_2009_; m=26/51; ncol2=5; w=5; offset=5; strand=D; shift=12; score=129.857; ------------AAAGc ; cor=0.875; Ncor=0.437; logoDP=6.131; NIcor=0.453; NsEucl=0.877; SSD=0.751; NSW=0.925; rcor=80; rNcor=254; rlogoDP=88; rNIcor=104; rNsEucl=232; rSSD=54; rNSW=97; rank_mean=129.857; match_rank=86 a 0 0 0 0 0 0 0 0 0 0 0 0 15 15 15 0 3 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 9 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 15 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3
6344_1vtn_C_3D-footprint_20130124__shift5 (6344_1vtn_C_3D-footprint_20130124_)		0.836	0.488	5.176	0.475	0.883	1.333	0.905	127	145	125	81	192	146	161	139.571	105	; positions_6nt_m1 versus 6344_1vtn_C_3D-footprint_20130124_; m=27/51; ncol2=9; w=7; offset=-2; strand=D; shift=5; score=139.571; -----CTAnnTCAa--- ; cor=0.836; Ncor=0.488; logoDP=5.176; NIcor=0.475; NsEucl=0.883; SSD=1.333; NSW=0.905; rcor=127; rNcor=145; rlogoDP=125; rNIcor=81; rNsEucl=192; rSSD=146; rNSW=161; rank_mean=139.571; match_rank=105 a 0 0 0 0 0 0 0 69 24 24 0 0 96 61 0 0 0 c 0 0 0 0 0 87 0 11 24 24 0 78 0 8 0 0 0 g 0 0 0 0 0 1 0 8 24 24 0 10 0 19 0 0 0 t 0 0 0 0 0 8 96 8 24 24 96 8 0 8 0 0 0
6556_3dfv_C_3D-footprint_20130124__shift7 (6556_3dfv_C_3D-footprint_20130124_)		0.822	0.493	6.434	0.503	0.870	1.211	0.899	151	138	78	58	280	120	193	145.429	117	; positions_6nt_m1 versus 6556_3dfv_C_3D-footprint_20130124_; m=28/51; ncol2=6; w=6; offset=0; strand=D; shift=7; score=145.429; -------tTATcA---- ; cor=0.822; Ncor=0.493; logoDP=6.434; NIcor=0.503; NsEucl=0.870; SSD=1.211; NSW=0.899; rcor=151; rNcor=138; rlogoDP=78; rNIcor=58; rNsEucl=280; rSSD=120; rNSW=193; rank_mean=145.429; match_rank=117 a 0 0 0 0 0 0 0 12 0 96 0 10 96 0 0 0 0 c 0 0 0 0 0 0 0 10 11 0 0 53 0 0 0 0 0 g 0 0 0 0 0 0 0 10 0 0 0 10 0 0 0 0 0 t 0 0 0 0 0 0 0 64 85 0 96 23 0 0 0 0 0
1781_MA0222.1_JASPAR_CORE_2009__rc_shift8 (1781_MA0222.1_JASPAR_CORE_2009__rc)		0.839	0.672	3.975	0.139	0.892	1.494	0.907	120	12	174	248	134	190	151	147.000	121	; positions_6nt_m1 versus 1781_MA0222.1_JASPAR_CORE_2009__rc; m=29/51; ncol2=8; w=8; offset=1; strand=R; shift=8; score= 147; --------yRTCAAAa- ; cor=0.839; Ncor=0.672; logoDP=3.975; NIcor=0.139; NsEucl=0.892; SSD=1.494; NSW=0.907; rcor=120; rNcor=12; rlogoDP=174; rNIcor=248; rNsEucl=134; rSSD=190; rNSW=151; rank_mean=147.000; match_rank=121 a 0 0 0 0 0 0 0 0 0 5 0 0 17 17 14 5 0 c 0 0 0 0 0 0 0 0 6 0 0 17 0 0 2 4 0 g 0 0 0 0 0 0 0 0 0 12 0 0 0 0 0 4 0 t 0 0 0 0 0 0 0 0 11 0 17 0 0 0 1 4 0
2350_CN0187.1_JASPAR_CORE_2009__rc_shift1 (2350_CN0187.1_JASPAR_CORE_2009__rc)		0.856	0.482	3.941	0.026	0.902	1.560	0.913	99	155	178	278	95	214	127	163.714	147	; positions_6nt_m1 versus 2350_CN0187.1_JASPAR_CORE_2009__rc; m=30/51; ncol2=15; w=9; offset=-6; strand=R; shift=1; score=163.714; -AATGAAAGAwCAAAG- ; cor=0.856; Ncor=0.482; logoDP=3.941; NIcor=0.026; NsEucl=0.902; SSD=1.560; NSW=0.913; rcor=99; rNcor=155; rlogoDP=178; rNIcor=278; rNsEucl=95; rSSD=214; rNSW=127; rank_mean=163.714; match_rank=147 a 0 47 48 0 4 40 47 47 0 44 18 0 48 46 47 0 0 c 0 0 0 0 3 2 0 0 1 0 0 41 0 2 0 1 0 g 0 1 0 0 41 5 1 0 46 1 1 2 0 0 1 47 0 t 0 0 0 48 0 1 0 1 1 3 29 5 0 0 0 0 0
6387_2a07_K_3D-footprint_20130124__rc_shift11 (6387_2a07_K_3D-footprint_20130124__rc)		0.894	0.447	0.438	-0.080	0.887	0.638	0.936	52	229	307	303	166	41	71	167.000	151	; positions_6nt_m1 versus 6387_2a07_K_3D-footprint_20130124__rc; m=31/51; ncol2=5; w=5; offset=4; strand=R; shift=11; score= 167; -----------CAAat- ; cor=0.894; Ncor=0.447; logoDP=0.438; NIcor=-0.080; NsEucl=0.887; SSD=0.638; NSW=0.936; rcor=52; rNcor=229; rlogoDP=307; rNIcor=303; rNsEucl=166; rSSD=41; rNSW=71; rank_mean=167.000; match_rank=151 a 0 0 0 0 0 0 0 0 0 0 0 0 96 96 54 13 0 c 0 0 0 0 0 0 0 0 0 0 0 96 0 0 13 16 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 13 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 54 0
6753_6gat_A_3D-footprint_20130124__shift7 (6753_6gat_A_3D-footprint_20130124_)		0.803	0.482	4.741	0.485	0.867	1.265	0.895	180	153	142	70	289	127	211	167.429	153	; positions_6nt_m1 versus 6753_6gat_A_3D-footprint_20130124_; m=32/51; ncol2=6; w=6; offset=0; strand=D; shift=7; score=167.429; -------CnATCA---- ; cor=0.803; Ncor=0.482; logoDP=4.741; NIcor=0.485; NsEucl=0.867; SSD=1.265; NSW=0.895; rcor=180; rNcor=153; rlogoDP=142; rNIcor=70; rNsEucl=289; rSSD=127; rNSW=211; rank_mean=167.429; match_rank=153 a 0 0 0 0 0 0 0 11 24 67 9 0 96 0 0 0 0 c 0 0 0 0 0 0 0 67 24 9 11 96 0 0 0 0 0 g 0 0 0 0 0 0 0 9 24 11 9 0 0 0 0 0 0 t 0 0 0 0 0 0 0 9 24 9 67 0 0 0 0 0 0
4976_pan_DrosophilaTF_1.1__rc_shift6 (4976_pan_DrosophilaTF_1.1__rc)		0.842	0.766	4.878	0.093	0.896	2.181	0.891	116	3	134	259	118	324	229	169.000	160	; positions_6nt_m1 versus 4976_pan_DrosophilaTF_1.1__rc; m=33/51; ncol2=11; w=10; offset=-1; strand=R; shift=6; score= 169; ------AAGATCAAAGG ; cor=0.842; Ncor=0.766; logoDP=4.878; NIcor=0.093; NsEucl=0.896; SSD=2.181; NSW=0.891; rcor=116; rNcor=3; rlogoDP=134; rNIcor=259; rNsEucl=118; rSSD=324; rNSW=229; rank_mean=169.000; match_rank=160 a 0 0 0 0 0 0 1 1 0 1 0 0 1 1 1 0 0 c 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 g 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 1 1 t 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0
2704_PF0017.1_JASPAR_CORE_2009__rc_shift12 (2704_PF0017.1_JASPAR_CORE_2009__rc)		0.893	0.406	4.121	0.180	0.875	0.778	0.922	54	335	167	233	245	58	105	171.000	162	; positions_6nt_m1 versus 2704_PF0017.1_JASPAR_CORE_2009__rc; m=34/51; ncol2=6; w=5; offset=5; strand=R; shift=12; score= 171; ------------AAAGT ; cor=0.893; Ncor=0.406; logoDP=4.121; NIcor=0.180; NsEucl=0.875; SSD=0.778; NSW=0.922; rcor=54; rNcor=335; rlogoDP=167; rNIcor=233; rNsEucl=245; rSSD=58; rNSW=105; rank_mean=171.000; match_rank=162 a 0 0 0 0 0 0 0 0 0 0 0 0 8768 8768 8768 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8768 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8768
1493_MA0298.1_JASPAR_CORE_2009__shift7 (1493_MA0298.1_JASPAR_CORE_2009_)		0.811	0.487	8.445	0.484	0.852	1.569	0.869	163	147	23	71	333	217	310	180.571	176	; positions_6nt_m1 versus 1493_MA0298.1_JASPAR_CORE_2009_; m=35/51; ncol2=6; w=6; offset=0; strand=D; shift=7; score=180.571; -------CTATCA---- ; cor=0.811; Ncor=0.487; logoDP=8.445; NIcor=0.484; NsEucl=0.852; SSD=1.569; NSW=0.869; rcor=163; rNcor=147; rlogoDP=23; rNIcor=71; rNsEucl=333; rSSD=217; rNSW=310; rank_mean=180.571; match_rank=176 a 0 0 0 0 0 0 0 0 0 1 0 0 1 0 0 0 0 c 0 0 0 0 0 0 0 1 0 0 0 1 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0
5975_1akh_A_3D-footprint_20130124__rc_shift6 (5975_1akh_A_3D-footprint_20130124__rc)		0.839	0.457	0.757	-0.041	0.879	1.061	0.912	123	200	298	298	225	87	131	194.571	202	; positions_6nt_m1 versus 5975_1akh_A_3D-footprint_20130124__rc; m=36/51; ncol2=7; w=6; offset=-1; strand=R; shift=6; score=194.571; ------TATnTCA---- ; cor=0.839; Ncor=0.457; logoDP=0.757; NIcor=-0.041; NsEucl=0.879; SSD=1.061; NSW=0.912; rcor=123; rNcor=200; rlogoDP=298; rNIcor=298; rNsEucl=225; rSSD=87; rNSW=131; rank_mean=194.571; match_rank=202 a 0 0 0 0 0 0 8 69 0 24 0 0 69 0 0 0 0 c 0 0 0 0 0 0 11 8 9 24 0 96 8 0 0 0 0 g 0 0 0 0 0 0 8 11 0 24 0 0 11 0 0 0 0 t 0 0 0 0 0 0 69 8 87 24 96 0 8 0 0 0 0
1960_PB0105.1_JASPAR_CORE_2009__shift3 (1960_PB0105.1_JASPAR_CORE_2009_)		0.779	0.520	1.922	0.521	0.889	2.486	0.876	247	95	261	48	154	345	294	206.286	229	; positions_6nt_m1 versus 1960_PB0105.1_JASPAR_CORE_2009_; m=37/51; ncol2=15; w=10; offset=-4; strand=D; shift=3; score=206.286; ---hmmvrtATcrdrty ; cor=0.779; Ncor=0.520; logoDP=1.922; NIcor=0.521; NsEucl=0.889; SSD=2.486; NSW=0.876; rcor=247; rNcor=95; rlogoDP=261; rNIcor=48; rNsEucl=154; rSSD=345; rNSW=294; rank_mean=206.286; match_rank=229 a 0 0 0 31 25 26 27 37 7 81 4 18 50 35 44 25 22 c 0 0 0 28 30 34 34 15 19 7 17 58 7 10 21 9 32 g 0 0 0 16 22 25 33 39 16 10 10 21 25 27 25 18 12 t 0 0 0 25 23 16 6 8 58 2 69 3 17 28 10 49 34
6070_1gau_A_3D-footprint_20130124__shift8 (6070_1gau_A_3D-footprint_20130124_)		0.803	0.402	5.895	0.400	0.846	1.191	0.881	181	347	103	159	347	115	274	218.000	250	; positions_6nt_m1 versus 6070_1gau_A_3D-footprint_20130124_; m=38/51; ncol2=5; w=5; offset=1; strand=D; shift=8; score= 218; --------tATCt---- ; cor=0.803; Ncor=0.402; logoDP=5.895; NIcor=0.400; NsEucl=0.846; SSD=1.191; NSW=0.881; rcor=181; rNcor=347; rlogoDP=103; rNIcor=159; rNsEucl=347; rSSD=115; rNSW=274; rank_mean=218.000; match_rank=250 a 0 0 0 0 0 0 0 0 13 96 0 0 13 0 0 0 0 c 0 0 0 0 0 0 0 0 13 0 0 96 16 0 0 0 0 g 0 0 0 0 0 0 0 0 13 0 0 0 13 0 0 0 0 t 0 0 0 0 0 0 0 0 57 0 96 0 54 0 0 0 0
6264_1puf_B_3D-footprint_20130124__rc_shift8 (6264_1puf_B_3D-footprint_20130124__rc)		0.828	0.497	0.297	-0.103	0.867	1.282	0.893	147	132	318	312	294	130	218	221.571	259	; positions_6nt_m1 versus 6264_1puf_B_3D-footprint_20130124__rc; m=39/51; ncol2=6; w=6; offset=1; strand=R; shift=8; score=221.571; --------tATCAt--- ; cor=0.828; Ncor=0.497; logoDP=0.297; NIcor=-0.103; NsEucl=0.867; SSD=1.282; NSW=0.893; rcor=147; rNcor=132; rlogoDP=318; rNIcor=312; rNsEucl=294; rSSD=130; rNSW=218; rank_mean=221.571; match_rank=259 a 0 0 0 0 0 0 0 0 9 76 0 0 96 11 0 0 0 c 0 0 0 0 0 0 0 0 9 9 0 96 0 19 0 0 0 g 0 0 0 0 0 0 0 0 21 9 0 0 0 9 0 0 0 t 0 0 0 0 0 0 0 0 57 2 96 0 0 57 0 0 0
2204_CN0041.1_JASPAR_CORE_2009__rc_shift0 (2204_CN0041.1_JASPAR_CORE_2009__rc)		0.803	0.425	4.621	0.153	0.888	2.036	0.887	184	280	147	239	159	308	255	224.571	262	; positions_6nt_m1 versus 2204_CN0041.1_JASPAR_CORE_2009__rc; m=40/51; ncol2=16; w=9; offset=-7; strand=R; shift=0; score=224.571; mATTwGCATTTCAAAg- ; cor=0.803; Ncor=0.425; logoDP=4.621; NIcor=0.153; NsEucl=0.888; SSD=2.036; NSW=0.887; rcor=184; rNcor=280; rlogoDP=147; rNIcor=239; rNsEucl=159; rSSD=308; rNSW=255; rank_mean=224.571; match_rank=262 a 165 438 5 6 290 67 33 465 18 47 5 14 435 437 445 108 0 c 197 11 2 15 1 19 430 3 4 5 13 406 9 7 2 37 0 g 47 6 0 1 9 373 0 0 4 15 8 38 1 16 8 254 0 t 59 13 461 446 168 9 5 0 442 401 442 10 23 8 13 69 0
2219_CN0056.1_JASPAR_CORE_2009__shift2 (2219_CN0056.1_JASPAR_CORE_2009_)		0.760	0.456	10.449	0.469	0.872	2.649	0.853	318	204	5	88	270	350	343	225.429	267	; positions_6nt_m1 versus 2219_CN0056.1_JASPAR_CORE_2009_; m=41/51; ncol2=14; w=9; offset=-5; strand=D; shift=2; score=225.429; --YTCATwAATCAmAG- ; cor=0.760; Ncor=0.456; logoDP=10.449; NIcor=0.469; NsEucl=0.872; SSD=2.649; NSW=0.853; rcor=318; rNcor=204; rlogoDP=5; rNIcor=88; rNsEucl=270; rSSD=350; rNSW=343; rank_mean=225.429; match_rank=267 a 0 0 0 0 0 49 0 18 49 49 0 0 49 29 49 0 0 c 0 0 36 0 49 0 0 0 0 0 0 49 0 15 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 49 0 t 0 0 13 49 0 0 49 31 0 0 49 0 0 0 0 0 0
5048_ZmHOX2a_2__Athamap_20091028__rc_shift6 (5048_ZmHOX2a_2__Athamap_20091028__rc)		0.825	0.450	0.314	-0.166	0.871	1.207	0.899	148	220	316	348	278	118	188	230.857	275	; positions_6nt_m1 versus 5048_ZmHOX2a_2__Athamap_20091028__rc; m=42/51; ncol2=7; w=6; offset=-1; strand=R; shift=6; score=230.857; ------cmGATCa---- ; cor=0.825; Ncor=0.450; logoDP=0.314; NIcor=-0.166; NsEucl=0.871; SSD=1.207; NSW=0.899; rcor=148; rNcor=220; rlogoDP=316; rNIcor=348; rNsEucl=278; rSSD=118; rNSW=188; rank_mean=230.857; match_rank=275 a 0 0 0 0 0 0 6 16 0 27 0 0 15 0 0 0 0 c 0 0 0 0 0 0 14 7 0 0 0 27 5 0 0 0 0 g 0 0 0 0 0 0 4 4 27 0 0 0 2 0 0 0 0 t 0 0 0 0 0 0 3 0 0 0 27 0 5 0 0 0 0
7300_ARI3A_f1_HOCOMOCO_v9__shift9 (7300_ARI3A_f1_HOCOMOCO_v9_)		0.764	0.459	8.757	0.457	0.831	2.058	0.829	296	196	16	100	352	311	352	231.857	278	; positions_6nt_m1 versus 7300_ARI3A_f1_HOCOMOCO_v9_; m=43/51; ncol2=6; w=6; offset=2; strand=D; shift=9; score=231.857; ---------ATTAAA-- ; cor=0.764; Ncor=0.459; logoDP=8.757; NIcor=0.457; NsEucl=0.831; SSD=2.058; NSW=0.829; rcor=296; rNcor=196; rlogoDP=16; rNIcor=100; rNsEucl=352; rSSD=311; rNSW=352; rank_mean=231.857; match_rank=278 a 0 0 0 0 0 0 0 0 0 47 0 0 47 47 39 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 0 47 47 0 0 8 0 0
2563_MA0307.1_JASPAR_CORE_2009__rc_shift7 (2563_MA0307.1_JASPAR_CORE_2009__rc)		0.831	0.416	0.488	-0.142	0.862	0.952	0.905	142	311	303	333	312	75	162	234.000	282	; positions_6nt_m1 versus 2563_MA0307.1_JASPAR_CORE_2009__rc; m=44/51; ncol2=5; w=5; offset=0; strand=R; shift=7; score= 234; -------yWATC----- ; cor=0.831; Ncor=0.416; logoDP=0.488; NIcor=-0.142; NsEucl=0.862; SSD=0.952; NSW=0.905; rcor=142; rNcor=311; rlogoDP=303; rNIcor=333; rNsEucl=312; rSSD=75; rNSW=162; rank_mean=234.000; match_rank=282 a 0 0 0 0 0 0 0 12 26 100 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 27 0 0 0 100 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 61 74 0 100 0 0 0 0 0 0
2249_CN0086.1_JASPAR_CORE_2009__rc_shift8 (2249_CN0086.1_JASPAR_CORE_2009__rc)		0.780	0.439	4.385	0.081	0.883	2.216	0.877	244	247	158	261	195	328	288	245.857	303	; positions_6nt_m1 versus 2249_CN0086.1_JASPAR_CORE_2009__rc; m=45/51; ncol2=15; w=9; offset=1; strand=R; shift=8; score=245.857; --------AATCAAArG ; cor=0.780; Ncor=0.439; logoDP=4.385; NIcor=0.081; NsEucl=0.883; SSD=2.216; NSW=0.877; rcor=244; rNcor=247; rlogoDP=158; rNIcor=261; rNsEucl=195; rSSD=328; rNSW=288; rank_mean=245.857; match_rank=303 a 0 0 0 0 0 0 0 0 67 93 16 0 93 83 90 56 0 c 0 0 0 0 0 0 0 0 7 0 0 93 0 0 3 0 15 g 0 0 0 0 0 0 0 0 19 0 0 0 0 10 0 35 78 t 0 0 0 0 0 0 0 0 0 0 77 0 0 0 0 2 0
2431_MA0037.1_JASPAR_CORE_2009__rc_shift7 (2431_MA0037.1_JASPAR_CORE_2009__rc)		0.759	0.455	3.521	0.251	0.854	1.532	0.872	319	205	192	215	329	205	306	253.000	308	; positions_6nt_m1 versus 2431_MA0037.1_JASPAR_CORE_2009__rc; m=46/51; ncol2=6; w=6; offset=0; strand=R; shift=7; score= 253; -------cwATCw---- ; cor=0.759; Ncor=0.455; logoDP=3.521; NIcor=0.251; NsEucl=0.854; SSD=1.532; NSW=0.872; rcor=319; rNcor=205; rlogoDP=192; rNIcor=215; rNsEucl=329; rSSD=205; rNSW=306; rank_mean=253.000; match_rank=308 a 0 0 0 0 0 0 0 8 19 58 1 0 20 0 0 0 0 c 0 0 0 0 0 0 0 37 4 5 1 62 4 0 0 0 0 g 0 0 0 0 0 0 0 3 1 0 0 1 14 0 0 0 0 t 0 0 0 0 0 0 0 15 39 0 61 0 25 0 0 0 0
2820_PF0133.1_JASPAR_CORE_2009__rc_shift9 (2820_PF0133.1_JASPAR_CORE_2009__rc)		0.763	0.407	5.573	0.287	0.875	2.001	0.875	300	333	113	209	248	304	297	257.714	312	; positions_6nt_m1 versus 2820_PF0133.1_JASPAR_CORE_2009__rc; m=47/51; ncol2=13; w=8; offset=2; strand=R; shift=9; score=257.714; ---------rTCArhmw ; cor=0.763; Ncor=0.407; logoDP=5.573; NIcor=0.287; NsEucl=0.875; SSD=2.001; NSW=0.875; rcor=300; rNcor=333; rlogoDP=113; rNIcor=209; rNsEucl=248; rSSD=304; rNSW=297; rank_mean=257.714; match_rank=312 a 0 0 0 0 0 0 0 0 0 75 0 0 168 71 58 43 85 c 0 0 0 0 0 0 0 0 0 0 0 168 0 39 48 53 0 g 0 0 0 0 0 0 0 0 0 93 0 0 0 53 19 35 0 t 0 0 0 0 0 0 0 0 0 0 168 0 0 5 43 37 83
2430_MA0036.1_JASPAR_CORE_2009__rc_shift8 (2430_MA0036.1_JASPAR_CORE_2009__rc)		0.814	0.407	0.110	-0.082	0.851	1.115	0.889	159	332	340	304	335	96	245	258.714	315	; positions_6nt_m1 versus 2430_MA0036.1_JASPAR_CORE_2009__rc; m=48/51; ncol2=5; w=5; offset=1; strand=R; shift=8; score=258.714; --------yATCc---- ; cor=0.814; Ncor=0.407; logoDP=0.110; NIcor=-0.082; NsEucl=0.851; SSD=1.115; NSW=0.889; rcor=159; rNcor=332; rlogoDP=340; rNIcor=304; rNsEucl=335; rSSD=96; rNSW=245; rank_mean=258.714; match_rank=315 a 0 0 0 0 0 0 0 0 6 53 0 0 9 0 0 0 0 c 0 0 0 0 0 0 0 0 15 0 1 48 18 0 0 0 0 g 0 0 0 0 0 0 0 0 7 0 0 5 13 0 0 0 0 t 0 0 0 0 0 0 0 0 25 0 52 0 13 0 0 0 0
1763_MA0204.1_JASPAR_CORE_2009__rc_shift7 (1763_MA0204.1_JASPAR_CORE_2009__rc)		0.778	0.467	2.561	0.025	0.849	1.631	0.864	253	174	221	279	338	235	322	260.286	317	; positions_6nt_m1 versus 1763_MA0204.1_JASPAR_CORE_2009__rc; m=49/51; ncol2=6; w=6; offset=0; strand=R; shift=7; score=260.286; -------GTrTCA---- ; cor=0.778; Ncor=0.467; logoDP=2.561; NIcor=0.025; NsEucl=0.849; SSD=1.631; NSW=0.864; rcor=253; rNcor=174; rlogoDP=221; rNIcor=279; rNsEucl=338; rSSD=235; rNSW=322; rank_mean=260.286; match_rank=317 a 0 0 0 0 0 0 0 0 0 9 0 0 20 0 0 0 0 c 0 0 0 0 0 0 0 0 0 4 0 20 0 0 0 0 0 g 0 0 0 0 0 0 0 19 0 7 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 1 20 0 20 0 0 0 0 0 0
1793_MA0235.1_JASPAR_CORE_2009__rc_shift7 (1793_MA0235.1_JASPAR_CORE_2009__rc)		0.779	0.545	0.856	-0.117	0.861	1.896	0.865	251	60	296	317	317	288	321	264.286	321	; positions_6nt_m1 versus 1793_MA0235.1_JASPAR_CORE_2009__rc; m=50/51; ncol2=7; w=7; offset=0; strand=R; shift=7; score=264.286; -------hAATCAA--- ; cor=0.779; Ncor=0.545; logoDP=0.856; NIcor=-0.117; NsEucl=0.861; SSD=1.896; NSW=0.865; rcor=251; rNcor=60; rlogoDP=296; rNIcor=317; rNsEucl=317; rSSD=288; rNSW=321; rank_mean=264.286; match_rank=321 a 0 0 0 0 0 0 0 6 15 15 0 0 15 12 0 0 0 c 0 0 0 0 0 0 0 4 0 0 0 15 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 t 0 0 0 0 0 0 0 5 0 0 15 0 0 1 0 0 0
2193_CN0030.1_JASPAR_CORE_2009__rc_shift1 (2193_CN0030.1_JASPAR_CORE_2009__rc)		0.775	0.436	3.223	0.043	0.874	2.553	0.858	263	256	201	270	257	347	333	275.286	335	; positions_6nt_m1 versus 2193_CN0030.1_JASPAR_CORE_2009__rc; m=51/51; ncol2=15; w=9; offset=-6; strand=R; shift=1; score=275.286; -wTTGACATTTCAAAG- ; cor=0.775; Ncor=0.436; logoDP=3.223; NIcor=0.043; NsEucl=0.874; SSD=2.553; NSW=0.858; rcor=263; rNcor=256; rlogoDP=201; rNIcor=270; rNsEucl=257; rSSD=347; rNSW=333; rank_mean=275.286; match_rank=335 a 0 63 8 0 8 141 5 153 0 0 0 0 144 139 143 17 0 c 0 20 10 0 0 0 148 0 0 0 0 153 5 11 0 0 0 g 0 8 29 0 129 12 0 0 0 0 0 0 0 2 10 121 0 t 0 62 106 153 16 0 0 0 153 153 153 0 4 1 0 15 0

One-to-n matrix alignment; reference matrix: positions_7nt_m2_shift4 ; 22 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_7nt_m2_shift4 (positions_7nt_m2)																		; positions_7nt_m2; m=0 (reference); ncol1=11; shift=4; ncol=18; ----wwATATAAGkb--- ; Alignment reference a 0 0 0 0 2 3 7 0 7 0 7 7 0 0 1 0 0 0 c 0 0 0 0 1 1 0 0 0 0 0 0 0 1 2 0 0 0 g 0 0 0 0 1 1 0 0 0 0 0 0 7 3 2 0 0 0 t 0 0 0 0 3 2 0 7 0 7 0 0 0 3 2 0 0 0
2613_MA0379.1_JASPAR_CORE_2009__shift6 (2613_MA0379.1_JASPAR_CORE_2009_)		0.999	0.454	9.094	0.454	0.988	0.008	0.999	1	209	12	103	1	1	1	46.857	3	; positions_7nt_m2 versus 2613_MA0379.1_JASPAR_CORE_2009_; m=1/21; ncol2=5; w=5; offset=2; strand=D; shift=6; score=46.8571; ------ATATA------- ; cor=0.999; Ncor=0.454; logoDP=9.094; NIcor=0.454; NsEucl=0.988; SSD=0.008; NSW=0.999; rcor=1; rNcor=209; rlogoDP=12; rNIcor=103; rNsEucl=1; rSSD=1; rNSW=1; rank_mean=46.857; match_rank=3 a 0 0 0 0 0 0 93 0 99 0 99 0 0 0 0 0 0 0 c 0 0 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 5 99 0 99 0 0 0 0 0 0 0 0
6272_1qn7_A_3D-footprint_20130124__rc_shift5 (6272_1qn7_A_3D-footprint_20130124__rc)		0.947	0.689	5.800	0.285	0.935	0.545	0.966	15	11	109	210	11	32	17	57.857	17	; positions_7nt_m2 versus 6272_1qn7_A_3D-footprint_20130124__rc; m=2/21; ncol2=8; w=8; offset=1; strand=R; shift=5; score=57.8571; -----TATATAAG----- ; cor=0.947; Ncor=0.689; logoDP=5.800; NIcor=0.285; NsEucl=0.935; SSD=0.545; NSW=0.966; rcor=15; rNcor=11; rlogoDP=109; rNIcor=210; rNsEucl=11; rSSD=32; rNSW=17; rank_mean=57.857; match_rank=17 a 0 0 0 0 0 8 96 0 96 0 69 96 8 0 0 0 0 0 c 0 0 0 0 0 8 0 8 0 0 8 0 8 0 0 0 0 0 g 0 0 0 0 0 8 0 0 0 0 11 0 72 0 0 0 0 0 t 0 0 0 0 0 72 0 88 0 96 8 0 8 0 0 0 0 0
6327_1tgh_A_3D-footprint_20130124__shift3 (6327_1tgh_A_3D-footprint_20130124_)		0.890	0.519	8.646	0.505	0.905	0.890	0.936	59	97	21	56	85	67	70	65.000	23	; positions_7nt_m2 versus 6327_1tgh_A_3D-footprint_20130124_; m=3/21; ncol2=8; w=7; offset=-1; strand=D; shift=3; score= 65; ---TAtATATA------- ; cor=0.890; Ncor=0.519; logoDP=8.646; NIcor=0.505; NsEucl=0.905; SSD=0.890; NSW=0.936; rcor=59; rNcor=97; rlogoDP=21; rNIcor=56; rNsEucl=85; rSSD=67; rNSW=70; rank_mean=65.000; match_rank=23 a 0 0 0 0 96 19 76 0 96 0 96 0 0 0 0 0 0 0 c 0 0 0 0 0 19 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 20 19 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 96 0 38 1 96 0 96 0 0 0 0 0 0 0 0
2427_MA0033.1_JASPAR_CORE_2009__shift3 (2427_MA0033.1_JASPAR_CORE_2009_)		0.854	0.498	4.621	0.481	0.895	1.090	0.922	102	129	148	75	124	92	106	110.857	65	; positions_7nt_m2 versus 2427_MA0033.1_JASPAR_CORE_2009_; m=4/21; ncol2=8; w=7; offset=-1; strand=D; shift=3; score=110.857; ---wwdayATA------- ; cor=0.854; Ncor=0.498; logoDP=4.621; NIcor=0.481; NsEucl=0.895; SSD=1.090; NSW=0.922; rcor=102; rNcor=129; rlogoDP=148; rNIcor=75; rNsEucl=124; rSSD=92; rNSW=106; rank_mean=110.857; match_rank=65 a 0 0 0 7 10 6 13 4 21 0 22 0 0 0 0 0 0 0 c 0 0 0 1 4 3 4 10 0 2 1 0 0 0 0 0 0 0 g 0 0 0 4 2 6 4 2 2 0 0 0 0 0 0 0 0 0 t 0 0 0 11 7 8 2 7 0 21 0 0 0 0 0 0 0 0
6725_4aik_A_3D-footprint_20130124__shift5 (6725_4aik_A_3D-footprint_20130124_)		0.829	0.528	6.685	0.509	0.879	1.423	0.898	144	77	70	54	217	179	199	134.286	95	; positions_7nt_m2 versus 6725_4aik_A_3D-footprint_20130124_; m=5/21; ncol2=7; w=7; offset=1; strand=D; shift=5; score=134.286; -----CATAnAA------ ; cor=0.829; Ncor=0.528; logoDP=6.685; NIcor=0.509; NsEucl=0.879; SSD=1.423; NSW=0.898; rcor=144; rNcor=77; rlogoDP=70; rNIcor=54; rNsEucl=217; rSSD=179; rNSW=199; rank_mean=134.286; match_rank=95 a 0 0 0 0 0 11 69 0 96 24 67 96 0 0 0 0 0 0 c 0 0 0 0 0 67 9 0 0 24 11 0 0 0 0 0 0 0 g 0 0 0 0 0 9 9 0 0 24 9 0 0 0 0 0 0 0 t 0 0 0 0 0 9 9 96 0 24 9 0 0 0 0 0 0 0
6360_1ytf_AC_3D-footprint_20130124__shift1 (6360_1ytf_AC_3D-footprint_20130124_)		0.853	0.427	8.224	0.397	0.885	1.306	0.907	103	274	29	164	180	137	149	148.000	122	; positions_7nt_m2 versus 6360_1ytf_AC_3D-footprint_20130124_; m=6/21; ncol2=10; w=7; offset=-3; strand=D; shift=1; score= 148; -GTTTTATATA------- ; cor=0.853; Ncor=0.427; logoDP=8.224; NIcor=0.397; NsEucl=0.885; SSD=1.306; NSW=0.907; rcor=103; rNcor=274; rlogoDP=29; rNIcor=164; rNsEucl=180; rSSD=137; rNSW=149; rank_mean=148.000; match_rank=122 a 0 9 0 9 0 0 67 0 96 0 96 0 0 0 0 0 0 0 c 0 9 0 9 0 0 9 0 0 0 0 0 0 0 0 0 0 0 g 0 69 0 11 0 0 11 0 0 0 0 0 0 0 0 0 0 0 t 0 9 96 67 96 96 9 96 0 96 0 0 0 0 0 0 0 0
6359_1ytf_A_3D-footprint_20130124__shift1 (6359_1ytf_A_3D-footprint_20130124_)		0.853	0.427	8.224	0.397	0.885	1.306	0.907	103	274	29	164	180	137	149	148.000	123	; positions_7nt_m2 versus 6359_1ytf_A_3D-footprint_20130124_; m=7/21; ncol2=10; w=7; offset=-3; strand=D; shift=1; score= 148; -GTTTTATATA------- ; cor=0.853; Ncor=0.427; logoDP=8.224; NIcor=0.397; NsEucl=0.885; SSD=1.306; NSW=0.907; rcor=103; rNcor=274; rlogoDP=29; rNIcor=164; rNsEucl=180; rSSD=137; rNSW=149; rank_mean=148.000; match_rank=123 a 0 9 0 11 0 0 67 0 96 0 96 0 0 0 0 0 0 0 c 0 9 0 9 0 0 9 0 0 0 0 0 0 0 0 0 0 0 g 0 69 0 9 0 0 11 0 0 0 0 0 0 0 0 0 0 0 t 0 9 96 67 96 96 9 96 0 96 0 0 0 0 0 0 0 0
2713_PF0026.1_JASPAR_CORE_2009__shift4 (2713_PF0026.1_JASPAR_CORE_2009_)		0.799	0.581	8.896	0.530	0.877	1.940	0.879	194	40	14	42	234	295	281	157.143	136	; positions_7nt_m2 versus 2713_PF0026.1_JASPAR_CORE_2009_; m=8/21; ncol2=8; w=8; offset=0; strand=D; shift=4; score=157.143; ----TTAyrTAA------ ; cor=0.799; Ncor=0.581; logoDP=8.896; NIcor=0.530; NsEucl=0.877; SSD=1.940; NSW=0.879; rcor=194; rNcor=40; rlogoDP=14; rNIcor=42; rNsEucl=234; rSSD=295; rNSW=281; rank_mean=157.143; match_rank=136 a 0 0 0 0 0 0 680 0 375 0 680 680 0 0 0 0 0 0 c 0 0 0 0 0 0 0 286 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 305 0 0 0 0 0 0 0 0 0 t 0 0 0 0 680 680 0 394 0 680 0 0 0 0 0 0 0 0
2814_PF0127.1_JASPAR_CORE_2009__shift7 (2814_PF0127.1_JASPAR_CORE_2009_)		0.783	0.570	9.022	0.518	0.872	2.109	0.868	235	50	13	50	273	316	314	178.714	173	; positions_7nt_m2 versus 2814_PF0127.1_JASPAR_CORE_2009_; m=9/21; ncol2=8; w=8; offset=3; strand=D; shift=7; score=178.714; -------wwTAAGGC--- ; cor=0.783; Ncor=0.570; logoDP=9.022; NIcor=0.518; NsEucl=0.872; SSD=2.109; NSW=0.868; rcor=235; rNcor=50; rlogoDP=13; rNIcor=50; rNsEucl=273; rSSD=316; rNSW=314; rank_mean=178.714; match_rank=173 a 0 0 0 0 0 0 0 156 195 0 452 452 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 452 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 452 452 0 0 0 0 t 0 0 0 0 0 0 0 296 257 452 0 0 0 0 0 0 0 0
6276_1qnb_A_3D-footprint_20130124__rc_shift7 (6276_1qnb_A_3D-footprint_20130124__rc)		0.818	0.595	2.306	0.010	0.885	1.698	0.894	153	28	228	286	177	249	213	190.571	196	; positions_7nt_m2 versus 6276_1qnb_A_3D-footprint_20130124__rc; m=10/21; ncol2=8; w=8; offset=3; strand=R; shift=7; score=190.571; -------TATAAmTs--- ; cor=0.818; Ncor=0.595; logoDP=2.306; NIcor=0.010; NsEucl=0.885; SSD=1.698; NSW=0.894; rcor=153; rNcor=28; rlogoDP=228; rNIcor=286; rNsEucl=177; rSSD=249; rNSW=213; rank_mean=190.571; match_rank=196 a 0 0 0 0 0 0 0 0 96 0 96 96 48 0 12 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 24 0 24 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 12 0 48 0 0 0 t 0 0 0 0 0 0 0 96 0 96 0 0 12 96 12 0 0 0
6246_1osl_A_3D-footprint_20130124__rc_shift8 (6246_1osl_A_3D-footprint_20130124__rc)		0.839	0.489	0.367	-0.142	0.885	1.302	0.907	122	143	311	334	178	136	148	196.000	207	; positions_7nt_m2 versus 6246_1osl_A_3D-footprint_20130124__rc; m=11/21; ncol2=8; w=7; offset=4; strand=R; shift=8; score= 196; --------ATAAGAta-- ; cor=0.839; Ncor=0.489; logoDP=0.367; NIcor=-0.142; NsEucl=0.885; SSD=1.302; NSW=0.907; rcor=122; rNcor=143; rlogoDP=311; rNIcor=334; rNsEucl=178; rSSD=136; rNSW=148; rank_mean=196.000; match_rank=207 a 0 0 0 0 0 0 0 0 96 0 96 96 6 84 6 54 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 6 6 16 16 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 78 6 13 13 0 0 t 0 0 0 0 0 0 0 0 0 96 0 0 6 0 61 13 0 0
