One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 1/regulon1.rm.fna.peaks-rm/results/discovered_motifs/peaks_motifs_discovered.tf -format2 transfac -file2 $RSAT/_footprintDB/footprintDB.transfac.plants.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 1/regulon1.rm.fna.peaks-rm/results/discovered_vs_db/peaks_motifs_vs_db_footDB.tab

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m1_shift0 ; 35 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_5-7nt_m1_shift0 (oligos_5-7nt_m1)																		; oligos_5-7nt_m1; m=0 (reference); ncol1=11; shift=0; ncol=14; wtATAAAAGww--- ; Alignment reference a 79 47 149 0 216 182 176 209 7 61 75 0 0 0 c 36 40 19 2 0 12 10 4 20 49 32 0 0 0 g 38 40 24 1 0 9 11 0 187 44 53 0 0 0 t 64 90 25 214 1 14 20 4 3 63 57 0 0 0
TATA_BINDING_TBP_1vtl_E_3D-footprint_shift1 (TATA_BINDING_TBP_1vtl_E_3D-footprint)		0.923	0.671	6.514	0.640	0.927	0.685	0.957	9	5	2	3	1	16	10	6.571	1	; oligos_5-7nt_m1 versus TATA_BINDING_TBP_1vtl_E_3D-footprint; m=1/34; ncol2=8; w=8; offset=1; strand=D; shift=1; score= 6.5714; -TATAAaAG----- ; cor=0.923; Ncor=0.671; logoDP=6.514; NIcor=0.640; NsEucl=0.927; SSD=0.685; NSW=0.957; rcor=9; rNcor=5; rlogoDP=2; rNIcor=3; rNsEucl=1; rSSD=16; rNSW=10; rank_mean=6.571; match_rank=1 a 0 0 96 0 96 72 60 96 12 0 0 0 0 0 c 0 0 0 0 0 12 12 0 12 0 0 0 0 0 g 0 0 0 0 0 12 12 0 72 0 0 0 0 0 t 0 96 0 96 0 0 12 0 0 0 0 0 0 0
Dof3_MA0021.1_JASPAR_shift5 (Dof3_MA0021.1_JASPAR)		0.948	0.517	4.334	0.534	0.926	0.394	0.967	3	66	29	30	5	3	3	19.857	2	; oligos_5-7nt_m1 versus Dof3_MA0021.1_JASPAR; m=2/34; ncol2=6; w=6; offset=5; strand=D; shift=5; score=19.8571; -----AAAGyv--- ; cor=0.948; Ncor=0.517; logoDP=4.334; NIcor=0.534; NsEucl=0.926; SSD=0.394; NSW=0.967; rcor=3; rNcor=66; rlogoDP=29; rNIcor=30; rNsEucl=5; rSSD=3; rNSW=3; rank_mean=19.857; match_rank=2 a 0 0 0 0 0 21 21 21 0 0 6 0 0 0 c 0 0 0 0 0 0 0 0 0 10 6 0 0 0 g 0 0 0 0 0 0 0 0 21 3 9 0 0 0 t 0 0 0 0 0 0 0 0 0 8 0 0 0 0
Dof2_MA0020.1_JASPAR_shift5 (Dof2_MA0020.1_JASPAR)		0.946	0.516	4.331	0.519	0.925	0.408	0.966	4	67	30	36	8	4	4	21.857	5	; oligos_5-7nt_m1 versus Dof2_MA0020.1_JASPAR; m=3/34; ncol2=6; w=6; offset=5; strand=D; shift=5; score=21.8571; -----AAAGcm--- ; cor=0.946; Ncor=0.516; logoDP=4.331; NIcor=0.519; NsEucl=0.925; SSD=0.408; NSW=0.966; rcor=4; rNcor=67; rlogoDP=30; rNIcor=36; rNsEucl=8; rSSD=4; rNSW=4; rank_mean=21.857; match_rank=5 a 0 0 0 0 0 21 21 21 0 3 7 0 0 0 c 0 0 0 0 0 0 0 0 0 14 6 0 0 0 g 0 0 0 0 0 0 0 0 21 2 3 0 0 0 t 0 0 0 0 0 0 0 0 0 2 5 0 0 0
PBF_M00355_TRANSFAC_shift1 (PBF_M00355_TRANSFAC)		0.799	0.666	4.773	0.630	0.913	1.499	0.925	63	6	17	4	28	65	44	32.429	17	; oligos_5-7nt_m1 versus PBF_M00355_TRANSFAC; m=4/34; ncol2=11; w=10; offset=1; strand=D; shift=1; score=32.4286; -wwdwAAAGhgm-- ; cor=0.799; Ncor=0.666; logoDP=4.773; NIcor=0.630; NsEucl=0.913; SSD=1.499; NSW=0.925; rcor=63; rNcor=6; rlogoDP=17; rNIcor=4; rNsEucl=28; rSSD=65; rNSW=44; rank_mean=32.429; match_rank=17 a 0 7 7 4 9 16 16 16 0 4 3 7 0 0 c 0 3 2 3 1 0 0 0 0 7 3 5 0 0 g 0 2 1 4 0 0 0 0 16 1 9 3 0 0 t 0 4 6 5 6 0 0 0 0 4 1 1 0 0
PBF_MA0064.1_JASPAR_shift5 (PBF_MA0064.1_JASPAR)		0.965	0.439	4.331	0.442	0.923	0.296	0.970	1	113	32	76	12	1	1	33.714	21	; oligos_5-7nt_m1 versus PBF_MA0064.1_JASPAR; m=5/34; ncol2=5; w=5; offset=5; strand=D; shift=5; score=33.7143; -----AAAGy---- ; cor=0.965; Ncor=0.439; logoDP=4.331; NIcor=0.442; NsEucl=0.923; SSD=0.296; NSW=0.970; rcor=1; rNcor=113; rlogoDP=32; rNIcor=76; rNsEucl=12; rSSD=1; rNSW=1; rank_mean=33.714; match_rank=21 a 0 0 0 0 0 16 16 16 0 1 0 0 0 0 c 0 0 0 0 0 0 0 0 0 9 0 0 0 0 g 0 0 0 0 0 0 0 0 16 1 0 0 0 0 t 0 0 0 0 0 0 0 0 0 5 0 0 0 0
MNB1A_MA0053.1_JASPAR_shift5 (MNB1A_MA0053.1_JASPAR)		0.963	0.438	4.331	0.440	0.921	0.311	0.969	2	114	31	77	14	2	2	34.571	23	; oligos_5-7nt_m1 versus MNB1A_MA0053.1_JASPAR; m=6/34; ncol2=5; w=5; offset=5; strand=D; shift=5; score=34.5714; -----AAAGc---- ; cor=0.963; Ncor=0.438; logoDP=4.331; NIcor=0.440; NsEucl=0.921; SSD=0.311; NSW=0.969; rcor=2; rNcor=114; rlogoDP=31; rNIcor=77; rNsEucl=14; rSSD=2; rNSW=2; rank_mean=34.571; match_rank=23 a 0 0 0 0 0 15 15 15 0 3 0 0 0 0 c 0 0 0 0 0 0 0 0 0 9 0 0 0 0 g 0 0 0 0 0 0 0 0 15 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 3 0 0 0 0
_TATA_BINDING_TBP_1vol_AB_3D-footprint_rc_shift1 (_TATA_BINDING_TBP_1vol_AB_3D-footprint_rc)		0.912	0.663	1.106	-0.047	0.920	0.818	0.949	10	7	111	112	16	23	22	43.000	28	; oligos_5-7nt_m1 versus _TATA_BINDING_TBP_1vol_AB_3D-footprint_rc; m=7/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score= 43; -TATAAaAg----- ; cor=0.912; Ncor=0.663; logoDP=1.106; NIcor=-0.047; NsEucl=0.920; SSD=0.818; NSW=0.949; rcor=10; rNcor=7; rlogoDP=111; rNIcor=112; rNsEucl=16; rSSD=23; rNSW=22; rank_mean=43.000; match_rank=28 a 0 0 96 0 96 96 48 96 16 0 0 0 0 0 c 0 0 0 0 0 0 16 0 16 0 0 0 0 0 g 0 0 0 0 0 0 16 0 64 0 0 0 0 0 t 0 96 0 96 0 0 16 0 0 0 0 0 0 0