6270_1qn5_A_3D-footprint_20130124__rc_shift7 (6270_1qn5_A_3D-footprint_20130124__rc)		0.797	0.580	0.345	-0.179	0.879	1.870	0.883	202	41	315	350	221	283	268	240.000	293	; positions_7nt_m2 versus 6270_1qn5_A_3D-footprint_20130124__rc; m=12/21; ncol2=8; w=8; offset=3; strand=R; shift=7; score= 240; -------TATAAGAG--- ; cor=0.797; Ncor=0.580; logoDP=0.345; NIcor=-0.179; NsEucl=0.879; SSD=1.870; NSW=0.883; rcor=202; rNcor=41; rlogoDP=315; rNIcor=350; rNsEucl=221; rSSD=283; rNSW=268; rank_mean=240.000; match_rank=293 a 0 0 0 0 0 0 0 9 96 0 96 96 9 96 9 0 0 0 c 0 0 0 0 0 0 0 9 0 0 0 0 11 0 9 0 0 0 g 0 0 0 0 0 0 0 11 0 0 0 0 67 0 67 0 0 0 t 0 0 0 0 0 0 0 67 0 96 0 0 9 0 11 0 0 0
6724_4aij_AB_3D-footprint_20130124__rc_shift7 (6724_4aij_AB_3D-footprint_20130124__rc)		0.803	0.401	1.286	0.138	0.886	1.653	0.897	182	348	292	249	168	240	204	240.429	294	; positions_7nt_m2 versus 6724_4aij_AB_3D-footprint_20130124__rc; m=13/21; ncol2=13; w=8; offset=3; strand=R; shift=7; score=240.429; -------TATAnnnnTTG ; cor=0.803; Ncor=0.401; logoDP=1.286; NIcor=0.138; NsEucl=0.886; SSD=1.653; NSW=0.897; rcor=182; rNcor=348; rlogoDP=292; rNIcor=249; rNsEucl=168; rSSD=240; rNSW=204; rank_mean=240.429; match_rank=294 a 0 0 0 0 0 0 0 0 96 0 96 24 24 24 24 9 9 0 c 0 0 0 0 0 0 0 0 0 0 0 24 24 24 24 11 9 0 g 0 0 0 0 0 0 0 0 0 0 0 24 24 24 24 9 11 96 t 0 0 0 0 0 0 0 96 0 96 0 24 24 24 24 67 67 0
2738_PF0051.1_JASPAR_CORE_2009__shift7 (2738_PF0051.1_JASPAR_CORE_2009_)		0.778	0.424	9.609	0.424	0.833	2.000	0.833	254	283	11	136	351	303	351	241.286	296	; positions_7nt_m2 versus 2738_PF0051.1_JASPAR_CORE_2009_; m=14/21; ncol2=6; w=6; offset=3; strand=D; shift=7; score=241.286; -------TATAAA----- ; cor=0.778; Ncor=0.424; logoDP=9.609; NIcor=0.424; NsEucl=0.833; SSD=2.000; NSW=0.833; rcor=254; rNcor=283; rlogoDP=11; rNIcor=136; rNsEucl=351; rSSD=303; rNSW=351; rank_mean=241.286; match_rank=296 a 0 0 0 0 0 0 0 0 4688 0 4688 4688 4688 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 4688 0 4688 0 0 0 0 0 0 0 0
2595_MA0356.1_JASPAR_CORE_2009__rc_shift4 (2595_MA0356.1_JASPAR_CORE_2009__rc)		0.769	0.419	3.043	0.146	0.865	1.311	0.891	278	295	204	244	300	139	231	241.571	297	; positions_7nt_m2 versus 2595_MA0356.1_JASPAR_CORE_2009__rc; m=15/21; ncol2=6; w=6; offset=0; strand=R; shift=4; score=241.571; ----wAwTAw-------- ; cor=0.769; Ncor=0.419; logoDP=3.043; NIcor=0.146; NsEucl=0.865; SSD=1.311; NSW=0.891; rcor=278; rNcor=295; rlogoDP=204; rNIcor=244; rNsEucl=300; rSSD=139; rNSW=231; rank_mean=241.571; match_rank=297 a 0 0 0 0 37 77 44 0 88 41 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 63 23 56 100 12 52 0 0 0 0 0 0 0 0
6236_1nvp_AC_3D-footprint_20130124__rc_shift1 (6236_1nvp_AC_3D-footprint_20130124__rc)		0.761	0.489	4.213	0.209	0.878	2.398	0.867	312	144	162	223	226	338	316	245.857	302	; positions_7nt_m2 versus 6236_1nvp_AC_3D-footprint_20130124__rc; m=16/21; ncol2=12; w=9; offset=-3; strand=R; shift=1; score=245.857; -GGnnTATAAAAG----- ; cor=0.761; Ncor=0.489; logoDP=4.213; NIcor=0.209; NsEucl=0.878; SSD=2.398; NSW=0.867; rcor=312; rNcor=144; rlogoDP=162; rNIcor=223; rNsEucl=226; rSSD=338; rNSW=316; rank_mean=245.857; match_rank=302 a 0 6 3 24 24 3 96 3 96 84 76 96 3 0 0 0 0 0 c 0 3 3 24 24 6 0 3 0 3 7 0 15 0 0 0 0 0 g 0 80 87 24 24 3 0 6 0 3 7 0 72 0 0 0 0 0 t 0 7 3 24 24 84 0 84 0 6 6 0 6 0 0 0 0 0
2509_MA0124.1_JASPAR_CORE_2009__rc_shift9 (2509_MA0124.1_JASPAR_CORE_2009__rc)		0.808	0.404	2.199	0.041	0.860	1.421	0.882	170	339	233	271	320	178	271	254.571	311	; positions_7nt_m2 versus 2509_MA0124.1_JASPAR_CORE_2009__rc; m=17/21; ncol2=7; w=6; offset=5; strand=R; shift=9; score=254.571; ---------TAAGTAt-- ; cor=0.808; Ncor=0.404; logoDP=2.199; NIcor=0.041; NsEucl=0.860; SSD=1.421; NSW=0.882; rcor=170; rNcor=339; rlogoDP=233; rNIcor=271; rNsEucl=320; rSSD=178; rNSW=271; rank_mean=254.571; match_rank=311 a 0 0 0 0 0 0 0 0 0 0 19 19 1 0 19 3 0 0 c 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 3 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 19 0 1 1 0 0 t 0 0 0 0 0 0 0 0 0 19 1 1 0 20 0 13 0 0
2715_PF0028.1_JASPAR_CORE_2009__shift2 (2715_PF0028.1_JASPAR_CORE_2009_)		0.751	0.404	6.877	0.370	0.860	1.922	0.863	350	338	62	196	318	293	325	268.857	325	; positions_7nt_m2 versus 2715_PF0028.1_JASPAR_CORE_2009_; m=18/21; ncol2=9; w=7; offset=-2; strand=D; shift=2; score=268.857; --CTAwwwATA------- ; cor=0.751; Ncor=0.404; logoDP=6.877; NIcor=0.370; NsEucl=0.860; SSD=1.922; NSW=0.863; rcor=350; rNcor=338; rlogoDP=62; rNIcor=196; rNsEucl=318; rSSD=293; rNSW=325; rank_mean=268.857; match_rank=325 a 0 0 0 0 1356 605 896 881 1356 0 1356 0 0 0 0 0 0 0 c 0 0 1356 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 1356 0 751 460 475 0 1356 0 0 0 0 0 0 0 0
6637_3jxb_CD_3D-footprint_20130124__rc_shift5 (6637_3jxb_CD_3D-footprint_20130124__rc)		0.752	0.418	2.027	0.002	0.888	2.523	0.874	346	304	241	288	161	346	304	284.286	337	; positions_7nt_m2 versus 6637_3jxb_CD_3D-footprint_20130124__rc; m=19/21; ncol2=17; w=10; offset=1; strand=R; shift=5; score=284.286; -----TATTTAAGnnnnC ; cor=0.752; Ncor=0.418; logoDP=2.027; NIcor=0.002; NsEucl=0.888; SSD=2.523; NSW=0.874; rcor=346; rNcor=304; rlogoDP=241; rNIcor=288; rNsEucl=161; rSSD=346; rNSW=304; rank_mean=284.286; match_rank=337 a 0 0 0 0 0 3 85 10 5 3 96 96 4 24 24 24 24 1 c 0 0 0 0 0 5 5 7 3 9 0 0 0 24 24 24 24 92 g 0 0 0 0 0 3 3 8 3 3 0 0 92 24 24 24 24 0 t 0 0 0 0 0 85 3 71 85 81 0 0 0 24 24 24 24 3
6434_2h7h_A_3D-footprint_20130124__rc_shift8 (6434_2h7h_A_3D-footprint_20130124__rc)		0.779	0.425	0.553	-0.053	0.852	1.576	0.869	250	279	302	300	334	219	312	285.143	339	; positions_7nt_m2 versus 6434_2h7h_A_3D-footprint_20130124__rc; m=20/21; ncol2=6; w=6; offset=4; strand=R; shift=8; score=285.143; --------ATGAGT---- ; cor=0.779; Ncor=0.425; logoDP=0.553; NIcor=-0.053; NsEucl=0.852; SSD=1.576; NSW=0.869; rcor=250; rNcor=279; rlogoDP=302; rNIcor=300; rNsEucl=334; rSSD=219; rNSW=312; rank_mean=285.143; match_rank=339 a 0 0 0 0 0 0 0 0 69 0 11 96 0 9 0 0 0 0 c 0 0 0 0 0 0 0 0 9 0 9 0 0 9 0 0 0 0 g 0 0 0 0 0 0 0 0 9 0 67 0 96 11 0 0 0 0 t 0 0 0 0 0 0 0 0 9 96 9 0 0 67 0 0 0 0
6358_1ytb_A_3D-footprint_20130124__rc_shift0 (6358_1ytb_A_3D-footprint_20130124__rc)		0.766	0.409	0.658	-0.044	0.872	2.110	0.868	288	327	301	299	274	317	315	303.000	346	; positions_7nt_m2 versus 6358_1ytb_A_3D-footprint_20130124__rc; m=21/21; ncol2=12; w=8; offset=-4; strand=R; shift=0; score= 303; CGnnTTATaTAc------ ; cor=0.766; Ncor=0.409; logoDP=0.658; NIcor=-0.044; NsEucl=0.872; SSD=2.110; NSW=0.868; rcor=288; rNcor=327; rlogoDP=301; rNIcor=299; rNsEucl=274; rSSD=317; rNSW=315; rank_mean=303.000; match_rank=346 a 0 0 24 24 0 8 96 0 64 0 88 16 0 0 0 0 0 0 c 96 0 24 24 0 8 0 0 16 0 8 64 0 0 0 0 0 0 g 0 96 24 24 0 8 0 0 8 0 0 8 0 0 0 0 0 0 t 0 0 24 24 96 72 0 96 8 96 0 8 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_8nt_m5_shift7 ; 38 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_8nt_m5_shift7 (positions_8nt_m5)																		; positions_8nt_m5; m=0 (reference); ncol1=12; shift=7; ncol=19; -------dtAACCCGGAtg ; Alignment reference a 0 0 0 0 0 0 0 13 6 33 39 0 1 1 1 7 36 9 9 c 0 0 0 0 0 0 0 6 7 2 2 43 42 38 0 0 2 8 8 g 0 0 0 0 0 0 0 12 8 3 1 0 0 0 41 31 2 10 18 t 0 0 0 0 0 0 0 12 22 5 1 0 0 4 1 5 3 16 8
6044_1dux_F_3D-footprint_20130124__shift12 (6044_1dux_F_3D-footprint_20130124_)		0.932	0.544	3.997	0.523	0.936	0.399	0.972	18	62	173	47	9	17	14	48.571	4	; positions_8nt_m5 versus 6044_1dux_F_3D-footprint_20130124_; m=1/37; ncol2=7; w=7; offset=5; strand=D; shift=12; score=48.5714; ------------cCGGAng ; cor=0.932; Ncor=0.544; logoDP=3.997; NIcor=0.523; NsEucl=0.936; SSD=0.399; NSW=0.972; rcor=18; rNcor=62; rlogoDP=173; rNIcor=47; rNsEucl=9; rSSD=17; rNSW=14; rank_mean=48.571; match_rank=4 a 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 78 24 19 c 0 0 0 0 0 0 0 0 0 0 0 0 59 96 0 0 0 24 11 g 0 0 0 0 0 0 0 0 0 0 0 0 9 0 96 96 9 24 57 t 0 0 0 0 0 0 0 0 0 0 0 0 19 0 0 0 9 24 9
5801_SPDEF_DBD_1_HumanTF_1.0__shift10 (5801_SPDEF_DBD_1_HumanTF_1.0_)		0.896	0.576	6.197	0.552	0.923	0.957	0.947	46	43	84	28	27	76	42	49.429	7	; positions_8nt_m5 versus 5801_SPDEF_DBD_1_HumanTF_1.0_; m=2/37; ncol2=11; w=9; offset=3; strand=D; shift=10; score=49.4286; ----------AmCCGGATg ; cor=0.896; Ncor=0.576; logoDP=6.197; NIcor=0.552; NsEucl=0.923; SSD=0.957; NSW=0.947; rcor=46; rNcor=43; rlogoDP=84; rNIcor=28; rNsEucl=27; rSSD=76; rNSW=42; rank_mean=49.429; match_rank=7 a 0 0 0 0 0 0 0 0 0 0 498 214 2 21 0 10 498 77 158 c 0 0 0 0 0 0 0 0 0 0 10 284 498 498 5 0 0 21 40 g 0 0 0 0 0 0 0 0 0 0 10 37 22 0 498 498 1 7 498 t 0 0 0 0 0 0 0 0 0 0 92 13 0 0 0 0 1 498 39
5804_SPDEF_full_1_HumanTF_1.0__shift10 (5804_SPDEF_full_1_HumanTF_1.0_)		0.890	0.572	6.290	0.545	0.920	1.030	0.943	58	46	80	31	32	81	54	54.571	13	; positions_8nt_m5 versus 5804_SPDEF_full_1_HumanTF_1.0_; m=3/37; ncol2=11; w=9; offset=3; strand=D; shift=10; score=54.5714; ----------AmCCGGATg ; cor=0.890; Ncor=0.572; logoDP=6.290; NIcor=0.545; NsEucl=0.920; SSD=1.030; NSW=0.943; rcor=58; rNcor=46; rlogoDP=80; rNIcor=31; rNsEucl=32; rSSD=81; rNSW=54; rank_mean=54.571; match_rank=13 a 0 0 0 0 0 0 0 0 0 0 4628 1890 52 237 2 6 4628 532 1566 c 0 0 0 0 0 0 0 0 0 0 101 2737 4628 4628 2 0 0 69 601 g 0 0 0 0 0 0 0 0 0 0 176 536 92 1 4628 4628 6 11 4628 t 0 0 0 0 0 0 0 0 0 0 912 77 0 1 0 8 2 4628 66
2542_MA0280.1_JASPAR_CORE_2009__shift12 (2542_MA0280.1_JASPAR_CORE_2009_)		0.962	0.481	5.286	0.476	0.941	0.253	0.979	12	156	120	80	6	7	6	55.286	15	; positions_8nt_m5 versus 2542_MA0280.1_JASPAR_CORE_2009_; m=4/37; ncol2=6; w=6; offset=5; strand=D; shift=12; score=55.2857; ------------CCGGar- ; cor=0.962; Ncor=0.481; logoDP=5.286; NIcor=0.476; NsEucl=0.941; SSD=0.253; NSW=0.979; rcor=12; rNcor=156; rlogoDP=120; rNIcor=80; rNsEucl=6; rSSD=7; rNSW=6; rank_mean=55.286; match_rank=15 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 66 32 0 c 0 0 0 0 0 0 0 0 0 0 0 0 100 100 0 0 13 18 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 100 21 28 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 22 0
5241_ELF1_full_HumanTF_1.0__shift9 (5241_ELF1_full_HumanTF_1.0_)		0.875	0.625	6.444	0.593	0.918	1.356	0.932	76	22	77	16	38	157	79	66.429	24	; positions_8nt_m5 versus 5241_ELF1_full_HumanTF_1.0_; m=5/37; ncol2=12; w=10; offset=2; strand=D; shift=9; score=66.4286; ---------AACCCGGAAG ; cor=0.875; Ncor=0.625; logoDP=6.444; NIcor=0.593; NsEucl=0.918; SSD=1.356; NSW=0.932; rcor=76; rNcor=22; rlogoDP=77; rNIcor=16; rNsEucl=38; rSSD=157; rNSW=79; rank_mean=66.429; match_rank=24 a 0 0 0 0 0 0 0 0 0 95 113 16 5 0 1 0 117 119 10 c 0 0 0 0 0 0 0 0 0 5 6 97 115 117 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 1 4 0 11 6 174 173 0 1 167 t 0 0 0 0 0 0 0 0 0 30 6 16 0 2 0 5 1 7 0
5240_ELF1_DBD_HumanTF_1.0__shift9 (5240_ELF1_DBD_HumanTF_1.0_)		0.861	0.615	6.286	0.579	0.915	1.441	0.928	90	23	82	20	50	183	89	76.714	28	; positions_8nt_m5 versus 5240_ELF1_DBD_HumanTF_1.0_; m=6/37; ncol2=12; w=10; offset=2; strand=D; shift=9; score=76.7143; ---------aACCCGGAAG ; cor=0.861; Ncor=0.615; logoDP=6.286; NIcor=0.579; NsEucl=0.915; SSD=1.441; NSW=0.928; rcor=90; rNcor=23; rlogoDP=82; rNIcor=20; rNsEucl=50; rSSD=183; rNSW=89; rank_mean=76.714; match_rank=28 a 0 0 0 0 0 0 0 0 0 3447 3447 625 98 116 0 0 3447 3447 539 c 0 0 0 0 0 0 0 0 0 515 342 3447 3447 3447 0 0 0 1 0 g 0 0 0 0 0 0 0 0 0 880 160 301 257 0 3447 3447 6 0 3447 t 0 0 0 0 0 0 0 0 0 1042 566 314 0 0 0 0 0 59 1
2539_MA0275.1_JASPAR_CORE_2009__shift12 (2539_MA0275.1_JASPAR_CORE_2009_)		0.921	0.461	4.424	0.458	0.918	0.484	0.960	26	189	157	97	37	25	21	78.857	29	; positions_8nt_m5 versus 2539_MA0275.1_JASPAR_CORE_2009_; m=7/37; ncol2=6; w=6; offset=5; strand=D; shift=12; score=78.8571; ------------CCGGAw- ; cor=0.921; Ncor=0.461; logoDP=4.424; NIcor=0.458; NsEucl=0.918; SSD=0.484; NSW=0.960; rcor=26; rNcor=189; rlogoDP=157; rNIcor=97; rNsEucl=37; rSSD=25; rNSW=21; rank_mean=78.857; match_rank=29 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 72 53 0 c 0 0 0 0 0 0 0 0 0 0 0 0 76 100 0 0 11 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 100 16 0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 24 0 0 0 0 47 0
5242_ELF3_DBD_HumanTF_1.0__shift9 (5242_ELF3_DBD_HumanTF_1.0_)		0.855	0.611	6.522	0.577	0.913	1.531	0.923	101	24	75	21	59	203	101	83.429	32	; positions_8nt_m5 versus 5242_ELF3_DBD_HumanTF_1.0_; m=8/37; ncol2=12; w=10; offset=2; strand=D; shift=9; score=83.4286; ---------wACCCGGAAG ; cor=0.855; Ncor=0.611; logoDP=6.522; NIcor=0.577; NsEucl=0.913; SSD=1.531; NSW=0.923; rcor=101; rNcor=24; rlogoDP=75; rNIcor=21; rNsEucl=59; rSSD=203; rNSW=101; rank_mean=83.429; match_rank=32 a 0 0 0 0 0 0 0 0 0 2574 4382 347 380 651 0 0 4575 4613 681 c 0 0 0 0 0 0 0 0 0 700 19 5633 5717 5660 2 5 2 0 48 g 0 0 0 0 0 0 0 0 0 671 40 592 560 26 6125 6131 5 0 5802 t 0 0 0 0 0 0 0 0 0 1958 385 227 5 1 0 2 1 44 0
5244_ELF4_full_HumanTF_1.0__shift9 (5244_ELF4_full_HumanTF_1.0_)		0.846	0.604	6.024	0.563	0.911	1.593	0.920	111	26	93	24	65	222	109	92.857	42	; positions_8nt_m5 versus 5244_ELF4_full_HumanTF_1.0_; m=9/37; ncol2=12; w=10; offset=2; strand=D; shift=9; score=92.8571; ---------aACCCGGAAG ; cor=0.846; Ncor=0.604; logoDP=6.024; NIcor=0.563; NsEucl=0.911; SSD=1.593; NSW=0.920; rcor=111; rNcor=26; rlogoDP=93; rNIcor=24; rNsEucl=65; rSSD=222; rNSW=109; rank_mean=92.857; match_rank=42 a 0 0 0 0 0 0 0 0 0 598 705 198 17 54 1 0 739 737 43 c 0 0 0 0 0 0 0 0 0 109 73 930 990 997 0 0 0 5 18 g 0 0 0 0 0 0 0 0 0 160 15 75 105 6 1226 1226 2 2 1207 t 0 0 0 0 0 0 0 0 0 192 149 106 1 0 0 2 2 4 6
7494_MECP2_f1_HOCOMOCO_v9__shift12 (7494_MECP2_f1_HOCOMOCO_v9_)		0.897	0.449	5.318	0.456	0.903	0.684	0.943	41	226	119	101	90	44	53	96.286	46	; positions_8nt_m5 versus 7494_MECP2_f1_HOCOMOCO_v9_; m=10/37; ncol2=6; w=6; offset=5; strand=D; shift=12; score=96.2857; ------------CCGGrr- ; cor=0.897; Ncor=0.449; logoDP=5.318; NIcor=0.456; NsEucl=0.903; SSD=0.684; NSW=0.943; rcor=41; rNcor=226; rlogoDP=119; rNIcor=101; rNsEucl=90; rSSD=44; rNSW=53; rank_mean=96.286; match_rank=46 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 68 52 0 c 0 0 0 0 0 0 0 0 0 0 0 0 119 119 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 119 119 50 66 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 0
5243_ELF3_full_HumanTF_1.0__shift9 (5243_ELF3_full_HumanTF_1.0_)		0.849	0.566	6.362	0.530	0.911	1.599	0.920	108	51	79	41	66	224	110	97.000	49	; positions_8nt_m5 versus 5243_ELF3_full_HumanTF_1.0_; m=11/37; ncol2=13; w=10; offset=2; strand=D; shift=9; score= 97; ---------wACCCGGAAG ; cor=0.849; Ncor=0.566; logoDP=6.362; NIcor=0.530; NsEucl=0.911; SSD=1.599; NSW=0.920; rcor=108; rNcor=51; rlogoDP=79; rNIcor=41; rNsEucl=66; rSSD=224; rNSW=110; rank_mean=97.000; match_rank=49 a 0 0 0 0 0 0 0 0 0 632 1131 71 153 129 3 0 1194 1201 134 c 0 0 0 0 0 0 0 0 0 163 11 1366 1389 1417 0 6 1 1 0 g 0 0 0 0 0 0 0 0 0 144 4 279 157 3 2121 2132 1 0 2092 t 0 0 0 0 0 0 0 0 0 420 83 31 0 0 0 7 0 14 11
5239_EHF_full_HumanTF_1.0__shift9 (5239_EHF_full_HumanTF_1.0_)		0.832	0.594	5.347	0.553	0.910	1.608	0.920	137	29	117	27	67	229	113	102.714	54	; positions_8nt_m5 versus 5239_EHF_full_HumanTF_1.0_; m=12/37; ncol2=12; w=10; offset=2; strand=D; shift=9; score=102.714; ---------wACCCGGAAG ; cor=0.832; Ncor=0.594; logoDP=5.347; NIcor=0.553; NsEucl=0.910; SSD=1.608; NSW=0.920; rcor=137; rNcor=29; rlogoDP=117; rNIcor=27; rNsEucl=67; rSSD=229; rNSW=113; rank_mean=102.714; match_rank=54 a 0 0 0 0 0 0 0 0 0 461 895 171 125 166 2 0 942 942 197 c 0 0 0 0 0 0 0 0 0 175 34 1224 1280 1288 1 0 4 10 29 g 0 0 0 0 0 0 0 0 0 143 33 221 291 16 1458 1464 1 9 1329 t 0 0 0 0 0 0 0 0 0 304 121 146 8 7 0 0 2 4 13
7366_ERG_f1_HOCOMOCO_v9__shift12 (7366_ERG_f1_HOCOMOCO_v9_)		0.896	0.418	4.791	0.417	0.911	0.774	0.945	45	299	139	143	63	56	51	113.714	71	; positions_8nt_m5 versus 7366_ERG_f1_HOCOMOCO_v9_; m=13/37; ncol2=10; w=7; offset=5; strand=D; shift=12; score=113.714; ------------CCGGAAr ; cor=0.896; Ncor=0.418; logoDP=4.791; NIcor=0.417; NsEucl=0.911; SSD=0.774; NSW=0.945; rcor=45; rNcor=299; rlogoDP=139; rNIcor=143; rNsEucl=63; rSSD=56; rNSW=51; rank_mean=113.714; match_rank=71 a 0 0 0 0 0 0 0 0 0 0 0 0 14 105 0 0 634 484 334 c 0 0 0 0 0 0 0 0 0 0 0 0 563 530 0 0 0 3 0 g 0 0 0 0 0 0 0 0 0 0 0 0 57 0 635 635 0 0 280 t 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 1 148 21
7360_ELK1_f1_HOCOMOCO_v9__shift12 (7360_ELK1_f1_HOCOMOCO_v9_)		0.850	0.458	3.086	0.437	0.904	0.902	0.936	105	198	203	124	86	68	72	122.286	78	; positions_8nt_m5 versus 7360_ELK1_f1_HOCOMOCO_v9_; m=14/37; ncol2=8; w=7; offset=5; strand=D; shift=12; score=122.286; ------------CCGGAAr ; cor=0.850; Ncor=0.458; logoDP=3.086; NIcor=0.437; NsEucl=0.904; SSD=0.902; NSW=0.936; rcor=105; rNcor=198; rlogoDP=203; rNIcor=124; rNsEucl=86; rSSD=68; rNSW=72; rank_mean=122.286; match_rank=78 a 0 0 0 0 0 0 0 0 0 0 0 0 27 33 3 2 153 134 42 c 0 0 0 0 0 0 0 0 0 0 0 0 112 112 0 1 1 0 15 g 0 0 0 0 0 0 0 0 0 0 0 0 16 11 147 153 0 2 100 t 0 0 0 0 0 0 0 0 0 0 0 0 5 4 10 4 6 24 3
1889_PB0024.1_JASPAR_CORE_2009__shift6 (1889_PB0024.1_JASPAR_CORE_2009_)		0.763	0.572	6.615	0.607	0.913	2.171	0.910	299	47	73	10	56	321	137	134.714	97	; positions_8nt_m5 versus 1889_PB0024.1_JASPAR_CORE_2009_; m=15/37; ncol2=16; w=12; offset=-1; strand=D; shift=6; score=134.714; ------wmvwACCCGCATv ; cor=0.763; Ncor=0.572; logoDP=6.615; NIcor=0.607; NsEucl=0.913; SSD=2.171; NSW=0.910; rcor=299; rNcor=47; rlogoDP=73; rNIcor=10; rNsEucl=56; rSSD=321; rNSW=137; rank_mean=134.714; match_rank=97 a 0 0 0 0 0 0 25 32 31 28 73 1 1 4 2 0 98 1 25 c 0 0 0 0 0 0 21 33 28 17 3 99 99 94 6 79 0 11 31 g 0 0 0 0 0 0 18 21 33 17 21 0 0 0 90 3 1 7 25 t 0 0 0 0 0 0 36 14 9 38 2 0 0 2 2 19 1 81 19
3767_UP00070_UniPROBE_20120919__shift6 (3767_UP00070_UniPROBE_20120919_)		0.762	0.572	6.606	0.606	0.913	2.176	0.909	302	48	74	12	57	323	139	136.429	100	; positions_8nt_m5 versus 3767_UP00070_UniPROBE_20120919_; m=16/37; ncol2=16; w=12; offset=-1; strand=D; shift=6; score=136.429; ------wmvwACCCGCATv ; cor=0.762; Ncor=0.572; logoDP=6.606; NIcor=0.606; NsEucl=0.913; SSD=2.176; NSW=0.909; rcor=302; rNcor=48; rlogoDP=74; rNIcor=12; rNsEucl=57; rSSD=323; rNSW=139; rank_mean=136.429; match_rank=100 a 0 0 0 0 0 0 25 32 31 28 73 0.01 0.01 0.04 2 0 0.98 1 25 c 0 0 0 0 0 0 21 33 27 17 3 0.99 0.99 0.94 6 0.79 0 11 31 g 0 0 0 0 0 0 18 21 33 17 22 0 0 0 90 0.03 0.01 7 25 t 0 0 0 0 0 0 36 14 9 38 2 0 0 0.02 2 0.19 0.01 81 19
3735_UP00038_UniPROBE_20120919__rc_shift6 (3735_UP00038_UniPROBE_20120919__rc)		0.776	0.582	4.519	0.466	0.918	1.960	0.918	257	36	150	90	41	299	117	141.429	109	; positions_8nt_m5 versus 3735_UP00038_UniPROBE_20120919__rc; m=17/37; ncol2=16; w=12; offset=-1; strand=R; shift=6; score=141.429; ------rardAtCCGGATg ; cor=0.776; Ncor=0.582; logoDP=4.519; NIcor=0.466; NsEucl=0.918; SSD=1.960; NSW=0.918; rcor=257; rNcor=36; rlogoDP=150; rNIcor=90; rNsEucl=41; rSSD=299; rNSW=117; rank_mean=141.429; match_rank=109 a 0 0 0 0 0 0 40 47 39 34 72 17 0.05 0.12 0 0 96 24 16 c 0 0 0 0 0 0 19 15 13 15 4 19 0.86 0.87 0 0.01 1 4 13 g 0 0 0 0 0 0 31 23 30 25 6 7 0.09 0.01 0.99 0.99 1 1 61 t 0 0 0 0 0 0 10 15 18 26 18 57 0 0 0.01 0.01 2 71 10
1935_PB0077.1_JASPAR_CORE_2009__rc_shift6 (1935_PB0077.1_JASPAR_CORE_2009__rc)		0.775	0.582	4.519	0.465	0.917	1.967	0.918	258	39	151	91	43	300	118	142.857	114	; positions_8nt_m5 versus 1935_PB0077.1_JASPAR_CORE_2009__rc; m=18/37; ncol2=16; w=12; offset=-1; strand=R; shift=6; score=142.857; ------rarwAtCCGGATg ; cor=0.775; Ncor=0.582; logoDP=4.519; NIcor=0.465; NsEucl=0.917; SSD=1.967; NSW=0.918; rcor=258; rNcor=39; rlogoDP=151; rNIcor=91; rNsEucl=43; rSSD=300; rNSW=118; rank_mean=142.857; match_rank=114 a 0 0 0 0 0 0 40 47 39 34 72 17 5 12 0 0 96 24 16 c 0 0 0 0 0 0 19 15 13 16 4 19 86 87 0 1 1 4 13 g 0 0 0 0 0 0 31 23 30 25 6 7 9 1 99 99 1 1 61 t 0 0 0 0 0 0 9 15 18 26 18 57 0 0 1 1 2 71 9
7355_EHF_si_HOCOMOCO_v9__shift9 (7355_EHF_si_HOCOMOCO_v9_)		0.786	0.561	4.957	0.519	0.902	1.912	0.904	223	52	130	49	94	289	163	142.857	115	; positions_8nt_m5 versus 7355_EHF_si_HOCOMOCO_v9_; m=19/37; ncol2=12; w=10; offset=2; strand=D; shift=9; score=142.857; ---------wAcMmGGAAr ; cor=0.786; Ncor=0.561; logoDP=4.957; NIcor=0.519; NsEucl=0.902; SSD=1.912; NSW=0.904; rcor=223; rNcor=52; rlogoDP=130; rNIcor=49; rNsEucl=94; rSSD=289; rNSW=163; rank_mean=142.857; match_rank=115 a 0 0 0 0 0 0 0 0 0 213 308 71 110 169 0 0 400 400 131 c 0 0 0 0 0 0 0 0 0 37 0 232 290 231 0 0 0 0 3 g 0 0 0 0 0 0 0 0 0 17 85 93 0 0 400 376 0 0 261 t 0 0 0 0 0 0 0 0 0 133 7 4 0 0 0 24 0 0 5
1869_MA0421.1_JASPAR_CORE_2009__shift7 (1869_MA0421.1_JASPAR_CORE_2009_)		0.787	0.656	8.133	0.634	0.891	2.362	0.882	218	13	31	7	138	336	270	144.714	116	; positions_8nt_m5 versus 1869_MA0421.1_JASPAR_CORE_2009_; m=20/37; ncol2=10; w=10; offset=0; strand=D; shift=7; score=144.714; -------TTTACCCGGm-- ; cor=0.787; Ncor=0.656; logoDP=8.133; NIcor=0.634; NsEucl=0.891; SSD=2.362; NSW=0.882; rcor=218; rNcor=13; rlogoDP=31; rNIcor=7; rNsEucl=138; rSSD=336; rNSW=270; rank_mean=144.714; match_rank=116 a 0 0 0 0 0 0 0 174 0 0 1832 0 0 118 0 49 779 0 0 c 0 0 0 0 0 0 0 0 0 103 0 1832 1832 1739 0 0 841 0 0 g 0 0 0 0 0 0 0 274 40 0 0 0 0 0 1832 1784 117 0 0 t 0 0 0 0 0 0 0 1457 1817 1784 0 0 0 0 0 0 291 0 0
2420_MA0026.1_JASPAR_CORE_2009__shift12 (2420_MA0026.1_JASPAR_CORE_2009_)		0.814	0.475	3.947	0.447	0.885	1.291	0.908	160	165	176	113	172	132	144	151.714	131	; positions_8nt_m5 versus 2420_MA0026.1_JASPAR_CORE_2009_; m=21/37; ncol2=7; w=7; offset=5; strand=D; shift=12; score=151.714; ------------CMGGAAr ; cor=0.814; Ncor=0.475; logoDP=3.947; NIcor=0.447; NsEucl=0.885; SSD=1.291; NSW=0.908; rcor=160; rNcor=165; rlogoDP=176; rNIcor=113; rNsEucl=172; rSSD=132; rNSW=144; rank_mean=151.714; match_rank=131 a 0 0 0 0 0 0 0 0 0 0 0 0 2 5 0 0 17 17 5 c 0 0 0 0 0 0 0 0 0 0 0 0 12 12 0 0 0 0 1 g 0 0 0 0 0 0 0 0 0 0 0 0 2 0 17 17 0 0 10 t 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 1
4939_Eip74EF_DrosophilaTF_1.1__shift7 (4939_Eip74EF_DrosophilaTF_1.1_)		0.762	0.538	4.566	0.501	0.913	2.161	0.910	306	69	149	60	55	320	136	156.429	134	; positions_8nt_m5 versus 4939_Eip74EF_DrosophilaTF_1.1_; m=22/37; ncol2=17; w=12; offset=0; strand=D; shift=7; score=156.429; -------mgAAyCMGGAAr ; cor=0.762; Ncor=0.538; logoDP=4.566; NIcor=0.501; NsEucl=0.913; SSD=2.161; NSW=0.910; rcor=306; rNcor=69; rlogoDP=149; rNIcor=60; rNsEucl=55; rSSD=320; rNSW=136; rank_mean=156.429; match_rank=134 a 0 0 0 0 0 0 0 29 21 73 0.6875 12 11 0.2941 0 0 1 1 29 c 0 0 0 0 0 0 0 36 22 7 0 41 71 0.7059 0 0 0 0 6 g 0 0 0 0 0 0 0 14 43 13 0.125 12 12 0 1 1 0 0 59 t 0 0 0 0 0 0 0 21 14 7 0.1875 35 6 0 0 0 0 0 6
2601_MA0363.1_JASPAR_CORE_2009__shift7 (2601_MA0363.1_JASPAR_CORE_2009_)		0.768	0.576	6.819	0.548	0.885	2.135	0.881	283	44	64	30	173	318	273	169.286	161	; positions_8nt_m5 versus 2601_MA0363.1_JASPAR_CORE_2009_; m=23/37; ncol2=9; w=9; offset=0; strand=D; shift=7; score=169.286; -------rTTACCCkg--- ; cor=0.768; Ncor=0.576; logoDP=6.819; NIcor=0.548; NsEucl=0.885; SSD=2.135; NSW=0.881; rcor=283; rNcor=44; rlogoDP=64; rNIcor=30; rNsEucl=173; rSSD=318; rNSW=273; rank_mean=169.286; match_rank=161 a 0 0 0 0 0 0 0 30 0 0 100 0 0 0 0 15 0 0 0 c 0 0 0 0 0 0 0 10 0 0 0 100 100 100 0 15 0 0 0 g 0 0 0 0 0 0 0 50 0 0 0 0 0 0 60 55 0 0 0 t 0 0 0 0 0 0 0 10 100 100 0 0 0 0 40 15 0 0 0
2487_MA0098.1_JASPAR_CORE_2009__rc_shift13 (2487_MA0098.1_JASPAR_CORE_2009__rc)		0.841	0.421	0.238	-0.094	0.898	0.750	0.937	117	289	326	308	107	53	69	181.286	179	; positions_8nt_m5 versus 2487_MA0098.1_JASPAR_CORE_2009__rc; m=24/37; ncol2=6; w=6; offset=6; strand=R; shift=13; score=181.286; -------------mGGAwr ; cor=0.841; Ncor=0.421; logoDP=0.238; NIcor=-0.094; NsEucl=0.898; SSD=0.750; NSW=0.937; rcor=117; rNcor=289; rlogoDP=326; rNIcor=308; rNsEucl=107; rSSD=53; rNSW=69; rank_mean=181.286; match_rank=179 a 0 0 0 0 0 0 0 0 0 0 0 0 0 15 1 0 39 23 16 c 0 0 0 0 0 0 0 0 0 0 0 0 0 17 0 1 0 0 4 g 0 0 0 0 0 0 0 0 0 0 0 0 0 3 39 39 1 0 16 t 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 17 4
3995_UP00305_UniPROBE_20120919__rc_shift0 (3995_UP00305_UniPROBE_20120919__rc)		0.797	0.461	1.660	0.050	0.917	1.657	0.925	201	187	282	267	44	241	98	188.571	191	; positions_8nt_m5 versus 3995_UP00305_UniPROBE_20120919__rc; m=25/37; ncol2=18; w=11; offset=-7; strand=R; shift=0; score=188.571; wkbTCCGkmsrCCCGrrw- ; cor=0.797; Ncor=0.461; logoDP=1.660; NIcor=0.050; NsEucl=0.917; SSD=1.657; NSW=0.925; rcor=201; rNcor=187; rlogoDP=282; rNIcor=267; rNsEucl=44; rSSD=241; rNSW=98; rank_mean=188.571; match_rank=191 a 41 23 3 2 0 0 4 12 27 13 44 2 1 2 1 28 42 34 0 c 8 13 29 5 0.96 0.95 1 11 42 35 16 72 94 94 20 13 16 20 0 g 16 30 28 1 0.02 0.04 93 42 8 30 26 2 1 3 78 53 25 20 0 t 35 34 40 92 0.02 0.01 2 35 23 22 14 24 4 1 1 6 17 26 0
7373_ETS1_si_HOCOMOCO_v9__shift12 (7373_ETS1_si_HOCOMOCO_v9_)		0.784	0.422	3.525	0.396	0.885	1.293	0.908	234	287	190	167	174	133	145	190.000	195	; positions_8nt_m5 versus 7373_ETS1_si_HOCOMOCO_v9_; m=26/37; ncol2=8; w=7; offset=5; strand=D; shift=12; score= 190; ------------cmGGAWg ; cor=0.784; Ncor=0.422; logoDP=3.525; NIcor=0.396; NsEucl=0.885; SSD=1.293; NSW=0.908; rcor=234; rNcor=287; rlogoDP=190; rNIcor=167; rNsEucl=174; rSSD=133; rNSW=145; rank_mean=190.000; match_rank=195 a 0 0 0 0 0 0 0 0 0 0 0 0 22 81 0 0 147 101 34 c 0 0 0 0 0 0 0 0 0 0 0 0 90 57 0 1 0 3 10 g 0 0 0 0 0 0 0 0 0 0 0 0 34 5 147 146 0 5 98 t 0 0 0 0 0 0 0 0 0 0 0 0 1 4 0 0 0 38 5
6163_1k79_A_3D-footprint_20130124__rc_shift13 (6163_1k79_A_3D-footprint_20130124__rc)		0.839	0.419	0.288	-0.128	0.888	0.906	0.924	121	294	320	321	160	69	99	197.714	210	; positions_8nt_m5 versus 6163_1k79_A_3D-footprint_20130124__rc; m=27/37; ncol2=6; w=6; offset=6; strand=R; shift=13; score=197.714; -------------CGGAAA ; cor=0.839; Ncor=0.419; logoDP=0.288; NIcor=-0.128; NsEucl=0.888; SSD=0.906; NSW=0.924; rcor=121; rNcor=294; rlogoDP=320; rNIcor=321; rNsEucl=160; rSSD=69; rNSW=99; rank_mean=197.714; match_rank=210 a 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 96 67 67 c 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 9 11 g 0 0 0 0 0 0 0 0 0 0 0 0 0 11 96 96 0 11 9 t 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 9 9
6164_1k7a_A_3D-footprint_20130124__rc_shift13 (6164_1k7a_A_3D-footprint_20130124__rc)		0.835	0.418	0.293	-0.129	0.886	0.932	0.922	132	303	319	322	169	73	104	203.143	222	; positions_8nt_m5 versus 6164_1k7a_A_3D-footprint_20130124__rc; m=28/37; ncol2=6; w=6; offset=6; strand=R; shift=13; score=203.143; -------------CGGAAA ; cor=0.835; Ncor=0.418; logoDP=0.293; NIcor=-0.129; NsEucl=0.886; SSD=0.932; NSW=0.922; rcor=132; rNcor=303; rlogoDP=319; rNIcor=322; rNsEucl=169; rSSD=73; rNSW=104; rank_mean=203.143; match_rank=222 a 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 96 69 67 c 0 0 0 0 0 0 0 0 0 0 0 0 0 67 0 0 0 9 9 g 0 0 0 0 0 0 0 0 0 0 0 0 0 11 96 96 0 9 9 t 0 0 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 9 11
5368_GCM2_DBD_HumanTF_1.0__rc_shift9 (5368_GCM2_DBD_HumanTF_1.0__rc)		0.753	0.627	2.654	0.276	0.897	2.141	0.893	343	20	217	213	114	319	219	206.429	231	; positions_8nt_m5 versus 5368_GCM2_DBD_HumanTF_1.0__rc; m=29/37; ncol2=10; w=10; offset=2; strand=R; shift=9; score=206.429; ---------yrCCCGCATv ; cor=0.753; Ncor=0.627; logoDP=2.654; NIcor=0.276; NsEucl=0.897; SSD=2.141; NSW=0.893; rcor=343; rNcor=20; rlogoDP=217; rNIcor=213; rNsEucl=114; rSSD=319; rNSW=219; rank_mean=206.429; match_rank=231 a 0 0 0 0 0 0 0 0 0 240 1320 0 13 66 127 0 1320 45 427 c 0 0 0 0 0 0 0 0 0 341 91 1320 1320 1320 138 1320 24 299 375 g 0 0 0 0 0 0 0 0 0 140 533 0 0 1 1320 32 41 77 340 t 0 0 0 0 0 0 0 0 0 599 92 1 0 51 84 263 23 1320 179
2690_PF0003.1_JASPAR_CORE_2009__shift12 (2690_PF0003.1_JASPAR_CORE_2009_)		0.818	0.440	4.987	0.413	0.871	1.626	0.884	154	244	127	148	277	233	265	206.857	232	; positions_8nt_m5 versus 2690_PF0003.1_JASPAR_CORE_2009_; m=30/37; ncol2=8; w=7; offset=5; strand=D; shift=12; score=206.857; ------------SCGGAAG ; cor=0.818; Ncor=0.440; logoDP=4.987; NIcor=0.413; NsEucl=0.871; SSD=1.626; NSW=0.884; rcor=154; rNcor=244; rlogoDP=127; rNIcor=148; rNsEucl=277; rSSD=233; rNSW=265; rank_mean=206.857; match_rank=232 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6548 6548 0 c 0 0 0 0 0 0 0 0 0 0 0 0 4724 6548 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 1824 0 6548 6548 0 0 6548 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
4969_gcm_DrosophilaTF_1.1__rc_shift10 (4969_gcm_DrosophilaTF_1.1__rc)		0.788	0.525	3.378	0.245	0.878	1.918	0.880	216	84	197	216	229	291	276	215.571	246	; positions_8nt_m5 versus 4969_gcm_DrosophilaTF_1.1__rc; m=31/37; ncol2=8; w=8; offset=3; strand=R; shift=10; score=215.571; ----------rCCCGCAT- ; cor=0.788; Ncor=0.525; logoDP=3.378; NIcor=0.245; NsEucl=0.878; SSD=1.918; NSW=0.880; rcor=216; rNcor=84; rlogoDP=197; rNIcor=216; rNsEucl=229; rSSD=291; rNSW=276; rank_mean=215.571; match_rank=246 a 0 0 0 0 0 0 0 0 0 0 0.6774 0 0 0.1042 0 0.0208 1 2 0 c 0 0 0 0 0 0 0 0 0 0 0 0.9792 1 0.875 0.0208 0.9167 0 9 0 g 0 0 0 0 0 0 0 0 0 0 0.3226 0 0 0 0.9792 0 0 2 0 t 0 0 0 0 0 0 0 0 0 0 0 0.0208 0 0.0208 0 0.0625 0 87 0
5365_GCM1_DBD_HumanTF_1.0__rc_shift9 (5365_GCM1_DBD_HumanTF_1.0__rc)		0.752	0.627	2.703	0.265	0.893	2.285	0.886	345	21	214	214	132	332	259	216.714	249	; positions_8nt_m5 versus 5365_GCM1_DBD_HumanTF_1.0__rc; m=32/37; ncol2=10; w=10; offset=2; strand=R; shift=9; score=216.714; ---------tACCCGCATr ; cor=0.752; Ncor=0.627; logoDP=2.703; NIcor=0.265; NsEucl=0.893; SSD=2.285; NSW=0.886; rcor=345; rNcor=21; rlogoDP=214; rNIcor=214; rNsEucl=132; rSSD=332; rNSW=259; rank_mean=216.714; match_rank=249 a 0 0 0 0 0 0 0 0 0 568 2590 0 1 478 100 2 2590 57 766 c 0 0 0 0 0 0 0 0 0 915 15 2590 2590 2590 127 2590 11 413 623 g 0 0 0 0 0 0 0 0 0 492 491 1 0 4 2590 26 3 99 879 t 0 0 0 0 0 0 0 0 0 2590 30 2 0 94 107 442 6 2590 322
2614_MA0380.1_JASPAR_CORE_2009__rc_shift11 (2614_MA0380.1_JASPAR_CORE_2009__rc)		0.776	0.453	2.226	0.151	0.878	1.470	0.895	256	214	232	241	231	186	208	224.000	260	; positions_8nt_m5 versus 2614_MA0380.1_JASPAR_CORE_2009__rc; m=33/37; ncol2=7; w=7; offset=4; strand=R; shift=11; score= 224; -----------ycCGGRr- ; cor=0.776; Ncor=0.453; logoDP=2.226; NIcor=0.151; NsEucl=0.878; SSD=1.470; NSW=0.895; rcor=256; rNcor=214; rlogoDP=232; rNIcor=241; rNsEucl=231; rSSD=186; rNSW=208; rank_mean=224.000; match_rank=260 a 0 0 0 0 0 0 0 0 0 0 0 0 14 0 0 1 73 32 0 c 0 0 0 0 0 0 0 0 0 0 0 25 63 100 0 0 0 13 0 g 0 0 0 0 0 0 0 0 0 0 0 16 0 0 100 99 27 48 0 t 0 0 0 0 0 0 0 0 0 0 0 57 23 0 0 0 0 8 0
2649_MA0430.1_JASPAR_CORE_2009__shift12 (2649_MA0430.1_JASPAR_CORE_2009_)		0.771	0.415	4.167	0.400	0.875	1.541	0.890	274	313	166	158	256	210	239	230.857	276	; positions_8nt_m5 versus 2649_MA0430.1_JASPAR_CORE_2009_; m=34/37; ncol2=8; w=7; offset=5; strand=D; shift=12; score=230.857; ------------yCGGAGT ; cor=0.771; Ncor=0.415; logoDP=4.167; NIcor=0.400; NsEucl=0.875; SSD=1.541; NSW=0.890; rcor=274; rNcor=313; rlogoDP=166; rNIcor=158; rNsEucl=256; rSSD=210; rNSW=239; rank_mean=230.857; match_rank=276 a 0 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0 96 4 23 c 0 0 0 0 0 0 0 0 0 0 0 0 42 100 0 0 0 14 2 g 0 0 0 0 0 0 0 0 0 0 0 0 13 0 100 100 4 82 5 t 0 0 0 0 0 0 0 0 0 0 0 0 31 0 0 0 0 0 70
5356_GABPA_full_HumanTF_1.0__shift11 (5356_GABPA_full_HumanTF_1.0_)		0.762	0.436	5.246	0.416	0.877	1.943	0.879	301	257	121	144	237	296	283	234.143	283	; positions_8nt_m5 versus 5356_GABPA_full_HumanTF_1.0_; m=35/37; ncol2=10; w=8; offset=4; strand=D; shift=11; score=234.143; -----------aCCGGAAG ; cor=0.762; Ncor=0.436; logoDP=5.246; NIcor=0.416; NsEucl=0.877; SSD=1.943; NSW=0.879; rcor=301; rNcor=257; rlogoDP=121; rNIcor=144; rNsEucl=237; rSSD=296; rNSW=283; rank_mean=234.143; match_rank=283 a 0 0 0 0 0 0 0 0 0 0 0 386 13 15 0 0 386 386 74 c 0 0 0 0 0 0 0 0 0 0 0 96 386 386 0 2 2 1 16 g 0 0 0 0 0 0 0 0 0 0 0 138 17 0 386 386 0 14 386 t 0 0 0 0 0 0 0 0 0 0 0 30 3 1 0 4 0 92 0
7361_ELK3_f1_HOCOMOCO_v9__shift11 (7361_ELK3_f1_HOCOMOCO_v9_)		0.756	0.403	4.254	0.373	0.885	1.698	0.894	333	341	161	194	176	248	212	237.857	290	; positions_8nt_m5 versus 7361_ELK3_f1_HOCOMOCO_v9_; m=36/37; ncol2=11; w=8; offset=4; strand=D; shift=11; score=237.857; -----------mChGGAAr ; cor=0.756; Ncor=0.403; logoDP=4.254; NIcor=0.373; NsEucl=0.885; SSD=1.698; NSW=0.894; rcor=333; rNcor=341; rlogoDP=161; rNIcor=194; rNsEucl=176; rSSD=248; rNSW=212; rank_mean=237.857; match_rank=290 a 0 0 0 0 0 0 0 0 0 0 0 2 1 3 0 0 7 5 3 c 0 0 0 0 0 0 0 0 0 0 0 3 6 2 0 0 0 1 0 g 0 0 0 0 0 0 0 0 0 0 0 1 0 0 7 7 0 0 4 t 0 0 0 0 0 0 0 0 0 0 0 1 0 2 0 0 0 1 0
6730_4b06_A_3D-footprint_20130124__rc_shift13 (6730_4b06_A_3D-footprint_20130124__rc)		0.835	0.417	1.421	0.018	0.856	1.483	0.876	134	306	289	282	325	189	291	259.429	316	; positions_8nt_m5 versus 6730_4b06_A_3D-footprint_20130124__rc; m=37/37; ncol2=6; w=6; offset=6; strand=R; shift=13; score=259.429; -------------CGGAAG ; cor=0.835; Ncor=0.417; logoDP=1.421; NIcor=0.018; NsEucl=0.856; SSD=1.483; NSW=0.876; rcor=134; rNcor=306; rlogoDP=289; rNIcor=282; rNsEucl=325; rSSD=189; rNSW=291; rank_mean=259.429; match_rank=316 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 96 96 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 96 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 96 96 0 0 96 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m1_shift2 ; 16 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_7nt_m1_shift2 (positions_7nt_m1)																		; positions_7nt_m1; m=0 (reference); ncol1=11; shift=2; ncol=14; --vsAGGGGCCgg- ; Alignment reference a 0 0 2 1 6 0 0 0 0 0 0 1 1 0 c 0 0 2 3 0 0 0 0 0 6 6 1 1 0 g 0 0 2 2 0 6 6 6 6 0 0 4 4 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0
2615_MA0381.1_JASPAR_CORE_2009__shift7 (2615_MA0381.1_JASPAR_CORE_2009_)		0.926	0.505	6.941	0.508	0.917	0.497	0.959	22	115	58	55	45	26	24	49.286	6	; positions_7nt_m1 versus 2615_MA0381.1_JASPAR_CORE_2009_; m=1/15; ncol2=6; w=6; offset=5; strand=D; shift=7; score=49.2857; -------GGCCrk- ; cor=0.926; Ncor=0.505; logoDP=6.941; NIcor=0.508; NsEucl=0.917; SSD=0.497; NSW=0.959; rcor=22; rNcor=115; rlogoDP=58; rNIcor=55; rNsEucl=45; rSSD=26; rNSW=24; rank_mean=49.286; match_rank=6 a 0 0 0 0 0 0 0 0 0 0 0 49 21 0 c 0 0 0 0 0 0 0 0 0 100 84 15 18 0 g 0 0 0 0 0 0 0 100 100 0 16 37 28 0 t 0 0 0 0 0 0 0 0 0 0 0 0 32 0
2588_MA0342.1_JASPAR_CORE_2009__shift4 (2588_MA0342.1_JASPAR_CORE_2009_)		0.994	0.452	8.688	0.451	0.968	0.052	0.995	2	216	18	107	2	2	2	49.857	8	; positions_7nt_m1 versus 2588_MA0342.1_JASPAR_CORE_2009_; m=2/15; ncol2=5; w=5; offset=2; strand=D; shift=4; score=49.8571; ----AGGGG----- ; cor=0.994; Ncor=0.452; logoDP=8.688; NIcor=0.451; NsEucl=0.968; SSD=0.052; NSW=0.995; rcor=2; rNcor=216; rlogoDP=18; rNIcor=107; rNsEucl=2; rSSD=2; rNSW=2; rank_mean=49.857; match_rank=8 a 0 0 0 0 83 0 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 16 99 99 99 99 0 0 0 0 0 t 0 0 0 0 0 0 0 0 1 0 0 0 0 0
2604_MA0366.1_JASPAR_CORE_2009__shift4 (2604_MA0366.1_JASPAR_CORE_2009_)		0.990	0.450	8.421	0.446	0.960	0.079	0.992	4	221	24	114	4	4	4	53.571	11	; positions_7nt_m1 versus 2604_MA0366.1_JASPAR_CORE_2009_; m=3/15; ncol2=5; w=5; offset=2; strand=D; shift=4; score=53.5714; ----AGGGG----- ; cor=0.990; Ncor=0.450; logoDP=8.421; NIcor=0.446; NsEucl=0.960; SSD=0.079; NSW=0.992; rcor=4; rNcor=221; rlogoDP=24; rNIcor=114; rNsEucl=4; rSSD=4; rNSW=4; rank_mean=53.571; match_rank=11 a 0 0 0 0 100 0 0 0 11 0 0 0 0 0 c 0 0 0 0 0 0 0 0 12 0 0 0 0 0 g 0 0 0 0 0 100 100 100 77 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0
2587_MA0341.1_JASPAR_CORE_2009__shift4 (2587_MA0341.1_JASPAR_CORE_2009_)		0.965	0.439	8.133	0.432	0.927	0.265	0.974	10	248	32	126	14	11	11	64.571	22	; positions_7nt_m1 versus 2587_MA0341.1_JASPAR_CORE_2009_; m=4/15; ncol2=5; w=5; offset=2; strand=D; shift=4; score=64.5714; ----rGGGG----- ; cor=0.965; Ncor=0.439; logoDP=8.133; NIcor=0.432; NsEucl=0.927; SSD=0.265; NSW=0.974; rcor=10; rNcor=248; rlogoDP=32; rNIcor=126; rNsEucl=14; rSSD=11; rNSW=11; rank_mean=64.571; match_rank=22 a 0 0 0 0 60 0 0 0 0 0 0 0 0 0 c 0 0 0 0 7 0 0 0 0 0 0 0 0 0 g 0 0 0 0 32 100 100 100 100 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0
2602_MA0364.1_JASPAR_CORE_2009__rc_shift2 (2602_MA0364.1_JASPAR_CORE_2009__rc)		0.909	0.578	1.969	0.011	0.912	0.767	0.945	33	42	249	285	61	55	50	110.714	64	; positions_7nt_m1 versus 2602_MA0364.1_JASPAR_CORE_2009__rc; m=5/15; ncol2=7; w=7; offset=0; strand=R; shift=2; score=110.714; --tCAGGGG----- ; cor=0.909; Ncor=0.578; logoDP=1.969; NIcor=0.011; NsEucl=0.912; SSD=0.767; NSW=0.945; rcor=33; rNcor=42; rlogoDP=249; rNIcor=285; rNsEucl=61; rSSD=55; rNSW=50; rank_mean=110.714; match_rank=64 a 0 0 13 5 100 0 0 0 5 0 0 0 0 0 c 0 0 23 95 0 0 0 0 0 0 0 0 0 0 g 0 0 8 0 0 100 100 95 95 0 0 0 0 0 t 0 0 56 0 0 0 0 5 0 0 0 0 0 0
1714_MA0155.1_JASPAR_CORE_2009__shift0 (1714_MA0155.1_JASPAR_CORE_2009_)		0.762	0.586	8.805	0.613	0.889	2.465	0.877	305	32	15	8	152	344	289	163.571	146	; positions_7nt_m1 versus 1714_MA0155.1_JASPAR_CORE_2009_; m=6/15; ncol2=12; w=10; offset=-2; strand=D; shift=0; score=163.571; TGymwGGGGkcr-- ; cor=0.762; Ncor=0.586; logoDP=8.805; NIcor=0.613; NsEucl=0.889; SSD=2.465; NSW=0.877; rcor=305; rNcor=32; rlogoDP=15; rNIcor=8; rNsEucl=152; rSSD=344; rNSW=289; rank_mean=163.571; match_rank=146 a 1 0 0 6 16 0 0 0 0 0 3 10 0 0 c 0 0 8 15 0 0 1 0 0 2 16 0 0 0 g 4 20 3 0 0 24 23 24 24 16 0 12 0 0 t 19 4 13 3 8 0 0 0 0 6 5 2 0 0
7492_MBD2_si_HOCOMOCO_v9__shift6 (7492_MBD2_si_HOCOMOCO_v9_)		0.829	0.414	6.288	0.375	0.881	1.380	0.901	145	316	81	192	204	167	180	183.571	182	; positions_7nt_m1 versus 7492_MBD2_si_HOCOMOCO_v9_; m=7/15; ncol2=10; w=7; offset=4; strand=D; shift=6; score=183.571; ------sSkCCGGm ; cor=0.829; Ncor=0.414; logoDP=6.288; NIcor=0.375; NsEucl=0.881; SSD=1.380; NSW=0.901; rcor=145; rNcor=316; rlogoDP=81; rNIcor=192; rNsEucl=204; rSSD=167; rNSW=180; rank_mean=183.571; match_rank=182 a 0 0 0 0 0 0 7 0 1 0 0 0 0 59 c 0 0 0 0 0 0 43 28 0 111 111 0 0 39 g 0 0 0 0 0 0 51 83 57 0 0 111 111 12 t 0 0 0 0 0 0 10 0 53 0 0 0 0 1
7480_KLF6_si_HOCOMOCO_v9__shift6 (7480_KLF6_si_HOCOMOCO_v9_)		0.785	0.499	5.483	0.493	0.870	1.658	0.882	231	128	114	67	282	242	272	190.857	198	; positions_7nt_m1 versus 7480_KLF6_si_HOCOMOCO_v9_; m=8/15; ncol2=7; w=7; offset=4; strand=D; shift=6; score=190.857; ------GGGgCkG- ; cor=0.785; Ncor=0.499; logoDP=5.483; NIcor=0.493; NsEucl=0.870; SSD=1.658; NSW=0.882; rcor=231; rNcor=128; rlogoDP=114; rNIcor=67; rNsEucl=282; rSSD=242; rNSW=272; rank_mean=190.857; match_rank=198 a 0 0 0 0 0 0 2 0 0 2 2 0 0 0 c 0 0 0 0 0 0 0 1 0 2 9 0 1 0 g 0 0 0 0 0 0 9 9 11 7 0 6 10 0 t 0 0 0 0 0 0 0 1 0 0 0 5 0 0
2711_PF0024.1_JASPAR_CORE_2009__shift1 (2711_PF0024.1_JASPAR_CORE_2009_)		0.798	0.466	7.679	0.428	0.868	1.713	0.878	197	179	44	131	287	256	285	197.000	208	; positions_7nt_m1 versus 2711_PF0024.1_JASPAR_CORE_2009_; m=9/15; ncol2=8; w=7; offset=-1; strand=D; shift=1; score= 197; -GGGAGGrG----- ; cor=0.798; Ncor=0.466; logoDP=7.679; NIcor=0.428; NsEucl=0.868; SSD=1.713; NSW=0.878; rcor=197; rNcor=179; rlogoDP=44; rNIcor=131; rNsEucl=287; rSSD=256; rNSW=285; rank_mean=197.000; match_rank=208 a 0 0 0 0 11176 0 0 3724 2525 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 11176 11176 11176 0 11176 11176 7452 8651 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0
7268_TCP23_ArabidopsisPBM_20140210__shift5 (7268_TCP23_ArabidopsisPBM_20140210_)		0.771	0.474	8.646	0.452	0.866	2.296	0.856	275	166	22	105	296	333	337	219.143	253	; positions_7nt_m1 versus 7268_TCP23_ArabidopsisPBM_20140210_; m=10/15; ncol2=10; w=8; offset=3; strand=D; shift=5; score=219.143; -----GGGGCCCAC ; cor=0.771; Ncor=0.474; logoDP=8.646; NIcor=0.452; NsEucl=0.866; SSD=2.296; NSW=0.856; rcor=275; rNcor=166; rlogoDP=22; rNIcor=105; rNsEucl=296; rSSD=333; rNSW=337; rank_mean=219.143; match_rank=253 a 0 0 0 0 0 2 0 1 4 1 0 1 95 1 c 0 0 0 0 0 5 0 1 9 97 98 98 1 96 g 0 0 0 0 0 77 97 98 84 1 2 0 3 1 t 0 0 0 0 0 16 3 0 3 1 0 1 1 2
7202_ATERF1_ArabidopsisPBM_20140210__shift5 (7202_ATERF1_ArabidopsisPBM_20140210_)		0.775	0.477	4.171	0.464	0.875	2.008	0.874	260	162	165	94	251	305	299	219.429	254	; positions_7nt_m1 versus 7202_ATERF1_ArabidopsisPBM_20140210_; m=11/15; ncol2=10; w=8; offset=3; strand=D; shift=5; score=219.429; -----GGcGsCGsC ; cor=0.775; Ncor=0.477; logoDP=4.171; NIcor=0.464; NsEucl=0.875; SSD=2.008; NSW=0.874; rcor=260; rNcor=162; rlogoDP=165; rNIcor=94; rNsEucl=251; rSSD=305; rNSW=299; rank_mean=219.429; match_rank=254 a 0 0 0 0 0 5 4 19 3 4 6 7 7 7 c 0 0 0 0 0 3 15 60 2 48 85 9 52 80 g 0 0 0 0 0 84 71 15 93 38 5 73 35 10 t 0 0 0 0 0 8 10 6 2 10 4 11 6 3
7266_TCP15_ArabidopsisPBM_20140210__shift5 (7266_TCP15_ArabidopsisPBM_20140210_)		0.768	0.473	8.667	0.447	0.865	2.319	0.855	281	168	19	112	298	334	338	221.429	258	; positions_7nt_m1 versus 7266_TCP15_ArabidopsisPBM_20140210_; m=12/15; ncol2=10; w=8; offset=3; strand=D; shift=5; score=221.429; -----GGGGCCCAC ; cor=0.768; Ncor=0.473; logoDP=8.667; NIcor=0.447; NsEucl=0.865; SSD=2.319; NSW=0.855; rcor=281; rNcor=168; rlogoDP=19; rNIcor=112; rNsEucl=298; rSSD=334; rNSW=338; rank_mean=221.429; match_rank=258 a 0 0 0 0 0 1 1 0 6 0 0 0 95 1 c 0 0 0 0 0 5 0 1 14 95 99 99 1 96 g 0 0 0 0 0 81 98 99 77 1 0 0 4 2 t 0 0 0 0 0 13 1 0 3 4 1 1 0 1
2693_PF0006.1_JASPAR_CORE_2009__shift6 (2693_PF0006.1_JASPAR_CORE_2009_)		0.761	0.484	8.413	0.478	0.850	2.210	0.842	313	151	25	77	337	327	347	225.286	266	; positions_7nt_m1 versus 2693_PF0006.1_JASPAR_CORE_2009_; m=13/15; ncol2=7; w=7; offset=4; strand=D; shift=6; score=225.286; ------GGGCGGG- ; cor=0.761; Ncor=0.484; logoDP=8.413; NIcor=0.478; NsEucl=0.850; SSD=2.210; NSW=0.842; rcor=313; rNcor=151; rlogoDP=25; rNIcor=77; rNsEucl=337; rSSD=327; rNSW=347; rank_mean=225.286; match_rank=266 a 0 0 0 0 0 0 0 0 0 0 0 0 4149 0 c 0 0 0 0 0 0 0 0 0 18548 0 0 0 0 g 0 0 0 0 0 0 18548 18548 18548 0 18548 18548 14399 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0
2562_MA0306.1_JASPAR_CORE_2009__rc_shift1 (2562_MA0306.1_JASPAR_CORE_2009__rc)		0.785	0.524	0.470	-0.128	0.880	1.857	0.884	227	89	304	319	216	280	264	242.714	299	; positions_7nt_m1 versus 2562_MA0306.1_JASPAR_CORE_2009__rc; m=14/15; ncol2=9; w=8; offset=-1; strand=R; shift=1; score=242.714; -wwwAGGGGw---- ; cor=0.785; Ncor=0.524; logoDP=0.470; NIcor=-0.128; NsEucl=0.880; SSD=1.857; NSW=0.884; rcor=227; rNcor=89; rlogoDP=304; rNIcor=319; rNsEucl=216; rSSD=280; rNSW=264; rank_mean=242.714; match_rank=299 a 0 30 27 32 100 13 0 0 3 25 0 0 0 0 c 0 18 16 15 0 0 0 0 0 12 0 0 0 0 g 0 19 11 4 0 87 100 100 97 22 0 0 0 0 t 0 32 46 49 0 0 0 0 0 41 0 0 0 0
2642_MA0423.1_JASPAR_CORE_2009__rc_shift1 (2642_MA0423.1_JASPAR_CORE_2009__rc)		0.785	0.524	0.455	-0.144	0.878	1.915	0.880	224	88	306	336	228	290	275	249.571	306	; positions_7nt_m1 versus 2642_MA0423.1_JASPAR_CORE_2009__rc; m=15/15; ncol2=9; w=8; offset=-1; strand=R; shift=1; score=249.571; -dAwAGGGGk---- ; cor=0.785; Ncor=0.524; logoDP=0.455; NIcor=-0.144; NsEucl=0.878; SSD=1.915; NSW=0.880; rcor=224; rNcor=88; rlogoDP=306; rNIcor=336; rNsEucl=228; rSSD=290; rNSW=275; rank_mean=249.571; match_rank=306 a 0 34 75 32 100 0 0 9 2 13 0 0 0 0 c 0 5 4 8 0 0 0 0 1 23 0 0 0 0 g 0 28 0 0 0 100 100 91 97 28 0 0 0 0 t 0 32 21 60 0 0 0 0 0 35 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_8nt_m3_shift0 ; 87 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_8nt_m3_shift0 (positions_8nt_m3)																		; positions_8nt_m3; m=0 (reference); ncol1=12; shift=0; ncol=16; dsTGGTAATTcw---- ; Alignment reference a 10 6 1 0 0 0 29 28 5 3 7 13 0 0 0 0 c 3 13 0 0 0 0 2 2 2 1 15 8 0 0 0 0 g 10 12 1 34 33 0 2 2 3 4 7 2 0 0 0 0 t 11 3 32 0 1 34 1 2 24 26 5 11 0 0 0 0
7458_HXD4_f1_HOCOMOCO_v9__shift5 (7458_HXD4_f1_HOCOMOCO_v9_)		0.931	0.543	3.927	0.539	0.932	0.454	0.968	19	63	179	39	12	22	15	49.857	9	; positions_8nt_m3 versus 7458_HXD4_f1_HOCOMOCO_v9_; m=1/86; ncol2=7; w=7; offset=5; strand=D; shift=5; score=49.8571; -----TAATTkw---- ; cor=0.931; Ncor=0.543; logoDP=3.927; NIcor=0.539; NsEucl=0.932; SSD=0.454; NSW=0.968; rcor=19; rNcor=63; rlogoDP=179; rNIcor=39; rNsEucl=12; rSSD=22; rNSW=15; rank_mean=49.857; match_rank=9 a 0 0 0 0 0 0 6 7 0 0 1 3 0 0 0 0 c 0 0 0 0 0 0 1 0 0 0 1 1 0 0 0 0 g 0 0 0 0 0 0 1 1 0 0 4 1 0 0 0 0 t 0 0 0 0 0 8 0 0 8 8 2 3 0 0 0 0
6107_1hdd_C_3D-footprint_20130124__shift4 (6107_1hdd_C_3D-footprint_20130124_)		0.895	0.522	5.452	0.517	0.918	0.667	0.952	48	92	115	51	40	42	31	59.857	18	; positions_8nt_m3 versus 6107_1hdd_C_3D-footprint_20130124_; m=2/86; ncol2=7; w=7; offset=4; strand=D; shift=4; score=59.8571; ----GTAAtna----- ; cor=0.895; Ncor=0.522; logoDP=5.452; NIcor=0.517; NsEucl=0.918; SSD=0.667; NSW=0.952; rcor=48; rNcor=92; rlogoDP=115; rNIcor=51; rNsEucl=40; rSSD=42; rNSW=31; rank_mean=59.857; match_rank=18 a 0 0 0 0 0 0 96 96 16 24 54 0 0 0 0 0 c 0 0 0 0 0 0 0 0 13 24 16 0 0 0 0 0 g 0 0 0 0 96 0 0 0 13 24 13 0 0 0 0 0 t 0 0 0 0 0 96 0 0 54 24 13 0 0 0 0 0
7341_DLX2_f1_HOCOMOCO_v9__shift5 (7341_DLX2_f1_HOCOMOCO_v9_)		0.903	0.527	4.447	0.540	0.914	0.724	0.948	38	79	154	38	53	49	40	64.429	21	; positions_8nt_m3 versus 7341_DLX2_f1_HOCOMOCO_v9_; m=3/86; ncol2=7; w=7; offset=5; strand=D; shift=5; score=64.4286; -----TAATTrt---- ; cor=0.903; Ncor=0.527; logoDP=4.447; NIcor=0.540; NsEucl=0.914; SSD=0.724; NSW=0.948; rcor=38; rNcor=79; rlogoDP=154; rNIcor=38; rNsEucl=53; rSSD=49; rNSW=40; rank_mean=64.429; match_rank=21 a 0 0 0 0 0 0 5 4 0 0 3 1 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 g 0 0 0 0 0 0 0 1 0 0 2 1 0 0 0 0 t 0 0 0 0 0 5 0 0 5 5 0 2 0 0 0 0
1746_MA0187.1_JASPAR_CORE_2009__shift5 (1746_MA0187.1_JASPAR_CORE_2009_)		0.896	0.523	3.946	0.541	0.917	0.680	0.951	44	90	177	35	46	43	35	67.143	25	; positions_8nt_m3 versus 1746_MA0187.1_JASPAR_CORE_2009_; m=4/86; ncol2=7; w=7; offset=5; strand=D; shift=5; score=67.1429; -----TAATTry---- ; cor=0.896; Ncor=0.523; logoDP=3.946; NIcor=0.541; NsEucl=0.917; SSD=0.680; NSW=0.951; rcor=44; rNcor=90; rlogoDP=177; rNIcor=35; rNsEucl=46; rSSD=43; rNSW=35; rank_mean=67.143; match_rank=25 a 0 0 0 0 0 1 22 23 0 3 10 1 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 g 0 0 0 0 0 0 1 0 0 3 9 4 0 0 0 0 t 0 0 0 0 0 22 0 0 23 17 4 6 0 0 0 0
7597_PRRX2_f1_HOCOMOCO_v9__shift5 (7597_PRRX2_f1_HOCOMOCO_v9_)		0.935	0.467	4.476	0.477	0.915	0.526	0.956	16	172	152	78	52	29	29	75.429	27	; positions_8nt_m3 versus 7597_PRRX2_f1_HOCOMOCO_v9_; m=5/86; ncol2=6; w=6; offset=5; strand=D; shift=5; score=75.4286; -----TAATTr----- ; cor=0.935; Ncor=0.467; logoDP=4.476; NIcor=0.477; NsEucl=0.915; SSD=0.526; NSW=0.956; rcor=16; rNcor=172; rlogoDP=152; rNIcor=78; rNsEucl=52; rSSD=29; rNSW=29; rank_mean=75.429; match_rank=27 a 0 0 0 0 0 0 59 58 1 0 27 0 0 0 0 0 c 0 0 0 0 0 0 0 0 1 3 1 0 0 0 0 0 g 0 0 0 0 0 0 0 1 0 3 29 0 0 0 0 0 t 0 0 0 0 0 59 0 0 57 53 2 0 0 0 0 0
7502_MSX2_f1_HOCOMOCO_v9__shift6 (7502_MSX2_f1_HOCOMOCO_v9_)		0.920	0.460	2.111	0.469	0.925	0.402	0.967	28	193	237	86	21	18	16	85.571	33	; positions_8nt_m3 versus 7502_MSX2_f1_HOCOMOCO_v9_; m=6/86; ncol2=6; w=6; offset=6; strand=D; shift=6; score=85.5714; ------AATTkk---- ; cor=0.920; Ncor=0.460; logoDP=2.111; NIcor=0.469; NsEucl=0.925; SSD=0.402; NSW=0.967; rcor=28; rNcor=193; rlogoDP=237; rNIcor=86; rNsEucl=21; rSSD=18; rNSW=16; rank_mean=85.571; match_rank=33 a 0 0 0 0 0 0 10 10 0 2 2 2 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 2 1 0 0 0 0 g 0 0 0 0 0 0 1 1 0 0 4 3 0 0 0 0 t 0 0 0 0 0 0 0 0 11 9 3 5 0 0 0 0
4964_en_DrosophilaTF_1.1__shift5 (4964_en_DrosophilaTF_1.1_)		0.921	0.460	4.019	0.464	0.909	0.592	0.951	27	191	171	93	71	35	36	89.143	36	; positions_8nt_m3 versus 4964_en_DrosophilaTF_1.1_; m=7/86; ncol2=6; w=6; offset=5; strand=D; shift=5; score=89.1429; -----TAATTa----- ; cor=0.921; Ncor=0.460; logoDP=4.019; NIcor=0.464; NsEucl=0.909; SSD=0.592; NSW=0.951; rcor=27; rNcor=191; rlogoDP=171; rNIcor=93; rNsEucl=71; rSSD=35; rNSW=36; rank_mean=89.143; match_rank=36 a 0 0 0 0 0 0.0388 1 1 0.0189 3 0.6477 0 0 0 0 0 c 0 0 0 0 0 0.0291 0 0 0 2 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 7 0.2386 0 0 0 0 0 t 0 0 0 0 0 0.932 0 0 0.9811 88 0.1136 0 0 0 0 0
7537_NOBOX_si_HOCOMOCO_v9__shift5 (7537_NOBOX_si_HOCOMOCO_v9_)		0.883	0.476	4.193	0.502	0.910	0.802	0.943	67	164	163	59	70	59	55	91.000	38	; positions_8nt_m3 versus 7537_NOBOX_si_HOCOMOCO_v9_; m=8/86; ncol2=8; w=7; offset=5; strand=D; shift=5; score= 91; -----TAATTrsy--- ; cor=0.883; Ncor=0.476; logoDP=4.193; NIcor=0.502; NsEucl=0.910; SSD=0.802; NSW=0.943; rcor=67; rNcor=164; rlogoDP=163; rNIcor=59; rNsEucl=70; rSSD=59; rNSW=55; rank_mean=91.000; match_rank=38 a 0 0 0 0 0 0 64 64 2 2 24 13 5 0 0 0 c 0 0 0 0 0 0 0 2 2 0 0 20 18 0 0 0 g 0 0 0 0 0 0 0 0 2 7 42 29 11 0 0 0 t 0 0 0 0 0 66 2 0 60 57 0 4 32 0 0 0
2510_MA0125.1_JASPAR_CORE_2009__shift5 (2510_MA0125.1_JASPAR_CORE_2009_)		0.877	0.472	3.962	0.501	0.909	0.807	0.942	74	169	175	61	72	60	56	95.286	44	; positions_8nt_m3 versus 2510_MA0125.1_JASPAR_CORE_2009_; m=9/86; ncol2=8; w=7; offset=5; strand=D; shift=5; score=95.2857; -----TAATTrsy--- ; cor=0.877; Ncor=0.472; logoDP=3.962; NIcor=0.501; NsEucl=0.909; SSD=0.807; NSW=0.942; rcor=74; rNcor=169; rlogoDP=175; rNIcor=61; rNsEucl=72; rSSD=60; rNSW=56; rank_mean=95.286; match_rank=44 a 0 0 0 0 0 0 36 38 1 2 15 4 2 0 0 0 c 0 0 0 0 0 1 0 0 1 0 0 12 13 0 0 0 g 0 0 0 0 0 0 0 0 2 4 22 18 6 0 0 0 t 0 0 0 0 0 37 2 0 34 32 1 4 17 0 0 0
6108_1hdd_CD_3D-footprint_20130124__shift4 (6108_1hdd_CD_3D-footprint_20130124_)		0.882	0.441	5.752	0.441	0.919	0.841	0.947	69	243	110	120	33	61	41	96.714	48	; positions_8nt_m3 versus 6108_1hdd_CD_3D-footprint_20130124_; m=10/86; ncol2=12; w=8; offset=4; strand=D; shift=4; score=96.7143; ----GTAATnannTna ; cor=0.882; Ncor=0.441; logoDP=5.752; NIcor=0.441; NsEucl=0.919; SSD=0.841; NSW=0.947; rcor=69; rNcor=243; rlogoDP=110; rNIcor=120; rNsEucl=33; rSSD=61; rNSW=41; rank_mean=96.714; match_rank=48 a 0 0 0 0 0 0 96 96 8 24 59 24 24 7 24 59 c 0 0 0 0 0 0 0 0 0 24 9 24 24 7 24 22 g 0 0 0 0 96 0 0 0 0 24 14 24 24 9 24 8 t 0 0 0 0 0 96 0 0 88 24 14 24 24 73 24 7
4947_ap_DrosophilaTF_1.1__shift5 (4947_ap_DrosophilaTF_1.1_)		0.895	0.447	4.181	0.437	0.909	0.599	0.950	50	227	164	123	73	36	37	101.429	52	; positions_8nt_m3 versus 4947_ap_DrosophilaTF_1.1_; m=11/86; ncol2=6; w=6; offset=5; strand=D; shift=5; score=101.429; -----TAATnn----- ; cor=0.895; Ncor=0.447; logoDP=4.181; NIcor=0.437; NsEucl=0.909; SSD=0.599; NSW=0.950; rcor=50; rNcor=227; rlogoDP=164; rNIcor=123; rNsEucl=73; rSSD=36; rNSW=37; rank_mean=101.429; match_rank=52 a 0 0 0 0 0 0 1 1 0 25 25 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 25 25 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 25 25 0 0 0 0 0 t 0 0 0 0 0 1 0 0 1 25 25 0 0 0 0 0
1790_MA0232.1_JASPAR_CORE_2009__shift5 (1790_MA0232.1_JASPAR_CORE_2009_)		0.875	0.437	4.038	0.445	0.899	0.741	0.938	77	251	169	117	106	51	67	119.714	76	; positions_8nt_m3 versus 1790_MA0232.1_JASPAR_CORE_2009_; m=12/86; ncol2=6; w=6; offset=5; strand=D; shift=5; score=119.714; -----TAATkR----- ; cor=0.875; Ncor=0.437; logoDP=4.038; NIcor=0.445; NsEucl=0.899; SSD=0.741; NSW=0.938; rcor=77; rNcor=251; rlogoDP=169; rNIcor=117; rNsEucl=106; rSSD=51; rNSW=67; rank_mean=119.714; match_rank=76 a 0 0 0 0 0 0 23 23 0 1 17 0 0 0 0 0 c 0 0 0 0 0 0 0 0 5 3 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 7 6 0 0 0 0 0 t 0 0 0 0 0 23 0 0 18 12 0 0 0 0 0 0