_TATA_BINDING_TBP_1cdw_A_3D-footprint_rc_shift1 (_TATA_BINDING_TBP_1cdw_A_3D-footprint_rc)		0.909	0.661	1.171	-0.030	0.920	0.829	0.948	12	8	109	110	18	25	24	43.714	29	; oligos_5-7nt_m1 versus _TATA_BINDING_TBP_1cdw_A_3D-footprint_rc; m=8/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=43.7143; -TATAAaAg----- ; cor=0.909; Ncor=0.661; logoDP=1.171; NIcor=-0.030; NsEucl=0.920; SSD=0.829; NSW=0.948; rcor=12; rNcor=8; rlogoDP=109; rNIcor=110; rNsEucl=18; rSSD=25; rNSW=24; rank_mean=43.714; match_rank=29 a 0 0 96 0 96 96 54 96 13 0 0 0 0 0 c 0 0 0 0 0 0 13 0 16 0 0 0 0 0 g 0 0 0 0 0 0 13 0 54 0 0 0 0 0 t 0 96 0 96 0 0 16 0 13 0 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc)		0.909	0.661	1.171	-0.030	0.919	0.832	0.948	13	9	108	111	19	26	25	44.429	30	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc; m=9/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=44.4286; -TATAAaAg----- ; cor=0.909; Ncor=0.661; logoDP=1.171; NIcor=-0.030; NsEucl=0.919; SSD=0.832; NSW=0.948; rcor=13; rNcor=9; rlogoDP=108; rNIcor=111; rNsEucl=19; rSSD=26; rNSW=25; rank_mean=44.429; match_rank=30 a 0 0 96 0 96 96 54 96 13 0 0 0 0 0 c 0 0 0 0 0 0 13 0 16 0 0 0 0 0 g 0 0 0 0 0 0 16 0 54 0 0 0 0 0 t 0 96 0 96 0 0 13 0 13 0 0 0 0 0
PBF_M01130_TRANSFAC_shift4 (PBF_M01130_TRANSFAC)		0.886	0.483	4.678	0.469	0.899	0.735	0.939	25	93	19	65	70	20	31	46.143	32	; oligos_5-7nt_m1 versus PBF_M01130_TRANSFAC; m=10/34; ncol2=6; w=6; offset=4; strand=D; shift=4; score=46.1429; ----wAAAGg---- ; cor=0.886; Ncor=0.483; logoDP=4.678; NIcor=0.469; NsEucl=0.899; SSD=0.735; NSW=0.939; rcor=25; rNcor=93; rlogoDP=19; rNIcor=65; rNsEucl=70; rSSD=20; rNSW=31; rank_mean=46.143; match_rank=32 a 0 0 0 0 6 11 11 11 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 2 0 0 0 0 g 0 0 0 0 1 0 0 0 11 7 0 0 0 0 t 0 0 0 0 4 0 0 0 0 2 0 0 0 0
Dof1_M00352_TRANSFAC_shift1 (Dof1_M00352_TRANSFAC)		0.762	0.635	4.791	0.595	0.906	1.771	0.911	112	12	15	6	40	100	68	50.429	37	; oligos_5-7nt_m1 versus Dof1_M00352_TRANSFAC; m=11/34; ncol2=11; w=10; offset=1; strand=D; shift=1; score=50.4286; -aaywAAAGmhm-- ; cor=0.762; Ncor=0.635; logoDP=4.791; NIcor=0.595; NsEucl=0.906; SSD=1.771; NSW=0.911; rcor=112; rNcor=12; rlogoDP=15; rNIcor=6; rNsEucl=40; rSSD=100; rNSW=68; rank_mean=50.429; match_rank=37 a 0 8 7 2 6 15 15 15 0 5 4 4 0 0 c 0 3 3 6 0 0 0 0 0 6 4 6 0 0 g 0 2 3 2 0 0 0 0 15 1 3 2 0 0 t 0 2 2 5 9 0 0 0 0 3 4 2 0 0
Dof2_M00353_TRANSFAC_shift1 (Dof2_M00353_TRANSFAC)		0.751	0.626	4.461	0.582	0.905	1.803	0.910	125	14	26	9	45	103	74	56.571	46	; oligos_5-7nt_m1 versus Dof2_M00353_TRANSFAC; m=12/34; ncol2=11; w=10; offset=1; strand=D; shift=1; score=56.5714; -mmwwAAAGcrm-- ; cor=0.751; Ncor=0.626; logoDP=4.461; NIcor=0.582; NsEucl=0.905; SSD=1.803; NSW=0.910; rcor=125; rNcor=14; rlogoDP=26; rNIcor=9; rNsEucl=45; rSSD=103; rNSW=74; rank_mean=56.571; match_rank=46 a 0 7 7 7 7 21 21 21 0 3 7 7 0 0 c 0 7 6 3 2 0 0 0 0 12 4 6 0 0 g 0 2 4 4 2 0 0 0 21 2 6 5 0 0 t 0 5 4 7 10 0 0 0 0 4 4 3 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc)		0.863	0.628	1.168	-0.029	0.905	1.163	0.927	36	13	110	109	48	39	43	56.857	48	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc; m=13/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=56.8571; -AATAAaAg----- ; cor=0.863; Ncor=0.628; logoDP=1.168; NIcor=-0.029; NsEucl=0.905; SSD=1.163; NSW=0.927; rcor=36; rNcor=13; rlogoDP=110; rNIcor=109; rNsEucl=48; rSSD=39; rNSW=43; rank_mean=56.857; match_rank=48 a 0 96 96 0 96 74 53 96 10 0 0 0 0 0 c 0 0 0 0 0 10 21 0 22 0 0 0 0 0 g 0 0 0 0 0 10 10 0 64 0 0 0 0 0 t 0 0 0 96 0 2 12 0 0 0 0 0 0 0
CDF3_MA0974.1_JASPAR_shift3 (CDF3_MA0974.1_JASPAR)		0.789	0.526	3.822	0.501	0.895	1.420	0.911	73	57	40	48	83	52	69	60.286	55	; oligos_5-7nt_m1 versus CDF3_MA0974.1_JASPAR; m=14/34; ncol2=9; w=8; offset=3; strand=D; shift=3; score=60.2857; ---awAAAGygm-- ; cor=0.789; Ncor=0.526; logoDP=3.822; NIcor=0.501; NsEucl=0.895; SSD=1.420; NSW=0.911; rcor=73; rNcor=57; rlogoDP=40; rNIcor=48; rNsEucl=83; rSSD=52; rNSW=69; rank_mean=60.286; match_rank=55 a 0 0 0 447 607 994 989 880 19 70 222 286 0 0 c 0 0 0 143 29 3 5 27 7 291 102 343 0 0 g 0 0 0 220 65 1 0 83 969 160 495 169 0 0 t 0 0 0 191 298 2 6 10 6 479 180 202 0 0
SED_M01128_TRANSFAC_rc_shift4 (SED_M01128_TRANSFAC_rc)		0.891	0.446	0.323	-0.054	0.917	0.679	0.951	20	112	123	114	23	14	17	60.429	56	; oligos_5-7nt_m1 versus SED_M01128_TRANSFAC_rc; m=15/34; ncol2=10; w=7; offset=4; strand=R; shift=4; score=60.4286; ----dAAAGbddrb ; cor=0.891; Ncor=0.446; logoDP=0.323; NIcor=-0.054; NsEucl=0.917; SSD=0.679; NSW=0.951; rcor=20; rNcor=112; rlogoDP=123; rNIcor=114; rNsEucl=23; rSSD=14; rNSW=17; rank_mean=60.429; match_rank=56 a 0 0 0 0 4 8 8 8 0 0 2 2 5 0 c 0 0 0 0 0 0 0 0 0 2 1 1 0 3 g 0 0 0 0 2 0 0 0 8 4 3 2 3 2 t 0 0 0 0 2 0 0 0 0 2 2 3 0 3
cdf3_M0651_1.02_CISBP_shift3 (cdf3_M0651_1.02_CISBP)		0.789	0.526	3.821	0.501	0.895	1.421	0.911	74	58	41	49	84	53	70	61.286	59	; oligos_5-7nt_m1 versus cdf3_M0651_1.02_CISBP; m=16/34; ncol2=9; w=8; offset=3; strand=D; shift=3; score=61.2857; ---awAAAGygm-- ; cor=0.789; Ncor=0.526; logoDP=3.821; NIcor=0.501; NsEucl=0.895; SSD=1.421; NSW=0.911; rcor=74; rNcor=58; rlogoDP=41; rNIcor=49; rNsEucl=84; rSSD=53; rNSW=70; rank_mean=61.286; match_rank=59 a 0 0 0 45 61 100 99 88 2 7 22 29 0 0 c 0 0 0 14 3 0 0 3 1 29 10 34 0 0 g 0 0 0 22 7 0 0 8 96 16 50 17 0 0 t 0 0 0 19 29 0 1 1 1 48 18 20 0 0
e_gw1.392.16.1_M0660_1.02_CISBP_shift2 (e_gw1.392.16.1_M0660_1.02_CISBP)		0.759	0.621	2.212	0.583	0.900	1.618	0.910	116	15	69	8	68	83	71	61.429	60	; oligos_5-7nt_m1 versus e_gw1.392.16.1_M0660_1.02_CISBP; m=17/34; ncol2=9; w=9; offset=2; strand=D; shift=2; score=61.4286; --vrwAAaGyd--- ; cor=0.759; Ncor=0.621; logoDP=2.212; NIcor=0.583; NsEucl=0.900; SSD=1.618; NSW=0.910; rcor=116; rNcor=15; rlogoDP=69; rNIcor=8; rNsEucl=68; rSSD=83; rNSW=71; rank_mean=61.429; match_rank=60 a 0 0 26 33 48 86 93 67 7 13 28 0 0 0 c 0 0 26 19 7 6 3 15 3 29 16 0 0 0 g 0 0 26 26 12 2 0 5 90 20 30 0 0 0 t 0 0 22 22 33 6 4 13 0 38 26 0 0 0
PHYPADRAFT_153324_MA0989.1_JASPAR_shift2 (PHYPADRAFT_153324_MA0989.1_JASPAR)		0.758	0.620	2.193	0.583	0.900	1.622	0.910	117	16	70	7	69	84	73	62.286	61	; oligos_5-7nt_m1 versus PHYPADRAFT_153324_MA0989.1_JASPAR; m=18/34; ncol2=9; w=9; offset=2; strand=D; shift=2; score=62.2857; --vrwAAaGyd--- ; cor=0.758; Ncor=0.620; logoDP=2.193; NIcor=0.583; NsEucl=0.900; SSD=1.622; NSW=0.910; rcor=117; rNcor=16; rlogoDP=70; rNIcor=7; rNsEucl=69; rSSD=84; rNSW=73; rank_mean=62.286; match_rank=61 a 0 0 253 334 482 861 926 672 71 139 285 0 0 0 c 0 0 264 193 71 62 36 147 27 288 158 0 0 0 g 0 0 261 255 118 13 0 52 898 195 297 0 0 0 t 0 0 222 218 330 65 38 129 5 378 260 0 0 0
CDF2_MA0973.1_JASPAR_shift2 (CDF2_MA0973.1_JASPAR)		0.767	0.575	3.899	0.559	0.899	1.665	0.907	108	30	39	19	73	89	79	62.429	62	; oligos_5-7nt_m1 versus CDF2_MA0973.1_JASPAR; m=19/34; ncol2=10; w=9; offset=2; strand=D; shift=2; score=62.4286; --maWAAAGyrh-- ; cor=0.767; Ncor=0.575; logoDP=3.899; NIcor=0.559; NsEucl=0.899; SSD=1.665; NSW=0.907; rcor=108; rNcor=30; rlogoDP=39; rNIcor=19; rNsEucl=73; rSSD=89; rNSW=79; rank_mean=62.429; match_rank=62 a 0 0 334 608 693 980 979 868 17 53 328 299 0 0 c 0 0 284 92 16 10 10 29 7 295 77 282 0 0 g 0 0 235 150 41 4 2 81 969 154 395 155 0 0 t 0 0 148 150 250 5 9 22 6 498 200 264 0 0
CDF2_M0653_1.02_CISBP_shift2 (CDF2_M0653_1.02_CISBP)		0.766	0.574	3.908	0.558	0.898	1.675	0.907	109	31	38	20	75	91	81	63.571	67	; oligos_5-7nt_m1 versus CDF2_M0653_1.02_CISBP; m=20/34; ncol2=10; w=9; offset=2; strand=D; shift=2; score=63.5714; --maWAAAGyrh-- ; cor=0.766; Ncor=0.574; logoDP=3.908; NIcor=0.558; NsEucl=0.898; SSD=1.675; NSW=0.907; rcor=109; rNcor=31; rlogoDP=38; rNIcor=20; rNsEucl=75; rSSD=91; rNSW=81; rank_mean=63.571; match_rank=67 a 0 0 33 61 69 98 98 87 2 5 33 30 0 0 c 0 0 28 9 2 1 1 3 0 29 8 28 0 0 g 0 0 23 15 4 0 0 8 97 15 39 16 0 0 t 0 0 16 15 25 1 1 2 1 51 20 26 0 0
DOF5.7_MA0984.1_JASPAR_shift4 (DOF5.7_MA0984.1_JASPAR)		0.803	0.468	2.305	0.463	0.898	1.015	0.928	58	102	66	69	76	37	42	64.286	69	; oligos_5-7nt_m1 versus DOF5.7_MA0984.1_JASPAR; m=21/34; ncol2=8; w=7; offset=4; strand=D; shift=4; score=64.2857; ----aAAArrgg-- ; cor=0.803; Ncor=0.468; logoDP=2.305; NIcor=0.463; NsEucl=0.898; SSD=1.015; NSW=0.928; rcor=58; rNcor=102; rlogoDP=66; rNIcor=69; rNsEucl=76; rSSD=37; rNSW=42; rank_mean=64.286; match_rank=69 a 0 0 0 0 448 684 970 899 363 485 102 174 0 0 c 0 0 0 0 86 12 4 3 42 61 191 215 0 0 g 0 0 0 0 224 61 10 79 589 443 460 408 0 0 t 0 0 0 0 241 243 16 19 6 11 247 204 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn6_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn6_B_3D-footprint_rc)		0.837	0.609	0.857	-0.095	0.898	1.342	0.916	39	18	115	119	79	46	58	67.714	73	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn6_B_3D-footprint_rc; m=22/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=67.7143; -TATAATAG----- ; cor=0.837; Ncor=0.609; logoDP=0.857; NIcor=-0.095; NsEucl=0.898; SSD=1.342; NSW=0.916; rcor=39; rNcor=18; rlogoDP=115; rNIcor=119; rNsEucl=79; rSSD=46; rNSW=58; rank_mean=67.714; match_rank=73 a 0 8 83 1 96 83 6 96 8 0 0 0 0 0 c 0 6 7 6 0 6 6 0 6 0 0 0 0 0 g 0 6 6 0 0 7 6 0 76 0 0 0 0 0 t 0 76 0 89 0 0 78 0 6 0 0 0 0 0
PBF_M01829_TRANSFAC_rc_shift4 (PBF_M01829_TRANSFAC_rc)		0.885	0.483	0.310	-0.123	0.901	0.703	0.941	26	94	124	123	67	17	30	68.714	78	; oligos_5-7nt_m1 versus PBF_M01829_TRANSFAC_rc; m=23/34; ncol2=6; w=6; offset=4; strand=R; shift=4; score=68.7143; ----wAAAGk---- ; cor=0.885; Ncor=0.483; logoDP=0.310; NIcor=-0.123; NsEucl=0.901; SSD=0.703; NSW=0.941; rcor=26; rNcor=94; rlogoDP=124; rNIcor=123; rNsEucl=67; rSSD=17; rNSW=30; rank_mean=68.714; match_rank=78 a 0 0 0 0 7 16 16 16 0 1 0 0 0 0 c 0 0 0 0 2 0 0 0 0 2 0 0 0 0 g 0 0 0 0 1 0 0 0 16 7 0 0 0 0 t 0 0 0 0 6 0 0 0 0 6 0 0 0 0
PHYPADRAFT_38837_MA1022.1_JASPAR_shift2 (PHYPADRAFT_38837_MA1022.1_JASPAR)		0.753	0.565	1.811	0.536	0.899	1.665	0.907	121	34	92	25	72	88	78	72.857	82	; oligos_5-7nt_m1 versus PHYPADRAFT_38837_MA1022.1_JASPAR; m=24/34; ncol2=10; w=9; offset=2; strand=D; shift=2; score=72.8571; --vrwAAaGydm-- ; cor=0.753; Ncor=0.565; logoDP=1.811; NIcor=0.536; NsEucl=0.899; SSD=1.665; NSW=0.907; rcor=121; rNcor=34; rlogoDP=92; rNIcor=25; rNsEucl=72; rSSD=88; rNSW=78; rank_mean=72.857; match_rank=82 a 0 0 251 343 463 828 855 644 61 150 259 283 0 0 c 0 0 264 186 85 68 62 216 27 269 174 262 0 0 g 0 0 257 254 129 24 1 54 860 207 307 227 0 0 t 0 0 228 217 323 81 82 86 52 374 259 227 0 0
gw1.385.26.1_M0663_1.02_CISBP_shift2 (gw1.385.26.1_M0663_1.02_CISBP)		0.753	0.565	1.818	0.535	0.899	1.665	0.907	122	35	91	27	71	87	77	72.857	83	; oligos_5-7nt_m1 versus gw1.385.26.1_M0663_1.02_CISBP; m=25/34; ncol2=10; w=9; offset=2; strand=D; shift=2; score=72.8571; --vrwAAaGydm-- ; cor=0.753; Ncor=0.565; logoDP=1.818; NIcor=0.535; NsEucl=0.899; SSD=1.665; NSW=0.907; rcor=122; rNcor=35; rlogoDP=91; rNIcor=27; rNsEucl=71; rSSD=87; rNSW=77; rank_mean=72.857; match_rank=83 a 0 0 25 34 46 83 86 64 6 15 26 28 0 0 c 0 0 26 19 9 7 6 22 3 27 17 26 0 0 g 0 0 26 25 13 2 0 5 86 21 31 23 0 0 t 0 0 23 22 32 8 8 9 5 37 26 23 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qna_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qna_B_3D-footprint_rc)		0.798	0.580	2.700	0.135	0.884	1.719	0.893	64	25	57	92	95	95	97	75.000	85	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qna_B_3D-footprint_rc; m=26/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score= 75; -TTTAAaAg----- ; cor=0.798; Ncor=0.580; logoDP=2.700; NIcor=0.135; NsEucl=0.884; SSD=1.719; NSW=0.893; rcor=64; rNcor=25; rlogoDP=57; rNIcor=92; rNsEucl=95; rSSD=95; rNSW=97; rank_mean=75.000; match_rank=85 