6515_2vy1_A_3D-footprint_20130124__shift2 (6515_2vy1_A_3D-footprint_20130124_)		0.788	0.591	6.021	0.583	0.898	1.695	0.906	217	30	94	19	109	247	154	124.286	80	; positions_8nt_m3 versus 6515_2vy1_A_3D-footprint_20130124_; m=13/86; ncol2=9; w=9; offset=2; strand=D; shift=2; score=124.286; --TGGTnnnTA----- ; cor=0.788; Ncor=0.591; logoDP=6.021; NIcor=0.583; NsEucl=0.898; SSD=1.695; NSW=0.906; rcor=217; rNcor=30; rlogoDP=94; rNIcor=19; rNsEucl=109; rSSD=247; rNSW=154; rank_mean=124.286; match_rank=80 a 0 0 9 0 0 0 24 24 24 11 69 0 0 0 0 0 c 0 0 9 0 0 0 24 24 24 9 9 0 0 0 0 0 g 0 0 11 96 96 0 24 24 24 9 9 0 0 0 0 0 t 0 0 67 0 0 96 24 24 24 67 9 0 0 0 0 0
1767_MA0208.1_JASPAR_CORE_2009__shift5 (1767_MA0208.1_JASPAR_CORE_2009_)		0.865	0.504	4.902	0.504	0.883	1.332	0.905	87	119	132	57	191	145	160	127.286	82	; positions_8nt_m3 versus 1767_MA0208.1_JASPAR_CORE_2009_; m=14/86; ncol2=7; w=7; offset=5; strand=D; shift=5; score=127.286; -----TAATTAA---- ; cor=0.865; Ncor=0.504; logoDP=4.902; NIcor=0.504; NsEucl=0.883; SSD=1.332; NSW=0.905; rcor=87; rNcor=119; rlogoDP=132; rNIcor=57; rNsEucl=191; rSSD=145; rNSW=160; rank_mean=127.286; match_rank=82 a 0 0 0 0 0 0 20 20 0 0 17 18 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 3 2 0 0 0 0 t 0 0 0 0 0 20 0 0 20 20 0 0 0 0 0 0
2465_MA0075.1_JASPAR_CORE_2009__rc_shift5 (2465_MA0075.1_JASPAR_CORE_2009__rc)		0.983	0.410	1.577	0.069	0.935	0.211	0.979	6	323	286	264	10	6	7	128.857	84	; positions_8nt_m3 versus 2465_MA0075.1_JASPAR_CORE_2009__rc; m=15/86; ncol2=5; w=5; offset=5; strand=R; shift=5; score=128.857; -----TAATT------ ; cor=0.983; Ncor=0.410; logoDP=1.577; NIcor=0.069; NsEucl=0.935; SSD=0.211; NSW=0.979; rcor=6; rNcor=323; rlogoDP=286; rNIcor=264; rNsEucl=10; rSSD=6; rNSW=7; rank_mean=128.857; match_rank=84 a 0 0 0 0 0 0 59 58 0 1 0 0 0 0 0 0 c 0 0 0 0 0 1 0 1 0 4 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 2 0 0 0 0 0 0 t 0 0 0 0 0 58 0 0 59 52 0 0 0 0 0 0
5210_DLX5_FL_HumanTF_1.0__rc_shift4 (5210_DLX5_FL_HumanTF_1.0__rc)		0.808	0.539	1.911	0.403	0.905	1.154	0.928	171	66	262	154	82	101	90	132.286	90	; positions_8nt_m3 versus 5210_DLX5_FL_HumanTF_1.0__rc; m=16/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=132.286; ----dTAATTrb---- ; cor=0.808; Ncor=0.539; logoDP=1.911; NIcor=0.403; NsEucl=0.905; SSD=1.154; NSW=0.928; rcor=171; rNcor=66; rlogoDP=262; rNIcor=154; rNsEucl=82; rSSD=101; rNSW=90; rank_mean=132.286; match_rank=90 a 0 0 0 0 1293 303 4235 4235 235 342 2238 846 0 0 0 0 c 0 0 0 0 730 45 201 130 141 142 51 1181 0 0 0 0 g 0 0 0 0 1117 53 129 124 224 332 1997 1126 0 0 0 0 t 0 0 0 0 1094 4235 286 155 4235 4235 318 1082 0 0 0 0
5218_Dlx1_DBD_HumanTF_1.0__rc_shift4 (5218_Dlx1_DBD_HumanTF_1.0__rc)		0.813	0.542	2.111	0.383	0.905	1.161	0.927	161	64	236	182	84	107	92	132.286	91	; positions_8nt_m3 versus 5218_Dlx1_DBD_HumanTF_1.0__rc; m=17/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=132.286; ----kTAATTrs---- ; cor=0.813; Ncor=0.542; logoDP=2.111; NIcor=0.383; NsEucl=0.905; SSD=1.161; NSW=0.927; rcor=161; rNcor=64; rlogoDP=236; rNIcor=182; rNsEucl=84; rSSD=107; rNSW=92; rank_mean=132.286; match_rank=91 a 0 0 0 0 2311 702 9397 9397 236 665 4266 1663 0 0 0 0 c 0 0 0 0 1758 79 278 24 105 533 113 2631 0 0 0 0 g 0 0 0 0 2830 144 725 49 522 788 5131 2754 0 0 0 0 t 0 0 0 0 2499 9397 285 1 9397 9397 550 2349 0 0 0 0
5211_DLX6_DBD_HumanTF_1.0__rc_shift4 (5211_DLX6_DBD_HumanTF_1.0__rc)		0.810	0.540	2.245	0.380	0.903	1.200	0.925	166	65	230	187	89	116	96	135.571	99	; positions_8nt_m3 versus 5211_DLX6_DBD_HumanTF_1.0__rc; m=18/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=135.571; ----kTAATTrs---- ; cor=0.810; Ncor=0.540; logoDP=2.245; NIcor=0.380; NsEucl=0.903; SSD=1.200; NSW=0.925; rcor=166; rNcor=65; rlogoDP=230; rNIcor=187; rNsEucl=89; rSSD=116; rNSW=96; rank_mean=135.571; match_rank=99 a 0 0 0 0 624 193 2623 2623 56 184 1212 415 0 0 0 0 c 0 0 0 0 473 16 68 0 0 143 21 680 0 0 0 0 g 0 0 0 0 823 30 140 0 124 273 1410 925 0 0 0 0 t 0 0 0 0 703 2623 48 12 2623 2623 137 602 0 0 0 0
5209_DLX4_DBD_HumanTF_1.0__rc_shift4 (5209_DLX4_DBD_HumanTF_1.0__rc)		0.806	0.537	1.982	0.383	0.904	1.179	0.926	173	70	245	181	87	112	93	137.286	102	; positions_8nt_m3 versus 5209_DLX4_DBD_HumanTF_1.0__rc; m=19/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=137.286; ----kTAATTrs---- ; cor=0.806; Ncor=0.537; logoDP=1.982; NIcor=0.383; NsEucl=0.904; SSD=1.179; NSW=0.926; rcor=173; rNcor=70; rlogoDP=245; rNIcor=181; rNsEucl=87; rSSD=112; rNSW=93; rank_mean=137.286; match_rank=102 a 0 0 0 0 2999 1127 12054 12054 499 883 5213 1811 0 0 0 0 c 0 0 0 0 2286 134 542 38 55 739 145 3679 0 0 0 0 g 0 0 0 0 3703 316 868 85 744 1500 6841 3928 0 0 0 0 t 0 0 0 0 3065 12054 440 88 12054 12054 724 2637 0 0 0 0
5208_DLX3_DBD_HumanTF_1.0__rc_shift4 (5208_DLX3_DBD_HumanTF_1.0__rc)		0.805	0.537	1.780	0.378	0.905	1.156	0.928	176	72	274	191	83	103	91	141.429	108	; positions_8nt_m3 versus 5208_DLX3_DBD_HumanTF_1.0__rc; m=20/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=141.429; ----kTAATTrs---- ; cor=0.805; Ncor=0.537; logoDP=1.780; NIcor=0.378; NsEucl=0.905; SSD=1.156; NSW=0.928; rcor=176; rNcor=72; rlogoDP=274; rNIcor=191; rNsEucl=83; rSSD=103; rNSW=91; rank_mean=141.429; match_rank=108 a 0 0 0 0 1809 691 7323 7323 299 643 3190 1208 0 0 0 0 c 0 0 0 0 1356 101 452 60 62 587 164 2079 0 0 0 0 g 0 0 0 0 2131 202 535 66 536 995 4133 2338 0 0 0 0 t 0 0 0 0 2027 7323 399 173 7323 7323 572 1697 0 0 0 0
1782_MA0223.1_JASPAR_CORE_2009__MA0224.1_JASPAR_CORE_2009__shift4 (1782_MA0223.1_JASPAR_CORE_2009__MA0224.1_JASPAR_CORE_2009_)		0.828	0.483	4.811	0.459	0.884	1.324	0.905	146	152	137	96	190	143	158	146.000	119	; positions_8nt_m3 versus 1782_MA0223.1_JASPAR_CORE_2009__MA0224.1_JASPAR_CORE_2009_; m=21/86; ncol2=7; w=7; offset=4; strand=D; shift=4; score= 146; ----bTAATTA----- ; cor=0.828; Ncor=0.483; logoDP=4.811; NIcor=0.459; NsEucl=0.884; SSD=1.324; NSW=0.905; rcor=146; rNcor=152; rlogoDP=137; rNIcor=96; rNsEucl=190; rSSD=143; rNSW=158; rank_mean=146.000; match_rank=119 a 0 0 0 0 0 0 23 23 0 1 20 0 0 0 0 0 c 0 0 0 0 7 0 0 0 0 1 0 0 0 0 0 0 g 0 0 0 0 10 0 0 0 0 0 3 0 0 0 0 0 t 0 0 0 0 6 23 0 0 23 21 0 0 0 0 0 0
5207_DLX2_DBD_HumanTF_1.0__rc_shift4 (5207_DLX2_DBD_HumanTF_1.0__rc)		0.800	0.533	1.349	0.355	0.906	1.135	0.929	193	73	291	204	81	99	86	146.714	120	; positions_8nt_m3 versus 5207_DLX2_DBD_HumanTF_1.0__rc; m=22/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=146.714; ----kTAATtrs---- ; cor=0.800; Ncor=0.533; logoDP=1.349; NIcor=0.355; NsEucl=0.906; SSD=1.135; NSW=0.929; rcor=193; rNcor=73; rlogoDP=291; rNIcor=204; rNsEucl=81; rSSD=99; rNSW=86; rank_mean=146.714; match_rank=120 a 0 0 0 0 3845 2643 16994 16994 1359 2386 6403 2951 0 0 0 0 c 0 0 0 0 3389 483 1382 243 234 2070 480 4510 0 0 0 0 g 0 0 0 0 5264 693 2495 325 2122 3625 10590 5705 0 0 0 0 t 0 0 0 0 4496 16994 1259 450 16994 16994 1956 3827 0 0 0 0
6061_1fjl_B_3D-footprint_20130124__rc_shift4 (6061_1fjl_B_3D-footprint_20130124__rc)		0.850	0.496	1.285	0.076	0.902	0.933	0.933	106	134	293	262	91	74	77	148.143	124	; positions_8nt_m3 versus 6061_1fjl_B_3D-footprint_20130124__rc; m=23/86; ncol2=7; w=7; offset=4; strand=R; shift=4; score=148.143; ----gTAATna----- ; cor=0.850; Ncor=0.496; logoDP=1.285; NIcor=0.076; NsEucl=0.902; SSD=0.933; NSW=0.933; rcor=106; rNcor=134; rlogoDP=293; rNIcor=262; rNsEucl=91; rSSD=74; rNSW=77; rank_mean=148.143; match_rank=124 a 0 0 0 0 12 0 96 96 0 24 60 0 0 0 0 0 c 0 0 0 0 12 0 0 0 12 24 12 0 0 0 0 0 g 0 0 0 0 60 0 0 0 0 24 12 0 0 0 0 0 t 0 0 0 0 12 96 0 0 84 24 12 0 0 0 0 0
1742_MA0183.1_JASPAR_CORE_2009__rc_shift5 (1742_MA0183.1_JASPAR_CORE_2009__rc)		0.859	0.463	0.422	-0.064	0.913	0.749	0.946	96	184	308	302	58	52	43	149.000	126	; positions_8nt_m3 versus 1742_MA0183.1_JASPAR_CORE_2009__rc; m=24/86; ncol2=8; w=7; offset=5; strand=R; shift=5; score= 149; -----TWATTmRw--- ; cor=0.859; Ncor=0.463; logoDP=0.422; NIcor=-0.064; NsEucl=0.913; SSD=0.749; NSW=0.946; rcor=96; rNcor=184; rlogoDP=308; rNIcor=302; rNsEucl=58; rSSD=52; rNSW=43; rank_mean=149.000; match_rank=126 a 0 0 0 0 0 0 18 20 0 3 13 19 14 0 0 0 c 0 0 0 0 0 4 1 3 0 2 7 0 2 0 0 0 g 0 0 0 0 0 0 0 3 0 0 6 7 3 0 0 0 t 0 0 0 0 0 22 7 0 26 21 0 0 7 0 0 0
5219_Dlx2_DBD_HumanTF_1.0__rc_shift4 (5219_Dlx2_DBD_HumanTF_1.0__rc)		0.797	0.532	2.534	0.396	0.898	1.341	0.916	199	75	223	168	110	150	120	149.286	127	; positions_8nt_m3 versus 5219_Dlx2_DBD_HumanTF_1.0__rc; m=25/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=149.286; ----wTAATTrs---- ; cor=0.797; Ncor=0.532; logoDP=2.534; NIcor=0.396; NsEucl=0.898; SSD=1.341; NSW=0.916; rcor=199; rNcor=75; rlogoDP=223; rNIcor=168; rNsEucl=110; rSSD=150; rNSW=120; rank_mean=149.286; match_rank=127 a 0 0 0 0 3697 579 13749 13749 179 524 6340 2275 0 0 0 0 c 0 0 0 0 3065 55 565 0 15 488 135 4739 0 0 0 0 g 0 0 0 0 3277 46 393 0 289 684 7409 3565 0 0 0 0 t 0 0 0 0 3710 13749 260 0 13749 13749 543 3170 0 0 0 0
5504_LMX1B_full_HumanTF_1.0__rc_shift4 (5504_LMX1B_full_HumanTF_1.0__rc)		0.788	0.525	2.120	0.395	0.900	1.282	0.920	215	83	234	171	103	131	112	149.857	128	; positions_8nt_m3 versus 5504_LMX1B_full_HumanTF_1.0__rc; m=26/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=149.857; ----kTAATTrr---- ; cor=0.788; Ncor=0.525; logoDP=2.120; NIcor=0.395; NsEucl=0.900; SSD=1.282; NSW=0.920; rcor=215; rNcor=83; rlogoDP=234; rNIcor=171; rNsEucl=103; rSSD=131; rNSW=112; rank_mean=149.857; match_rank=128 a 0 0 0 0 131 46 717 717 70 0 397 214 0 0 0 0 c 0 0 0 0 75 51 0 0 0 4 34 174 0 0 0 0 g 0 0 0 0 211 0 53 8 89 177 319 288 0 0 0 0 t 0 0 0 0 299 717 88 0 717 717 0 41 0 0 0 0
1731_MA0172.1_JASPAR_CORE_2009__rc_shift5 (1731_MA0172.1_JASPAR_CORE_2009__rc)		0.866	0.505	2.681	0.219	0.886	1.281	0.909	86	117	215	222	170	129	141	154.286	132	; positions_8nt_m3 versus 1731_MA0172.1_JASPAR_CORE_2009__rc; m=27/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=154.286; -----TAATTAA---- ; cor=0.866; Ncor=0.505; logoDP=2.681; NIcor=0.219; NsEucl=0.886; SSD=1.281; NSW=0.909; rcor=86; rNcor=117; rlogoDP=215; rNIcor=222; rNsEucl=170; rSSD=129; rNSW=141; rank_mean=154.286; match_rank=132 a 0 0 0 0 0 0 15 15 0 0 13 12 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 2 3 0 0 0 0 t 0 0 0 0 0 15 0 0 15 15 0 0 0 0 0 0
5922_Vsx1_DBD_HumanTF_1.0__rc_shift4 (5922_Vsx1_DBD_HumanTF_1.0__rc)		0.789	0.526	1.800	0.369	0.901	1.259	0.921	212	81	272	197	99	126	107	156.286	133	; positions_8nt_m3 versus 5922_Vsx1_DBD_HumanTF_1.0__rc; m=28/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=156.286; ----yTAATTrr---- ; cor=0.789; Ncor=0.526; logoDP=1.800; NIcor=0.369; NsEucl=0.901; SSD=1.259; NSW=0.921; rcor=212; rNcor=81; rlogoDP=272; rNIcor=197; rNsEucl=99; rSSD=126; rNSW=107; rank_mean=156.286; match_rank=133 a 0 0 0 0 2112 987 12029 12029 361 1041 5782 3109 0 0 0 0 c 0 0 0 0 3109 217 506 31 309 1053 626 2152 0 0 0 0 g 0 0 0 0 2961 464 1014 101 825 1424 6246 4996 0 0 0 0 t 0 0 0 0 3847 12029 559 134 12029 12029 1094 1772 0 0 0 0
6262_1puf_A_3D-footprint_20130124__rc_shift1 (6262_1puf_A_3D-footprint_20130124__rc)		0.847	0.494	1.663	0.070	0.895	1.083	0.923	109	136	281	263	121	90	103	157.571	138	; positions_8nt_m3 versus 6262_1puf_A_3D-footprint_20130124__rc; m=29/86; ncol2=7; w=7; offset=1; strand=R; shift=1; score=157.571; -gtnGTAA-------- ; cor=0.847; Ncor=0.494; logoDP=1.663; NIcor=0.070; NsEucl=0.895; SSD=1.083; NSW=0.923; rcor=109; rNcor=136; rlogoDP=281; rNIcor=263; rNsEucl=121; rSSD=90; rNSW=103; rank_mean=157.571; match_rank=138 a 0 9 9 24 0 0 96 76 0 0 0 0 0 0 0 0 c 0 11 9 24 0 0 0 9 0 0 0 0 0 0 0 0 g 0 57 19 24 96 0 0 9 0 0 0 0 0 0 0 0 t 0 19 59 24 0 96 0 2 0 0 0 0 0 0 0 0
2710_PF0023.1_JASPAR_CORE_2009__shift5 (2710_PF0023.1_JASPAR_CORE_2009_)		0.875	0.437	4.855	0.428	0.873	1.157	0.904	78	252	135	132	262	105	169	161.857	142	; positions_8nt_m3 versus 2710_PF0023.1_JASPAR_CORE_2009_; m=30/86; ncol2=6; w=6; offset=5; strand=D; shift=5; score=161.857; -----TAATTA----- ; cor=0.875; Ncor=0.437; logoDP=4.855; NIcor=0.428; NsEucl=0.873; SSD=1.157; NSW=0.904; rcor=78; rNcor=252; rlogoDP=135; rNIcor=132; rNsEucl=262; rSSD=105; rNSW=169; rank_mean=161.857; match_rank=142 a 0 0 0 0 0 0 2256 2256 0 0 2256 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 2256 0 0 2256 2256 0 0 0 0 0 0
2645_MA0426.1_JASPAR_CORE_2009__shift5 (2645_MA0426.1_JASPAR_CORE_2009_)		0.875	0.437	4.855	0.428	0.873	1.157	0.904	78	252	135	132	262	105	169	161.857	143	; positions_8nt_m3 versus 2645_MA0426.1_JASPAR_CORE_2009_; m=31/86; ncol2=6; w=6; offset=5; strand=D; shift=5; score=161.857; -----TAATTG----- ; cor=0.875; Ncor=0.437; logoDP=4.855; NIcor=0.428; NsEucl=0.873; SSD=1.157; NSW=0.904; rcor=78; rNcor=252; rlogoDP=135; rNIcor=132; rNsEucl=262; rSSD=105; rNSW=169; rank_mean=161.857; match_rank=143 a 0 0 0 0 0 0 203 203 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 203 0 0 0 0 0 t 0 0 0 0 0 203 0 0 203 203 0 0 0 0 0 0
1754_MA0195.1_JASPAR_CORE_2009__rc_shift5 (1754_MA0195.1_JASPAR_CORE_2009__rc)		0.819	0.478	1.390	0.147	0.897	1.044	0.925	152	161	290	242	113	84	95	162.429	144	; positions_8nt_m3 versus 1754_MA0195.1_JASPAR_CORE_2009__rc; m=32/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=162.429; -----TAATTAr---- ; cor=0.819; Ncor=0.478; logoDP=1.390; NIcor=0.147; NsEucl=0.897; SSD=1.044; NSW=0.925; rcor=152; rNcor=161; rlogoDP=290; rNIcor=242; rNsEucl=113; rSSD=84; rNSW=95; rank_mean=162.429; match_rank=144 a 0 0 0 0 0 0 14 20 0 1 16 8 0 0 0 0 c 0 0 0 0 0 4 4 0 0 3 0 2 0 0 0 0 g 0 0 0 0 0 0 2 0 0 0 0 7 0 0 0 0 t 0 0 0 0 0 16 0 0 20 16 4 3 0 0 0 0
5683_PRRX2_full_HumanTF_1.0__rc_shift4 (5683_PRRX2_full_HumanTF_1.0__rc)		0.779	0.519	1.708	0.366	0.899	1.294	0.919	248	96	279	199	105	134	115	168.000	155	; positions_8nt_m3 versus 5683_PRRX2_full_HumanTF_1.0__rc; m=33/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score= 168; ----yTAATTrr---- ; cor=0.779; Ncor=0.519; logoDP=1.708; NIcor=0.366; NsEucl=0.899; SSD=1.294; NSW=0.919; rcor=248; rNcor=96; rlogoDP=279; rNIcor=199; rNsEucl=105; rSSD=134; rNSW=115; rank_mean=168.000; match_rank=155 a 0 0 0 0 702 400 3849 3849 70 298 1797 969 0 0 0 0 c 0 0 0 0 1035 39 239 11 124 412 250 715 0 0 0 0 g 0 0 0 0 878 198 504 22 232 361 2052 1522 0 0 0 0 t 0 0 0 0 1234 3849 466 13 3849 3849 407 644 0 0 0 0
5909_UNCX_DBD_2_HumanTF_1.0__rc_shift4 (5909_UNCX_DBD_2_HumanTF_1.0__rc)		0.775	0.517	1.855	0.387	0.898	1.337	0.916	261	100	267	176	108	148	119	168.429	158	; positions_8nt_m3 versus 5909_UNCX_DBD_2_HumanTF_1.0__rc; m=34/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=168.429; ----yTAATTrr---- ; cor=0.775; Ncor=0.517; logoDP=1.855; NIcor=0.387; NsEucl=0.898; SSD=1.337; NSW=0.916; rcor=261; rNcor=100; rlogoDP=267; rNIcor=176; rNsEucl=108; rSSD=148; rNSW=119; rank_mean=168.429; match_rank=158 a 0 0 0 0 4810 3885 36926 36926 890 2629 20126 12871 0 0 0 0 c 0 0 0 0 10480 731 1782 117 420 4582 2086 5711 0 0 0 0 g 0 0 0 0 7825 2211 3958 806 1302 2540 16800 13363 0 0 0 0 t 0 0 0 0 13811 36926 3111 481 36926 36926 3975 4980 0 0 0 0
1737_MA0178.1_JASPAR_CORE_2009__rc_shift5 (1737_MA0178.1_JASPAR_CORE_2009__rc)		0.830	0.484	1.880	0.183	0.889	1.206	0.914	143	150	265	231	151	117	124	168.714	159	; positions_8nt_m3 versus 1737_MA0178.1_JASPAR_CORE_2009__rc; m=35/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=168.714; -----TAATTAA---- ; cor=0.830; Ncor=0.484; logoDP=1.880; NIcor=0.183; NsEucl=0.889; SSD=1.206; NSW=0.914; rcor=143; rNcor=150; rlogoDP=265; rNIcor=231; rNsEucl=151; rSSD=117; rNSW=124; rank_mean=168.714; match_rank=159 a 0 0 0 0 0 0 18 18 0 2 17 13 0 0 0 0 c 0 0 0 0 0 4 1 1 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 t 0 0 0 0 0 15 0 0 19 17 2 2 0 0 0 0
5680_PRRX1_DBD_HumanTF_1.0__rc_shift4 (5680_PRRX1_DBD_HumanTF_1.0__rc)		0.773	0.515	2.229	0.382	0.894	1.438	0.910	265	101	231	183	127	182	135	174.857	167	; positions_8nt_m3 versus 5680_PRRX1_DBD_HumanTF_1.0__rc; m=36/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=174.857; ----yTAATTrr---- ; cor=0.773; Ncor=0.515; logoDP=2.229; NIcor=0.382; NsEucl=0.894; SSD=1.438; NSW=0.910; rcor=265; rNcor=101; rlogoDP=231; rNIcor=183; rNsEucl=127; rSSD=182; rNSW=135; rank_mean=174.857; match_rank=167 a 0 0 0 0 3765 1229 23897 23897 209 810 12775 6364 0 0 0 0 c 0 0 0 0 6366 136 1004 0 202 1776 1121 4339 0 0 0 0 g 0 0 0 0 4269 644 2302 3 503 1088 11122 9063 0 0 0 0 t 0 0 0 0 9498 23897 1264 0 23897 23897 2373 4132 0 0 0 0
5561_Meox2_DBD_HumanTF_1.0__shift4 (5561_Meox2_DBD_HumanTF_1.0_)		0.753	0.502	2.668	0.474	0.892	1.501	0.906	341	123	216	82	135	194	152	177.571	169	; positions_8nt_m3 versus 5561_Meox2_DBD_HumanTF_1.0_; m=37/86; ncol2=8; w=8; offset=4; strand=D; shift=4; score=177.571; ----kTAATkAc---- ; cor=0.753; Ncor=0.502; logoDP=2.668; NIcor=0.474; NsEucl=0.892; SSD=1.501; NSW=0.906; rcor=341; rNcor=123; rlogoDP=216; rNIcor=82; rNsEucl=135; rSSD=194; rNSW=152; rank_mean=177.571; match_rank=169 a 0 0 0 0 1001 139 4702 4702 0 28 4702 1121 0 0 0 0 c 0 0 0 0 967 762 0 67 236 287 27 1471 0 0 0 0 g 0 0 0 0 1395 219 549 0 51 1603 833 1173 0 0 0 0 t 0 0 0 0 1339 4702 211 26 4702 3099 259 937 0 0 0 0
5681_PRRX1_full_1_HumanTF_1.0__rc_shift4 (5681_PRRX1_full_1_HumanTF_1.0__rc)		0.767	0.511	2.072	0.383	0.895	1.420	0.911	285	108	238	180	123	177	133	177.714	170	; positions_8nt_m3 versus 5681_PRRX1_full_1_HumanTF_1.0__rc; m=38/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=177.714; ----yTAATTrg---- ; cor=0.767; Ncor=0.511; logoDP=2.072; NIcor=0.383; NsEucl=0.895; SSD=1.420; NSW=0.911; rcor=285; rNcor=108; rlogoDP=238; rNIcor=180; rNsEucl=123; rSSD=177; rNSW=133; rank_mean=177.714; match_rank=170 a 0 0 0 0 1693 979 10177 10177 307 532 5066 2523 0 0 0 0 c 0 0 0 0 2968 57 438 0 117 640 326 1746 0 0 0 0 g 0 0 0 0 2230 709 1210 28 358 764 5111 4493 0 0 0 0 t 0 0 0 0 3287 10177 547 57 10177 10177 684 1414 0 0 0 0
1747_MA0188.1_JASPAR_CORE_2009__rc_shift5 (1747_MA0188.1_JASPAR_CORE_2009__rc)		0.843	0.492	1.736	0.104	0.885	1.299	0.907	115	142	276	258	175	135	147	178.286	172	; positions_8nt_m3 versus 1747_MA0188.1_JASPAR_CORE_2009__rc; m=39/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=178.286; -----TAATTGs---- ; cor=0.843; Ncor=0.492; logoDP=1.736; NIcor=0.104; NsEucl=0.885; SSD=1.299; NSW=0.907; rcor=115; rNcor=142; rlogoDP=276; rNIcor=258; rNsEucl=175; rSSD=135; rNSW=147; rank_mean=178.286; match_rank=172 a 0 0 0 0 0 0 21 21 0 0 5 1 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 16 13 0 0 0 0 t 0 0 0 0 0 21 0 0 21 21 0 1 0 0 0 0
5541_MSX1_full_HumanTF_1.0__rc_shift4 (5541_MSX1_full_HumanTF_1.0__rc)		0.772	0.514	2.343	0.346	0.893	1.475	0.908	272	103	227	205	133	187	143	181.429	180	; positions_8nt_m3 versus 5541_MSX1_full_HumanTF_1.0__rc; m=40/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=181.429; ----bTAATTrs---- ; cor=0.772; Ncor=0.514; logoDP=2.343; NIcor=0.346; NsEucl=0.893; SSD=1.475; NSW=0.908; rcor=272; rNcor=103; rlogoDP=227; rNIcor=205; rNsEucl=133; rSSD=187; rNSW=143; rank_mean=181.429; match_rank=180 a 0 0 0 0 460 91 3073 3073 0 16 956 501 0 0 0 0 c 0 0 0 0 945 105 251 31 0 139 33 787 0 0 0 0 g 0 0 0 0 814 118 205 0 107 332 2117 1324 0 0 0 0 t 0 0 0 0 855 3073 63 0 3073 3073 82 461 0 0 0 0
5751_SHOX_DBD_HumanTF_1.0__rc_shift4 (5751_SHOX_DBD_HumanTF_1.0__rc)		0.772	0.514	2.505	0.380	0.891	1.510	0.906	271	102	224	189	136	200	156	182.571	181	; positions_8nt_m3 versus 5751_SHOX_DBD_HumanTF_1.0__rc; m=41/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=182.571; ----yTAATTrr---- ; cor=0.772; Ncor=0.514; logoDP=2.505; NIcor=0.380; NsEucl=0.891; SSD=1.510; NSW=0.906; rcor=271; rNcor=102; rlogoDP=224; rNIcor=189; rNsEucl=136; rSSD=200; rNSW=156; rank_mean=182.571; match_rank=181 a 0 0 0 0 3837 1377 29223 29223 146 1412 14932 8292 0 0 0 0 c 0 0 0 0 9324 35 825 0 0 986 684 5441 0 0 0 0 g 0 0 0 0 5060 243 1143 48 346 1248 14291 11134 0 0 0 0 t 0 0 0 0 11002 29223 1210 0 29223 29223 2144 4357 0 0 0 0
5258_EN1_full_1_HumanTF_1.0__rc_shift4 (5258_EN1_full_1_HumanTF_1.0__rc)		0.769	0.512	2.738	0.394	0.890	1.539	0.904	280	105	212	173	142	209	167	184.000	184	; positions_8nt_m3 versus 5258_EN1_full_1_HumanTF_1.0__rc; m=42/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score= 184; ----cTAATTrs---- ; cor=0.769; Ncor=0.512; logoDP=2.738; NIcor=0.394; NsEucl=0.890; SSD=1.539; NSW=0.904; rcor=280; rNcor=105; rlogoDP=212; rNIcor=173; rNsEucl=142; rSSD=209; rNSW=167; rank_mean=184.000; match_rank=184 a 0 0 0 0 302 132 2891 2891 0 0 1562 525 0 0 0 0 c 0 0 0 0 1216 30 162 0 0 71 5 765 0 0 0 0 g 0 0 0 0 683 0 483 0 28 99 1328 1174 0 0 0 0 t 0 0 0 0 689 2891 57 0 2891 2891 104 427 0 0 0 0
5701_RAXL1_DBD_HumanTF_1.0__rc_shift4 (5701_RAXL1_DBD_HumanTF_1.0__rc)		0.762	0.508	1.863	0.381	0.895	1.418	0.911	307	111	266	185	122	176	132	185.571	186	; positions_8nt_m3 versus 5701_RAXL1_DBD_HumanTF_1.0__rc; m=43/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=185.571; ----yTAATTrr---- ; cor=0.762; Ncor=0.508; logoDP=1.863; NIcor=0.381; NsEucl=0.895; SSD=1.418; NSW=0.911; rcor=307; rNcor=111; rlogoDP=266; rNIcor=185; rNsEucl=122; rSSD=176; rNSW=132; rank_mean=185.571; match_rank=186 a 0 0 0 0 5601 4258 38860 38860 1030 2421 19215 10666 0 0 0 0 c 0 0 0 0 12362 360 2513 125 757 4490 1688 7049 0 0 0 0 g 0 0 0 0 7487 2644 4232 738 1523 3060 19645 15810 0 0 0 0 t 0 0 0 0 13411 38860 2167 270 38860 38860 3558 5334 0 0 0 0
1798_MA0240.1_JASPAR_CORE_2009__rc_shift5 (1798_MA0240.1_JASPAR_CORE_2009__rc)		0.824	0.480	1.994	0.185	0.881	1.383	0.901	149	158	243	230	205	169	181	190.714	197	; positions_8nt_m3 versus 1798_MA0240.1_JASPAR_CORE_2009__rc; m=44/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=190.714; -----YAATTAa---- ; cor=0.824; Ncor=0.480; logoDP=1.994; NIcor=0.185; NsEucl=0.881; SSD=1.383; NSW=0.901; rcor=149; rNcor=158; rlogoDP=243; rNIcor=230; rNsEucl=205; rSSD=169; rNSW=181; rank_mean=190.714; match_rank=197 a 0 0 0 0 0 0 28 28 0 1 27 19 0 0 0 0 c 0 0 0 0 0 7 0 0 0 0 0 4 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 t 0 0 0 0 0 21 0 0 28 27 1 1 0 0 0 0
1759_MA0200.1_JASPAR_CORE_2009__shift4 (1759_MA0200.1_JASPAR_CORE_2009_)		0.787	0.459	4.735	0.449	0.875	1.527	0.891	222	195	143	111	246	202	230	192.714	199	; positions_8nt_m3 versus 1759_MA0200.1_JASPAR_CORE_2009_; m=45/86; ncol2=7; w=7; offset=4; strand=D; shift=4; score=192.714; ----mTAATTr----- ; cor=0.787; Ncor=0.459; logoDP=4.735; NIcor=0.449; NsEucl=0.875; SSD=1.527; NSW=0.891; rcor=222; rNcor=195; rlogoDP=143; rNIcor=111; rNsEucl=246; rSSD=202; rNSW=230; rank_mean=192.714; match_rank=199 a 0 0 0 0 6 0 21 21 0 0 13 0 0 0 0 0 c 0 0 0 0 8 0 0 0 0 1 1 0 0 0 0 0 g 0 0 0 0 3 0 0 0 0 0 6 0 0 0 0 0 t 0 0 0 0 4 21 0 0 21 20 1 0 0 0 0 0
1794_MA0236.1_JASPAR_CORE_2009__rc_shift5 (1794_MA0236.1_JASPAR_CORE_2009__rc)		0.802	0.468	1.889	0.193	0.883	1.339	0.904	186	171	264	227	193	149	164	193.429	201	; positions_8nt_m3 versus 1794_MA0236.1_JASPAR_CORE_2009__rc; m=46/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=193.429; -----TAATTAr---- ; cor=0.802; Ncor=0.468; logoDP=1.889; NIcor=0.193; NsEucl=0.883; SSD=1.339; NSW=0.904; rcor=186; rNcor=171; rlogoDP=264; rNIcor=227; rNsEucl=193; rSSD=149; rNSW=164; rank_mean=193.429; match_rank=201 a 0 0 0 0 0 2 15 20 0 0 19 11 0 0 0 0 c 0 0 0 0 0 3 4 0 0 0 0 2 0 0 0 0 g 0 0 0 0 0 0 1 0 0 0 1 6 0 0 0 0 t 0 0 0 0 0 15 0 0 20 20 0 1 0 0 0 0
5687_Prrx2_DBD_HumanTF_1.0__rc_shift4 (5687_Prrx2_DBD_HumanTF_1.0__rc)		0.758	0.505	2.634	0.408	0.888	1.594	0.900	323	116	219	150	155	223	184	195.714	206	; positions_8nt_m3 versus 5687_Prrx2_DBD_HumanTF_1.0__rc; m=47/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=195.714; ----yTAATTrr---- ; cor=0.758; Ncor=0.505; logoDP=2.634; NIcor=0.408; NsEucl=0.888; SSD=1.594; NSW=0.900; rcor=323; rNcor=116; rlogoDP=219; rNIcor=150; rNsEucl=155; rSSD=223; rNSW=184; rank_mean=195.714; match_rank=206 a 0 0 0 0 802 279 4975 4975 77 183 3118 1416 0 0 0 0 c 0 0 0 0 1658 93 28 0 0 272 186 820 0 0 0 0 g 0 0 0 0 705 267 304 0 12 175 1857 1893 0 0 0 0 t 0 0 0 0 1810 4975 0 0 4975 4975 393 845 0 0 0 0
5564_Msx3_DBD_2_HumanTF_1.0__rc_shift4 (5564_Msx3_DBD_2_HumanTF_1.0__rc)		0.769	0.513	2.776	0.356	0.888	1.617	0.899	279	104	211	203	162	231	195	197.857	211	; positions_8nt_m3 versus 5564_Msx3_DBD_2_HumanTF_1.0__rc; m=48/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=197.857; ----yTAATTrs---- ; cor=0.769; Ncor=0.513; logoDP=2.776; NIcor=0.356; NsEucl=0.888; SSD=1.617; NSW=0.899; rcor=279; rNcor=104; rlogoDP=211; rNIcor=203; rNsEucl=162; rSSD=231; rNSW=195; rank_mean=197.857; match_rank=211 a 0 0 0 0 1360 213 8380 8380 5 94 2582 1256 0 0 0 0 c 0 0 0 0 2595 88 105 0 38 237 29 2496 0 0 0 0 g 0 0 0 0 1737 59 215 0 89 160 5798 3247 0 0 0 0 t 0 0 0 0 2689 8380 121 0 8380 8380 312 1381 0 0 0 0
5817_Shox2_DBD_HumanTF_1.0__rc_shift4 (5817_Shox2_DBD_HumanTF_1.0__rc)		0.761	0.507	2.625	0.380	0.888	1.603	0.900	309	112	220	186	156	226	185	199.143	212	; positions_8nt_m3 versus 5817_Shox2_DBD_HumanTF_1.0__rc; m=49/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=199.143; ----yTAATTrr---- ; cor=0.761; Ncor=0.507; logoDP=2.625; NIcor=0.380; NsEucl=0.888; SSD=1.603; NSW=0.900; rcor=309; rNcor=112; rlogoDP=220; rNIcor=186; rNsEucl=156; rSSD=226; rNSW=185; rank_mean=199.143; match_rank=212 a 0 0 0 0 2278 895 18179 18179 79 766 9152 4802 0 0 0 0 c 0 0 0 0 6337 36 870 0 3 426 228 3292 0 0 0 0 g 0 0 0 0 3021 193 545 12 138 626 9027 7695 0 0 0 0 t 0 0 0 0 6542 18179 597 29 18179 18179 979 2390 0 0 0 0
6487_2p5l_D_3D-footprint_20130124__shift6 (6487_2p5l_D_3D-footprint_20130124_)		0.814	0.407	1.458	0.368	0.879	1.055	0.912	158	331	288	198	222	86	130	201.857	215	; positions_8nt_m3 versus 6487_2p5l_D_3D-footprint_20130124_; m=50/86; ncol2=6; w=6; offset=6; strand=D; shift=6; score=201.857; ------AATTCA---- ; cor=0.814; Ncor=0.407; logoDP=1.458; NIcor=0.368; NsEucl=0.879; SSD=1.055; NSW=0.912; rcor=158; rNcor=331; rlogoDP=288; rNIcor=198; rNsEucl=222; rSSD=86; rNSW=130; rank_mean=201.857; match_rank=215 a 0 0 0 0 0 0 67 96 9 9 0 96 0 0 0 0 c 0 0 0 0 0 0 9 0 9 11 96 0 0 0 0 0 g 0 0 0 0 0 0 9 0 9 9 0 0 0 0 0 0 t 0 0 0 0 0 0 11 0 69 67 0 0 0 0 0 0