a 0 1 0 10 96 96 64 96 10 0 0 0 0 0 c 0 10 0 0 0 0 10 0 12 0 0 0 0 0 g 0 0 0 1 0 0 12 0 64 0 0 0 0 0 t 0 85 96 85 0 0 10 0 10 0 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc)		0.826	0.601	1.212	-0.023	0.890	1.539	0.904	45	19	106	108	89	78	88	76.143	87	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc; m=27/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=76.1429; -TATAAaAt----- ; cor=0.826; Ncor=0.601; logoDP=1.212; NIcor=-0.023; NsEucl=0.890; SSD=1.539; NSW=0.904; rcor=45; rNcor=19; rlogoDP=106; rNIcor=108; rNsEucl=89; rSSD=78; rNSW=88; rank_mean=76.143; match_rank=87 a 0 0 96 0 96 96 57 96 16 0 0 0 0 0 c 0 0 0 0 0 0 13 0 13 0 0 0 0 0 g 0 0 0 0 0 0 13 0 13 0 0 0 0 0 t 0 96 0 96 0 0 13 0 54 0 0 0 0 0
DOF1.8_MA0981.1_JASPAR_shift2 (DOF1.8_MA0981.1_JASPAR)		0.750	0.563	1.729	0.534	0.898	1.688	0.906	126	36	97	28	78	93	84	77.429	89	; oligos_5-7nt_m1 versus DOF1.8_MA0981.1_JASPAR; m=28/34; ncol2=10; w=9; offset=2; strand=D; shift=2; score=77.4286; --vawAAaGtdr-- ; cor=0.750; Ncor=0.563; logoDP=1.729; NIcor=0.534; NsEucl=0.898; SSD=1.688; NSW=0.906; rcor=126; rNcor=36; rlogoDP=97; rNIcor=28; rNsEucl=78; rSSD=93; rNSW=84; rank_mean=77.429; match_rank=89 a 0 0 251 321 415 812 831 658 65 170 268 288 0 0 c 0 0 259 197 100 72 64 233 23 241 189 209 0 0 g 0 0 256 250 135 38 3 27 846 231 270 269 0 0 t 0 0 234 233 350 77 102 83 65 359 273 234 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn7_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn7_B_3D-footprint_rc)		0.773	0.562	3.085	0.165	0.878	1.896	0.881	98	38	44	90	104	111	112	85.286	97	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn7_B_3D-footprint_rc; m=29/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=85.2857; -TATATAAG----- ; cor=0.773; Ncor=0.562; logoDP=3.085; NIcor=0.165; NsEucl=0.878; SSD=1.896; NSW=0.881; rcor=98; rNcor=38; rlogoDP=44; rNIcor=90; rNsEucl=104; rSSD=111; rNSW=112; rank_mean=85.286; match_rank=97 a 0 8 96 0 96 0 69 96 8 0 0 0 0 0 c 0 8 0 8 0 0 8 0 11 0 0 0 0 0 g 0 11 0 1 0 0 11 0 69 0 0 0 0 0 t 0 69 0 87 0 96 8 0 8 0 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn5_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn5_B_3D-footprint_rc)		0.793	0.577	0.491	-0.139	0.887	1.625	0.898	69	28	119	125	92	85	92	87.143	99	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn5_B_3D-footprint_rc; m=30/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=87.1429; -TATAAGAg----- ; cor=0.793; Ncor=0.577; logoDP=0.491; NIcor=-0.139; NsEucl=0.887; SSD=1.625; NSW=0.898; rcor=69; rNcor=28; rlogoDP=119; rNIcor=125; rNsEucl=92; rSSD=85; rNSW=92; rank_mean=87.143; match_rank=99 a 0 5 96 11 96 88 9 96 14 0 0 0 0 0 c 0 3 0 9 0 4 11 0 16 0 0 0 0 0 g 0 3 0 9 0 2 67 0 52 0 0 0 0 0 t 0 85 0 67 0 2 9 0 14 0 0 0 0 0
ATDOF2.4_M0648_1.02_CISBP_shift3 (ATDOF2.4_M0648_1.02_CISBP)		0.772	0.492	1.581	0.467	0.878	1.463	0.895	101	90	102	67	105	59	93	88.143	103	; oligos_5-7nt_m1 versus ATDOF2.4_M0648_1.02_CISBP; m=31/34; ncol2=7; w=7; offset=3; strand=D; shift=3; score=88.1429; ---awAAaGt---- ; cor=0.772; Ncor=0.492; logoDP=1.581; NIcor=0.467; NsEucl=0.878; SSD=1.463; NSW=0.895; rcor=101; rNcor=90; rlogoDP=102; rNIcor=67; rNsEucl=105; rSSD=59; rNSW=93; rank_mean=88.143; match_rank=103 a 0 0 0 38 43 81 81 66 8 18 0 0 0 0 c 0 0 0 17 8 7 7 24 8 24 0 0 0 0 g 0 0 0 23 13 2 0 2 76 21 0 0 0 0 t 0 0 0 22 36 10 12 8 8 37 0 0 0 0
DOF2.4_MA0982.1_JASPAR_shift3 (DOF2.4_MA0982.1_JASPAR)		0.768	0.489	1.587	0.464	0.877	1.484	0.894	105	92	101	68	108	63	95	90.286	108	; oligos_5-7nt_m1 versus DOF2.4_MA0982.1_JASPAR; m=32/34; ncol2=7; w=7; offset=3; strand=D; shift=3; score=90.2857; ---awAAmGt---- ; cor=0.768; Ncor=0.489; logoDP=1.587; NIcor=0.464; NsEucl=0.877; SSD=1.484; NSW=0.894; rcor=105; rNcor=92; rlogoDP=101; rNIcor=68; rNsEucl=108; rSSD=63; rNSW=95; rank_mean=90.286; match_rank=108 a 0 0 0 381 426 807 815 658 81 177 0 0 0 0 c 0 0 0 171 90 71 66 252 73 242 0 0 0 0 g 0 0 0 233 127 18 1 16 762 210 0 0 0 0 t 0 0 0 215 356 104 118 75 84 371 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn3_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn3_B_3D-footprint_rc)		0.764	0.555	1.402	0.019	0.876	1.954	0.878	111	40	105	98	110	116	116	99.429	117	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn3_B_3D-footprint_rc; m=33/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=99.4286; -TATAAACG----- ; cor=0.764; Ncor=0.555; logoDP=1.402; NIcor=0.019; NsEucl=0.876; SSD=1.954; NSW=0.878; rcor=111; rNcor=40; rlogoDP=105; rNIcor=98; rNsEucl=110; rSSD=116; rNSW=116; rank_mean=99.429; match_rank=117 a 0 7 96 1 96 88 75 7 7 0 0 0 0 0 c 0 7 0 7 0 8 7 88 7 0 0 0 0 0 g 0 7 0 0 0 0 7 1 73 0 0 0 0 0 t 0 75 0 88 0 0 7 0 9 0 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn9_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn9_B_3D-footprint_rc)		0.753	0.548	0.594	-0.137	0.872	2.097	0.869	123	42	118	124	123	124	124	111.143	126	; oligos_5-7nt_m1 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn9_B_3D-footprint_rc; m=34/34; ncol2=8; w=8; offset=1; strand=R; shift=1; score=111.143; -TACAAaAG----- ; cor=0.753; Ncor=0.548; logoDP=0.594; NIcor=-0.137; NsEucl=0.872; SSD=2.097; NSW=0.869; rcor=123; rNcor=42; rlogoDP=118; rNIcor=124; rNsEucl=123; rSSD=124; rNSW=124; rank_mean=111.143; match_rank=126 a 0 8 96 0 96 96 61 96 8 0 0 0 0 0 c 0 0 0 88 0 0 8 0 8 0 0 0 0 0 g 0 10 0 0 0 0 19 0 72 0 0 0 0 0 t 0 78 0 8 0 0 8 0 8 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m4_shift0 ; 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