1757_MA0198.1_JASPAR_CORE_2009__MA0455.1_JASPAR_CORE_2009__shift4 (1757_MA0198.1_JASPAR_CORE_2009__MA0455.1_JASPAR_CORE_2009_)		0.785	0.458	4.925	0.450	0.872	1.602	0.886	226	197	131	109	269	225	260	202.429	216	; positions_8nt_m3 versus 1757_MA0198.1_JASPAR_CORE_2009__MA0455.1_JASPAR_CORE_2009_; m=51/86; ncol2=7; w=7; offset=4; strand=D; shift=4; score=202.429; ----yTAATTr----- ; cor=0.785; Ncor=0.458; logoDP=4.925; NIcor=0.450; NsEucl=0.872; SSD=1.602; NSW=0.886; rcor=226; rNcor=197; rlogoDP=131; rNIcor=109; rNsEucl=269; rSSD=225; rNSW=260; rank_mean=202.429; match_rank=216 a 0 0 0 0 0 0 22 22 0 0 13 0 0 0 0 0 c 0 0 0 0 11 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 4 0 0 0 0 0 8 0 0 0 0 0 t 0 0 0 0 7 22 0 0 22 22 1 0 0 0 0 0
6133_1io4_C_3D-footprint_20130124__rc_shift0 (6133_1io4_C_3D-footprint_20130124__rc)		0.845	0.422	0.126	-0.094	0.884	0.967	0.919	112	286	337	307	185	78	114	202.714	217	; positions_8nt_m3 versus 6133_1io4_C_3D-footprint_20130124__rc; m=52/86; ncol2=6; w=6; offset=0; strand=R; shift=0; score=202.714; tGTGGt---------- ; cor=0.845; Ncor=0.422; logoDP=0.126; NIcor=-0.094; NsEucl=0.884; SSD=0.967; NSW=0.919; rcor=112; rNcor=286; rlogoDP=337; rNIcor=307; rNsEucl=185; rSSD=78; rNSW=114; rank_mean=202.714; match_rank=217 a 16 0 0 0 0 16 0 0 0 0 0 0 0 0 0 0 c 13 0 0 0 0 13 0 0 0 0 0 0 0 0 0 0 g 13 96 0 96 96 13 0 0 0 0 0 0 0 0 0 0 t 54 0 96 0 0 54 0 0 0 0 0 0 0 0 0 0
5479_ISX_DBD_2_HumanTF_1.0__rc_shift4 (5479_ISX_DBD_2_HumanTF_1.0__rc)		0.764	0.509	2.724	0.360	0.887	1.630	0.898	297	109	213	201	165	234	200	202.714	218	; positions_8nt_m3 versus 5479_ISX_DBD_2_HumanTF_1.0__rc; m=53/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=202.714; ----yTAATTrg---- ; cor=0.764; Ncor=0.509; logoDP=2.724; NIcor=0.360; NsEucl=0.887; SSD=1.630; NSW=0.898; rcor=297; rNcor=109; rlogoDP=213; rNIcor=201; rNsEucl=165; rSSD=234; rNSW=200; rank_mean=202.714; match_rank=218 a 0 0 0 0 2603 744 19154 19154 72 571 8127 4429 0 0 0 0 c 0 0 0 0 5442 68 248 0 0 286 283 2902 0 0 0 0 g 0 0 0 0 3922 143 458 0 175 867 11027 9764 0 0 0 0 t 0 0 0 0 7187 19154 380 0 19154 19154 878 2059 0 0 0 0
5540_MSX1_DBD_2_HumanTF_1.0__rc_shift4 (5540_MSX1_DBD_2_HumanTF_1.0__rc)		0.764	0.509	2.789	0.362	0.887	1.642	0.897	298	110	209	200	167	236	201	203.000	220	; positions_8nt_m3 versus 5540_MSX1_DBD_2_HumanTF_1.0__rc; m=54/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score= 203; ----yTAATTrs---- ; cor=0.764; Ncor=0.509; logoDP=2.789; NIcor=0.362; NsEucl=0.887; SSD=1.642; NSW=0.897; rcor=298; rNcor=110; rlogoDP=209; rNIcor=200; rNsEucl=167; rSSD=236; rNSW=201; rank_mean=203.000; match_rank=220 a 0 0 0 0 2314 467 13289 13289 0 76 4202 1849 0 0 0 0 c 0 0 0 0 3719 206 224 0 0 380 93 4166 0 0 0 0 g 0 0 0 0 2598 25 427 0 0 396 9087 5096 0 0 0 0 t 0 0 0 0 4658 13289 366 0 13289 13289 461 2178 0 0 0 0
1815_MA0257.1_JASPAR_CORE_2009__rc_shift5 (1815_MA0257.1_JASPAR_CORE_2009__rc)		0.795	0.464	1.657	0.160	0.883	1.349	0.904	205	183	283	236	196	153	168	203.429	223	; positions_8nt_m3 versus 1815_MA0257.1_JASPAR_CORE_2009__rc; m=55/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=203.429; -----TmATTAr---- ; cor=0.795; Ncor=0.464; logoDP=1.657; NIcor=0.160; NsEucl=0.883; SSD=1.349; NSW=0.904; rcor=205; rNcor=183; rlogoDP=283; rNIcor=236; rNsEucl=196; rSSD=153; rNSW=168; rank_mean=203.429; match_rank=223 a 0 0 0 0 0 0 16 25 0 0 25 11 0 0 0 0 c 0 0 0 0 0 4 10 0 0 0 0 5 0 0 0 0 g 0 0 0 0 0 0 0 1 0 0 0 7 0 0 0 0 t 0 0 0 0 0 22 0 0 26 26 1 3 0 0 0 0
5419_HOXA2_DBD_HumanTF_1.0__rc_shift3 (5419_HOXA2_DBD_HumanTF_1.0__rc)		0.755	0.522	1.955	0.344	0.897	1.725	0.904	338	91	253	206	112	263	165	204.000	224	; positions_8nt_m3 versus 5419_HOXA2_DBD_HumanTF_1.0__rc; m=56/86; ncol2=10; w=9; offset=3; strand=R; shift=3; score= 204; ---gsTAATkrss--- ; cor=0.755; Ncor=0.522; logoDP=1.955; NIcor=0.344; NsEucl=0.897; SSD=1.725; NSW=0.904; rcor=338; rNcor=91; rlogoDP=253; rNIcor=206; rNsEucl=112; rSSD=263; rNSW=165; rank_mean=204.000; match_rank=224 a 0 0 0 1520 1108 336 8985 8985 41 204 6221 1355 1801 0 0 0 c 0 0 0 2040 2840 31 0 6 491 651 513 2663 2370 0 0 0 g 0 0 0 3786 2849 135 1247 0 344 3128 2764 3394 2619 0 0 0 t 0 0 0 1640 2188 8985 161 0 8985 5858 906 1574 2196 0 0 0
7342_DLX3_do_HOCOMOCO_v9__shift4 (7342_DLX3_do_HOCOMOCO_v9_)		0.757	0.466	4.436	0.469	0.883	1.749	0.891	327	176	155	87	194	266	232	205.286	225	; positions_8nt_m3 versus 7342_DLX3_do_HOCOMOCO_v9_; m=57/86; ncol2=9; w=8; offset=4; strand=D; shift=4; score=205.286; ----mTAATTrsw--- ; cor=0.757; Ncor=0.466; logoDP=4.436; NIcor=0.469; NsEucl=0.883; SSD=1.749; NSW=0.891; rcor=327; rNcor=176; rlogoDP=155; rNIcor=87; rNsEucl=194; rSSD=266; rNSW=232; rank_mean=205.286; match_rank=225 a 0 0 0 0 14 0 33 34 0 0 18 5 15 0 0 0 c 0 0 0 0 14 1 0 0 0 0 1 18 5 0 0 0 g 0 0 0 0 6 0 1 0 0 2 12 9 4 0 0 0 t 0 0 0 0 0 33 0 0 34 32 3 2 10 0 0 0
1726_MA0167.1_JASPAR_CORE_2009__rc_shift5 (1726_MA0167.1_JASPAR_CORE_2009__rc)		0.797	0.465	1.604	0.145	0.882	1.356	0.903	200	180	285	246	198	158	172	205.571	226	; positions_8nt_m3 versus 1726_MA0167.1_JASPAR_CORE_2009__rc; m=58/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=205.571; -----TAATTAr---- ; cor=0.797; Ncor=0.465; logoDP=1.604; NIcor=0.145; NsEucl=0.882; SSD=1.356; NSW=0.903; rcor=200; rNcor=180; rlogoDP=285; rNIcor=246; rNsEucl=198; rSSD=158; rNSW=172; rank_mean=205.571; match_rank=226 a 0 0 0 0 0 2 32 39 0 0 39 21 0 0 0 0 c 0 0 0 0 0 4 8 1 0 7 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 16 0 0 0 0 t 0 0 0 0 0 34 0 0 40 33 1 3 0 0 0 0
5750_SHOX2_DBD_HumanTF_1.0__rc_shift4 (5750_SHOX2_DBD_HumanTF_1.0__rc)		0.756	0.504	2.496	0.380	0.888	1.607	0.900	334	120	225	190	157	227	186	205.571	227	; positions_8nt_m3 versus 5750_SHOX2_DBD_HumanTF_1.0__rc; m=59/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=205.571; ----yTAATTrr---- ; cor=0.756; Ncor=0.504; logoDP=2.496; NIcor=0.380; NsEucl=0.888; SSD=1.607; NSW=0.900; rcor=334; rNcor=120; rlogoDP=225; rNIcor=190; rNsEucl=157; rSSD=227; rNSW=186; rank_mean=205.571; match_rank=227 a 0 0 0 0 749 415 6251 6251 30 323 3041 1652 0 0 0 0 c 0 0 0 0 2277 17 225 5 29 104 143 1142 0 0 0 0 g 0 0 0 0 903 131 109 11 87 318 3209 2536 0 0 0 0 t 0 0 0 0 2323 6251 255 67 6251 6251 407 921 0 0 0 0
1753_MA0194.1_JASPAR_CORE_2009__rc_shift5 (1753_MA0194.1_JASPAR_CORE_2009__rc)		0.836	0.488	2.968	0.227	0.873	1.583	0.887	128	146	205	219	266	221	254	205.571	228	; positions_8nt_m3 versus 1753_MA0194.1_JASPAR_CORE_2009__rc; m=60/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=205.571; -----TAATTAA---- ; cor=0.836; Ncor=0.488; logoDP=2.968; NIcor=0.227; NsEucl=0.873; SSD=1.583; NSW=0.887; rcor=128; rNcor=146; rlogoDP=205; rNIcor=219; rNsEucl=266; rSSD=221; rNSW=254; rank_mean=205.571; match_rank=228 a 0 0 0 0 0 0 18 18 0 0 18 16 0 0 0 0 c 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 t 0 0 0 0 0 17 0 0 18 18 0 0 0 0 0 0
1809_MA0251.1_JASPAR_CORE_2009__rc_shift5 (1809_MA0251.1_JASPAR_CORE_2009__rc)		0.798	0.466	1.828	0.156	0.880	1.412	0.899	196	178	269	237	214	174	192	208.571	234	; positions_8nt_m3 versus 1809_MA0251.1_JASPAR_CORE_2009__rc; m=61/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=208.571; -----yAATTAr---- ; cor=0.798; Ncor=0.466; logoDP=1.828; NIcor=0.156; NsEucl=0.880; SSD=1.412; NSW=0.899; rcor=196; rNcor=178; rlogoDP=269; rNIcor=237; rNsEucl=214; rSSD=174; rNSW=192; rank_mean=208.571; match_rank=234 a 0 0 0 0 0 0 19 21 0 0 20 10 0 0 0 0 c 0 0 0 0 0 7 2 0 0 0 0 4 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 6 0 0 0 0 t 0 0 0 0 0 14 0 0 21 21 1 1 0 0 0 0
1750_MA0191.1_JASPAR_CORE_2009__rc_shift5 (1750_MA0191.1_JASPAR_CORE_2009__rc)		0.791	0.462	1.822	0.194	0.880	1.409	0.899	209	186	270	226	210	172	189	208.857	235	; positions_8nt_m3 versus 1750_MA0191.1_JASPAR_CORE_2009__rc; m=62/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=208.857; -----YmATTAa---- ; cor=0.791; Ncor=0.462; logoDP=1.822; NIcor=0.194; NsEucl=0.880; SSD=1.409; NSW=0.899; rcor=209; rNcor=186; rlogoDP=270; rNIcor=226; rNsEucl=210; rSSD=172; rNSW=189; rank_mean=208.857; match_rank=235 a 0 0 0 0 0 0 13 20 0 0 20 11 0 0 0 0 c 0 0 0 0 0 5 6 0 0 0 0 3 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 t 0 0 0 0 0 15 1 0 20 20 0 4 0 0 0 0
5171_BSX_DBD_HumanTF_1.0__rc_shift4 (5171_BSX_DBD_HumanTF_1.0__rc)		0.751	0.501	1.938	0.282	0.890	1.552	0.903	348	125	255	211	145	211	173	209.714	236	; positions_8nt_m3 versus 5171_BSX_DBD_HumanTF_1.0__rc; m=63/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=209.714; ----bTAATkrs---- ; cor=0.751; Ncor=0.501; logoDP=1.938; NIcor=0.282; NsEucl=0.890; SSD=1.552; NSW=0.903; rcor=348; rNcor=125; rlogoDP=255; rNIcor=211; rNsEucl=145; rSSD=211; rNSW=173; rank_mean=209.714; match_rank=236 a 0 0 0 0 1276 0 8832 8832 66 116 3247 1164 0 0 0 0 c 0 0 0 0 2417 0 0 0 1078 2197 103 2290 0 0 0 0 g 0 0 0 0 2369 0 0 0 194 2483 5585 3929 0 0 0 0 t 0 0 0 0 2770 8832 96 0 8832 4036 688 1449 0 0 0 0
5640_PDX1_DBD_2_HumanTF_1.0__rc_shift4 (5640_PDX1_DBD_2_HumanTF_1.0__rc)		0.751	0.501	2.778	0.394	0.885	1.682	0.895	347	124	210	172	171	245	209	211.143	237	; positions_8nt_m3 versus 5640_PDX1_DBD_2_HumanTF_1.0__rc; m=64/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=211.143; ----yTAATkrs---- ; cor=0.751; Ncor=0.501; logoDP=2.778; NIcor=0.394; NsEucl=0.885; SSD=1.682; NSW=0.895; rcor=347; rNcor=124; rlogoDP=210; rNIcor=172; rNsEucl=171; rSSD=245; rNSW=209; rank_mean=211.143; match_rank=237 a 0 0 0 0 852 0 7130 7130 0 78 4661 999 0 0 0 0 c 0 0 0 0 2881 0 0 0 0 185 0 2441 0 0 0 0 g 0 0 0 0 1216 0 0 0 45 2291 2469 2206 0 0 0 0 t 0 0 0 0 2181 7130 0 0 7130 4839 292 1483 0 0 0 0
5480_ISX_full_HumanTF_1.0__rc_shift4 (5480_ISX_full_HumanTF_1.0__rc)		0.760	0.507	3.179	0.385	0.884	1.725	0.892	316	113	202	179	187	262	225	212.000	238	; positions_8nt_m3 versus 5480_ISX_full_HumanTF_1.0__rc; m=65/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score= 212; ----yTAATTrr---- ; cor=0.760; Ncor=0.507; logoDP=3.179; NIcor=0.385; NsEucl=0.884; SSD=1.725; NSW=0.892; rcor=316; rNcor=113; rlogoDP=202; rNIcor=179; rNsEucl=187; rSSD=262; rNSW=225; rank_mean=212.000; match_rank=238 a 0 0 0 0 283 49 2065 2065 10 24 1061 520 0 0 0 0 c 0 0 0 0 704 0 24 0 0 5 0 364 0 0 0 0 g 0 0 0 0 307 0 0 0 16 48 1003 863 0 0 0 0 t 0 0 0 0 770 2065 0 0 2065 2065 10 318 0 0 0 0
7572_PDX1_do_HOCOMOCO_v9__shift4 (7572_PDX1_do_HOCOMOCO_v9_)		0.757	0.504	4.070	0.483	0.878	1.920	0.880	331	118	168	72	230	292	277	212.571	239	; positions_8nt_m3 versus 7572_PDX1_do_HOCOMOCO_v9_; m=66/86; ncol2=8; w=8; offset=4; strand=D; shift=4; score=212.571; ----STmATTAG---- ; cor=0.757; Ncor=0.504; logoDP=4.070; NIcor=0.483; NsEucl=0.878; SSD=1.920; NSW=0.880; rcor=331; rNcor=118; rlogoDP=168; rNIcor=72; rNsEucl=230; rSSD=292; rNSW=277; rank_mean=212.571; match_rank=239 a 0 0 0 0 4 1 52 79 0 0 79 12 0 0 0 0 c 0 0 0 0 20 4 21 0 0 0 0 8 0 0 0 0 g 0 0 0 0 54 1 6 0 0 0 0 55 0 0 0 0 t 0 0 0 0 1 73 0 0 79 79 0 4 0 0 0 0
1736_MA0177.1_JASPAR_CORE_2009__rc_shift5 (1736_MA0177.1_JASPAR_CORE_2009__rc)		0.799	0.466	1.804	0.155	0.879	1.437	0.897	195	177	271	238	224	181	202	212.571	240	; positions_8nt_m3 versus 1736_MA0177.1_JASPAR_CORE_2009__rc; m=67/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=212.571; -----TmATTAr---- ; cor=0.799; Ncor=0.466; logoDP=1.804; NIcor=0.155; NsEucl=0.879; SSD=1.437; NSW=0.897; rcor=195; rNcor=177; rlogoDP=271; rNIcor=238; rNsEucl=224; rSSD=181; rNSW=202; rank_mean=212.571; match_rank=240 a 0 0 0 0 0 0 16 25 0 0 25 10 0 0 0 0 c 0 0 0 0 0 2 8 0 0 0 0 1 0 0 0 0 g 0 0 0 0 0 0 1 0 0 0 0 10 0 0 0 0 t 0 0 0 0 0 23 0 0 25 25 0 4 0 0 0 0
5162_BARX1_DBD_2_HumanTF_1.0__rc_shift4 (5162_BARX1_DBD_2_HumanTF_1.0__rc)		0.750	0.500	2.060	0.282	0.888	1.607	0.900	352	127	239	212	158	228	187	214.714	244	; positions_8nt_m3 versus 5162_BARX1_DBD_2_HumanTF_1.0__rc; m=68/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=214.714; ----yTAATkgb---- ; cor=0.750; Ncor=0.500; logoDP=2.060; NIcor=0.282; NsEucl=0.888; SSD=1.607; NSW=0.900; rcor=352; rNcor=127; rlogoDP=239; rNIcor=212; rNsEucl=158; rSSD=228; rNSW=187; rank_mean=214.714; match_rank=244 a 0 0 0 0 1077 0 6805 6805 0 87 1667 877 0 0 0 0 c 0 0 0 0 2420 0 0 0 192 1386 246 2236 0 0 0 0 g 0 0 0 0 1391 0 0 0 207 1992 5138 1821 0 0 0 0 t 0 0 0 0 1917 6805 0 0 6805 3339 590 1872 0 0 0 0
1788_MA0230.1_JASPAR_CORE_2009__rc_shift5 (1788_MA0230.1_JASPAR_CORE_2009__rc)		0.801	0.467	2.268	0.219	0.875	1.538	0.890	189	173	229	221	252	207	237	215.429	245	; positions_8nt_m3 versus 1788_MA0230.1_JASPAR_CORE_2009__rc; m=69/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=215.429; -----TmATTAA---- ; cor=0.801; Ncor=0.467; logoDP=2.268; NIcor=0.219; NsEucl=0.875; SSD=1.538; NSW=0.890; rcor=189; rNcor=173; rlogoDP=229; rNIcor=221; rNsEucl=252; rSSD=207; rNSW=237; rank_mean=215.429; match_rank=245 a 0 0 0 0 0 0 10 15 0 0 16 12 0 0 0 0 c 0 0 0 0 0 0 6 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 3 0 0 0 0 t 0 0 0 0 0 16 0 1 16 16 0 1 0 0 0 0
5543_MSX2_DBD_2_HumanTF_1.0__rc_shift4 (5543_MSX2_DBD_2_HumanTF_1.0__rc)		0.758	0.505	2.642	0.326	0.885	1.707	0.893	321	114	218	208	182	254	216	216.143	247	; positions_8nt_m3 versus 5543_MSX2_DBD_2_HumanTF_1.0__rc; m=70/86; ncol2=8; w=8; offset=4; strand=R; shift=4; score=216.143; ----yTAATTGg---- ; cor=0.758; Ncor=0.505; logoDP=2.642; NIcor=0.326; NsEucl=0.885; SSD=1.707; NSW=0.893; rcor=321; rNcor=114; rlogoDP=218; rNIcor=208; rNsEucl=182; rSSD=254; rNSW=216; rank_mean=216.143; match_rank=247 a 0 0 0 0 518 21 3400 3400 0 84 807 360 0 0 0 0 c 0 0 0 0 892 0 72 0 0 67 44 835 0 0 0 0 g 0 0 0 0 791 61 169 0 28 161 2592 1688 0 0 0 0 t 0 0 0 0 1198 3400 52 0 3400 3400 105 517 0 0 0 0
1799_MA0241.1_JASPAR_CORE_2009__rc_shift5 (1799_MA0241.1_JASPAR_CORE_2009__rc)		0.797	0.465	1.786	0.127	0.876	1.508	0.892	203	181	273	255	242	198	224	225.143	265	; positions_8nt_m3 versus 1799_MA0241.1_JASPAR_CORE_2009__rc; m=71/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=225.143; -----TAATTAr---- ; cor=0.797; Ncor=0.465; logoDP=1.786; NIcor=0.127; NsEucl=0.876; SSD=1.508; NSW=0.892; rcor=203; rNcor=181; rlogoDP=273; rNIcor=255; rNsEucl=242; rSSD=198; rNSW=224; rank_mean=225.143; match_rank=265 a 0 0 0 0 0 0 20 23 0 0 23 7 0 0 0 0 c 0 0 0 0 0 4 3 0 0 0 0 3 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 t 0 0 0 0 0 19 0 0 23 23 0 1 0 0 0 0
1765_MA0206.1_JASPAR_CORE_2009__rc_shift5 (1765_MA0206.1_JASPAR_CORE_2009__rc)		0.779	0.454	2.050	0.224	0.876	1.514	0.892	249	208	240	220	243	201	227	226.857	269	; positions_8nt_m3 versus 1765_MA0206.1_JASPAR_CORE_2009__rc; m=72/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=226.857; -----TmATTAA---- ; cor=0.779; Ncor=0.454; logoDP=2.050; NIcor=0.224; NsEucl=0.876; SSD=1.514; NSW=0.892; rcor=249; rNcor=208; rlogoDP=240; rNIcor=220; rNsEucl=243; rSSD=201; rNSW=227; rank_mean=226.857; match_rank=269 a 0 0 0 0 0 0 12 17 0 2 18 14 0 0 0 0 c 0 0 0 0 0 2 6 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 1 0 0 0 0 0 3 0 0 0 0 t 0 0 0 0 0 15 0 1 18 16 0 1 0 0 0 0
1768_MA0209.1_JASPAR_CORE_2009__rc_shift5 (1768_MA0209.1_JASPAR_CORE_2009__rc)		0.782	0.456	1.929	0.145	0.876	1.505	0.893	238	201	258	247	241	196	222	229.000	273	; positions_8nt_m3 versus 1768_MA0209.1_JASPAR_CORE_2009__rc; m=73/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score= 229; -----TMATTAr---- ; cor=0.782; Ncor=0.456; logoDP=1.929; NIcor=0.145; NsEucl=0.876; SSD=1.505; NSW=0.893; rcor=238; rNcor=201; rlogoDP=258; rNIcor=247; rNsEucl=241; rSSD=196; rNSW=222; rank_mean=229.000; match_rank=273 a 0 0 0 0 0 0 13 19 0 0 18 7 0 0 0 0 c 0 0 0 0 0 3 6 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 10 0 0 0 0 t 0 0 0 0 0 16 0 0 19 19 1 2 0 0 0 0
1743_MA0184.1_JASPAR_CORE_2009__rc_shift5 (1743_MA0184.1_JASPAR_CORE_2009__rc)		0.784	0.457	1.466	0.108	0.877	1.494	0.893	233	199	287	257	238	191	217	231.714	277	; positions_8nt_m3 versus 1743_MA0184.1_JASPAR_CORE_2009__rc; m=74/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=231.714; -----YAATTAr---- ; cor=0.784; Ncor=0.457; logoDP=1.466; NIcor=0.108; NsEucl=0.877; SSD=1.494; NSW=0.893; rcor=233; rNcor=199; rlogoDP=287; rNIcor=257; rNsEucl=238; rSSD=191; rNSW=217; rank_mean=231.714; match_rank=277 a 0 0 0 0 0 0 19 20 0 2 20 6 0 0 0 0 c 0 0 0 0 0 6 1 0 0 0 0 3 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 t 0 0 0 0 0 14 0 0 20 18 0 2 0 0 0 0
1748_MA0189.1_JASPAR_CORE_2009__rc_shift5 (1748_MA0189.1_JASPAR_CORE_2009__rc)		0.766	0.447	1.647	0.163	0.880	1.418	0.899	289	230	284	235	215	175	196	232.000	279	; positions_8nt_m3 versus 1748_MA0189.1_JASPAR_CORE_2009__rc; m=75/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score= 232; -----TmATTAr---- ; cor=0.766; Ncor=0.447; logoDP=1.647; NIcor=0.163; NsEucl=0.880; SSD=1.418; NSW=0.899; rcor=289; rNcor=230; rlogoDP=284; rNIcor=235; rNsEucl=215; rSSD=175; rNSW=196; rank_mean=232.000; match_rank=279 a 0 0 0 0 0 0 22 41 1 0 40 17 0 0 0 0 c 0 0 0 0 0 9 16 1 0 0 0 6 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 15 0 0 0 0 t 0 0 0 0 0 34 5 1 42 43 3 5 0 0 0 0
1796_MA0238.1_JASPAR_CORE_2009__rc_shift5 (1796_MA0238.1_JASPAR_CORE_2009__rc)		0.787	0.459	1.927	0.164	0.873	1.575	0.888	221	194	260	234	261	218	250	234.000	281	; positions_8nt_m3 versus 1796_MA0238.1_JASPAR_CORE_2009__rc; m=76/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score= 234; -----TmATTAr---- ; cor=0.787; Ncor=0.459; logoDP=1.927; NIcor=0.164; NsEucl=0.873; SSD=1.575; NSW=0.888; rcor=221; rNcor=194; rlogoDP=260; rNIcor=234; rNsEucl=261; rSSD=218; rNSW=250; rank_mean=234.000; match_rank=281 a 0 0 0 0 0 0 13 24 0 0 24 11 0 0 0 0 c 0 0 0 0 0 0 11 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 t 0 0 0 0 0 24 0 0 24 24 0 4 0 0 0 0
1738_MA0179.1_JASPAR_CORE_2009__shift4 (1738_MA0179.1_JASPAR_CORE_2009_)		0.761	0.444	4.700	0.444	0.867	1.723	0.877	311	234	144	118	290	261	287	235.000	284	; positions_8nt_m3 versus 1738_MA0179.1_JASPAR_CORE_2009_; m=77/86; ncol2=7; w=7; offset=4; strand=D; shift=4; score= 235; ----yTAATTr----- ; cor=0.761; Ncor=0.444; logoDP=4.700; NIcor=0.444; NsEucl=0.867; SSD=1.723; NSW=0.877; rcor=311; rNcor=234; rlogoDP=144; rNIcor=118; rNsEucl=290; rSSD=261; rNSW=287; rank_mean=235.000; match_rank=284 a 0 0 0 0 2 0 23 23 0 0 12 0 0 0 0 0 c 0 0 0 0 6 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 2 0 0 0 0 2 10 0 0 0 0 0 t 0 0 0 0 13 23 0 0 23 21 1 0 0 0 0 0
1779_MA0220.1_JASPAR_CORE_2009__shift4 (1779_MA0220.1_JASPAR_CORE_2009_)		0.760	0.443	4.696	0.445	0.867	1.731	0.876	317	236	145	115	292	265	292	237.429	288	; positions_8nt_m3 versus 1779_MA0220.1_JASPAR_CORE_2009_; m=78/86; ncol2=7; w=7; offset=4; strand=D; shift=4; score=237.429; ----yTAATTr----- ; cor=0.760; Ncor=0.443; logoDP=4.696; NIcor=0.445; NsEucl=0.867; SSD=1.731; NSW=0.876; rcor=317; rNcor=236; rlogoDP=145; rNIcor=115; rNsEucl=292; rSSD=265; rNSW=292; rank_mean=237.429; match_rank=288 a 0 0 0 0 2 0 23 23 0 0 13 0 0 0 0 0 c 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 2 0 0 0 0 2 10 0 0 0 0 0 t 0 0 0 0 11 23 0 0 23 21 0 0 0 0 0 0
1740_MA0181.1_JASPAR_CORE_2009__rc_shift5 (1740_MA0181.1_JASPAR_CORE_2009__rc)		0.772	0.450	1.953	0.185	0.874	1.558	0.889	270	219	254	228	259	213	244	241.000	295	; positions_8nt_m3 versus 1740_MA0181.1_JASPAR_CORE_2009__rc; m=79/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score= 241; -----YAATTAr---- ; cor=0.772; Ncor=0.450; logoDP=1.953; NIcor=0.185; NsEucl=0.874; SSD=1.558; NSW=0.889; rcor=270; rNcor=219; rlogoDP=254; rNIcor=228; rNsEucl=259; rSSD=213; rNSW=244; rank_mean=241.000; match_rank=295 a 0 0 0 0 0 1 17 22 0 0 22 12 0 0 0 0 c 0 0 0 0 0 6 3 0 0 0 0 1 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 t 0 0 0 0 0 15 2 0 22 22 0 1 0 0 0 0
1808_MA0250.1_JASPAR_CORE_2009__shift4 (1808_MA0250.1_JASPAR_CORE_2009_)		0.757	0.442	4.781	0.432	0.864	1.810	0.871	326	239	140	127	302	274	308	245.143	301	; positions_8nt_m3 versus 1808_MA0250.1_JASPAR_CORE_2009_; m=80/86; ncol2=7; w=7; offset=4; strand=D; shift=4; score=245.143; ----tTAATTr----- ; cor=0.757; Ncor=0.442; logoDP=4.781; NIcor=0.432; NsEucl=0.864; SSD=1.810; NSW=0.871; rcor=326; rNcor=239; rlogoDP=140; rNIcor=127; rNsEucl=302; rSSD=274; rNSW=308; rank_mean=245.143; match_rank=301 a 0 0 0 0 1 0 21 21 0 1 6 0 0 0 0 0 c 0 0 0 0 5 0 0 0 0 0 1 0 0 0 0 0 g 0 0 0 0 2 0 0 0 0 0 14 0 0 0 0 0 t 0 0 0 0 13 21 0 0 21 20 0 0 0 0 0 0
1784_MA0226.1_JASPAR_CORE_2009__rc_shift5 (1784_MA0226.1_JASPAR_CORE_2009__rc)		0.772	0.450	1.959	0.183	0.869	1.682	0.880	269	218	252	232	283	246	278	254.000	310	; positions_8nt_m3 versus 1784_MA0226.1_JASPAR_CORE_2009__rc; m=81/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score= 254; -----yAATTAa---- ; cor=0.772; Ncor=0.450; logoDP=1.959; NIcor=0.183; NsEucl=0.869; SSD=1.682; NSW=0.880; rcor=269; rNcor=218; rlogoDP=252; rNIcor=232; rNsEucl=283; rSSD=246; rNSW=278; rank_mean=254.000; match_rank=310 a 0 0 0 0 0 1 17 17 0 0 17 11 0 0 0 0 c 0 0 0 0 0 7 0 0 0 0 0 2 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 t 0 0 0 0 0 9 0 0 17 17 0 2 0 0 0 0
1761_MA0202.1_JASPAR_CORE_2009__rc_shift5 (1761_MA0202.1_JASPAR_CORE_2009__rc)		0.769	0.449	1.895	0.131	0.868	1.712	0.878	276	225	263	252	286	255	284	263.000	320	; positions_8nt_m3 versus 1761_MA0202.1_JASPAR_CORE_2009__rc; m=82/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score= 263; -----yAATTAr---- ; cor=0.769; Ncor=0.449; logoDP=1.895; NIcor=0.131; NsEucl=0.868; SSD=1.712; NSW=0.878; rcor=276; rNcor=225; rlogoDP=263; rNIcor=252; rNsEucl=286; rSSD=255; rNSW=284; rank_mean=263.000; match_rank=320 a 0 0 0 0 0 0 27 27 0 0 27 11 0 0 0 0 c 0 0 0 0 0 10 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 13 0 0 0 0 t 0 0 0 0 0 17 0 0 27 27 0 3 0 0 0 0
1756_MA0197.1_JASPAR_CORE_2009__rc_shift5 (1756_MA0197.1_JASPAR_CORE_2009__rc)		0.762	0.410	0.461	-0.100	0.878	1.461	0.896	304	322	305	311	227	185	206	265.714	322	; positions_8nt_m3 versus 1756_MA0197.1_JASPAR_CORE_2009__rc; m=83/86; ncol2=8; w=7; offset=5; strand=R; shift=5; score=265.714; -----TmATTAwm--- ; cor=0.762; Ncor=0.410; logoDP=0.461; NIcor=-0.100; NsEucl=0.878; SSD=1.461; NSW=0.896; rcor=304; rNcor=322; rlogoDP=305; rNIcor=311; rNsEucl=227; rSSD=185; rNSW=206; rank_mean=265.714; match_rank=322 a 0 0 0 0 0 5 11 22 0 0 21 11 9 0 0 0 c 0 0 0 0 0 1 6 0 0 0 0 0 7 0 0 0 g 0 0 0 0 0 1 3 0 0 0 0 3 4 0 0 0 t 0 0 0 0 0 15 2 0 22 22 1 8 2 0 0 0
1786_MA0228.1_JASPAR_CORE_2009__rc_shift5 (1786_MA0228.1_JASPAR_CORE_2009__rc)		0.758	0.442	1.980	0.153	0.868	1.716	0.877	322	238	246	240	288	257	286	268.143	324	; positions_8nt_m3 versus 1786_MA0228.1_JASPAR_CORE_2009__rc; m=84/86; ncol2=7; w=7; offset=5; strand=R; shift=5; score=268.143; -----TmATTAr---- ; cor=0.758; Ncor=0.442; logoDP=1.980; NIcor=0.153; NsEucl=0.868; SSD=1.716; NSW=0.877; rcor=322; rNcor=238; rlogoDP=246; rNIcor=240; rNsEucl=288; rSSD=257; rNSW=286; rank_mean=268.143; match_rank=324 a 0 0 0 0 0 0 13 20 0 0 21 9 0 0 0 0 c 0 0 0 0 0 2 8 1 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 12 0 0 0 0 t 0 0 0 0 0 19 0 0 21 21 0 0 0 0 0 0
6026_1co0_A_3D-footprint_20130124__rc_shift1 (6026_1co0_A_3D-footprint_20130124__rc)		0.767	0.447	1.667	0.040	0.863	1.835	0.869	286	228	280	272	306	277	311	280.000	336	; positions_8nt_m3 versus 6026_1co0_A_3D-footprint_20130124__rc; m=85/86; ncol2=7; w=7; offset=1; strand=R; shift=1; score= 280; -ctGGTAC-------- ; cor=0.767; Ncor=0.447; logoDP=1.667; NIcor=0.040; NsEucl=0.863; SSD=1.835; NSW=0.869; rcor=286; rNcor=228; rlogoDP=280; rNIcor=272; rNsEucl=306; rSSD=277; rNSW=311; rank_mean=280.000; match_rank=336 a 0 13 13 0 0 0 96 0 0 0 0 0 0 0 0 0 c 0 54 13 0 0 0 0 96 0 0 0 0 0 0 0 0 g 0 16 13 96 96 0 0 0 0 0 0 0 0 0 0 0 t 0 13 57 0 0 96 0 0 0 0 0 0 0 0 0 0
1787_MA0229.1_JASPAR_CORE_2009__rc_shift5 (1787_MA0229.1_JASPAR_CORE_2009__rc)		0.772	0.416	0.671	-0.092	0.867	1.730	0.876	268	310	300	306	291	264	290	289.857	342	; positions_8nt_m3 versus 1787_MA0229.1_JASPAR_CORE_2009__rc; m=86/86; ncol2=8; w=7; offset=5; strand=R; shift=5; score=289.857; -----YAATTArw--- ; cor=0.772; Ncor=0.416; logoDP=0.671; NIcor=-0.092; NsEucl=0.867; SSD=1.730; NSW=0.876; rcor=268; rNcor=310; rlogoDP=300; rNIcor=306; rNsEucl=291; rSSD=264; rNSW=290; rank_mean=289.857; match_rank=342 a 0 0 0 0 0 0 16 16 0 0 16 6 9 0 0 0 c 0 0 0 0 0 5 0 0 0 0 0 0 3 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 9 0 0 0 0 t 0 0 0 0 0 11 0 0 16 16 0 1 4 0 0 0

One-to-n matrix alignment; reference matrix: dyads_m3_shift1 ; 60 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
dyads_m3_shift1 (dyads_m3)																		; dyads_m3; m=0 (reference); ncol1=11; shift=1; ncol=13; -bwtCCTGACnk- ; Alignment reference a 0 7 18 11 0 0 0 0 52 0 13 12 0 c 0 17 11 8 52 52 0 0 0 52 13 9 0 g 0 14 9 7 0 0 0 52 0 0 13 14 0 t 0 14 14 26 0 0 52 0 0 0 13 17 0
1785_MA0227.1_JASPAR_CORE_2009__shift6 (1785_MA0227.1_JASPAR_CORE_2009_)		0.902	0.492	7.693	0.494	0.901	0.701	0.942	39	140	42	64	97	47	60	69.857	26	; dyads_m3 versus 1785_MA0227.1_JASPAR_CORE_2009_; m=1/59; ncol2=6; w=6; offset=5; strand=D; shift=6; score=69.8571; ------TGACAk- ; cor=0.902; Ncor=0.492; logoDP=7.693; NIcor=0.494; NsEucl=0.901; SSD=0.701; NSW=0.942; rcor=39; rNcor=140; rlogoDP=42; rNIcor=64; rNsEucl=97; rSSD=47; rNSW=60; rank_mean=69.857; match_rank=26 a 0 0 0 0 0 0 0 0 17 0 14 0 0 c 0 0 0 0 0 0 0 0 0 17 0 0 0 g 0 0 0 0 0 0 0 17 0 0 3 8 0 t 0 0 0 0 0 0 17 0 0 0 0 4 0