oligos_5-7nt_m4_shift0 (oligos_5-7nt_m4)																		; oligos_5-7nt_m4; m=0 (reference); ncol1=13; shift=0; ncol=15; awwTAAAAAAGww-- ; Alignment reference a 69 72 99 0 186 182 195 201 191 180 0 75 85 0 0 c 41 46 27 16 9 12 3 4 4 3 8 33 44 0 0 g 52 35 31 19 3 7 3 2 8 12 190 41 27 0 0 t 49 58 54 176 13 10 10 4 8 16 13 62 55 0 0
CDF2_MA0973.1_JASPAR_shift4 (CDF2_MA0973.1_JASPAR)		0.884	0.568	4.614	0.564	0.927	0.873	0.951	28	32	21	15	2	29	18	20.714	3	; oligos_5-7nt_m4 versus CDF2_MA0973.1_JASPAR; m=1/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=20.7143; ----maWAAAGyrh- ; cor=0.884; Ncor=0.568; logoDP=4.614; NIcor=0.564; NsEucl=0.927; SSD=0.873; NSW=0.951; rcor=28; rNcor=32; rlogoDP=21; rNIcor=15; rNsEucl=2; rSSD=29; rNSW=18; rank_mean=20.714; match_rank=3 a 0 0 0 0 334 608 693 980 979 868 17 53 328 299 0 c 0 0 0 0 284 92 16 10 10 29 7 295 77 282 0 g 0 0 0 0 235 150 41 4 2 81 969 154 395 155 0 t 0 0 0 0 148 150 250 5 9 22 6 498 200 264 0
CDF2_M0653_1.02_CISBP_shift4 (CDF2_M0653_1.02_CISBP)		0.883	0.568	4.629	0.563	0.926	0.879	0.951	29	33	20	17	3	30	19	21.571	4	; oligos_5-7nt_m4 versus CDF2_M0653_1.02_CISBP; m=2/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=21.5714; ----maWAAAGyrh- ; cor=0.883; Ncor=0.568; logoDP=4.629; NIcor=0.563; NsEucl=0.926; SSD=0.879; NSW=0.951; rcor=29; rNcor=33; rlogoDP=20; rNIcor=17; rNsEucl=3; rSSD=30; rNSW=19; rank_mean=21.571; match_rank=4 a 0 0 0 0 33 61 69 98 98 87 2 5 33 30 0 c 0 0 0 0 28 9 2 1 1 3 0 29 8 28 0 g 0 0 0 0 23 15 4 0 0 8 97 15 39 16 0 t 0 0 0 0 16 15 25 1 1 2 1 51 20 26 0
DOF2.5_MA0977.1_JASPAR_shift5 (DOF2.5_MA0977.1_JASPAR)		0.871	0.536	4.857	0.542	0.916	0.911	0.943	33	52	13	23	24	34	28	29.571	11	; oligos_5-7nt_m4 versus DOF2.5_MA0977.1_JASPAR; m=3/37; ncol2=8; w=8; offset=5; strand=D; shift=5; score=29.5714; -----AwAARGTg-- ; cor=0.871; Ncor=0.536; logoDP=4.857; NIcor=0.542; NsEucl=0.916; SSD=0.911; NSW=0.943; rcor=33; rNcor=52; rlogoDP=13; rNIcor=23; rNsEucl=24; rSSD=34; rNSW=28; rank_mean=29.571; match_rank=11 a 0 0 0 0 0 756 598 990 986 744 4 8 238 0 0 c 0 0 0 0 0 26 1 1 1 1 1 198 44 0 0 g 0 0 0 0 0 182 12 4 8 254 977 65 557 0 0 t 0 0 0 0 0 36 389 5 6 1 18 729 160 0 0
cdf3_M0651_1.02_CISBP_shift5 (cdf3_M0651_1.02_CISBP)		0.888	0.507	4.571	0.505	0.924	0.745	0.953	22	81	22	44	10	21	13	30.429	12	; oligos_5-7nt_m4 versus cdf3_M0651_1.02_CISBP; m=4/37; ncol2=9; w=8; offset=5; strand=D; shift=5; score=30.4286; -----awAAAGygm- ; cor=0.888; Ncor=0.507; logoDP=4.571; NIcor=0.505; NsEucl=0.924; SSD=0.745; NSW=0.953; rcor=22; rNcor=81; rlogoDP=22; rNIcor=44; rNsEucl=10; rSSD=21; rNSW=13; rank_mean=30.429; match_rank=12 a 0 0 0 0 0 45 61 100 99 88 2 7 22 29 0 c 0 0 0 0 0 14 3 0 0 3 1 29 10 34 0 g 0 0 0 0 0 22 7 0 0 8 96 16 50 17 0 t 0 0 0 0 0 19 29 0 1 1 1 48 18 20 0
CDF3_MA0974.1_JASPAR_shift5 (CDF3_MA0974.1_JASPAR)		0.887	0.507	4.549	0.504	0.923	0.749	0.953	23	83	23	45	11	22	15	31.714	14	; oligos_5-7nt_m4 versus CDF3_MA0974.1_JASPAR; m=5/37; ncol2=9; w=8; offset=5; strand=D; shift=5; score=31.7143; -----awAAAGygm- ; cor=0.887; Ncor=0.507; logoDP=4.549; NIcor=0.504; NsEucl=0.923; SSD=0.749; NSW=0.953; rcor=23; rNcor=83; rlogoDP=23; rNIcor=45; rNsEucl=11; rSSD=22; rNSW=15; rank_mean=31.714; match_rank=14 a 0 0 0 0 0 447 607 994 989 880 19 70 222 286 0 c 0 0 0 0 0 143 29 3 5 27 7 291 102 343 0 g 0 0 0 0 0 220 65 1 0 83 969 160 495 169 0 t 0 0 0 0 0 191 298 2 6 10 6 479 180 202 0
Dof_M01136_TRANSFAC_shift3 (Dof_M01136_TRANSFAC)		0.820	0.586	5.618	0.579	0.913	1.505	0.925	47	24	3	10	29	67	45	32.143	16	; oligos_5-7nt_m4 versus Dof_M01136_TRANSFAC; m=6/37; ncol2=11; w=10; offset=3; strand=D; shift=3; score=32.1429; ---amaaAAAGwar- ; cor=0.820; Ncor=0.586; logoDP=5.618; NIcor=0.579; NsEucl=0.913; SSD=1.505; NSW=0.925; rcor=47; rNcor=24; rlogoDP=3; rNIcor=10; rNsEucl=29; rSSD=67; rNSW=45; rank_mean=32.143; match_rank=16 a 0 0 0 4 3 6 6 9 9 9 0 3 5 3 0 c 0 0 0 2 3 0 0 0 0 0 0 1 1 2 0 g 0 0 0 2 1 2 2 0 0 0 9 2 2 3 0 t 0 0 0 1 2 1 1 0 0 0 0 3 1 1 0
Dof2_MA0020.1_JASPAR_shift7 (Dof2_MA0020.1_JASPAR)		0.936	0.432	4.965	0.438	0.923	0.428	0.964	5	115	10	78	13	5	5	33.000	20	; oligos_5-7nt_m4 versus Dof2_MA0020.1_JASPAR; m=7/37; ncol2=6; w=6; offset=7; strand=D; shift=7; score= 33; -------AAAGcm-- ; cor=0.936; Ncor=0.432; logoDP=4.965; NIcor=0.438; NsEucl=0.923; SSD=0.428; NSW=0.964; rcor=5; rNcor=115; rlogoDP=10; rNIcor=78; rNsEucl=13; rSSD=5; rNSW=5; rank_mean=33.000; match_rank=20 a 0 0 0 0 0 0 0 21 21 21 0 3 7 0 0 c 0 0 0 0 0 0 0 0 0 0 0 14 6 0 0 g 0 0 0 0 0 0 0 0 0 0 21 2 3 0 0 t 0 0 0 0 0 0 0 0 0 0 0 2 5 0 0
Dof3_MA0021.1_JASPAR_shift7 (Dof3_MA0021.1_JASPAR)		0.926	0.428	4.970	0.449	0.919	0.478	0.960	8	118	9	74	21	7	7	34.857	24	; oligos_5-7nt_m4 versus Dof3_MA0021.1_JASPAR; m=8/37; ncol2=6; w=6; offset=7; strand=D; shift=7; score=34.8571; -------AAAGyv-- ; cor=0.926; Ncor=0.428; logoDP=4.970; NIcor=0.449; NsEucl=0.919; SSD=0.478; NSW=0.960; rcor=8; rNcor=118; rlogoDP=9; rNIcor=74; rNsEucl=21; rSSD=7; rNSW=7; rank_mean=34.857; match_rank=24 a 0 0 0 0 0 0 0 21 21 21 0 0 6 0 0 c 0 0 0 0 0 0 0 0 0 0 0 10 6 0 0 g 0 0 0 0 0 0 0 0 0 0 21 3 9 0 0 t 0 0 0 0 0 0 0 0 0 0 0 8 0 0 0
PHYPADRAFT_153324_MA0989.1_JASPAR_shift4 (PHYPADRAFT_153324_MA0989.1_JASPAR)		0.812	0.562	2.788	0.548	0.907	1.389	0.923	48	37	52	21	35	50	47	41.429	26	; oligos_5-7nt_m4 versus PHYPADRAFT_153324_MA0989.1_JASPAR; m=9/37; ncol2=9; w=9; offset=4; strand=D; shift=4; score=41.4286; ----vrwAAaGyd-- ; cor=0.812; Ncor=0.562; logoDP=2.788; NIcor=0.548; NsEucl=0.907; SSD=1.389; NSW=0.923; rcor=48; rNcor=37; rlogoDP=52; rNIcor=21; rNsEucl=35; rSSD=50; rNSW=47; rank_mean=41.429; match_rank=26 a 0 0 0 0 253 334 482 861 926 672 71 139 285 0 0 c 0 0 0 0 264 193 71 62 36 147 27 288 158 0 0 g 0 0 0 0 261 255 118 13 0 52 898 195 297 0 0 t 0 0 0 0 222 218 330 65 38 129 5 378 260 0 0
e_gw1.392.16.1_M0660_1.02_CISBP_shift4 (e_gw1.392.16.1_M0660_1.02_CISBP)		0.811	0.562	2.812	0.547	0.907	1.394	0.923	50	39	51	22	36	51	48	42.429	27	; oligos_5-7nt_m4 versus e_gw1.392.16.1_M0660_1.02_CISBP; m=10/37; ncol2=9; w=9; offset=4; strand=D; shift=4; score=42.4286; ----vrwAAaGyd-- ; cor=0.811; Ncor=0.562; logoDP=2.812; NIcor=0.547; NsEucl=0.907; SSD=1.394; NSW=0.923; rcor=50; rNcor=39; rlogoDP=51; rNIcor=22; rNsEucl=36; rSSD=51; rNSW=48; rank_mean=42.429; match_rank=27 a 0 0 0 0 26 33 48 86 93 67 7 13 28 0 0 c 0 0 0 0 26 19 7 6 3 15 3 29 16 0 0 g 0 0 0 0 26 26 12 2 0 5 90 20 30 0 0 t 0 0 0 0 22 22 33 6 4 13 0 38 26 0 0
PBF_M01130_TRANSFAC_shift6 (PBF_M01130_TRANSFAC)		0.901	0.416	5.223	0.414	0.905	0.646	0.946	17	123	7	84	44	13	26	44.857	31	; oligos_5-7nt_m4 versus PBF_M01130_TRANSFAC; m=11/37; ncol2=6; w=6; offset=6; strand=D; shift=6; score=44.8571; ------wAAAGg--- ; cor=0.901; Ncor=0.416; logoDP=5.223; NIcor=0.414; NsEucl=0.905; SSD=0.646; NSW=0.946; rcor=17; rNcor=123; rlogoDP=7; rNIcor=84; rNsEucl=44; rSSD=13; rNSW=26; rank_mean=44.857; match_rank=31 a 0 0 0 0 0 0 6 11 11 11 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 2 0 0 0 g 0 0 0 0 0 0 1 0 0 0 11 7 0 0 0 t 0 0 0 0 0 0 4 0 0 0 0 2 0 0 0
PHYPADRAFT_38837_MA1022.1_JASPAR_shift4 (PHYPADRAFT_38837_MA1022.1_JASPAR)		0.812	0.522	2.274	0.512	0.906	1.440	0.920	49	62	68	39	42	54	49	51.857	40	; oligos_5-7nt_m4 versus PHYPADRAFT_38837_MA1022.1_JASPAR; m=12/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=51.8571; ----vrwAAaGydm- ; cor=0.812; Ncor=0.522; logoDP=2.274; NIcor=0.512; NsEucl=0.906; SSD=1.440; NSW=0.920; rcor=49; rNcor=62; rlogoDP=68; rNIcor=39; rNsEucl=42; rSSD=54; rNSW=49; rank_mean=51.857; match_rank=40 a 0 0 0 0 251 343 463 828 855 644 61 150 259 283 0 c 0 0 0 0 264 186 85 68 62 216 27 269 174 262 0 g 0 0 0 0 257 254 129 24 1 54 860 207 307 227 0 t 0 0 0 0 228 217 323 81 82 86 52 374 259 227 0
gw1.385.26.1_M0663_1.02_CISBP_shift4 (gw1.385.26.1_M0663_1.02_CISBP)		0.810	0.520	2.295	0.511	0.905	1.449	0.919	54	65	67	41	43	56	50	53.714	42	; oligos_5-7nt_m4 versus gw1.385.26.1_M0663_1.02_CISBP; m=13/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=53.7143; ----vrwAAaGydm- ; cor=0.810; Ncor=0.520; logoDP=2.295; NIcor=0.511; NsEucl=0.905; SSD=1.449; NSW=0.919; rcor=54; rNcor=65; rlogoDP=67; rNIcor=41; rNsEucl=43; rSSD=56; rNSW=50; rank_mean=53.714; match_rank=42 a 0 0 0 0 25 34 46 83 86 64 6 15 26 28 0 c 0 0 0 0 26 19 9 7 6 22 3 27 17 26 0 g 0 0 0 0 26 25 13 2 0 5 86 21 31 23 0 t 0 0 0 0 23 22 32 8 8 9 5 37 26 23 0
ATDOF2.4_M0648_1.02_CISBP_shift5 (ATDOF2.4_M0648_1.02_CISBP)		0.885	0.477	1.922	0.471	0.905	0.885	0.937	27	97	88	62	47	31	36	55.429	44	; oligos_5-7nt_m4 versus ATDOF2.4_M0648_1.02_CISBP; m=14/37; ncol2=7; w=7; offset=5; strand=D; shift=5; score=55.4286; -----awAAaGt--- ; cor=0.885; Ncor=0.477; logoDP=1.922; NIcor=0.471; NsEucl=0.905; SSD=0.885; NSW=0.937; rcor=27; rNcor=97; rlogoDP=88; rNIcor=62; rNsEucl=47; rSSD=31; rNSW=36; rank_mean=55.429; match_rank=44 a 0 0 0 0 0 38 43 81 81 66 8 18 0 0 0 c 0 0 0 0 0 17 8 7 7 24 8 24 0 0 0 g 0 0 0 0 0 23 13 2 0 2 76 21 0 0 0 t 0 0 0 0 0 22 36 10 12 8 8 37 0 0 0
DOF2.4_MA0982.1_JASPAR_shift5 (DOF2.4_MA0982.1_JASPAR)		0.883	0.475	1.928	0.470	0.905	0.893	0.936	30	101	85	63	50	33	37	57.000	49	; oligos_5-7nt_m4 versus DOF2.4_MA0982.1_JASPAR; m=15/37; ncol2=7; w=7; offset=5; strand=D; shift=5; score= 57; -----awAAmGt--- ; cor=0.883; Ncor=0.475; logoDP=1.928; NIcor=0.470; NsEucl=0.905; SSD=0.893; NSW=0.936; rcor=30; rNcor=101; rlogoDP=85; rNIcor=63; rNsEucl=50; rSSD=33; rNSW=37; rank_mean=57.000; match_rank=49 a 0 0 0 0 0 381 426 807 815 658 81 177 0 0 0 c 0 0 0 0 0 171 90 71 66 252 73 242 0 0 0 g 0 0 0 0 0 233 127 18 1 16 762 210 0 0 0 t 0 0 0 0 0 215 356 104 118 75 84 371 0 0 0
DOF1.8_MA0981.1_JASPAR_shift4 (DOF1.8_MA0981.1_JASPAR)		0.800	0.515	2.129	0.505	0.903	1.520	0.916	59	69	73	43	60	71	62	62.429	63	; oligos_5-7nt_m4 versus DOF1.8_MA0981.1_JASPAR; m=16/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=62.4286; ----vawAAaGtdr- ; cor=0.800; Ncor=0.515; logoDP=2.129; NIcor=0.505; NsEucl=0.903; SSD=1.520; NSW=0.916; rcor=59; rNcor=69; rlogoDP=73; rNIcor=43; rNsEucl=60; rSSD=71; rNSW=62; rank_mean=62.429; match_rank=63 a 0 0 0 0 251 321 415 812 831 658 65 170 268 288 0 c 0 0 0 0 259 197 100 72 64 233 23 241 189 209 0 g 0 0 0 0 256 250 135 38 3 27 846 231 270 269 0 t 0 0 0 0 234 233 350 77 102 83 65 359 273 234 0
PBF_M01829_TRANSFAC_rc_shift6 (PBF_M01829_TRANSFAC_rc)		0.907	0.419	0.341	-0.109	0.911	0.572	0.952	16	120	122	120	33	11	16	62.571	64	; oligos_5-7nt_m4 versus PBF_M01829_TRANSFAC_rc; m=17/37; ncol2=6; w=6; offset=6; strand=R; shift=6; score=62.5714; ------wAAAGk--- ; cor=0.907; Ncor=0.419; logoDP=0.341; NIcor=-0.109; NsEucl=0.911; SSD=0.572; NSW=0.952; rcor=16; rNcor=120; rlogoDP=122; rNIcor=120; rNsEucl=33; rSSD=11; rNSW=16; rank_mean=62.571; match_rank=64 a 0 0 0 0 0 0 7 16 16 16 0 1 0 0 0 c 0 0 0 0 0 0 2 0 0 0 0 2 0 0 0 g 0 0 0 0 0 0 1 0 0 0 16 7 0 0 0 t 0 0 0 0 0 0 6 0 0 0 0 6 0 0 0