6403_2c9l_Z_3D-footprint_20130124__shift6 (6403_2c9l_Z_3D-footprint_20130124_)		0.934	0.424	5.939	0.413	0.912	0.387	0.961	17	282	102	147	60	15	19	91.714	39	; dyads_m3 versus 6403_2c9l_Z_3D-footprint_20130124_; m=2/59; ncol2=5; w=5; offset=5; strand=D; shift=6; score=91.7143; ------TgACt-- ; cor=0.934; Ncor=0.424; logoDP=5.939; NIcor=0.413; NsEucl=0.912; SSD=0.387; NSW=0.961; rcor=17; rNcor=282; rlogoDP=102; rNIcor=147; rNsEucl=60; rSSD=15; rNSW=19; rank_mean=91.714; match_rank=39 a 0 0 0 0 0 0 0 16 96 0 16 0 0 c 0 0 0 0 0 0 0 13 0 96 13 0 0 g 0 0 0 0 0 0 0 54 0 0 13 0 0 t 0 0 0 0 0 0 96 13 0 0 54 0 0
1810_MA0252.1_JASPAR_CORE_2009__shift6 (1810_MA0252.1_JASPAR_CORE_2009_)		0.881	0.480	7.688	0.471	0.891	0.861	0.928	70	157	43	84	140	64	88	92.286	41	; dyads_m3 versus 1810_MA0252.1_JASPAR_CORE_2009_; m=3/59; ncol2=6; w=6; offset=5; strand=D; shift=6; score=92.2857; ------TGACAs- ; cor=0.881; Ncor=0.480; logoDP=7.688; NIcor=0.471; NsEucl=0.891; SSD=0.861; NSW=0.928; rcor=70; rNcor=157; rlogoDP=43; rNIcor=84; rNsEucl=140; rSSD=64; rNSW=88; rank_mean=92.286; match_rank=41 a 0 0 0 0 0 0 0 0 22 0 22 2 0 c 0 0 0 0 0 0 0 0 0 22 0 4 0 g 0 0 0 0 0 0 0 22 0 0 0 8 0 t 0 0 0 0 0 0 22 0 0 0 0 2 0
6291_1r0n_A_3D-footprint_20130124__shift6 (6291_1r0n_A_3D-footprint_20130124_)		0.930	0.423	5.339	0.414	0.910	0.406	0.959	20	284	118	146	68	19	22	96.714	47	; dyads_m3 versus 6291_1r0n_A_3D-footprint_20130124_; m=4/59; ncol2=5; w=5; offset=5; strand=D; shift=6; score=96.7143; ------TGaCc-- ; cor=0.930; Ncor=0.423; logoDP=5.339; NIcor=0.414; NsEucl=0.910; SSD=0.406; NSW=0.959; rcor=20; rNcor=284; rlogoDP=118; rNIcor=146; rNsEucl=68; rSSD=19; rNSW=22; rank_mean=96.714; match_rank=47 a 0 0 0 0 0 0 0 0 60 0 12 0 0 c 0 0 0 0 0 0 0 0 12 96 60 0 0 g 0 0 0 0 0 0 0 84 12 0 12 0 0 t 0 0 0 0 0 0 96 12 12 0 12 0 0
7677_TGIF1_si_HOCOMOCO_v9__shift6 (7677_TGIF1_si_HOCOMOCO_v9_)		0.874	0.477	7.265	0.464	0.889	0.889	0.926	81	163	51	92	153	66	94	100.000	50	; dyads_m3 versus 7677_TGIF1_si_HOCOMOCO_v9_; m=5/59; ncol2=6; w=6; offset=5; strand=D; shift=6; score= 100; ------TGACAg- ; cor=0.874; Ncor=0.477; logoDP=7.265; NIcor=0.464; NsEucl=0.889; SSD=0.889; NSW=0.926; rcor=81; rNcor=163; rlogoDP=51; rNIcor=92; rNsEucl=153; rSSD=66; rNSW=94; rank_mean=100.000; match_rank=50 a 0 0 0 0 0 0 0 0 16 0 16 3 0 c 0 0 0 0 0 0 0 1 0 16 0 2 0 g 0 0 0 0 0 0 0 15 0 0 0 9 0 t 0 0 0 0 0 0 16 0 0 0 0 2 0
6477_2nny_A_3D-footprint_20130124__shift1 (6477_2nny_A_3D-footprint_20130124_)		0.867	0.473	4.762	0.450	0.896	0.776	0.935	85	167	141	108	115	57	73	106.571	57	; dyads_m3 versus 6477_2nny_A_3D-footprint_20130124_; m=6/59; ncol2=6; w=6; offset=0; strand=D; shift=1; score=106.571; -cTTCCT------ ; cor=0.867; Ncor=0.473; logoDP=4.762; NIcor=0.450; NsEucl=0.896; SSD=0.776; NSW=0.935; rcor=85; rNcor=167; rlogoDP=141; rNIcor=108; rNsEucl=115; rSSD=57; rNSW=73; rank_mean=106.571; match_rank=57 a 0 9 20 0 0 0 9 0 0 0 0 0 0 c 0 59 0 0 96 96 0 0 0 0 0 0 0 g 0 9 9 0 0 0 11 0 0 0 0 0 0 t 0 19 67 96 0 0 76 0 0 0 0 0 0
2703_PF0016.1_JASPAR_CORE_2009__shift0 (2703_PF0016.1_JASPAR_CORE_2009_)		0.861	0.502	7.816	0.483	0.887	1.247	0.911	92	122	38	74	164	123	134	106.714	58	; dyads_m3 versus 2703_PF0016.1_JASPAR_CORE_2009_; m=7/59; ncol2=8; w=7; offset=-1; strand=D; shift=0; score=106.714; ryTTCCTG----- ; cor=0.861; Ncor=0.502; logoDP=7.816; NIcor=0.483; NsEucl=0.887; SSD=1.247; NSW=0.911; rcor=92; rNcor=122; rlogoDP=38; rNIcor=74; rNsEucl=164; rSSD=123; rNSW=134; rank_mean=106.714; match_rank=58 a 2493 0 0 0 0 0 0 0 0 0 0 0 0 c 0 2704 0 0 4512 4512 0 0 0 0 0 0 0 g 2019 0 0 0 0 0 0 4512 0 0 0 0 0 t 0 1808 4512 4512 0 0 4512 0 0 0 0 0 0
7306_ATF3_f1_HOCOMOCO_v9__shift6 (7306_ATF3_f1_HOCOMOCO_v9_)		0.895	0.413	5.654	0.423	0.908	0.612	0.949	49	317	112	137	75	38	39	109.571	61	; dyads_m3 versus 7306_ATF3_f1_HOCOMOCO_v9_; m=8/59; ncol2=8; w=6; offset=5; strand=D; shift=6; score=109.571; ------TGAykym ; cor=0.895; Ncor=0.413; logoDP=5.654; NIcor=0.423; NsEucl=0.908; SSD=0.612; NSW=0.949; rcor=49; rNcor=317; rlogoDP=112; rNIcor=137; rNsEucl=75; rSSD=38; rNSW=39; rank_mean=109.571; match_rank=61 a 0 0 0 0 0 0 15 3 1972 13 54 109 680 c 0 0 0 0 0 0 9 18 15 1319 129 1024 892 g 0 0 0 0 0 0 12 2011 9 138 1121 26 259 t 0 0 0 0 0 0 2000 4 40 566 732 877 205
5025_HVH21_Athamap_20091028__shift2 (5025_HVH21_Athamap_20091028_)		0.787	0.606	6.270	0.609	0.906	1.757	0.912	219	25	83	9	79	268	129	116.000	73	; dyads_m3 versus 5025_HVH21_Athamap_20091028_; m=9/59; ncol2=12; w=10; offset=1; strand=D; shift=2; score= 116; --bmysTGACrgg ; cor=0.787; Ncor=0.606; logoDP=6.270; NIcor=0.609; NsEucl=0.906; SSD=1.757; NSW=0.912; rcor=219; rNcor=25; rlogoDP=83; rNIcor=9; rNsEucl=79; rSSD=268; rNSW=129; rank_mean=116.000; match_rank=73 a 0 0 3 14 5 4 0 1 37 1 15 4 9 c 0 0 12 11 12 14 3 1 0 35 8 8 6 g 0 0 11 9 7 16 1 35 0 0 13 18 13 t 0 0 11 3 13 3 33 0 0 1 1 7 9
1766_MA0207.1_JASPAR_CORE_2009__shift6 (1766_MA0207.1_JASPAR_CORE_2009_)		0.862	0.470	7.371	0.456	0.881	1.021	0.915	89	170	47	102	207	80	123	116.857	74	; dyads_m3 versus 1766_MA0207.1_JASPAR_CORE_2009_; m=10/59; ncol2=6; w=6; offset=5; strand=D; shift=6; score=116.857; ------TGACAG- ; cor=0.862; Ncor=0.470; logoDP=7.371; NIcor=0.456; NsEucl=0.881; SSD=1.021; NSW=0.915; rcor=89; rNcor=170; rlogoDP=47; rNIcor=102; rNsEucl=207; rSSD=80; rNSW=123; rank_mean=116.857; match_rank=74 a 0 0 0 0 0 0 0 0 23 0 23 3 0 c 0 0 0 0 0 0 0 0 0 22 0 0 0 g 0 0 0 0 0 0 0 23 0 0 0 12 0 t 0 0 0 0 0 0 23 0 0 1 0 2 0
6562_3dzu_A_3D-footprint_20130124__shift6 (6562_3dzu_A_3D-footprint_20130124_)		0.906	0.412	4.328	0.399	0.896	0.540	0.946	37	320	160	160	116	31	46	124.286	81	; dyads_m3 versus 6562_3dzu_A_3D-footprint_20130124_; m=11/59; ncol2=5; w=5; offset=5; strand=D; shift=6; score=124.286; ------TGACC-- ; cor=0.906; Ncor=0.412; logoDP=4.328; NIcor=0.399; NsEucl=0.896; SSD=0.540; NSW=0.946; rcor=37; rNcor=320; rlogoDP=160; rNIcor=160; rNsEucl=116; rSSD=31; rNSW=46; rank_mean=124.286; match_rank=81 a 0 0 0 0 0 0 0 8 69 0 8 0 0 c 0 0 0 0 0 0 0 8 11 96 72 0 0 g 0 0 0 0 0 0 9 72 8 0 8 0 0 t 0 0 0 0 0 0 87 8 8 0 8 0 0
5102_SigH_1_DBTBS_1.0__rc_shift0 (5102_SigH_1_DBTBS_1.0__rc)		0.907	0.453	0.959	0.037	0.917	0.501	0.958	36	212	295	273	47	27	25	130.714	88	; dyads_m3 versus 5102_SigH_1_DBTBS_1.0__rc; m=12/59; ncol2=7; w=6; offset=-1; strand=R; shift=0; score=130.714; AwhTCCT------ ; cor=0.907; Ncor=0.453; logoDP=0.959; NIcor=0.037; NsEucl=0.917; SSD=0.501; NSW=0.958; rcor=36; rNcor=212; rlogoDP=295; rNIcor=273; rNsEucl=47; rSSD=27; rNSW=25; rank_mean=130.714; match_rank=88 a 0.81 0.49 0.33 0 0 0 0 0 0 0 0 0 0 c 0.05 0.06 0.32 0.23 1 0.94 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0.13 0.45 0.36 0.77 0 0.06 1 0 0 0 0 0 0
6695_3ri4_A_3D-footprint_20130124__rc_shift1 (6695_3ri4_A_3D-footprint_20130124__rc)		0.923	0.503	0.136	-0.154	0.916	0.507	0.958	25	121	335	343	49	28	26	132.429	92	; dyads_m3 versus 6695_3ri4_A_3D-footprint_20130124__rc; m=13/59; ncol2=6; w=6; offset=0; strand=R; shift=1; score=132.429; -caTCCT------ ; cor=0.923; Ncor=0.503; logoDP=0.136; NIcor=-0.154; NsEucl=0.916; SSD=0.507; NSW=0.958; rcor=25; rNcor=121; rlogoDP=335; rNIcor=343; rNsEucl=49; rSSD=28; rNSW=26; rank_mean=132.429; match_rank=92 a 0 13 57 0 0 0 0 0 0 0 0 0 0 c 0 54 13 0 96 96 0 0 0 0 0 0 0 g 0 13 13 0 0 0 0 0 0 0 0 0 0 t 0 16 13 96 0 0 96 0 0 0 0 0 0
328_RAV1_2__Athamap_20091028__shift0 (328_RAV1_2__Athamap_20091028_)		0.757	0.694	6.923	0.676	0.908	2.039	0.907	330	10	60	5	74	309	146	133.429	94	; dyads_m3 versus 328_RAV1_2__Athamap_20091028_; m=14/59; ncol2=12; w=11; offset=-1; strand=D; shift=0; score=133.429; wtCaCCTGrssy- ; cor=0.757; Ncor=0.694; logoDP=6.923; NIcor=0.676; NsEucl=0.908; SSD=2.039; NSW=0.907; rcor=330; rNcor=10; rlogoDP=60; rNIcor=5; rNsEucl=74; rSSD=309; rNSW=146; rank_mean=133.429; match_rank=94 a 22 13 8 40 1 0 0 0 24 12 12 8 0 c 12 15 49 6 56 65 0 0 7 15 14 20 0 g 10 8 1 8 3 0 0 58 19 18 16 5 0 t 18 28 7 11 5 0 65 0 5 9 10 13 0
6038_1dh3_AC_3D-footprint_20130124__shift6 (6038_1dh3_AC_3D-footprint_20130124_)		0.870	0.401	6.725	0.387	0.891	0.849	0.929	83	349	69	178	137	62	85	137.571	103	; dyads_m3 versus 6038_1dh3_AC_3D-footprint_20130124_; m=15/59; ncol2=8; w=6; offset=5; strand=D; shift=6; score=137.571; ------TGACGnc ; cor=0.870; Ncor=0.401; logoDP=6.725; NIcor=0.387; NsEucl=0.891; SSD=0.849; NSW=0.929; rcor=83; rNcor=349; rlogoDP=69; rNIcor=178; rNsEucl=137; rSSD=62; rNSW=85; rank_mean=137.571; match_rank=103 a 0 0 0 0 0 0 0 0 96 0 0 24 20 c 0 0 0 0 0 0 0 0 0 76 0 24 38 g 0 0 0 0 0 0 0 96 0 20 96 24 19 t 0 0 0 0 0 0 96 0 0 0 0 24 19
5520_MEIS1_DBD_HumanTF_1.0__shift5 (5520_MEIS1_DBD_HumanTF_1.0_)		0.805	0.512	5.969	0.493	0.882	1.363	0.903	177	106	97	66	199	164	175	140.571	107	; dyads_m3 versus 5520_MEIS1_DBD_HumanTF_1.0_; m=16/59; ncol2=7; w=7; offset=4; strand=D; shift=5; score=140.571; -----wTGACAg- ; cor=0.805; Ncor=0.512; logoDP=5.969; NIcor=0.493; NsEucl=0.882; SSD=1.363; NSW=0.903; rcor=177; rNcor=106; rlogoDP=97; rNIcor=66; rNsEucl=199; rSSD=164; rNSW=175; rank_mean=140.571; match_rank=107 a 0 0 0 0 0 23727 8690 0 77159 0 77159 17224 0 c 0 0 0 0 0 18797 5575 1249 2903 77159 0 14864 0 g 0 0 0 0 0 9714 3174 77159 672 0 9263 29965 0 t 0 0 0 0 0 24921 77159 0 0 1155 3861 15106 0
2661_MF0002.1_JASPAR_CORE_2009__shift6 (2661_MF0002.1_JASPAR_CORE_2009_)		0.844	0.460	6.980	0.440	0.872	1.180	0.902	113	190	55	121	271	113	179	148.857	125	; dyads_m3 versus 2661_MF0002.1_JASPAR_CORE_2009_; m=17/59; ncol2=6; w=6; offset=5; strand=D; shift=6; score=148.857; ------TGACGT- ; cor=0.844; Ncor=0.460; logoDP=6.980; NIcor=0.440; NsEucl=0.872; SSD=1.180; NSW=0.902; rcor=113; rNcor=190; rlogoDP=55; rNIcor=121; rNsEucl=271; rSSD=113; rNSW=179; rank_mean=148.857; match_rank=125 a 0 0 0 0 0 0 0 0.74 100 0 0 2.06 0 c 0 0 0 0 0 0 0 0 0 94.06 0 10.32 0 g 0 0 0 0 0 0 0 96.97 0 1.48 100 0 0 t 0 0 0 0 0 0 100 2.29 0 4.46 0 87.61 0
6353_1yo5_C_3D-footprint_20130124__rc_shift2 (6353_1yo5_C_3D-footprint_20130124__rc)		0.907	0.412	0.161	-0.111	0.907	0.433	0.957	35	319	333	316	78	21	27	161.286	140	; dyads_m3 versus 6353_1yo5_C_3D-footprint_20130124__rc; m=18/59; ncol2=5; w=5; offset=1; strand=R; shift=2; score=161.286; --TTCCT------ ; cor=0.907; Ncor=0.412; logoDP=0.161; NIcor=-0.111; NsEucl=0.907; SSD=0.433; NSW=0.957; rcor=35; rNcor=319; rlogoDP=333; rNIcor=316; rNsEucl=78; rSSD=21; rNSW=27; rank_mean=161.286; match_rank=140 a 0 0 11 11 0 0 9 0 0 0 0 0 0 c 0 0 9 9 96 96 9 0 0 0 0 0 0 g 0 0 9 9 0 0 11 0 0 0 0 0 0 t 0 0 67 67 0 0 67 0 0 0 0 0 0
6590_3g97_A_3D-footprint_20130124__rc_shift1 (6590_3g97_A_3D-footprint_20130124__rc)		0.881	0.400	0.210	0.032	0.910	0.406	0.959	71	352	328	275	69	20	23	162.571	145	; dyads_m3 versus 6590_3g97_A_3D-footprint_20130124__rc; m=19/59; ncol2=5; w=5; offset=0; strand=R; shift=1; score=162.571; -gnaCC------- ; cor=0.881; Ncor=0.400; logoDP=0.210; NIcor=0.032; NsEucl=0.910; SSD=0.406; NSW=0.959; rcor=71; rNcor=352; rlogoDP=328; rNIcor=275; rNsEucl=69; rSSD=20; rNSW=23; rank_mean=162.571; match_rank=145 a 0 13 24 54 0 0 0 0 0 0 0 0 0 c 0 13 24 16 96 96 0 0 0 0 0 0 0 g 0 54 24 13 0 0 0 0 0 0 0 0 0 t 0 16 24 13 0 0 0 0 0 0 0 0 0
5557_Meis2_DBD_1_HumanTF_1.0__shift5 (5557_Meis2_DBD_1_HumanTF_1.0_)		0.787	0.501	6.750	0.483	0.875	1.531	0.891	220	126	67	73	247	204	233	167.143	152	; dyads_m3 versus 5557_Meis2_DBD_1_HumanTF_1.0_; m=20/59; ncol2=7; w=7; offset=4; strand=D; shift=5; score=167.143; -----wTGACAg- ; cor=0.787; Ncor=0.501; logoDP=6.750; NIcor=0.483; NsEucl=0.875; SSD=1.531; NSW=0.891; rcor=220; rNcor=126; rlogoDP=67; rNIcor=73; rNsEucl=247; rSSD=204; rNSW=233; rank_mean=167.143; match_rank=152 a 0 0 0 0 0 3191 1106 0 11413 0 11413 2014 0 c 0 0 0 0 0 2302 563 0 0 11413 33 1878 0 g 0 0 0 0 0 1764 260 11413 0 0 874 5578 0 t 0 0 0 0 0 4156 11413 0 0 21 458 1943 0
6117_1hlz_A_3D-footprint_20130124__shift6 (6117_1hlz_A_3D-footprint_20130124_)		0.810	0.442	4.810	0.406	0.873	1.170	0.902	167	240	138	151	267	108	176	178.143	171	; dyads_m3 versus 6117_1hlz_A_3D-footprint_20130124_; m=21/59; ncol2=6; w=6; offset=5; strand=D; shift=6; score=178.143; ------TGACCT- ; cor=0.810; Ncor=0.442; logoDP=4.810; NIcor=0.406; NsEucl=0.873; SSD=1.170; NSW=0.902; rcor=167; rNcor=240; rlogoDP=138; rNIcor=151; rNsEucl=267; rSSD=108; rNSW=176; rank_mean=178.143; match_rank=171 a 0 0 0 0 0 0 0 9 69 0 0 9 0 c 0 0 0 0 0 0 0 9 9 96 96 9 0 g 0 0 0 0 0 0 0 69 9 0 0 9 0 t 0 0 0 0 0 0 96 9 9 0 0 69 0
5559_Meis3_DBD_1_HumanTF_1.0__shift5 (5559_Meis3_DBD_1_HumanTF_1.0_)		0.778	0.495	5.733	0.476	0.875	1.537	0.890	252	135	111	79	250	206	236	181.286	178	; dyads_m3 versus 5559_Meis3_DBD_1_HumanTF_1.0_; m=22/59; ncol2=7; w=7; offset=4; strand=D; shift=5; score=181.286; -----tTGACAg- ; cor=0.778; Ncor=0.495; logoDP=5.733; NIcor=0.476; NsEucl=0.875; SSD=1.537; NSW=0.890; rcor=252; rNcor=135; rlogoDP=111; rNIcor=79; rNsEucl=250; rSSD=206; rNSW=236; rank_mean=181.286; match_rank=178 a 0 0 0 0 0 1199 455 0 4901 0 4901 814 0 c 0 0 0 0 0 1028 539 0 450 4901 0 881 0 g 0 0 0 0 0 844 478 4901 40 44 682 2421 0 t 0 0 0 0 0 1829 4901 0 0 0 76 785 0
5047_ZmHOX2a_1__Athamap_20091028__shift2 (5047_ZmHOX2a_1__Athamap_20091028_)		0.781	0.497	6.083	0.458	0.873	1.578	0.887	243	131	91	98	265	220	251	185.571	185	; dyads_m3 versus 5047_ZmHOX2a_1__Athamap_20091028_; m=23/59; ncol2=7; w=7; offset=1; strand=D; shift=2; score=185.571; --rTCCTaa---- ; cor=0.781; Ncor=0.497; logoDP=6.083; NIcor=0.458; NsEucl=0.873; SSD=1.578; NSW=0.887; rcor=243; rNcor=131; rlogoDP=91; rNIcor=98; rNsEucl=265; rSSD=220; rNSW=251; rank_mean=185.571; match_rank=185 a 0 0 11 0 0 0 0 17 21 0 0 0 0 c 0 0 4 0 38 38 0 7 6 0 0 0 0 g 0 0 16 0 0 0 0 8 3 0 0 0 0 t 0 0 7 38 0 0 38 6 8 0 0 0 0
2663_MF0004.1_JASPAR_CORE_2009__rc_shift6 (2663_MF0004.1_JASPAR_CORE_2009__rc)		0.823	0.449	1.215	0.029	0.884	0.972	0.919	150	224	294	277	189	79	116	189.857	194	; dyads_m3 versus 2663_MF0004.1_JASPAR_CORE_2009__rc; m=24/59; ncol2=6; w=6; offset=5; strand=R; shift=6; score=189.857; ------TGACCy- ; cor=0.823; Ncor=0.449; logoDP=1.215; NIcor=0.029; NsEucl=0.884; SSD=0.972; NSW=0.919; rcor=150; rNcor=224; rlogoDP=294; rNIcor=277; rNsEucl=189; rSSD=79; rNSW=116; rank_mean=189.857; match_rank=194 a 0 0 0 0 0 0 1.63 5.04 73.94 11.99 9.52 10.53 0 c 0 0 0 0 0 0 6.62 4.08 6.77 80.06 86.63 37.1 0 g 0 0 0 0 0 0 17.39 77.72 4.74 2.36 0.69 3.5 0 t 0 0 0 0 0 0 74.36 13.16 14.55 5.58 3.16 48.87 0
6425_2ff0_A_3D-footprint_20130124__shift0 (6425_2ff0_A_3D-footprint_20130124_)		0.768	0.512	8.005	0.494	0.875	2.011	0.874	284	107	34	65	253	306	301	192.857	200	; dyads_m3 versus 6425_2ff0_A_3D-footprint_20130124_; m=25/59; ncol2=9; w=8; offset=-1; strand=D; shift=0; score=192.857; TGgCCCtGA---- ; cor=0.768; Ncor=0.512; logoDP=8.005; NIcor=0.494; NsEucl=0.875; SSD=2.011; NSW=0.874; rcor=284; rNcor=107; rlogoDP=34; rNIcor=65; rNsEucl=253; rSSD=306; rNSW=301; rank_mean=192.857; match_rank=200 a 0 0 12 0 0 0 12 0 96 0 0 0 0 c 0 0 12 96 96 96 12 0 0 0 0 0 0 g 0 84 60 0 0 0 12 96 0 0 0 0 0 t 96 12 12 0 0 0 60 0 0 0 0 0 0
2729_PF0042.1_JASPAR_CORE_2009__shift6 (2729_PF0042.1_JASPAR_CORE_2009_)		0.836	0.418	7.699	0.395	0.863	1.359	0.887	129	301	40	169	309	159	256	194.714	203	; dyads_m3 versus 2729_PF0042.1_JASPAR_CORE_2009_; m=26/59; ncol2=7; w=6; offset=5; strand=D; shift=6; score=194.714; ------TGACATy ; cor=0.836; Ncor=0.418; logoDP=7.699; NIcor=0.395; NsEucl=0.863; SSD=1.359; NSW=0.887; rcor=129; rNcor=301; rlogoDP=40; rNIcor=169; rNsEucl=309; rSSD=159; rNSW=256; rank_mean=194.714; match_rank=203 a 0 0 0 0 0 0 0 0 2500 0 2500 0 0 c 0 0 0 0 0 0 0 0 0 2500 0 0 1416 g 0 0 0 0 0 0 0 2500 0 0 0 0 0 t 0 0 0 0 0 0 2500 0 0 0 0 2500 1084
2712_PF0025.1_JASPAR_CORE_2009__shift6 (2712_PF0025.1_JASPAR_CORE_2009_)		0.836	0.418	7.699	0.395	0.863	1.359	0.887	129	301	40	169	309	159	256	194.714	204	; dyads_m3 versus 2712_PF0025.1_JASPAR_CORE_2009_; m=27/59; ncol2=7; w=6; offset=5; strand=D; shift=6; score=194.714; ------TGACCTy ; cor=0.836; Ncor=0.418; logoDP=7.699; NIcor=0.395; NsEucl=0.863; SSD=1.359; NSW=0.887; rcor=129; rNcor=301; rlogoDP=40; rNIcor=169; rNsEucl=309; rSSD=159; rNSW=256; rank_mean=194.714; match_rank=204 a 0 0 0 0 0 0 0 0 3728 0 0 0 0 c 0 0 0 0 0 0 0 0 0 3728 3728 0 1530 g 0 0 0 0 0 0 0 3728 0 0 0 0 0 t 0 0 0 0 0 0 3728 0 0 0 0 3728 2198
6405_2c9n_YZ_3D-footprint_20130124__shift6 (6405_2c9n_YZ_3D-footprint_20130124_)		0.813	0.406	6.197	0.388	0.869	1.244	0.896	162	334	85	175	284	122	205	195.286	205	; dyads_m3 versus 6405_2c9n_YZ_3D-footprint_20130124_; m=28/59; ncol2=7; w=6; offset=5; strand=D; shift=6; score=195.286; ------TGACTCA ; cor=0.813; Ncor=0.406; logoDP=6.197; NIcor=0.388; NsEucl=0.869; SSD=1.244; NSW=0.896; rcor=162; rNcor=334; rlogoDP=85; rNIcor=175; rNsEucl=284; rSSD=122; rNSW=205; rank_mean=195.286; match_rank=205 a 0 0 0 0 0 0 0 9 96 0 0 9 67 c 0 0 0 0 0 0 0 11 0 96 0 67 9 g 0 0 0 0 0 0 0 67 0 0 0 11 11 t 0 0 0 0 0 0 96 9 0 0 96 9 9
7587_PPARA_f1_HOCOMOCO_v9__rc_shift6 (7587_PPARA_f1_HOCOMOCO_v9__rc)		0.832	0.454	1.994	0.020	0.875	1.131	0.906	140	210	244	281	254	98	155	197.429	209	; dyads_m3 versus 7587_PPARA_f1_HOCOMOCO_v9__rc; m=29/59; ncol2=6; w=6; offset=5; strand=R; shift=6; score=197.429; ------TGACCT- ; cor=0.832; Ncor=0.454; logoDP=1.994; NIcor=0.020; NsEucl=0.875; SSD=1.131; NSW=0.906; rcor=140; rNcor=210; rlogoDP=244; rNIcor=281; rNsEucl=254; rSSD=98; rNSW=155; rank_mean=197.429; match_rank=209 a 0 0 0 0 0 0 7 1 103 7 0 2 0 c 0 0 0 0 0 0 7 0 4 105 114 20 0 g 0 0 0 0 0 0 0 112 4 2 0 1 0 t 0 0 0 0 0 0 100 1 3 0 0 91 0
6402_2c9l_YZ_3D-footprint_20130124__shift6 (6402_2c9l_YZ_3D-footprint_20130124_)		0.807	0.403	5.940	0.381	0.870	1.216	0.899	172	340	101	184	281	121	197	199.429	213	; dyads_m3 versus 6402_2c9l_YZ_3D-footprint_20130124_; m=30/59; ncol2=7; w=6; offset=5; strand=D; shift=6; score=199.429; ------TgACTcA ; cor=0.807; Ncor=0.403; logoDP=5.940; NIcor=0.381; NsEucl=0.870; SSD=1.216; NSW=0.899; rcor=172; rNcor=340; rlogoDP=101; rNIcor=184; rNsEucl=281; rSSD=121; rNSW=197; rank_mean=199.429; match_rank=213 a 0 0 0 0 0 0 0 13 96 0 0 16 96 c 0 0 0 0 0 0 0 16 0 96 0 54 0 g 0 0 0 0 0 0 0 54 0 0 0 13 0 t 0 0 0 0 0 0 96 13 0 0 96 13 0
2487_MA0098.1_JASPAR_CORE_2009__shift1 (2487_MA0098.1_JASPAR_CORE_2009_)		0.772	0.421	3.641	0.389	0.875	1.127	0.906	273	288	187	174	249	97	153	203.000	219	; dyads_m3 versus 2487_MA0098.1_JASPAR_CORE_2009_; m=31/59; ncol2=6; w=6; offset=0; strand=D; shift=1; score= 203; -ywTCCk------ ; cor=0.772; Ncor=0.421; logoDP=3.641; NIcor=0.389; NsEucl=0.875; SSD=1.127; NSW=0.906; rcor=273; rNcor=288; rlogoDP=187; rNIcor=174; rNsEucl=249; rSSD=97; rNSW=153; rank_mean=203.000; match_rank=219 a 0 4 17 0 0 0 5 0 0 0 0 0 0 c 0 16 0 1 39 39 3 0 0 0 0 0 0 g 0 4 0 0 1 0 17 0 0 0 0 0 0 t 0 16 23 39 0 1 15 0 0 0 0 0 0
6062_1fos_EF_3D-footprint_20130124__rc_shift6 (6062_1fos_EF_3D-footprint_20130124__rc)		0.810	0.405	1.749	0.199	0.880	1.037	0.914	165	336	275	224	213	83	126	203.143	221	; dyads_m3 versus 6062_1fos_EF_3D-footprint_20130124__rc; m=32/59; ncol2=7; w=6; offset=5; strand=R; shift=6; score=203.143; ------TgACTca ; cor=0.810; Ncor=0.405; logoDP=1.749; NIcor=0.199; NsEucl=0.880; SSD=1.037; NSW=0.914; rcor=165; rNcor=336; rlogoDP=275; rNIcor=224; rNsEucl=213; rSSD=83; rNSW=126; rank_mean=203.143; match_rank=221 a 0 0 0 0 0 0 7 13 72 2 3 21 65 c 0 0 0 0 0 0 7 14 10 78 4 33 11 g 0 0 0 0 0 0 6 56 7 16 3 21 10 t 0 0 0 0 0 0 76 13 7 0 86 21 10
2485_MA0096.1_JASPAR_CORE_2009__shift5 (2485_MA0096.1_JASPAR_CORE_2009_)		0.779	0.496	7.926	0.452	0.861	1.889	0.865	246	133	36	106	316	287	320	206.286	230	; dyads_m3 versus 2485_MA0096.1_JASPAR_CORE_2009_; m=33/59; ncol2=7; w=7; offset=4; strand=D; shift=5; score=206.286; -----mTGACGT- ; cor=0.779; Ncor=0.496; logoDP=7.926; NIcor=0.452; NsEucl=0.861; SSD=1.889; NSW=0.865; rcor=246; rNcor=133; rlogoDP=36; rNIcor=106; rNsEucl=316; rSSD=287; rNSW=320; rank_mean=206.286; match_rank=230 a 0 0 0 0 0 15 0 0 35 0 0 0 0 c 0 0 0 0 0 15 0 0 0 35 0 0 0 g 0 0 0 0 0 5 0 35 0 0 35 0 0 t 0 0 0 0 0 0 35 0 0 0 0 35 0
7381_FOSB_f1_HOCOMOCO_v9__rc_shift5 (7381_FOSB_f1_HOCOMOCO_v9__rc)		0.792	0.427	3.681	0.232	0.877	1.475	0.895	207	276	185	217	233	188	210	216.571	248	; dyads_m3 versus 7381_FOSB_f1_HOCOMOCO_v9__rc; m=34/59; ncol2=9; w=7; offset=4; strand=R; shift=5; score=216.571; -----MTGACTCA ; cor=0.792; Ncor=0.427; logoDP=3.681; NIcor=0.232; NsEucl=0.877; SSD=1.475; NSW=0.895; rcor=207; rNcor=276; rlogoDP=185; rNIcor=217; rNsEucl=233; rSSD=188; rNSW=210; rank_mean=216.571; match_rank=248 a 0 0 0 0 0 5 1 1 19 3 2 2 19 c 0 0 0 0 0 14 0 0 0 15 1 17 0 g 0 0 0 0 0 1 0 15 0 1 0 1 1 t 0 0 0 0 0 0 19 4 1 1 17 0 0
2602_MA0364.1_JASPAR_CORE_2009__shift2 (2602_MA0364.1_JASPAR_CORE_2009_)		0.764	0.486	7.566	0.462	0.859	1.946	0.861	295	149	46	95	321	297	330	219.000	251	; dyads_m3 versus 2602_MA0364.1_JASPAR_CORE_2009_; m=35/59; ncol2=7; w=7; offset=1; strand=D; shift=2; score= 219; --CCCCTGa---- ; cor=0.764; Ncor=0.486; logoDP=7.566; NIcor=0.462; NsEucl=0.859; SSD=1.946; NSW=0.861; rcor=295; rNcor=149; rlogoDP=46; rNIcor=95; rNsEucl=321; rSSD=297; rNSW=330; rank_mean=219.000; match_rank=251 a 0 0 0 5 0 0 0 0 56 0 0 0 0 c 0 0 95 95 100 100 0 0 8 0 0 0 0 g 0 0 0 0 0 0 0 95 23 0 0 0 0 t 0 0 5 0 0 0 100 5 13 0 0 0 0
1696_MA0129.1_JASPAR_CORE_2009__rc_shift6 (1696_MA0129.1_JASPAR_CORE_2009__rc)		0.835	0.418	0.300	-0.095	0.876	1.099	0.908	133	305	317	310	239	95	142	220.143	255	; dyads_m3 versus 1696_MA0129.1_JASPAR_CORE_2009__rc; m=36/59; ncol2=7; w=6; offset=5; strand=R; shift=6; score=220.143; ------TGACGTd ; cor=0.835; Ncor=0.418; logoDP=0.300; NIcor=-0.095; NsEucl=0.876; SSD=1.099; NSW=0.908; rcor=133; rNcor=305; rlogoDP=317; rNIcor=310; rNsEucl=239; rSSD=95; rNSW=142; rank_mean=220.143; match_rank=255 a 0 0 0 0 0 0 1 0 14 0 1 1 7 c 0 0 0 0 0 0 1 0 0 13 0 1 0 g 0 0 0 0 0 0 0 15 0 0 14 0 4 t 0 0 0 0 0 0 13 0 1 2 0 13 4
7604_RARG_f1_HOCOMOCO_v9__rc_shift6 (7604_RARG_f1_HOCOMOCO_v9__rc)		0.815	0.445	1.928	0.024	0.868	1.256	0.895	157	232	259	280	285	125	207	220.714	256	; dyads_m3 versus 7604_RARG_f1_HOCOMOCO_v9__rc; m=37/59; ncol2=6; w=6; offset=5; strand=R; shift=6; score=220.714; ------TGAMCT- ; cor=0.815; Ncor=0.445; logoDP=1.928; NIcor=0.024; NsEucl=0.868; SSD=1.256; NSW=0.895; rcor=157; rNcor=232; rlogoDP=259; rNIcor=280; rNsEucl=285; rSSD=125; rNSW=207; rank_mean=220.714; match_rank=256 a 0 0 0 0 0 0 0 0 29 8 0 0 0 c 0 0 0 0 0 0 0 0 0 21 29 6 0 g 0 0 0 0 0 0 2 29 0 0 0 0 0 t 0 0 0 0 0 0 27 0 0 0 0 23 0
6152_1jnm_B_3D-footprint_20130124__rc_shift5 (6152_1jnm_B_3D-footprint_20130124__rc)		0.832	0.454	0.120	-0.095	0.872	1.188	0.901	141	211	339	309	275	114	182	224.429	261	; dyads_m3 versus 6152_1jnm_B_3D-footprint_20130124__rc; m=38/59; ncol2=6; w=6; offset=4; strand=R; shift=5; score=224.429; -----rTGACs-- ; cor=0.832; Ncor=0.454; logoDP=0.120; NIcor=-0.095; NsEucl=0.872; SSD=1.188; NSW=0.901; rcor=141; rNcor=211; rlogoDP=339; rNIcor=309; rNsEucl=275; rSSD=114; rNSW=182; rank_mean=224.429; match_rank=261 a 0 0 0 0 0 48 0 0 96 0 12 0 0 c 0 0 0 0 0 12 0 0 0 96 24 0 0 g 0 0 0 0 0 24 0 96 0 0 48 0 0 t 0 0 0 0 0 12 96 0 0 0 12 0 0
7373_ETS1_si_HOCOMOCO_v9__rc_shift0 (7373_ETS1_si_HOCOMOCO_v9__rc)		0.791	0.461	0.101	-0.162	0.884	1.321	0.906	210	188	342	347	188	142	157	224.857	264	; dyads_m3 versus 7373_ETS1_si_HOCOMOCO_v9__rc; m=39/59; ncol2=8; w=7; offset=-1; strand=R; shift=0; score=224.857; acWTCCkg----- ; cor=0.791; Ncor=0.461; logoDP=0.101; NIcor=-0.162; NsEucl=0.884; SSD=1.321; NSW=0.906; rcor=210; rNcor=188; rlogoDP=342; rNIcor=347; rNsEucl=188; rSSD=142; rNSW=157; rank_mean=224.857; match_rank=264 a 87 5 38 0 0 0 4 1 0 0 0 0 0 c 7 98 5 0 146 147 5 34 0 0 0 0 0 g 32 10 3 0 1 0 57 90 0 0 0 0 0 t 21 34 101 147 0 0 81 22 0 0 0 0 0
7600_RARA_f1_HOCOMOCO_v9__rc_shift6 (7600_RARA_f1_HOCOMOCO_v9__rc)		0.836	0.456	1.930	-0.003	0.863	1.359	0.887	129	203	256	290	309	159	256	228.857	272	; dyads_m3 versus 7600_RARA_f1_HOCOMOCO_v9__rc; m=40/59; ncol2=6; w=6; offset=5; strand=R; shift=6; score=228.857; ------TGACCT- ; cor=0.836; Ncor=0.456; logoDP=1.930; NIcor=-0.003; NsEucl=0.863; SSD=1.359; NSW=0.887; rcor=129; rNcor=203; rlogoDP=256; rNIcor=290; rNsEucl=309; rSSD=159; rNSW=256; rank_mean=228.857; match_rank=272 a 0 0 0 0 0 0 0 0 58 0 0 0 0 c 0 0 0 0 0 0 0 0 0 58 58 0 0 g 0 0 0 0 0 0 0 58 0 0 0 0 0 t 0 0 0 0 0 0 58 0 0 0 0 58 0
1715_MA0156.1_JASPAR_CORE_2009__rc_shift0 (1715_MA0156.1_JASPAR_CORE_2009__rc)		0.800	0.467	0.042	-0.156	0.881	1.376	0.902	192	175	348	345	203	166	178	229.571	274	; dyads_m3 versus 1715_MA0156.1_JASPAR_CORE_2009__rc; m=41/59; ncol2=8; w=7; offset=-1; strand=R; shift=0; score=229.571; AyTTCCTG----- ; cor=0.800; Ncor=0.467; logoDP=0.042; NIcor=-0.156; NsEucl=0.881; SSD=1.376; NSW=0.902; rcor=192; rNcor=175; rlogoDP=348; rNIcor=345; rNsEucl=203; rSSD=166; rNSW=178; rank_mean=229.571; match_rank=274 a 13 0 1 0 0 0 0 1 0 0 0 0 0 c 0 6 0 0 13 13 1 1 0 0 0 0 0 g 0 0 0 0 0 0 3 9 0 0 0 0 0 t 0 7 12 13 0 0 9 2 0 0 0 0 0
7564_PAX2_si_HOCOMOCO_v9__shift4 (7564_PAX2_si_HOCOMOCO_v9_)		0.789	0.430	5.884	0.438	0.846	1.699	0.858	211	267	104	122	345	250	332	233.000	280	; dyads_m3 versus 7564_PAX2_si_HOCOMOCO_v9_; m=42/59; ncol2=6; w=6; offset=3; strand=D; shift=4; score= 233; ----mrTGAC--- ; cor=0.789; Ncor=0.430; logoDP=5.884; NIcor=0.438; NsEucl=0.846; SSD=1.699; NSW=0.858; rcor=211; rNcor=267; rlogoDP=104; rNIcor=122; rNsEucl=345; rSSD=250; rNSW=332; rank_mean=233.000; match_rank=280 a 0 0 0 0 22 29 0 0 52 7 0 0 0 c 0 0 0 0 36 4 4 0 1 44 0 0 0 g 0 0 0 0 0 25 0 58 2 1 0 0 0 t 0 0 0 0 0 0 54 0 3 6 0 0 0