e_gw1.170.52.1_M0659_1.02_CISBP_shift4 (e_gw1.170.52.1_M0659_1.02_CISBP)		0.794	0.510	2.616	0.498	0.903	1.512	0.916	68	77	58	52	57	69	59	62.857	65	; oligos_5-7nt_m4 versus e_gw1.170.52.1_M0659_1.02_CISBP; m=18/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=62.8571; ----srwAAAGydr- ; cor=0.794; Ncor=0.510; logoDP=2.616; NIcor=0.498; NsEucl=0.903; SSD=1.512; NSW=0.916; rcor=68; rNcor=77; rlogoDP=58; rNIcor=52; rNsEucl=57; rSSD=69; rNSW=59; rank_mean=62.857; match_rank=65 a 0 0 0 0 24 30 40 89 89 72 7 18 27 28 0 c 0 0 0 0 27 22 11 4 5 20 2 26 19 22 0 g 0 0 0 0 25 26 17 1 0 3 84 23 27 27 0 t 0 0 0 0 24 22 32 6 6 5 7 33 27 23 0
PHYPADRAFT_140773_MA0987.1_JASPAR_shift4 (PHYPADRAFT_140773_MA0987.1_JASPAR)		0.794	0.510	2.596	0.498	0.903	1.512	0.916	67	76	59	53	59	70	60	63.429	66	; oligos_5-7nt_m4 versus PHYPADRAFT_140773_MA0987.1_JASPAR; m=19/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=63.4286; ----srwAAAGydr- ; cor=0.794; Ncor=0.510; logoDP=2.596; NIcor=0.498; NsEucl=0.903; SSD=1.512; NSW=0.916; rcor=67; rNcor=76; rlogoDP=59; rNIcor=53; rNsEucl=59; rSSD=70; rNSW=60; rank_mean=63.429; match_rank=66 a 0 0 0 0 243 302 396 888 892 715 72 182 271 280 0 c 0 0 0 0 266 215 111 43 46 205 22 258 193 218 0 g 0 0 0 0 253 260 173 10 1 28 839 229 271 272 0 t 0 0 0 0 238 222 321 60 61 52 67 331 265 229 0
AT1G64620_M0647_1.02_CISBP_shift4 (AT1G64620_M0647_1.02_CISBP)		0.799	0.514	2.134	0.503	0.903	1.528	0.915	62	71	72	46	61	74	63	64.143	68	; oligos_5-7nt_m4 versus AT1G64620_M0647_1.02_CISBP; m=20/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=64.1429; ----vrwAAaGtdr- ; cor=0.799; Ncor=0.514; logoDP=2.134; NIcor=0.503; NsEucl=0.903; SSD=1.528; NSW=0.915; rcor=62; rNcor=71; rlogoDP=72; rNIcor=46; rNsEucl=61; rSSD=74; rNSW=63; rank_mean=64.143; match_rank=68 a 0 0 0 0 25 32 41 81 83 66 7 17 27 29 0 c 0 0 0 0 26 20 10 7 7 23 2 24 19 21 0 g 0 0 0 0 26 25 14 4 0 3 85 23 27 27 0 t 0 0 0 0 23 23 35 8 10 8 6 36 27 23 0
DAG2_DAG2_ArabidopsisPBM_shift4 (DAG2_DAG2_ArabidopsisPBM)		0.783	0.503	4.911	0.508	0.898	1.669	0.907	82	84	11	42	74	90	80	66.143	70	; oligos_5-7nt_m4 versus DAG2_DAG2_ArabidopsisPBM; m=21/37; ncol2=10; w=9; offset=4; strand=D; shift=4; score=66.1429; ----sAwAARGTgr- ; cor=0.783; Ncor=0.503; logoDP=4.911; NIcor=0.508; NsEucl=0.898; SSD=1.669; NSW=0.907; rcor=82; rNcor=84; rlogoDP=11; rNIcor=42; rNsEucl=74; rSSD=90; rNSW=80; rank_mean=66.143; match_rank=70 a 0 0 0 0 16 76 60 99 98 74 0 1 24 39 0 c 0 0 0 0 42 2 0 0 0 0 0 20 4 17 0 g 0 0 0 0 31 18 1 0 1 26 98 6 56 31 0 t 0 0 0 0 11 4 39 1 1 0 2 73 16 13 0
DOF5.6_MA0983.1_JASPAR_shift4 (DOF5.6_MA0983.1_JASPAR)		0.799	0.492	3.128	0.475	0.894	1.440	0.910	61	89	43	60	85	55	72	66.429	71	; oligos_5-7nt_m4 versus DOF5.6_MA0983.1_JASPAR; m=22/37; ncol2=8; w=8; offset=4; strand=D; shift=4; score=66.4286; ----vawAAmGt--- ; cor=0.799; Ncor=0.492; logoDP=3.128; NIcor=0.475; NsEucl=0.894; SSD=1.440; NSW=0.910; rcor=61; rNcor=89; rlogoDP=43; rNIcor=60; rNsEucl=85; rSSD=55; rNSW=72; rank_mean=66.429; match_rank=71 a 0 0 0 0 254 364 432 955 928 613 50 152 0 0 0 c 0 0 0 0 257 170 84 35 40 308 28 247 0 0 0 g 0 0 0 0 262 227 108 1 1 56 884 213 0 0 0 t 0 0 0 0 228 239 376 10 32 24 38 388 0 0 0
ATGRP2B_M0583_1.02_CISBP_rc_shift1 (ATGRP2B_M0583_1.02_CISBP_rc)		0.861	0.530	1.720	-0.000	0.898	1.331	0.917	37	54	98	103	77	45	56	67.143	72	; oligos_5-7nt_m4 versus ATGRP2B_M0583_1.02_CISBP_rc; m=23/37; ncol2=8; w=8; offset=1; strand=R; shift=1; score=67.1429; -AAwAAAAm------ ; cor=0.861; Ncor=0.530; logoDP=1.720; NIcor=-0.000; NsEucl=0.898; SSD=1.331; NSW=0.917; rcor=37; rNcor=54; rlogoDP=98; rNIcor=103; rNsEucl=77; rSSD=45; rNSW=56; rank_mean=67.143; match_rank=72 a 0 100 100 33 100 100 100 100 67 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 33 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 67 0 0 0 0 0 0 0 0 0 0 0
DOF5.6_M0657_1.02_CISBP_shift4 (DOF5.6_M0657_1.02_CISBP)		0.795	0.489	3.163	0.473	0.893	1.461	0.909	66	91	42	61	86	57	75	68.286	75	; oligos_5-7nt_m4 versus DOF5.6_M0657_1.02_CISBP; m=24/37; ncol2=8; w=8; offset=4; strand=D; shift=4; score=68.2857; ----vawAAmGy--- ; cor=0.795; Ncor=0.489; logoDP=3.163; NIcor=0.473; NsEucl=0.893; SSD=1.461; NSW=0.909; rcor=66; rNcor=91; rlogoDP=42; rNIcor=61; rNsEucl=86; rSSD=57; rNSW=75; rank_mean=68.286; match_rank=75 a 0 0 0 0 25 36 43 96 93 61 5 15 0 0 0 c 0 0 0 0 26 17 8 3 4 31 3 25 0 0 0 g 0 0 0 0 26 23 11 0 0 6 88 21 0 0 0 t 0 0 0 0 23 24 38 1 3 2 4 39 0 0 0
HMGIY_M01800_TRANSFAC_rc_shift4 (HMGIY_M01800_TRANSFAC_rc)		0.899	0.415	1.020	-0.121	0.903	0.682	0.943	18	124	112	122	62	15	27	68.571	76	; oligos_5-7nt_m4 versus HMGIY_M01800_TRANSFAC_rc; m=25/37; ncol2=6; w=6; offset=4; strand=R; shift=4; score=68.5714; ----AAAWww----- ; cor=0.899; Ncor=0.415; logoDP=1.020; NIcor=-0.121; NsEucl=0.903; SSD=0.682; NSW=0.943; rcor=18; rNcor=124; rlogoDP=112; rNIcor=122; rNsEucl=62; rSSD=15; rNSW=27; rank_mean=68.571; match_rank=76 a 0 0 0 0 9 13 11 10 7 9 0 0 0 0 0 c 0 0 0 0 2 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 1 0 0 0 1 0 0 0 0 0 0 t 0 0 0 0 1 1 3 4 6 5 0 0 0 0 0
DOF5.7_DOF5.7_ArabidopsisPBM_shift5 (DOF5.7_DOF5.7_ArabidopsisPBM)		0.781	0.416	2.490	0.416	0.897	1.350	0.916	90	122	61	83	80	48	61	77.857	90	; oligos_5-7nt_m4 versus DOF5.7_DOF5.7_ArabidopsisPBM; m=26/37; ncol2=10; w=8; offset=5; strand=D; shift=5; score=77.8571; -----raAAArrkgr ; cor=0.781; Ncor=0.416; logoDP=2.490; NIcor=0.416; NsEucl=0.897; SSD=1.350; NSW=0.916; rcor=90; rNcor=122; rlogoDP=61; rNIcor=83; rNsEucl=80; rSSD=48; rNSW=61; rank_mean=77.857; match_rank=90 a 0 0 0 0 0 39 45 68 97 90 36 48 10 18 29 c 0 0 0 0 0 21 9 1 0 0 4 6 19 21 22 g 0 0 0 0 0 27 22 7 1 8 59 44 46 41 31 t 0 0 0 0 0 13 24 24 2 2 1 2 25 20 18