7487_MAFG_si_HOCOMOCO_v9__shift5 (7487_MAFG_si_HOCOMOCO_v9_)		0.769	0.419	7.319	0.429	0.848	1.653	0.862	277	293	48	130	342	239	326	236.429	286	; dyads_m3 versus 7487_MAFG_si_HOCOMOCO_v9_; m=43/59; ncol2=6; w=6; offset=4; strand=D; shift=5; score=236.429; -----ATGACt-- ; cor=0.769; Ncor=0.419; logoDP=7.319; NIcor=0.429; NsEucl=0.848; SSD=1.653; NSW=0.862; rcor=277; rNcor=293; rlogoDP=48; rNIcor=130; rNsEucl=342; rSSD=239; rNSW=326; rank_mean=236.429; match_rank=286 a 0 0 0 0 0 51 0 0 67 0 11 0 0 c 0 0 0 0 0 3 0 0 0 63 5 0 0 g 0 0 0 0 0 12 0 67 0 0 15 0 0 t 0 0 0 0 0 1 67 0 0 4 36 0 0
7678_THA_f1_HOCOMOCO_v9__rc_shift5 (7678_THA_f1_HOCOMOCO_v9__rc)		0.805	0.434	0.279	-0.141	0.880	1.410	0.899	175	259	322	332	212	173	191	237.714	289	; dyads_m3 versus 7678_THA_f1_HOCOMOCO_v9__rc; m=44/59; ncol2=9; w=7; offset=4; strand=R; shift=5; score=237.714; -----sTGACCTs ; cor=0.805; Ncor=0.434; logoDP=0.279; NIcor=-0.141; NsEucl=0.880; SSD=1.410; NSW=0.899; rcor=175; rNcor=259; rlogoDP=322; rNIcor=332; rNsEucl=212; rSSD=173; rNSW=191; rank_mean=237.714; match_rank=289 a 0 0 0 0 0 11 0 0 68 5 6 1 6 c 0 0 0 0 0 30 1 5 1 69 67 12 21 g 0 0 0 0 0 22 4 68 0 0 1 3 37 t 0 0 0 0 0 11 69 1 5 0 0 58 10
2536_MA0271.1_JASPAR_CORE_2009__shift6 (2536_MA0271.1_JASPAR_CORE_2009_)		0.761	0.415	6.195	0.403	0.856	1.495	0.875	310	314	86	153	326	192	295	239.429	291	; dyads_m3 versus 2536_MA0271.1_JASPAR_CORE_2009_; m=45/59; ncol2=6; w=6; offset=5; strand=D; shift=6; score=239.429; ------wGACkC- ; cor=0.761; Ncor=0.415; logoDP=6.195; NIcor=0.403; NsEucl=0.856; SSD=1.495; NSW=0.875; rcor=310; rNcor=314; rlogoDP=86; rNIcor=153; rNsEucl=326; rSSD=192; rNSW=295; rank_mean=239.429; match_rank=291 a 0 0 0 0 0 0 89 0 161 0 44 0 0 c 0 0 0 0 0 0 0 0 0 301 0 256 0 g 0 0 0 0 0 0 0 301 0 0 79 0 0 t 0 0 0 0 0 0 69 0 0 0 69 20 0
7372_ESR2_si_HOCOMOCO_v9__rc_shift5 (7372_ESR2_si_HOCOMOCO_v9__rc)		0.811	0.442	0.165	-0.151	0.864	1.333	0.889	164	237	332	341	304	147	243	252.571	307	; dyads_m3 versus 7372_ESR2_si_HOCOMOCO_v9__rc; m=46/59; ncol2=6; w=6; offset=4; strand=R; shift=5; score=252.571; -----sTGACC-- ; cor=0.811; Ncor=0.442; logoDP=0.165; NIcor=-0.151; NsEucl=0.864; SSD=1.333; NSW=0.889; rcor=164; rNcor=237; rlogoDP=332; rNIcor=341; rNsEucl=304; rSSD=147; rNSW=243; rank_mean=252.571; match_rank=307 a 0 0 0 0 0 40 4 1 311 9 23 0 0 c 0 0 0 0 0 114 0 0 30 350 336 0 0 g 0 0 0 0 0 168 8 370 27 11 0 0 0 t 0 0 0 0 0 49 359 0 3 1 12 0 0
5997_1bc7_C_3D-footprint_20130124__rc_shift1 (5997_1bc7_C_3D-footprint_20130124__rc)		0.785	0.428	0.088	-0.137	0.867	1.274	0.894	228	272	345	329	293	128	214	258.429	313	; dyads_m3 versus 5997_1bc7_C_3D-footprint_20130124__rc; m=47/59; ncol2=6; w=6; offset=0; strand=R; shift=1; score=258.429; -cATCCt------ ; cor=0.785; Ncor=0.428; logoDP=0.088; NIcor=-0.137; NsEucl=0.867; SSD=1.274; NSW=0.894; rcor=228; rNcor=272; rlogoDP=345; rNIcor=329; rNsEucl=293; rSSD=128; rNSW=214; rank_mean=258.429; match_rank=313 a 0 13 96 0 0 0 13 0 0 0 0 0 0 c 0 57 0 0 96 96 13 0 0 0 0 0 0 g 0 13 0 0 0 0 16 0 0 0 0 0 0 t 0 13 0 96 0 0 54 0 0 0 0 0 0
2763_PF0076.1_JASPAR_CORE_2009__rc_shift2 (2763_PF0076.1_JASPAR_CORE_2009__rc)		0.798	0.435	1.977	-0.012	0.849	1.642	0.863	198	258	247	293	340	237	323	270.857	326	; dyads_m3 versus 2763_PF0076.1_JASPAR_CORE_2009__rc; m=48/59; ncol2=6; w=6; offset=1; strand=R; shift=2; score=270.857; --TACCTG----- ; cor=0.798; Ncor=0.435; logoDP=1.977; NIcor=-0.012; NsEucl=0.849; SSD=1.642; NSW=0.863; rcor=198; rNcor=258; rlogoDP=247; rNIcor=293; rNsEucl=340; rSSD=237; rNSW=323; rank_mean=270.857; match_rank=326 a 0 0 0 2472 0 0 0 0 0 0 0 0 0 c 0 0 0 0 2472 2472 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 2472 0 0 0 0 0 t 0 0 2472 0 0 0 2472 0 0 0 0 0 0
2476_MA0086.1_JASPAR_CORE_2009__rc_shift2 (2476_MA0086.1_JASPAR_CORE_2009__rc)		0.775	0.423	3.538	0.138	0.848	1.668	0.861	262	285	188	250	344	244	329	271.714	328	; dyads_m3 versus 2476_MA0086.1_JASPAR_CORE_2009__rc; m=49/59; ncol2=6; w=6; offset=1; strand=R; shift=2; score=271.714; --CACCTG----- ; cor=0.775; Ncor=0.423; logoDP=3.538; NIcor=0.138; NsEucl=0.848; SSD=1.668; NSW=0.861; rcor=262; rNcor=285; rlogoDP=188; rNIcor=250; rNsEucl=344; rSSD=244; rNSW=329; rank_mean=271.714; match_rank=328 a 0 0 2 40 0 0 1 0 0 0 0 0 0 c 0 0 38 0 38 37 0 1 0 0 0 0 0 g 0 0 0 0 0 0 0 39 0 0 0 0 0 t 0 0 0 0 2 3 39 0 0 0 0 0 0
7625_SNAI1_f1_HOCOMOCO_v9__rc_shift1 (7625_SNAI1_f1_HOCOMOCO_v9__rc)		0.781	0.497	0.095	-0.107	0.865	1.777	0.873	242	130	344	314	299	272	305	272.286	330	; dyads_m3 versus 7625_SNAI1_f1_HOCOMOCO_v9__rc; m=50/59; ncol2=7; w=7; offset=0; strand=R; shift=1; score=272.286; -cCACCTG----- ; cor=0.781; Ncor=0.497; logoDP=0.095; NIcor=-0.107; NsEucl=0.865; SSD=1.777; NSW=0.873; rcor=242; rNcor=130; rlogoDP=344; rNIcor=314; rNsEucl=299; rSSD=272; rNSW=305; rank_mean=272.286; match_rank=330 a 0 1 0 5 0 0 0 0 0 0 0 0 0 c 0 2 5 0 5 5 0 0 0 0 0 0 0 g 0 1 0 0 0 0 0 5 0 0 0 0 0 t 0 1 0 0 0 0 5 0 0 0 0 0 0
7626_SNAI2_f1_HOCOMOCO_v9__rc_shift2 (7626_SNAI2_f1_HOCOMOCO_v9__rc)		0.782	0.427	3.898	0.128	0.844	1.757	0.854	239	277	181	253	349	269	339	272.429	331	; dyads_m3 versus 7626_SNAI2_f1_HOCOMOCO_v9__rc; m=51/59; ncol2=6; w=6; offset=1; strand=R; shift=2; score=272.429; --CACCTG----- ; cor=0.782; Ncor=0.427; logoDP=3.898; NIcor=0.128; NsEucl=0.844; SSD=1.757; NSW=0.854; rcor=239; rNcor=277; rlogoDP=181; rNIcor=253; rNsEucl=349; rSSD=269; rNSW=339; rank_mean=272.429; match_rank=331 a 0 0 0 6 0 0 0 0 0 0 0 0 0 c 0 0 6 0 6 6 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 6 0 0 0 0 0 t 0 0 0 0 0 0 6 0 0 0 0 0 0
2699_PF0012.1_JASPAR_CORE_2009__rc_shift2 (2699_PF0012.1_JASPAR_CORE_2009__rc)		0.782	0.427	3.898	0.128	0.844	1.757	0.854	239	277	181	253	349	269	339	272.429	332	; dyads_m3 versus 2699_PF0012.1_JASPAR_CORE_2009__rc; m=52/59; ncol2=6; w=6; offset=1; strand=R; shift=2; score=272.429; --CACCTG----- ; cor=0.782; Ncor=0.427; logoDP=3.898; NIcor=0.128; NsEucl=0.844; SSD=1.757; NSW=0.854; rcor=239; rNcor=277; rlogoDP=181; rNIcor=253; rNsEucl=349; rSSD=269; rNSW=339; rank_mean=272.429; match_rank=332 a 0 0 0 12312 0 0 0 0 0 0 0 0 0 c 0 0 12312 0 12312 12312 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 12312 0 0 0 0 0 t 0 0 0 0 0 0 12312 0 0 0 0 0 0
7472_JUNB_f1_HOCOMOCO_v9__rc_shift5 (7472_JUNB_f1_HOCOMOCO_v9__rc)		0.757	0.408	3.525	0.231	0.866	1.754	0.875	328	329	191	218	295	267	298	275.143	333	; dyads_m3 versus 7472_JUNB_f1_HOCOMOCO_v9__rc; m=53/59; ncol2=9; w=7; offset=4; strand=R; shift=5; score=275.143; -----mTGACTCA ; cor=0.757; Ncor=0.408; logoDP=3.525; NIcor=0.231; NsEucl=0.866; SSD=1.754; NSW=0.875; rcor=328; rNcor=329; rlogoDP=191; rNIcor=218; rNsEucl=295; rSSD=267; rNSW=298; rank_mean=275.143; match_rank=333 a 0 0 0 0 0 23 0 1 56 9 7 8 57 c 0 0 0 0 0 20 0 1 2 49 1 49 0 g 0 0 0 0 0 11 0 54 0 0 2 1 1 t 0 0 0 0 0 5 59 3 1 1 49 1 1
4940_Hr46_DrosophilaTF_1.1__rc_shift6 (4940_Hr46_DrosophilaTF_1.1__rc)		0.794	0.433	1.930	-0.003	0.848	1.666	0.861	206	260	256	290	343	243	328	275.143	334	; dyads_m3 versus 4940_Hr46_DrosophilaTF_1.1__rc; m=54/59; ncol2=6; w=6; offset=5; strand=R; shift=6; score=275.143; ------TGACCC- ; cor=0.794; Ncor=0.433; logoDP=1.930; NIcor=-0.003; NsEucl=0.848; SSD=1.666; NSW=0.861; rcor=206; rNcor=260; rlogoDP=256; rNIcor=290; rNsEucl=343; rSSD=243; rNSW=328; rank_mean=275.143; match_rank=334 a 0 0 0 0 0 0 0 0 1 0 0 0 0 c 0 0 0 0 0 0 0 0 0 1 1 1 0 g 0 0 0 0 0 0 0 1 0 0 0 0 0 t 0 0 0 0 0 0 1 0 0 0 0 0 0
7700_ZEB1_do_HOCOMOCO_v9__rc_shift2 (7700_ZEB1_do_HOCOMOCO_v9__rc)		0.753	0.411	2.916	0.131	0.849	1.643	0.863	340	321	206	251	341	238	324	288.714	340	; dyads_m3 versus 7700_ZEB1_do_HOCOMOCO_v9__rc; m=55/59; ncol2=6; w=6; offset=1; strand=R; shift=2; score=288.714; --CACCTg----- ; cor=0.753; Ncor=0.411; logoDP=2.916; NIcor=0.131; NsEucl=0.849; SSD=1.643; NSW=0.863; rcor=340; rNcor=321; rlogoDP=206; rNIcor=251; rNsEucl=341; rSSD=238; rNSW=324; rank_mean=288.714; match_rank=340 a 0 0 1 125 0 2 0 16 0 0 0 0 0 c 0 0 107 0 126 121 0 7 0 0 0 0 0 g 0 0 1 0 0 4 1 78 0 0 0 0 0 t 0 0 18 2 1 0 126 26 0 0 0 0 0
7552_NR4A3_f1_HOCOMOCO_v9__rc_shift5 (7552_NR4A3_f1_HOCOMOCO_v9__rc)		0.789	0.425	0.250	-0.149	0.866	1.759	0.874	213	281	325	339	297	271	300	289.429	341	; dyads_m3 versus 7552_NR4A3_f1_HOCOMOCO_v9__rc; m=56/59; ncol2=9; w=7; offset=4; strand=R; shift=5; score=289.429; -----sTGACCTT ; cor=0.789; Ncor=0.425; logoDP=0.250; NIcor=-0.149; NsEucl=0.866; SSD=1.759; NSW=0.874; rcor=213; rNcor=281; rlogoDP=325; rNIcor=339; rNsEucl=297; rSSD=271; rNSW=300; rank_mean=289.429; match_rank=341 a 0 0 0 0 0 0 0 0 5 0 0 0 0 c 0 0 0 0 0 3 0 1 0 5 5 0 0 g 0 0 0 0 0 2 0 4 0 0 0 0 0 t 0 0 0 0 0 0 5 0 0 0 0 5 5
5598_NR2F1_full_HumanTF_1.0__rc_shift5 (5598_NR2F1_full_HumanTF_1.0__rc)		0.753	0.439	1.855	-0.012	0.861	1.880	0.866	342	246	268	294	315	286	318	295.571	343	; dyads_m3 versus 5598_NR2F1_full_HumanTF_1.0__rc; m=57/59; ncol2=8; w=7; offset=4; strand=R; shift=5; score=295.571; -----tTGACCyc ; cor=0.753; Ncor=0.439; logoDP=1.855; NIcor=-0.012; NsEucl=0.861; SSD=1.880; NSW=0.866; rcor=342; rNcor=246; rlogoDP=268; rNIcor=294; rNsEucl=315; rSSD=286; rNSW=318; rank_mean=295.571; match_rank=343 a 0 0 0 0 0 232 0 29 1196 1 11 8 121 c 0 0 0 0 0 249 56 4 19 1196 1196 649 840 g 0 0 0 0 0 207 0 1196 0 0 3 0 105 t 0 0 0 0 0 507 1196 0 0 2 0 546 355
7471_ITF2_f1_HOCOMOCO_v9__rc_shift0 (7471_ITF2_f1_HOCOMOCO_v9__rc)		0.751	0.438	0.386	-0.132	0.854	2.103	0.850	351	250	309	324	331	314	345	317.714	350	; dyads_m3 versus 7471_ITF2_f1_HOCOMOCO_v9__rc; m=58/59; ncol2=8; w=7; offset=-1; strand=R; shift=0; score=317.714; yrCACCTG----- ; cor=0.751; Ncor=0.438; logoDP=0.386; NIcor=-0.132; NsEucl=0.854; SSD=2.103; NSW=0.850; rcor=351; rNcor=250; rlogoDP=309; rNIcor=324; rNsEucl=331; rSSD=314; rNSW=345; rank_mean=317.714; match_rank=350 a 91 143 0 453 0 0 0 0 0 0 0 0 0 c 157 1 454 1 454 454 0 0 0 0 0 0 0 g 37 299 0 0 0 0 0 454 0 0 0 0 0 t 169 11 0 0 0 0 454 0 0 0 0 0 0
6324_1t2k_D_3D-footprint_20130124__rc_shift5 (6324_1t2k_D_3D-footprint_20130124__rc)		0.751	0.410	0.128	-0.147	0.845	1.720	0.857	349	324	336	338	348	259	336	327.143	352	; dyads_m3 versus 6324_1t2k_D_3D-footprint_20130124__rc; m=59/59; ncol2=6; w=6; offset=4; strand=R; shift=5; score=327.143; -----TTGACA-- ; cor=0.751; Ncor=0.410; logoDP=0.128; NIcor=-0.147; NsEucl=0.845; SSD=1.720; NSW=0.857; rcor=349; rNcor=324; rlogoDP=336; rNIcor=338; rNsEucl=348; rSSD=259; rNSW=336; rank_mean=327.143; match_rank=352 a 0 0 0 0 0 9 0 9 96 0 67 0 0 c 0 0 0 0 0 9 0 9 0 96 9 0 0 g 0 0 0 0 0 11 0 67 0 0 9 0 0 t 0 0 0 0 0 67 96 11 0 0 11 0 0

One-to-n matrix alignment; reference matrix: positions_7nt_m5_shift3 ; 7 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_7nt_m5_shift3 (positions_7nt_m5)																		; positions_7nt_m5; m=0 (reference); ncol1=11; shift=3; ncol=15; ---wkCACTCCAsg- ; Alignment reference a 0 0 0 2 1 0 6 0 0 0 0 6 0 1 0 c 0 0 0 0 0 6 0 6 0 6 6 0 2 1 0 g 0 0 0 0 2 0 0 0 0 0 0 0 4 3 0 t 0 0 0 4 3 0 0 0 6 0 0 0 0 1 0
2858_PF0171.1_JASPAR_CORE_2009__shift7 (2858_PF0171.1_JASPAR_CORE_2009_)		0.926	0.432	8.320	0.414	0.921	0.612	0.956	23	262	28	145	31	39	28	79.429	30	; positions_7nt_m5 versus 2858_PF0171.1_JASPAR_CORE_2009_; m=1/6; ncol2=11; w=7; offset=4; strand=D; shift=7; score=79.4286; -------CTCCAsGT ; cor=0.926; Ncor=0.432; logoDP=8.320; NIcor=0.414; NsEucl=0.921; SSD=0.612; NSW=0.956; rcor=23; rNcor=262; rlogoDP=28; rNIcor=145; rNsEucl=31; rSSD=39; rNSW=28; rank_mean=79.429; match_rank=30 a 0 0 0 0 0 0 0 0 0 0 43 368 69 0 0 c 0 0 0 0 0 0 0 368 0 368 268 0 125 0 0 g 0 0 0 0 0 0 0 0 0 0 20 0 118 368 0 t 0 0 0 0 0 0 0 0 368 0 37 0 56 0 368
5958_1a0a_B_3D-footprint_20130124__shift9 (5958_1a0a_B_3D-footprint_20130124_)		0.924	0.420	5.834	0.422	0.911	0.393	0.961	24	291	106	138	62	16	20	93.857	43	; positions_7nt_m5 versus 5958_1a0a_B_3D-footprint_20130124_; m=2/6; ncol2=5; w=5; offset=6; strand=D; shift=9; score=93.8571; ---------CCAcg- ; cor=0.924; Ncor=0.420; logoDP=5.834; NIcor=0.422; NsEucl=0.911; SSD=0.393; NSW=0.961; rcor=24; rNcor=291; rlogoDP=106; rNIcor=138; rNsEucl=62; rSSD=16; rNSW=20; rank_mean=93.857; match_rank=43 a 0 0 0 0 0 0 0 0 0 0 0 96 13 16 0 c 0 0 0 0 0 0 0 0 0 96 96 0 57 13 0 g 0 0 0 0 0 0 0 0 0 0 0 0 13 54 0 t 0 0 0 0 0 0 0 0 0 0 0 0 13 13 0
5978_1am9_AB_3D-footprint_20130124__shift3 (5978_1am9_AB_3D-footprint_20130124_)		0.772	0.702	12.376	0.660	0.881	2.840	0.858	267	9	1	6	208	351	335	168.143	156	; positions_7nt_m5 versus 5978_1am9_AB_3D-footprint_20130124_; m=3/6; ncol2=10; w=10; offset=0; strand=D; shift=3; score=168.143; ---aTCACCCCAC-- ; cor=0.772; Ncor=0.702; logoDP=12.376; NIcor=0.660; NsEucl=0.881; SSD=2.840; NSW=0.858; rcor=267; rNcor=9; rlogoDP=1; rNIcor=6; rNsEucl=208; rSSD=351; rNSW=335; rank_mean=168.143; match_rank=156 a 0 0 0 38 0 0 96 0 1 0 0 96 0 0 0 c 0 0 0 19 0 96 0 96 76 96 96 0 96 0 0 g 0 0 0 19 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 20 96 0 0 0 19 0 0 0 0 0 0
2512_MA0130.1_JASPAR_CORE_2009__shift7 (2512_MA0130.1_JASPAR_CORE_2009_)		0.800	0.437	6.779	0.396	0.856	1.496	0.875	191	255	65	166	327	193	296	213.286	241	; positions_7nt_m5 versus 2512_MA0130.1_JASPAR_CORE_2009_; m=4/6; ncol2=6; w=6; offset=4; strand=D; shift=7; score=213.286; -------mTCCAC-- ; cor=0.800; Ncor=0.437; logoDP=6.779; NIcor=0.396; NsEucl=0.856; SSD=1.496; NSW=0.875; rcor=191; rNcor=255; rlogoDP=65; rNIcor=166; rNsEucl=327; rSSD=193; rNSW=296; rank_mean=213.286; match_rank=241 a 0 0 0 0 0 0 0 7 3 0 0 16 0 0 0 c 0 0 0 0 0 0 0 6 2 16 16 0 15 0 0 g 0 0 0 0 0 0 0 3 0 0 0 0 1 0 0 t 0 0 0 0 0 0 0 0 11 0 0 0 0 0 0
7286_ZAT18_ArabidopsisPBM_20140210__rc_shift0 (7286_ZAT18_ArabidopsisPBM_20140210__rc)		0.803	0.401	3.249	0.357	0.876	1.505	0.893	183	350	200	202	240	195	221	227.286	270	; positions_7nt_m5 versus 7286_ZAT18_ArabidopsisPBM_20140210__rc; m=5/6; ncol2=10; w=7; offset=-3; strand=R; shift=0; score=227.286; yAGTGCACTh----- ; cor=0.803; Ncor=0.401; logoDP=3.249; NIcor=0.357; NsEucl=0.876; SSD=1.505; NSW=0.893; rcor=183; rNcor=350; rlogoDP=200; rNIcor=202; rNsEucl=240; rSSD=195; rNSW=221; rank_mean=227.286; match_rank=270 a 12 71 3 3 10 4 73 3 17 31 0 0 0 0 0 c 26 4 5 18 6 81 6 88 8 34 0 0 0 0 0 g 12 8 88 6 80 5 18 5 4 3 0 0 0 0 0 t 50 17 4 73 4 10 3 4 71 32 0 0 0 0 0
6200_1lo1_A_3D-footprint_20130124__rc_shift7 (6200_1lo1_A_3D-footprint_20130124__rc)		0.806	0.403	1.973	0.015	0.874	1.561	0.888	174	343	248	284	260	216	246	253.000	309	; positions_7nt_m5 versus 6200_1lo1_A_3D-footprint_20130124__rc; m=6/6; ncol2=10; w=7; offset=4; strand=R; shift=7; score= 253; -------cTCnAGGT ; cor=0.806; Ncor=0.403; logoDP=1.973; NIcor=0.015; NsEucl=0.874; SSD=1.561; NSW=0.888; rcor=174; rNcor=343; rlogoDP=248; rNIcor=284; rNsEucl=260; rSSD=216; rNSW=246; rank_mean=253.000; match_rank=309 a 0 0 0 0 0 0 0 13 0 0 24 96 0 0 0 c 0 0 0 0 0 0 0 54 0 96 24 0 0 0 0 g 0 0 0 0 0 0 0 13 0 0 24 0 96 96 0 t 0 0 0 0 0 0 0 16 96 0 24 0 0 0 96

One-to-n matrix alignment; reference matrix: dyads_m4_shift7 ; 17 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
dyads_m4_shift7 (dyads_m4)																		; dyads_m4; m=0 (reference); ncol1=11; shift=7; ncol=18; -------ymTCCAGAccr ; Alignment reference a 0 0 0 0 0 0 0 5 11 0 0 0 37 0 37 1 9 12 c 0 0 0 0 0 0 0 12 11 0 37 37 0 0 0 22 15 6 g 0 0 0 0 0 0 0 7 6 0 0 0 0 37 0 8 4 12 t 0 0 0 0 0 0 0 13 9 37 0 0 0 0 0 6 9 7
1921_PB0060.1_JASPAR_CORE_2009__shift5 (1921_PB0060.1_JASPAR_CORE_2009_)		0.832	0.538	6.936	0.529	0.921	1.508	0.931	138	67	59	45	28	197	81	87.857	34	; dyads_m4 versus 1921_PB0060.1_JASPAR_CORE_2009_; m=1/16; ncol2=17; w=11; offset=-2; strand=D; shift=5; score=87.8571; -----mdwatCCAGACrk ; cor=0.832; Ncor=0.538; logoDP=6.936; NIcor=0.529; NsEucl=0.921; SSD=1.508; NSW=0.931; rcor=138; rNcor=67; rlogoDP=59; rNIcor=45; rNsEucl=28; rSSD=197; rNSW=81; rank_mean=87.857; match_rank=34 a 0 0 0 0 0 28 34 40 37 24 3 0 93 1 97 1 67 13 c 0 0 0 0 0 41 14 17 20 18 81 82 6 0 2 98 1 17 g 0 0 0 0 0 11 27 17 21 22 4 4 1 99 0 0 28 33 t 0 0 0 0 0 19 26 26 23 35 13 14 0 0 1 0 4 36
3697_UP00000_UniPROBE_20120919__shift5 (3697_UP00000_UniPROBE_20120919_)		0.832	0.538	6.960	0.529	0.921	1.509	0.931	139	68	57	44	29	199	82	88.286	35	; dyads_m4 versus 3697_UP00000_UniPROBE_20120919_; m=2/16; ncol2=17; w=11; offset=-2; strand=D; shift=5; score=88.2857; -----mdwawCCAGACrk ; cor=0.832; Ncor=0.538; logoDP=6.960; NIcor=0.529; NsEucl=0.921; SSD=1.509; NSW=0.931; rcor=139; rNcor=68; rlogoDP=57; rNIcor=44; rNsEucl=29; rSSD=199; rNSW=82; rank_mean=88.286; match_rank=35 a 0 0 0 0 0 29 34 40 37 25 3 0 0.93 0.01 0.97 0.01 67 13 c 0 0 0 0 0 41 14 17 20 18 81 0.82 0.06 0 0.02 0.98 1 17 g 0 0 0 0 0 11 26 17 21 22 4 0.04 0.01 0.99 0 0 28 34 t 0 0 0 0 0 19 26 26 22 35 12 0.14 0 0 0.01 0 4 36
2481_MA0092.1_JASPAR_CORE_2009__rc_shift7 (2481_MA0092.1_JASPAR_CORE_2009__rc)		0.846	0.769	3.725	0.338	0.918	1.359	0.932	110	2	184	207	39	163	80	112.143	68	; dyads_m4 versus 2481_MA0092.1_JASPAR_CORE_2009__rc; m=3/16; ncol2=10; w=10; offset=0; strand=R; shift=7; score=112.143; -------awkCCAGAys- ; cor=0.846; Ncor=0.769; logoDP=3.725; NIcor=0.338; NsEucl=0.918; SSD=1.359; NSW=0.932; rcor=110; rNcor=2; rlogoDP=184; rNIcor=207; rNsEucl=39; rSSD=163; rNSW=80; rank_mean=112.143; match_rank=68 a 0 0 0 0 0 0 0 16 10 5 1 0 29 1 24 4 7 0 c 0 0 0 0 0 0 0 4 3 1 25 29 0 0 1 15 10 0 g 0 0 0 0 0 0 0 4 0 14 3 0 0 28 2 0 8 0 t 0 0 0 0 0 0 0 5 16 9 0 0 0 0 2 10 4 0
7423_HAND1_si_HOCOMOCO_v9__rc_shift6 (7423_HAND1_si_HOCOMOCO_v9__rc)		0.860	0.717	0.284	-0.134	0.921	1.249	0.938	94	7	321	327	30	124	68	138.714	104	; dyads_m4 versus 7423_HAND1_si_HOCOMOCO_v9__rc; m=4/16; ncol2=11; w=10; offset=-1; strand=R; shift=6; score=138.714; ------aawkCCAGAyv- ; cor=0.860; Ncor=0.717; logoDP=0.284; NIcor=-0.134; NsEucl=0.921; SSD=1.249; NSW=0.938; rcor=94; rNcor=7; rlogoDP=321; rNIcor=327; rNsEucl=30; rSSD=124; rNSW=68; rank_mean=138.714; match_rank=104 a 0 0 0 0 0 0 13 14 10 5 1 0 26 0 23 1 7 0 c 0 0 0 0 0 0 4 4 2 1 23 26 0 1 1 15 9 0 g 0 0 0 0 0 0 5 3 1 11 2 0 0 25 2 0 9 0 t 0 0 0 0 0 0 4 5 13 9 0 0 0 0 0 10 1 0
6130_1imh_C_3D-footprint_20130124__rc_shift8 (6130_1imh_C_3D-footprint_20130124__rc)		0.918	0.417	0.358	-0.024	0.902	0.477	0.952	29	307	313	295	93	24	34	156.429	135	; dyads_m4 versus 6130_1imh_C_3D-footprint_20130124__rc; m=5/16; ncol2=5; w=5; offset=1; strand=R; shift=8; score=156.429; --------tTCCa----- ; cor=0.918; Ncor=0.417; logoDP=0.358; NIcor=-0.024; NsEucl=0.902; SSD=0.477; NSW=0.952; rcor=29; rNcor=307; rlogoDP=313; rNIcor=295; rNsEucl=93; rSSD=24; rNSW=34; rank_mean=156.429; match_rank=135 a 0 0 0 0 0 0 0 0 10 10 0 0 64 0 0 0 0 0 c 0 0 0 0 0 0 0 0 12 12 96 96 12 0 0 0 0 0 g 0 0 0 0 0 0 0 0 10 0 0 0 10 0 0 0 0 0 t 0 0 0 0 0 0 0 0 64 74 0 0 10 0 0 0 0 0
1711_MA0152.1_JASPAR_CORE_2009__shift6 (1711_MA0152.1_JASPAR_CORE_2009_)		0.840	0.420	5.947	0.398	0.879	1.050	0.913	118	290	100	162	220	85	128	157.571	137	; dyads_m4 versus 1711_MA0152.1_JASPAR_CORE_2009_; m=6/16; ncol2=7; w=6; offset=-1; strand=D; shift=6; score=157.571; ------TTTTCCA----- ; cor=0.840; Ncor=0.420; logoDP=5.947; NIcor=0.398; NsEucl=0.879; SSD=1.050; NSW=0.913; rcor=118; rNcor=290; rlogoDP=100; rNIcor=162; rNsEucl=220; rSSD=85; rNSW=128; rank_mean=157.571; match_rank=137 a 0 0 0 0 0 0 3 1 1 0 1 0 18 0 0 0 0 0 c 0 0 0 0 0 0 1 2 1 0 25 26 3 0 0 0 0 0 g 0 0 0 0 0 0 2 2 0 0 0 0 1 0 0 0 0 0 t 0 0 0 0 0 0 20 21 24 26 0 0 4 0 0 0 0 0
6074_1gji_A_3D-footprint_20130124__rc_shift8 (6074_1gji_A_3D-footprint_20130124__rc)		0.918	0.417	0.121	-0.063	0.902	0.477	0.952	30	308	338	301	92	23	33	160.714	139	; dyads_m4 versus 6074_1gji_A_3D-footprint_20130124__rc; m=7/16; ncol2=5; w=5; offset=1; strand=R; shift=8; score=160.714; --------kTCCr----- ; cor=0.918; Ncor=0.417; logoDP=0.121; NIcor=-0.063; NsEucl=0.902; SSD=0.477; NSW=0.952; rcor=30; rNcor=308; rlogoDP=338; rNIcor=301; rNsEucl=92; rSSD=23; rNSW=33; rank_mean=160.714; match_rank=139 a 0 0 0 0 0 0 0 0 12 0 0 0 48 0 0 0 0 0 c 0 0 0 0 0 0 0 0 12 0 96 96 12 0 0 0 0 0 g 0 0 0 0 0 0 0 0 24 0 0 0 24 0 0 0 0 0 t 0 0 0 0 0 0 0 0 48 96 0 0 12 0 0 0 0 0
7686_UBIP1_f1_HOCOMOCO_v9__shift11 (7686_UBIP1_f1_HOCOMOCO_v9_)		0.809	0.441	5.844	0.468	0.872	1.176	0.902	169	242	105	89	268	111	177	165.857	149	; dyads_m4 versus 7686_UBIP1_f1_HOCOMOCO_v9_; m=8/16; ncol2=6; w=6; offset=4; strand=D; shift=11; score=165.857; -----------CAGArA- ; cor=0.809; Ncor=0.441; logoDP=5.844; NIcor=0.468; NsEucl=0.872; SSD=1.176; NSW=0.902; rcor=169; rNcor=242; rlogoDP=105; rNIcor=89; rNsEucl=268; rSSD=111; rNSW=177; rank_mean=165.857; match_rank=149 a 0 0 0 0 0 0 0 0 0 0 0 0 5 0 5 2 4 0 c 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 4 0 2 0 0 t 0 0 0 0 0 0 0 0 0 0 0 1 0 1 0 1 1 0
6322_1svc_P_3D-footprint_20130124__shift6 (6322_1svc_P_3D-footprint_20130124_)		0.805	0.402	5.817	0.403	0.877	1.092	0.909	179	345	107	156	235	94	140	179.429	175	; dyads_m4 versus 6322_1svc_P_3D-footprint_20130124_; m=9/16; ncol2=7; w=6; offset=-1; strand=D; shift=6; score=179.429; ------gnnTCCc----- ; cor=0.805; Ncor=0.402; logoDP=5.817; NIcor=0.403; NsEucl=0.877; SSD=1.092; NSW=0.909; rcor=179; rNcor=345; rlogoDP=107; rNIcor=156; rNsEucl=235; rSSD=94; rNSW=140; rank_mean=179.429; match_rank=175 a 0 0 0 0 0 0 13 24 24 0 0 0 16 0 0 0 0 0 c 0 0 0 0 0 0 16 24 24 0 96 96 54 0 0 0 0 0 g 0 0 0 0 0 0 54 24 24 0 0 0 13 0 0 0 0 0 t 0 0 0 0 0 0 13 24 24 96 0 0 13 0 0 0 0 0
7623_SMAD4_si_HOCOMOCO_v9__rc_shift8 (7623_SMAD4_si_HOCOMOCO_v9__rc)		0.801	0.582	4.026	0.195	0.885	1.702	0.894	190	35	170	225	179	252	215	180.857	177	; dyads_m4 versus 7623_SMAD4_si_HOCOMOCO_v9__rc; m=10/16; ncol2=8; w=8; offset=1; strand=R; shift=8; score=180.857; --------rkmCAGAC-- ; cor=0.801; Ncor=0.582; logoDP=4.026; NIcor=0.195; NsEucl=0.885; SSD=1.702; NSW=0.894; rcor=190; rNcor=35; rlogoDP=170; rNIcor=225; rNsEucl=179; rSSD=252; rNSW=215; rank_mean=180.857; match_rank=177 a 0 0 0 0 0 0 0 0 25 5 22 0 78 0 76 1 0 0 c 0 0 0 0 0 0 0 0 10 9 31 65 0 0 0 71 0 0 g 0 0 0 0 0 0 0 0 33 44 17 0 0 78 2 6 0 0 t 0 0 0 0 0 0 0 0 10 20 8 13 0 0 0 0 0 0
7622_SMAD3_f1_HOCOMOCO_v9__rc_shift8 (7622_SMAD3_f1_HOCOMOCO_v9__rc)		0.782	0.640	2.851	0.185	0.893	1.848	0.897	241	17	207	229	131	279	203	186.714	187	; dyads_m4 versus 7622_SMAD3_f1_HOCOMOCO_v9__rc; m=11/16; ncol2=9; w=9; offset=1; strand=R; shift=8; score=186.714; --------rgcCAGACa- ; cor=0.782; Ncor=0.640; logoDP=2.851; NIcor=0.185; NsEucl=0.893; SSD=1.848; NSW=0.897; rcor=241; rNcor=17; rlogoDP=207; rNIcor=229; rNsEucl=131; rSSD=279; rNSW=203; rank_mean=186.714; match_rank=187 a 0 0 0 0 0 0 0 0 25 7 18 5 67 1 66 2 41 0 c 0 0 0 0 0 0 0 0 12 10 32 60 1 0 7 63 7 0 g 0 0 0 0 0 0 0 0 29 40 15 0 2 72 0 7 9 0 t 0 0 0 0 0 0 0 0 7 16 8 8 3 0 0 1 16 0
2553_MA0292.1_JASPAR_CORE_2009__shift8 (2553_MA0292.1_JASPAR_CORE_2009_)		0.765	0.487	6.968	0.500	0.860	1.933	0.862	293	148	56	62	319	294	327	214.143	243	; dyads_m4 versus 2553_MA0292.1_JASPAR_CORE_2009_; m=12/16; ncol2=7; w=7; offset=1; strand=D; shift=8; score=214.143; --------hTCCGGA--- ; cor=0.765; Ncor=0.487; logoDP=6.968; NIcor=0.500; NsEucl=0.860; SSD=1.933; NSW=0.862; rcor=293; rNcor=148; rlogoDP=56; rNIcor=62; rNsEucl=319; rSSD=294; rNSW=327; rank_mean=214.143; match_rank=243 a 0 0 0 0 0 0 0 0 28 14 0 0 0 0 93 0 0 0 c 0 0 0 0 0 0 0 0 36 7 100 100 14 0 0 0 0 0 g 0 0 0 0 0 0 0 0 7 7 0 0 86 86 7 0 0 0 t 0 0 0 0 0 0 0 0 28 71 0 0 0 14 0 0 0 0
2532_MA0266.1_JASPAR_CORE_2009__shift8 (2532_MA0266.1_JASPAR_CORE_2009_)		0.757	0.482	7.967	0.486	0.854	2.095	0.850	329	154	35	69	330	313	344	224.857	263	; dyads_m4 versus 2532_MA0266.1_JASPAR_CORE_2009_; m=13/16; ncol2=7; w=7; offset=1; strand=D; shift=8; score=224.857; --------sTCTAGA--- ; cor=0.757; Ncor=0.482; logoDP=7.967; NIcor=0.486; NsEucl=0.854; SSD=2.095; NSW=0.850; rcor=329; rNcor=154; rlogoDP=35; rNIcor=69; rNsEucl=330; rSSD=313; rNSW=344; rank_mean=224.857; match_rank=263 a 0 0 0 0 0 0 0 0 18 9 0 0 100 0 95 0 0 0 c 0 0 0 0 0 0 0 0 39 9 100 0 0 0 2 0 0 0 g 0 0 0 0 0 0 0 0 25 2 0 0 0 100 2 0 0 0 t 0 0 0 0 0 0 0 0 18 80 0 100 0 0 2 0 0 0
2742_PF0055.1_JASPAR_CORE_2009__rc_shift7 (2742_PF0055.1_JASPAR_CORE_2009__rc)		0.836	0.456	1.961	0.003	0.863	1.356	0.887	126	202	251	287	308	156	253	226.143	268	; dyads_m4 versus 2742_PF0055.1_JASPAR_CORE_2009__rc; m=14/16; ncol2=6; w=6; offset=0; strand=R; shift=7; score=226.143; -------TTTCCA----- ; cor=0.836; Ncor=0.456; logoDP=1.961; NIcor=0.003; NsEucl=0.863; SSD=1.356; NSW=0.887; rcor=126; rNcor=202; rlogoDP=251; rNIcor=287; rNsEucl=308; rSSD=156; rNSW=253; rank_mean=226.143; match_rank=268 a 0 0 0 0 0 0 0 0 0 0 0 0 6612 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 6612 6612 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 6612 6612 6612 0 0 0 0 0 0 0 0
2487_MA0098.1_JASPAR_CORE_2009__shift7 (2487_MA0098.1_JASPAR_CORE_2009_)		0.761	0.415	5.191	0.426	0.863	1.355	0.887	308	312	123	135	307	154	252	227.286	271	; dyads_m4 versus 2487_MA0098.1_JASPAR_CORE_2009_; m=15/16; ncol2=6; w=6; offset=0; strand=D; shift=7; score=227.286; -------ywTCCk----- ; cor=0.761; Ncor=0.415; logoDP=5.191; NIcor=0.426; NsEucl=0.863; SSD=1.355; NSW=0.887; rcor=308; rNcor=312; rlogoDP=123; rNIcor=135; rNsEucl=307; rSSD=154; rNSW=252; rank_mean=227.286; match_rank=271 a 0 0 0 0 0 0 0 4 17 0 0 0 5 0 0 0 0 0 c 0 0 0 0 0 0 0 16 0 1 39 39 3 0 0 0 0 0 g 0 0 0 0 0 0 0 4 0 0 1 0 17 0 0 0 0 0 t 0 0 0 0 0 0 0 16 23 39 0 1 15 0 0 0 0 0
2362_CN0199.1_JASPAR_CORE_2009__rc_shift0 (2362_CN0199.1_JASPAR_CORE_2009__rc)		0.775	0.431	0.369	-0.146	0.896	2.173	0.891	259	264	310	337	117	322	228	262.429	318	; dyads_m4 versus 2362_CN0199.1_JASPAR_CORE_2009__rc; m=16/16; ncol2=17; w=10; offset=-7; strand=R; shift=0; score=262.429; CTGGAAATTTCCAgAGC- ; cor=0.775; Ncor=0.431; logoDP=0.369; NIcor=-0.146; NsEucl=0.896; SSD=2.173; NSW=0.891; rcor=259; rNcor=264; rlogoDP=310; rNIcor=337; rNsEucl=117; rSSD=322; rNSW=228; rank_mean=262.429; match_rank=318 a 8 11 1 6 77 77 68 14 1 0 0 3 71 19 68 2 7 0 c 64 2 0 1 0 2 2 4 2 5 81 77 0 10 3 1 66 0 g 9 0 80 70 4 2 7 0 4 3 0 1 0 45 5 63 7 0 t 0 68 0 4 0 0 4 63 74 73 0 0 10 7 5 15 1 0

One-to-n matrix alignment; reference matrix: positions_7nt_m3_shift3 ; 14 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_7nt_m3_shift3 (positions_7nt_m3)																		; positions_7nt_m3; m=0 (reference); ncol1=11; shift=3; ncol=15; ---sgCTCAGGCgr- ; Alignment reference a 0 0 0 1 2 0 0 0 10 0 0 0 2 3 0 c 0 0 0 4 2 10 0 10 0 0 0 10 2 2 0 g 0 0 0 4 6 0 0 0 0 10 10 0 5 5 0 t 0 0 0 1 0 0 10 0 0 0 0 0 1 0 0
6491_2pe5_C_3D-footprint_20130124__shift4 (6491_2pe5_C_3D-footprint_20130124_)		0.951	0.432	4.678	0.421	0.915	0.362	0.964	14	261	146	141	51	14	18	92.143	40	; positions_7nt_m3 versus 6491_2pe5_C_3D-footprint_20130124_; m=1/13; ncol2=5; w=5; offset=1; strand=D; shift=4; score=92.1429; ----gcTCA------ ; cor=0.951; Ncor=0.432; logoDP=4.678; NIcor=0.421; NsEucl=0.915; SSD=0.362; NSW=0.964; rcor=14; rNcor=261; rlogoDP=146; rNIcor=141; rNsEucl=51; rSSD=14; rNSW=18; rank_mean=92.143; match_rank=40 a 0 0 0 0 16 8 0 0 72 0 0 0 0 0 0 c 0 0 0 0 8 56 0 96 8 0 0 0 0 0 0 g 0 0 0 0 56 16 0 0 8 0 0 0 0 0 0 t 0 0 0 0 16 16 96 0 8 0 0 0 0 0 0
7566_PAX5_si_HOCOMOCO_v9__rc_shift4 (7566_PAX5_si_HOCOMOCO_v9__rc)		0.843	0.537	6.019	0.430	0.882	1.355	0.903	114	71	95	128	197	155	171	133.000	93	; positions_7nt_m3 versus 7566_PAX5_si_HOCOMOCO_v9__rc; m=2/13; ncol2=7; w=7; offset=1; strand=R; shift=4; score= 133; ----cCTCAGc---- ; cor=0.843; Ncor=0.537; logoDP=6.019; NIcor=0.430; NsEucl=0.882; SSD=1.355; NSW=0.903; rcor=114; rNcor=71; rlogoDP=95; rNIcor=128; rNsEucl=197; rSSD=155; rNSW=171; rank_mean=133.000; match_rank=93 a 0 0 0 0 577 0 0 0 3025 155 0 0 0 0 0 c 0 0 0 0 1369 2524 0 3156 131 21 2012 0 0 0 0 g 0 0 0 0 783 35 13 0 0 2958 632 0 0 0 0 t 0 0 0 0 427 597 3143 0 0 22 512 0 0 0 0
5875_TFAP2B_DBD_2_HumanTF_1.0__shift2 (5875_TFAP2B_DBD_2_HumanTF_1.0_)		0.785	0.654	7.834	0.607	0.894	2.240	0.888	229	14	37	11	125	330	248	142.000	110	; positions_7nt_m3 versus 5875_TFAP2B_DBD_2_HumanTF_1.0_; m=3/13; ncol2=11; w=10; offset=-1; strand=D; shift=2; score= 142; --mGCCysAGGCd-- ; cor=0.785; Ncor=0.654; logoDP=7.834; NIcor=0.607; NsEucl=0.894; SSD=2.240; NSW=0.888; rcor=229; rNcor=14; rlogoDP=37; rNIcor=11; rNsEucl=125; rSSD=330; rNSW=248; rank_mean=142.000; match_rank=110 a 0 0 1784 36 0 0 16 576 3480 235 6 47 1822 0 0 c 0 0 1412 609 4549 4549 1204 2126 608 4 10 4250 371 0 0 g 0 0 232 3940 4 1 612 1498 446 4549 4549 299 1149 0 0 t 0 0 1121 30 0 158 2716 348 14 2 1 25 1207 0 0
6022_1cjg_A_3D-footprint_20130124__shift4 (6022_1cjg_A_3D-footprint_20130124_)		0.900	0.409	3.648	0.375	0.889	0.612	0.939	40	326	186	193	149	37	65	142.286	112	; positions_7nt_m3 versus 6022_1cjg_A_3D-footprint_20130124_; m=4/13; ncol2=5; w=5; offset=1; strand=D; shift=4; score=142.286; ----GCTcA------ ; cor=0.900; Ncor=0.409; logoDP=3.648; NIcor=0.375; NsEucl=0.889; SSD=0.612; NSW=0.939; rcor=40; rNcor=326; rlogoDP=186; rNIcor=193; rNsEucl=149; rSSD=37; rNSW=65; rank_mean=142.286; match_rank=112 a 0 0 0 0 0 0 8 10 72 0 0 0 0 0 0 c 0 0 0 0 0 96 8 61 8 0 0 0 0 0 0 g 0 0 0 0 96 0 11 8 8 0 0 0 0 0 0 t 0 0 0 0 0 0 69 17 8 0 0 0 0 0 0
5902_Tcfap2a_DBD_2_HumanTF_1.0__shift2 (5902_Tcfap2a_DBD_2_HumanTF_1.0_)		0.785	0.654	7.151	0.606	0.895	2.209	0.890	230	15	53	13	120	326	241	142.571	113	; positions_7nt_m3 versus 5902_Tcfap2a_DBD_2_HumanTF_1.0_; m=5/13; ncol2=11; w=10; offset=-1; strand=D; shift=2; score=142.571; --mGCCysAGGCd-- ; cor=0.785; Ncor=0.654; logoDP=7.151; NIcor=0.606; NsEucl=0.895; SSD=2.209; NSW=0.890; rcor=230; rNcor=15; rlogoDP=53; rNIcor=13; rNsEucl=120; rSSD=326; rNSW=241; rank_mean=142.571; match_rank=113 a 0 0 865 0 0 0 0 144 1714 98 0 0 823 0 0 c 0 0 915 347 2439 2439 766 1269 368 94 164 2299 181 0 0 g 0 0 171 2092 88 79 287 909 340 2439 2439 140 616 0 0 t 0 0 488 49 0 96 1387 117 17 0 0 0 820 0 0
5872_TFAP2A_DBD_2_HumanTF_1.0__shift2 (5872_TFAP2A_DBD_2_HumanTF_1.0_)		0.783	0.652	6.662	0.600	0.895	2.201	0.890	236	16	71	15	119	325	240	146.000	118	; positions_7nt_m3 versus 5872_TFAP2A_DBD_2_HumanTF_1.0_; m=6/13; ncol2=11; w=10; offset=-1; strand=D; shift=2; score= 146; --hGCCysAGGCw-- ; cor=0.783; Ncor=0.652; logoDP=6.662; NIcor=0.600; NsEucl=0.895; SSD=2.201; NSW=0.890; rcor=236; rNcor=16; rlogoDP=71; rNIcor=15; rNsEucl=119; rSSD=325; rNSW=240; rank_mean=146.000; match_rank=118 a 0 0 1706 137 0 0 33 575 3640 1012 0 31 1865 0 0 c 0 0 1939 968 5309 5309 1646 2682 995 224 31 4726 798 0 0 g 0 0 277 4340 139 11 658 1613 618 5309 5309 582 1295 0 0 t 0 0 1386 47 0 281 2972 438 56 0 0 21 1350 0 0
3725_UP00028_UniPROBE_20120919__rc_shift0 (3725_UP00028_UniPROBE_20120919__rc)		0.765	0.561	6.752	0.492	0.900	2.415	0.890	292	53	66	68	101	340	235	165.000	148	; positions_7nt_m3 versus 3725_UP00028_UniPROBE_20120919__rc; m=7/13; ncol2=15; w=11; offset=-3; strand=R; shift=0; score= 165; wthSCCysrGGSdww ; cor=0.765; Ncor=0.561; logoDP=6.752; NIcor=0.492; NsEucl=0.900; SSD=2.415; NSW=0.890; rcor=292; rNcor=53; rlogoDP=66; rNIcor=68; rNsEucl=101; rSSD=340; rNSW=235; rank_mean=165.000; match_rank=148 a 28 15 25 1 1 0 0 5 0.59 0.03 1 2 35 33 30 c 24 14 33 27 98 0.96 0.28 55 0.12 0.01 1 70 7 19 16 g 22 15 9 70 1 0.01 0.12 38 0.28 0.96 98 27 29 22 17 t 26 56 33 2 0 0.03 0.59 2 0 0 0 1 29 26 37
1944_PB0088.1_JASPAR_CORE_2009__rc_shift0 (1944_PB0088.1_JASPAR_CORE_2009__rc)		0.764	0.561	6.657	0.495	0.900	2.419	0.890	294	54	72	63	102	341	238	166.286	150	; positions_7nt_m3 versus 1944_PB0088.1_JASPAR_CORE_2009__rc; m=8/13; ncol2=15; w=11; offset=-3; strand=R; shift=0; score=166.286; wtySCCysrGGSdww ; cor=0.764; Ncor=0.561; logoDP=6.657; NIcor=0.495; NsEucl=0.900; SSD=2.419; NSW=0.890; rcor=294; rNcor=54; rlogoDP=72; rNIcor=63; rNsEucl=102; rSSD=341; rNSW=238; rank_mean=166.286; match_rank=150 a 27 15 24 1 1 0 0 5 59 3 1 2 35 33 29 c 24 14 33 27 98 96 28 54 12 1 1 70 7 19 16 g 22 15 9 70 1 1 12 38 28 96 98 27 28 21 17 t 26 56 33 2 1 3 59 2 0 0 1 1 29 26 37
5878_TFAP2C_DBD_2_HumanTF_1.0__shift2 (5878_TFAP2C_DBD_2_HumanTF_1.0_)		0.762	0.635	6.738	0.583	0.890	2.421	0.879	303	18	68	18	144	342	280	167.571	154	; positions_7nt_m3 versus 5878_TFAP2C_DBD_2_HumanTF_1.0_; m=9/13; ncol2=11; w=10; offset=-1; strand=D; shift=2; score=167.571; --hGCCtsAGGCw-- ; cor=0.762; Ncor=0.635; logoDP=6.738; NIcor=0.583; NsEucl=0.890; SSD=2.421; NSW=0.879; rcor=303; rNcor=18; rlogoDP=68; rNIcor=18; rNsEucl=144; rSSD=342; rNSW=280; rank_mean=167.571; match_rank=154 a 0 0 2750 159 0 3 148 1124 5725 1038 0 127 3008 0 0 c 0 0 2292 836 7757 7757 1751 2896 837 85 108 7064 509 0 0 g 0 0 566 6921 148 33 1117 2871 1139 7757 7757 694 1870 0 0 t 0 0 2150 71 0 595 4740 867 56 17 0 97 2370 0 0
5882_TFAP2C_full_3_HumanTF_1.0__shift2 (5882_TFAP2C_full_3_HumanTF_1.0_)		0.757	0.631	5.039	0.573	0.890	2.405	0.880	325	19	126	22	143	339	279	179.000	174	; positions_7nt_m3 versus 5882_TFAP2C_full_3_HumanTF_1.0_; m=10/13; ncol2=11; w=10; offset=-1; strand=D; shift=2; score= 179; --wGCCysAGGCw-- ; cor=0.757; Ncor=0.631; logoDP=5.039; NIcor=0.573; NsEucl=0.890; SSD=2.405; NSW=0.880; rcor=325; rNcor=19; rlogoDP=126; rNIcor=22; rNsEucl=143; rSSD=339; rNSW=279; rank_mean=179.000; match_rank=174 a 0 0 382 0 0 11 44 172 741 106 0 21 398 0 0 c 0 0 245 251 1026 1026 272 446 110 210 220 953 91 0 0 g 0 0 123 775 18 5 131 319 135 1026 1026 73 213 0 0 t 0 0 276 13 0 37 580 89 41 162 69 2 324 0 0
7295_AP2A_f2_HOCOMOCO_v9__rc_shift3 (7295_AP2A_f2_HOCOMOCO_v9__rc)		0.802	0.584	2.399	-0.007	0.884	1.718	0.893	185	33	226	292	184	258	220	199.714	214	; positions_7nt_m3 versus 7295_AP2A_f2_HOCOMOCO_v9__rc; m=11/13; ncol2=8; w=8; offset=0; strand=R; shift=3; score=199.714; ---sCCyCaGG---- ; cor=0.802; Ncor=0.584; logoDP=2.399; NIcor=-0.007; NsEucl=0.884; SSD=1.718; NSW=0.893; rcor=185; rNcor=33; rlogoDP=226; rNIcor=292; rNsEucl=184; rSSD=258; rNSW=220; rank_mean=199.714; match_rank=214 a 0 0 0 70 4 9 70 187 1276 74 30 0 0 0 0 c 0 0 0 698 1859 1746 742 1742 169 81 97 0 0 0 0 g 0 0 0 1036 29 30 297 0 419 1749 1790 0 0 0 0 t 0 0 0 126 38 145 821 1 66 26 13 0 0 0 0
7297_AP2C_f1_HOCOMOCO_v9__rc_shift3 (7297_AP2C_f1_HOCOMOCO_v9__rc)		0.785	0.571	2.819	-0.001	0.879	1.877	0.883	225	49	208	289	223	285	269	221.143	257	; positions_7nt_m3 versus 7297_AP2C_f1_HOCOMOCO_v9__rc; m=12/13; ncol2=8; w=8; offset=0; strand=R; shift=3; score=221.143; ---sCCyCAGG---- ; cor=0.785; Ncor=0.571; logoDP=2.819; NIcor=-0.001; NsEucl=0.879; SSD=1.877; NSW=0.883; rcor=225; rNcor=49; rlogoDP=208; rNIcor=289; rNsEucl=223; rSSD=285; rNSW=269; rank_mean=221.143; match_rank=257 a 0 0 0 59 2 1 59 170 1166 6 25 0 0 0 0 c 0 0 0 571 1564 1282 629 1416 36 1 1 0 0 0 0 g 0 0 0 893 1 1 330 0 381 1567 1572 0 0 0 0 t 0 0 0 76 32 315 581 13 16 25 1 0 0 0 0
6517_2wbs_A_3D-footprint_20130124__shift8 (6517_2wbs_A_3D-footprint_20130124_)		0.766	0.418	5.958	0.398	0.853	1.560	0.870	287	300	98	163	332	215	309	243.429	300	; positions_7nt_m3 versus 6517_2wbs_A_3D-footprint_20130124_; m=13/13; ncol2=6; w=6; offset=5; strand=D; shift=8; score=243.429; --------aGGCGC- ; cor=0.766; Ncor=0.418; logoDP=5.958; NIcor=0.398; NsEucl=0.853; SSD=1.560; NSW=0.870; rcor=287; rNcor=300; rlogoDP=98; rNIcor=163; rNsEucl=332; rSSD=215; rNSW=309; rank_mean=243.429; match_rank=300 a 0 0 0 0 0 0 0 0 38 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 20 0 0 96 0 76 0 g 0 0 0 0 0 0 0 0 19 96 96 0 96 0 0 t 0 0 0 0 0 0 0 0 19 0 0 0 0 20 0

One-to-n matrix alignment; reference matrix: positions_8nt_m1_shift0 ; 3 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_8nt_m1_shift0 (positions_8nt_m1)																		; positions_8nt_m1; m=0 (reference); ncol1=13; shift=0; ncol=13; wkCAGGCCGATvc ; Alignment reference a 17 7 1 37 2 1 4 2 2 34 1 10 9 c 7 9 38 0 0 0 27 31 2 1 0 12 17 g 5 12 0 1 36 38 3 1 35 1 0 12 7 t 10 11 0 1 1 0 5 5 0 3 38 5 6
5095_SigD_2_DBTBS_1.0__shift5 (5095_SigD_2_DBTBS_1.0_)		0.860	0.529	6.075	0.528	0.897	1.359	0.915	95	76	92	46	111	162	121	100.429	51	; positions_8nt_m1 versus 5095_SigD_2_DBTBS_1.0_; m=1/2; ncol2=8; w=8; offset=5; strand=D; shift=5; score=100.429; -----GCCGATAT ; cor=0.860; Ncor=0.529; logoDP=6.075; NIcor=0.528; NsEucl=0.897; SSD=1.359; NSW=0.915; rcor=95; rNcor=76; rlogoDP=92; rNIcor=46; rNsEucl=111; rSSD=162; rNSW=121; rank_mean=100.429; match_rank=51 a 0 0 0 0 0 0 0 0 0.05 0.98 0.02 0.94 0.23 c 0 0 0 0 0 0 1 0.96 0.04 0 0 0.06 0 g 0 0 0 0 0 0.99 0 0.04 0.91 0 0 0 0.05 t 0 0 0 0 0 0.01 0 0 0 0.02 0.98 0 0.72
2429_MA0035.1_JASPAR_CORE_2009__shift7 (2429_MA0035.1_JASPAR_CORE_2009_)		0.872	0.402	3.480	0.405	0.911	0.572	0.952	82	346	194	152	64	34	32	129.143	85	; positions_8nt_m1 versus 2429_MA0035.1_JASPAR_CORE_2009_; m=2/2; ncol2=6; w=6; offset=7; strand=D; shift=7; score=129.143; -------sGATgs ; cor=0.872; Ncor=0.402; logoDP=3.480; NIcor=0.405; NsEucl=0.911; SSD=0.572; NSW=0.952; rcor=82; rNcor=346; rlogoDP=194; rNIcor=152; rNsEucl=64; rSSD=34; rNSW=32; rank_mean=129.143; match_rank=85 a 0 0 0 0 0 0 0 13 0 50 1 13 6 c 0 0 0 0 0 0 0 14 0 2 0 6 16 g 0 0 0 0 0 0 0 15 53 0 1 25 22 t 0 0 0 0 0 0 0 11 0 1 51 9 9

One-to-n matrix alignment; reference matrix: positions_8nt_m4_shift5 ; 9 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_8nt_m4_shift5 (positions_8nt_m4)																		; positions_8nt_m4; m=0 (reference); ncol1=14; shift=5; ncol=19; -----sgAAGGGGGrGAya ; Alignment reference a 0 0 0 0 0 4 5 19 20 1 2 2 0 1 15 2 22 6 7 c 0 0 0 0 0 10 5 2 1 0 1 0 0 0 1 0 0 7 6 g 0 0 0 0 0 7 11 4 4 23 22 21 24 21 7 22 1 5 6 t 0 0 0 0 0 4 4 0 0 1 0 2 1 3 2 1 2 7 6
2529_MA0163.1_JASPAR_CORE_2009__shift0 (2529_MA0163.1_JASPAR_CORE_2009_)		0.884	0.419	4.896	0.422	0.925	0.910	0.949	64	297	133	139	22	72	38	109.286	60	; positions_8nt_m4 versus 2529_MA0163.1_JASPAR_CORE_2009_; m=1/8; ncol2=14; w=9; offset=-5; strand=D; shift=0; score=109.286; GGGGCCcwmGGGGG----- ; cor=0.884; Ncor=0.419; logoDP=4.896; NIcor=0.422; NsEucl=0.925; SSD=0.910; NSW=0.949; rcor=64; rNcor=297; rlogoDP=133; rNIcor=139; rNsEucl=22; rSSD=72; rNSW=38; rank_mean=109.286; match_rank=60 a 0 3 0 0 0 0 4 12 11 2 0 0 0 2 0 0 0 0 0 c 0 0 0 0 14 15 10 0 5 0 0 0 0 0 0 0 0 0 0 g 18 14 18 17 4 1 1 0 2 14 18 18 16 16 0 0 0 0 0 t 0 1 0 1 0 2 3 6 0 2 0 0 2 0 0 0 0 0 0
2448_MA0057.1_JASPAR_CORE_2009__shift6 (2448_MA0057.1_JASPAR_CORE_2009_)		0.783	0.559	4.017	0.548	0.908	1.701	0.915	237	55	172	29	76	251	122	134.571	96	; positions_8nt_m4 versus 2448_MA0057.1_JASPAR_CORE_2009_; m=2/8; ncol2=10; w=10; offset=1; strand=D; shift=6; score=134.571; ------bkAKGGGkrr--- ; cor=0.783; Ncor=0.559; logoDP=4.017; NIcor=0.548; NsEucl=0.908; SSD=1.701; NSW=0.915; rcor=237; rNcor=55; rlogoDP=172; rNIcor=29; rNsEucl=76; rSSD=251; rNSW=122; rank_mean=134.571; match_rank=96 a 0 0 0 0 0 0 1 2 15 0 0 0 0 3 10 8 0 0 0 c 0 0 0 0 0 0 4 0 1 0 0 2 0 1 0 2 0 0 0 g 0 0 0 0 0 0 7 7 0 11 15 14 14 8 4 4 0 0 0 t 0 0 0 0 0 0 4 7 0 5 1 0 2 4 2 2 0 0 0
7511_MZF1_f1_HOCOMOCO_v9__shift10 (7511_MZF1_f1_HOCOMOCO_v9_)		0.796	0.455	5.176	0.430	0.890	1.538	0.904	204	206	124	129	141	208	166	168.286	157	; positions_8nt_m4 versus 7511_MZF1_f1_HOCOMOCO_v9_; m=3/8; ncol2=8; w=8; offset=5; strand=D; shift=10; score=168.286; ----------rkGGGGAw- ; cor=0.796; Ncor=0.455; logoDP=5.176; NIcor=0.430; NsEucl=0.890; SSD=1.538; NSW=0.904; rcor=204; rNcor=206; rlogoDP=124; rNIcor=129; rNsEucl=141; rSSD=208; rNSW=166; rank_mean=168.286; match_rank=157 a 0 0 0 0 0 0 0 0 0 0 19 16 0 0 0 0 67 31 0 c 0 0 0 0 0 0 0 0 0 0 3 3 0 0 0 0 0 5 0 g 0 0 0 0 0 0 0 0 0 0 44 23 70 70 70 70 0 15 0 t 0 0 0 0 0 0 0 0 0 0 4 28 0 0 0 0 3 19 0
5131_YufM_DBTBS_1.0__shift8 (5131_YufM_DBTBS_1.0_)		0.792	0.453	4.969	0.432	0.890	1.553	0.903	208	215	129	125	147	212	174	172.857	164	; positions_8nt_m4 versus 5131_YufM_DBTBS_1.0_; m=4/8; ncol2=8; w=8; offset=3; strand=D; shift=8; score=172.857; --------ArGrGdws--- ; cor=0.792; Ncor=0.453; logoDP=4.969; NIcor=0.432; NsEucl=0.890; SSD=1.553; NSW=0.903; rcor=208; rNcor=215; rlogoDP=129; rNIcor=125; rNsEucl=147; rSSD=212; rNSW=174; rank_mean=172.857; match_rank=164 a 0 0 0 0 0 0 0 0 3 1 0 2 0 1 2 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 g 0 0 0 0 0 0 0 0 0 2 3 1 3 1 0 2 0 0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 1 1 0 0 0 0
2562_MA0306.1_JASPAR_CORE_2009__rc_shift5 (2562_MA0306.1_JASPAR_CORE_2009__rc)		0.805	0.517	0.223	-0.161	0.906	1.431	0.921	178	99	327	346	80	180	108	188.286	190	; positions_8nt_m4 versus 2562_MA0306.1_JASPAR_CORE_2009__rc; m=5/8; ncol2=9; w=9; offset=0; strand=R; shift=5; score=188.286; -----wwwAGGGGw----- ; cor=0.805; Ncor=0.517; logoDP=0.223; NIcor=-0.161; NsEucl=0.906; SSD=1.431; NSW=0.921; rcor=178; rNcor=99; rlogoDP=327; rNIcor=346; rNsEucl=80; rSSD=180; rNSW=108; rank_mean=188.286; match_rank=190 a 0 0 0 0 0 30 27 32 100 13 0 0 3 25 0 0 0 0 0 c 0 0 0 0 0 18 16 15 0 0 0 0 0 12 0 0 0 0 0 g 0 0 0 0 0 19 11 4 0 87 100 100 97 22 0 0 0 0 0 t 0 0 0 0 0 32 46 49 0 0 0 0 0 41 0 0 0 0 0
7481_KLF8_f1_HOCOMOCO_v9__shift8 (7481_KLF8_f1_HOCOMOCO_v9_)		0.752	0.430	4.425	0.442	0.879	1.859	0.884	344	269	156	119	218	281	266	236.143	285	; positions_8nt_m4 versus 7481_KLF8_f1_HOCOMOCO_v9_; m=6/8; ncol2=8; w=8; offset=3; strand=D; shift=8; score=236.143; --------mGkGkGTG--- ; cor=0.752; Ncor=0.430; logoDP=4.425; NIcor=0.442; NsEucl=0.879; SSD=1.859; NSW=0.884; rcor=344; rNcor=269; rlogoDP=156; rNIcor=119; rNsEucl=218; rSSD=281; rNSW=266; rank_mean=236.143; match_rank=285 a 0 0 0 0 0 0 0 0 3 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 2 0 0 0 0 0 1 1 0 0 0 g 0 0 0 0 0 0 0 0 0 4 3 5 3 5 0 4 0 0 0 t 0 0 0 0 0 0 0 0 0 1 2 0 2 0 4 0 0 0 0
2642_MA0423.1_JASPAR_CORE_2009__rc_shift5 (2642_MA0423.1_JASPAR_CORE_2009__rc)		0.768	0.494	0.252	-0.179	0.894	1.826	0.899	282	137	324	351	128	276	198	242.286	298	; positions_8nt_m4 versus 2642_MA0423.1_JASPAR_CORE_2009__rc; m=7/8; ncol2=9; w=9; offset=0; strand=R; shift=5; score=242.286; -----dAwAGGGGk----- ; cor=0.768; Ncor=0.494; logoDP=0.252; NIcor=-0.179; NsEucl=0.894; SSD=1.826; NSW=0.899; rcor=282; rNcor=137; rlogoDP=324; rNIcor=351; rNsEucl=128; rSSD=276; rNSW=198; rank_mean=242.286; match_rank=298 a 0 0 0 0 0 34 75 32 100 0 0 9 2 13 0 0 0 0 0 c 0 0 0 0 0 5 4 8 0 0 0 0 1 23 0 0 0 0 0 g 0 0 0 0 0 28 0 0 0 100 100 91 97 28 0 0 0 0 0 t 0 0 0 0 0 32 21 60 0 0 0 0 0 35 0 0 0 0 0
2609_MA0372.1_JASPAR_CORE_2009__rc_shift6 (2609_MA0372.1_JASPAR_CORE_2009__rc)		0.756	0.432	0.363	-0.177	0.876	1.984	0.876	336	263	312	349	244	302	293	299.857	345	; positions_8nt_m4 versus 2609_MA0372.1_JASPAR_CORE_2009__rc; m=8/8; ncol2=8; w=8; offset=1; strand=R; shift=6; score=299.857; ------TwAGGGGt----- ; cor=0.756; Ncor=0.432; logoDP=0.363; NIcor=-0.177; NsEucl=0.876; SSD=1.984; NSW=0.876; rcor=336; rNcor=263; rlogoDP=312; rNIcor=349; rNsEucl=244; rSSD=302; rNSW=293; rank_mean=299.857; match_rank=345 a 0 0 0 0 0 0 13 28 100 0 0 0 0 19 0 0 0 0 0 c 0 0 0 0 0 0 7 7 0 0 0 0 0 14 0 0 0 0 0 g 0 0 0 0 0 0 7 1 0 100 100 100 100 14 0 0 0 0 0 t 0 0 0 0 0 0 74 63 0 0 0 0 0 53 0 0 0 0 0

One-to-n matrix alignment; reference matrix: positions_8nt_m2_shift0 ; 3 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_8nt_m2_shift0 (positions_8nt_m2)																		; positions_8nt_m2; m=0 (reference); ncol1=13; shift=0; ncol=13; shTCGTTGGCTdv ; Alignment reference a 1 5 1 0 0 1 2 1 2 1 1 4 5 c 8 4 0 15 0 0 1 0 1 15 2 2 5 g 4 3 1 0 16 0 0 14 12 0 1 6 4 t 3 4 14 1 0 15 13 1 1 0 12 4 2
7524_NFIA+NFIB+NFIC+NFIX_si_HOCOMOCO_v9__shift5 (7524_NFIA+NFIB+NFIC+NFIX_si_HOCOMOCO_v9_)		0.908	0.419	3.530	0.410	0.914	0.537	0.955	34	296	189	149	54	30	30	111.714	66	; positions_8nt_m2 versus 7524_NFIA+NFIB+NFIC+NFIX_si_HOCOMOCO_v9_; m=1/2; ncol2=6; w=6; offset=5; strand=D; shift=5; score=111.714; -----TTGGCw-- ; cor=0.908; Ncor=0.419; logoDP=3.530; NIcor=0.410; NsEucl=0.914; SSD=0.537; NSW=0.955; rcor=34; rNcor=296; rlogoDP=189; rNIcor=149; rNsEucl=54; rSSD=30; rNSW=30; rank_mean=111.714; match_rank=66 a 0 0 0 0 0 15 2 3 8 14 118 0 0 c 0 0 0 0 0 46 1 1 3 235 34 0 0 g 0 0 0 0 0 2 14 255 253 12 37 0 0 t 0 0 0 0 0 202 248 6 1 4 76 0 0
7282_WRKY45_ArabidopsisPBM_20140210__shift2 (7282_WRKY45_ArabidopsisPBM_20140210_)		0.756	0.582	6.829	0.558	0.890	2.426	0.879	332	38	63	25	146	343	282	175.571	168	; positions_8nt_m2 versus 7282_WRKY45_ArabidopsisPBM_20140210_; m=2/2; ncol2=10; w=10; offset=2; strand=D; shift=2; score=175.571; --dCGTTGACya- ; cor=0.756; Ncor=0.582; logoDP=6.829; NIcor=0.558; NsEucl=0.890; SSD=2.426; NSW=0.879; rcor=332; rNcor=38; rlogoDP=63; rNIcor=25; rNsEucl=146; rSSD=343; rNSW=282; rank_mean=175.571; match_rank=168 a 0 0 30 6 2 1 1 0 99 1 1 64 0 c 0 0 12 88 0 2 0 0 1 98 53 12 0 g 0 0 32 2 89 0 1 99 0 0 1 13 0 t 0 0 26 4 9 97 98 1 0 1 45 11 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_shift2 ; 11 matrices ; sort_field=rank_mean

Matrix name	Aligned logos	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
oligos_6nt_mkv3_shift2 (oligos_6nt_mkv3)																		; oligos_6nt_mkv3; m=0 (reference); ncol1=12; shift=2; ncol=15; --hkGAAGAGATcd- ; Alignment reference a 0 0 3 2 0 12 12 0 12 0 12 0 2 4 0 c 0 0 4 2 0 0 0 0 0 0 0 0 8 1 0 g 0 0 2 4 12 0 0 12 0 12 0 1 2 4 0 t 0 0 3 4 0 0 0 0 0 0 0 11 0 3 0
2470_MA0080.1_JASPAR_CORE_2009__shift2 (2470_MA0080.1_JASPAR_CORE_2009_)		0.878	0.439	5.219	0.428	0.901	0.712	0.941	72	245	122	134	100	48	63	112.000	67	; oligos_6nt_mkv3 versus 2470_MA0080.1_JASPAR_CORE_2009_; m=1/10; ncol2=6; w=6; offset=0; strand=D; shift=2; score= 112; --sGGAAs------- ; cor=0.878; Ncor=0.439; logoDP=5.219; NIcor=0.428; NsEucl=0.901; SSD=0.712; NSW=0.941; rcor=72; rNcor=245; rlogoDP=122; rNIcor=134; rNsEucl=100; rSSD=48; rNSW=63; rank_mean=112.000; match_rank=67 a 0 0 14 4 3 56 56 3 0 0 0 0 0 0 0 c 0 0 21 2 0 1 0 18 0 0 0 0 0 0 0 g 0 0 19 48 52 0 0 34 0 0 0 0 0 0 0 t 0 0 3 3 2 0 1 2 0 0 0 0 0 0 0
5987_1awc_A_3D-footprint_20130124__shift2 (5987_1awc_A_3D-footprint_20130124_)		0.857	0.428	6.011	0.401	0.888	0.910	0.924	98	271	96	157	163	71	100	136.571	101	; oligos_6nt_mkv3 versus 5987_1awc_A_3D-footprint_20130124_; m=2/10; ncol2=6; w=6; offset=0; strand=D; shift=2; score=136.571; --cGGAAg------- ; cor=0.857; Ncor=0.428; logoDP=6.011; NIcor=0.401; NsEucl=0.888; SSD=0.910; NSW=0.924; rcor=98; rNcor=271; rlogoDP=96; rNIcor=157; rNsEucl=163; rSSD=71; rNSW=100; rank_mean=136.571; match_rank=101 a 0 0 13 0 0 96 96 13 0 0 0 0 0 0 0 c 0 0 54 0 0 0 0 13 0 0 0 0 0 0 0 g 0 0 16 96 96 0 0 57 0 0 0 0 0 0 0 t 0 0 13 0 0 0 0 13 0 0 0 0 0 0 0
108_MA0062.1_JASPAR_CORE_2009__shift0 (108_MA0062.1_JASPAR_CORE_2009_)		0.809	0.462	8.128	0.420	0.884	1.722	0.892	168	185	33	142	186	260	223	171.000	163	; oligos_6nt_mkv3 versus 108_MA0062.1_JASPAR_CORE_2009_; m=3/10; ncol2=10; w=8; offset=-2; strand=D; shift=0; score= 171; ACCGGAAGws----- ; cor=0.809; Ncor=0.462; logoDP=8.128; NIcor=0.420; NsEucl=0.884; SSD=1.722; NSW=0.892; rcor=168; rNcor=185; rlogoDP=33; rNIcor=142; rNsEucl=186; rSSD=260; rNSW=223; rank_mean=171.000; match_rank=163 a 5 1 1 0 0 7 7 0 3 0 0 0 0 0 0 c 1 5 6 0 0 0 0 0 1 2 0 0 0 0 0 g 1 1 0 7 7 0 0 7 1 4 0 0 0 0 0 t 0 0 0 0 0 0 0 0 2 1 0 0 0 0 0
6730_4b06_A_3D-footprint_20130124__rc_shift2 (6730_4b06_A_3D-footprint_20130124__rc)		0.856	0.428	1.961	0.016	0.870	1.208	0.899	100	273	250	283	279	119	190	213.429	242	; oligos_6nt_mkv3 versus 6730_4b06_A_3D-footprint_20130124__rc; m=4/10; ncol2=6; w=6; offset=0; strand=R; shift=2; score=213.429; --CGGAAG------- ; cor=0.856; Ncor=0.428; logoDP=1.961; NIcor=0.016; NsEucl=0.870; SSD=1.208; NSW=0.899; rcor=100; rNcor=273; rlogoDP=250; rNIcor=283; rNsEucl=279; rSSD=119; rNSW=190; rank_mean=213.429; match_rank=242 a 0 0 0 0 0 96 96 0 0 0 0 0 0 0 0 c 0 0 96 0 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 96 96 0 0 96 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
3027_POL008.1_JASPAR_CORE_2009__rc_shift3 (3027_POL008.1_JASPAR_CORE_2009__rc)		0.858	0.429	0.193	-0.128	0.874	1.135	0.905	97	270	330	320	258	100	159	219.143	252	; oligos_6nt_mkv3 versus 3027_POL008.1_JASPAR_CORE_2009__rc; m=5/10; ncol2=6; w=6; offset=1; strand=R; shift=3; score=219.143; ---sGaAGc------ ; cor=0.858; Ncor=0.429; logoDP=0.193; NIcor=-0.128; NsEucl=0.874; SSD=1.135; NSW=0.905; rcor=97; rNcor=270; rlogoDP=330; rNIcor=320; rNsEucl=258; rSSD=100; rNSW=159; rank_mean=219.143; match_rank=252 a 0 0 0 25 6 72 85 5 25 0 0 0 0 0 0 c 0 0 0 27 7 20 8 6 46 0 0 0 0 0 0 g 0 0 0 34 93 12 12 93 19 0 0 0 0 0 0 t 0 0 0 22 2 4 3 4 18 0 0 0 0 0 0
2554_MA0293.1_JASPAR_CORE_2009__shift6 (2554_MA0293.1_JASPAR_CORE_2009_)		0.774	0.413	4.982	0.387	0.879	1.865	0.883	264	318	128	177	219	282	267	236.429	287	; oligos_6nt_mkv3 versus 2554_MA0293.1_JASPAR_CORE_2009_; m=6/10; ncol2=11; w=8; offset=4; strand=D; shift=6; score=236.429; ------mmAGATCtw ; cor=0.774; Ncor=0.413; logoDP=4.982; NIcor=0.387; NsEucl=0.879; SSD=1.865; NSW=0.883; rcor=264; rNcor=318; rlogoDP=128; rNIcor=177; rNsEucl=219; rSSD=282; rNSW=267; rank_mean=236.429; match_rank=287 a 0 0 0 0 0 0 31 33 72 10 100 3 1 14 30 c 0 0 0 0 0 0 25 25 11 2 0 0 90 19 23 g 0 0 0 0 0 0 23 22 10 86 0 0 3 14 21 t 0 0 0 0 0 0 21 20 7 2 0 97 7 53 26
6697_3rkq_B_3D-footprint_20130124__shift3 (6697_3rkq_B_3D-footprint_20130124_)		0.760	0.444	6.887	0.445	0.859	1.955	0.860	314	235	61	116	322	298	331	239.571	292	; oligos_6nt_mkv3 versus 6697_3rkq_B_3D-footprint_20130124_; m=7/10; ncol2=7; w=7; offset=1; strand=D; shift=3; score=239.571; ---TcaAGAG----- ; cor=0.760; Ncor=0.444; logoDP=6.887; NIcor=0.445; NsEucl=0.859; SSD=1.955; NSW=0.860; rcor=314; rNcor=235; rlogoDP=61; rNIcor=116; rNsEucl=322; rSSD=298; rNSW=331; rank_mean=239.571; match_rank=292 a 0 0 0 4 12 48 96 4 92 4 0 0 0 0 0 c 0 0 0 20 60 16 0 0 0 0 0 0 0 0 0 g 0 0 0 4 4 16 0 92 0 92 0 0 0 0 0 t 0 0 0 68 20 16 0 0 4 0 0 0 0 0 0
6749_4hn6_A_3D-footprint_20130124__rc_shift4 (6749_4hn6_A_3D-footprint_20130124__rc)		0.861	0.431	0.148	-0.136	0.863	1.342	0.888	91	265	334	328	305	151	247	245.857	304	; oligos_6nt_mkv3 versus 6749_4hn6_A_3D-footprint_20130124__rc; m=8/10; ncol2=6; w=6; offset=2; strand=R; shift=4; score=245.857; ----GnagAG----- ; cor=0.861; Ncor=0.431; logoDP=0.148; NIcor=-0.136; NsEucl=0.863; SSD=1.342; NSW=0.888; rcor=91; rNcor=265; rlogoDP=334; rNIcor=328; rNsEucl=305; rSSD=151; rNSW=247; rank_mean=245.857; match_rank=304 a 0 0 0 0 0 24 60 15 80 10 0 0 0 0 0 c 0 0 0 0 0 24 10 20 5 0 0 0 0 0 0 g 0 0 0 0 96 24 21 50 5 80 0 0 0 0 0 t 0 0 0 0 0 24 5 11 6 6 0 0 0 0 0
2560_MA0302.1_JASPAR_CORE_2009__shift6 (2560_MA0302.1_JASPAR_CORE_2009_)		0.756	0.403	6.109	0.380	0.873	2.059	0.871	335	342	90	188	264	312	307	262.571	319	; oligos_6nt_mkv3 versus 2560_MA0302.1_JASPAR_CORE_2009_; m=9/10; ncol2=11; w=8; offset=4; strand=D; shift=6; score=262.571; ------ahAGATCya ; cor=0.756; Ncor=0.403; logoDP=6.109; NIcor=0.380; NsEucl=0.873; SSD=2.059; NSW=0.871; rcor=335; rNcor=342; rlogoDP=90; rNIcor=188; rNsEucl=264; rSSD=312; rNSW=307; rank_mean=262.571; match_rank=319 a 0 0 0 0 0 0 36 31 80 3 98 0 0 5 40 c 0 0 0 0 0 0 21 26 4 0 0 0 99 28 20 g 0 0 0 0 0 0 24 18 12 96 0 0 0 3 23 t 0 0 0 0 0 0 20 26 4 0 2 99 0 64 17
5048_ZmHOX2a_2__Athamap_20091028__rc_shift7 (5048_ZmHOX2a_2__Athamap_20091028__rc)		0.780	0.455	0.100	-0.141	0.871	1.623	0.884	245	207	343	331	276	232	263	271.000	327	; oligos_6nt_mkv3 versus 5048_ZmHOX2a_2__Athamap_20091028__rc; m=10/10; ncol2=7; w=7; offset=5; strand=R; shift=7; score= 271; -------cmGATCa- ; cor=0.780; Ncor=0.455; logoDP=0.100; NIcor=-0.141; NsEucl=0.871; SSD=1.623; NSW=0.884; rcor=245; rNcor=207; rlogoDP=343; rNIcor=331; rNsEucl=276; rSSD=232; rNSW=263; rank_mean=271.000; match_rank=327 a 0 0 0 0 0 0 0 6 16 0 27 0 0 15 0 c 0 0 0 0 0 0 0 14 7 0 0 0 27 5 0 g 0 0 0 0 0 0 0 4 4 27 0 0 0 2 0 t 0 0 0 0 0 0 0 3 0 0 0 27 0 5 0