DOF5.7_MA0984.1_JASPAR_shift4 (DOF5.7_MA0984.1_JASPAR)		0.774	0.476	2.876	0.455	0.888	1.592	0.900	97	100	49	73	90	81	90	82.857	94	; oligos_5-7nt_m4 versus DOF5.7_MA0984.1_JASPAR; m=27/37; ncol2=8; w=8; offset=4; strand=D; shift=4; score=82.8571; ----aAAArrgg--- ; cor=0.774; Ncor=0.476; logoDP=2.876; NIcor=0.455; NsEucl=0.888; SSD=1.592; NSW=0.900; rcor=97; rNcor=100; rlogoDP=49; rNIcor=73; rNsEucl=90; rSSD=81; rNSW=90; rank_mean=82.857; match_rank=94 a 0 0 0 0 448 684 970 899 363 485 102 174 0 0 0 c 0 0 0 0 86 12 4 3 42 61 191 215 0 0 0 g 0 0 0 0 224 61 10 79 589 443 460 408 0 0 0 t 0 0 0 0 241 243 16 19 6 11 247 204 0 0 0
e_gw1.149.93.1_M0658_1.02_CISBP_shift4 (e_gw1.149.93.1_M0658_1.02_CISBP)		0.809	0.498	1.179	0.490	0.885	1.681	0.895	55	87	107	56	93	92	94	83.429	95	; oligos_5-7nt_m4 versus e_gw1.149.93.1_M0658_1.02_CISBP; m=28/37; ncol2=8; w=8; offset=4; strand=D; shift=4; score=83.4286; ----vrwaAmGy--- ; cor=0.809; Ncor=0.498; logoDP=1.179; NIcor=0.490; NsEucl=0.885; SSD=1.681; NSW=0.895; rcor=55; rNcor=87; rlogoDP=107; rNIcor=56; rNsEucl=93; rSSD=92; rNSW=94; rank_mean=83.429; match_rank=95 a 0 0 0 0 26 33 40 65 71 57 8 17 0 0 0 c 0 0 0 0 26 20 14 13 10 25 8 26 0 0 0 g 0 0 0 0 26 25 16 8 5 0 76 22 0 0 0 t 0 0 0 0 22 22 30 14 14 18 8 35 0 0 0
TATA_BINDING_TBP_1vtl_E_3D-footprint_shift3 (TATA_BINDING_TBP_1vtl_E_3D-footprint)		0.781	0.481	5.594	0.463	0.876	1.977	0.876	89	95	4	70	113	117	117	86.429	98	; oligos_5-7nt_m4 versus TATA_BINDING_TBP_1vtl_E_3D-footprint; m=29/37; ncol2=8; w=8; offset=3; strand=D; shift=3; score=86.4286; ---TATAAaAG---- ; cor=0.781; Ncor=0.481; logoDP=5.594; NIcor=0.463; NsEucl=0.876; SSD=1.977; NSW=0.876; rcor=89; rNcor=95; rlogoDP=4; rNIcor=70; rNsEucl=113; rSSD=117; rNSW=117; rank_mean=86.429; match_rank=98 a 0 0 0 0 96 0 96 72 60 96 12 0 0 0 0 c 0 0 0 0 0 0 0 12 12 0 12 0 0 0 0 g 0 0 0 0 0 0 0 12 12 0 72 0 0 0 0 t 0 0 0 96 0 96 0 0 12 0 0 0 0 0 0
TMO6_M0654_1.02_CISBP_shift4 (TMO6_M0654_1.02_CISBP)		0.800	0.431	2.086	0.419	0.876	1.511	0.892	60	116	75	81	112	68	98	87.143	100	; oligos_5-7nt_m4 versus TMO6_M0654_1.02_CISBP; m=30/37; ncol2=7; w=7; offset=4; strand=D; shift=4; score=87.1429; ----vawAAmG---- ; cor=0.800; Ncor=0.431; logoDP=2.086; NIcor=0.419; NsEucl=0.876; SSD=1.511; NSW=0.892; rcor=60; rNcor=116; rlogoDP=75; rNIcor=81; rNsEucl=112; rSSD=68; rNSW=98; rank_mean=87.143; match_rank=100 a 0 0 0 0 25 33 40 84 85 61 7 0 0 0 0 c 0 0 0 0 25 21 13 6 8 33 4 0 0 0 0 g 0 0 0 0 26 23 14 2 0 1 77 0 0 0 0 t 0 0 0 0 24 23 33 8 7 5 12 0 0 0 0
fgenesh1_pg.C_Chr_08.0001000114_M0664_1.02_CISBP_shift4 (fgenesh1_pg.C_Chr_08.0001000114_M0664_1.02_CISBP)		0.808	0.497	0.950	0.498	0.882	1.775	0.889	56	88	114	54	98	101	104	87.857	101	; oligos_5-7nt_m4 versus fgenesh1_pg.C_Chr_08.0001000114_M0664_1.02_CISBP; m=31/37; ncol2=8; w=8; offset=4; strand=D; shift=4; score=87.8571; ----sawaamGt--- ; cor=0.808; Ncor=0.497; logoDP=0.950; NIcor=0.498; NsEucl=0.882; SSD=1.775; NSW=0.889; rcor=56; rNcor=88; rlogoDP=114; rNIcor=54; rNsEucl=98; rSSD=101; rNSW=104; rank_mean=87.857; match_rank=101 a 0 0 0 0 24 36 41 62 65 55 13 17 0 0 0 c 0 0 0 0 26 19 15 14 12 29 9 24 0 0 0 g 0 0 0 0 27 23 15 9 7 0 71 21 0 0 0 t 0 0 0 0 23 22 29 15 16 16 7 38 0 0 0
DOF5.3_MA1071.1_JASPAR_shift4 (DOF5.3_MA1071.1_JASPAR)		0.798	0.429	2.077	0.418	0.875	1.526	0.891	65	117	76	82	114	73	99	89.429	106	; oligos_5-7nt_m4 versus DOF5.3_MA1071.1_JASPAR; m=32/37; ncol2=7; w=7; offset=4; strand=D; shift=4; score=89.4286; ----gawAAmG---- ; cor=0.798; Ncor=0.429; logoDP=2.077; NIcor=0.418; NsEucl=0.875; SSD=1.526; NSW=0.891; rcor=65; rNcor=117; rlogoDP=76; rNIcor=82; rNsEucl=114; rSSD=73; rNSW=99; rank_mean=89.429; match_rank=106 a 0 0 0 0 247 327 396 842 850 611 66 0 0 0 0 c 0 0 0 0 247 213 128 61 79 329 52 0 0 0 0 g 0 0 0 0 262 228 146 17 0 14 767 0 0 0 0 t 0 0 0 0 244 233 331 81 70 47 116 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn9_B_3D-footprint_rc_shift3 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn9_B_3D-footprint_rc)		0.810	0.499	0.485	-0.201	0.885	1.698	0.894	53	86	121	126	94	94	96	95.714	114	; oligos_5-7nt_m4 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn9_B_3D-footprint_rc; m=33/37; ncol2=8; w=8; offset=3; strand=R; shift=3; score=95.7143; ---TACAAaAG---- ; cor=0.810; Ncor=0.499; logoDP=0.485; NIcor=-0.201; NsEucl=0.885; SSD=1.698; NSW=0.894; rcor=53; rNcor=86; rlogoDP=121; rNIcor=126; rNsEucl=94; rSSD=94; rNSW=96; rank_mean=95.714; match_rank=114 a 0 0 0 8 96 0 96 96 61 96 8 0 0 0 0 c 0 0 0 0 0 88 0 0 8 0 8 0 0 0 0 g 0 0 0 10 0 0 0 0 19 0 72 0 0 0 0 t 0 0 0 78 0 8 0 0 8 0 8 0 0 0 0
ADOF2_M0649_1.02_CISBP_shift4 (ADOF2_M0649_1.02_CISBP)		0.754	0.464	1.739	0.457	0.881	1.800	0.888	120	105	96	72	99	102	106	100.000	118	; oligos_5-7nt_m4 versus ADOF2_M0649_1.02_CISBP; m=34/37; ncol2=8; w=8; offset=4; strand=D; shift=4; score= 100; ----srwAAmGy--- ; cor=0.754; Ncor=0.464; logoDP=1.739; NIcor=0.457; NsEucl=0.881; SSD=1.800; NSW=0.888; rcor=120; rNcor=105; rlogoDP=96; rNIcor=72; rNsEucl=99; rSSD=102; rNSW=106; rank_mean=100.000; match_rank=118 a 0 0 0 0 24 31 35 81 80 50 11 20 0 0 0 c 0 0 0 0 26 20 15 7 9 40 3 26 0 0 0 g 0 0 0 0 27 25 17 4 2 2 78 21 0 0 0 t 0 0 0 0 23 24 33 8 9 8 8 33 0 0 0
_TATA_BINDING_TBP_1cdw_A_3D-footprint_rc_shift3 (_TATA_BINDING_TBP_1cdw_A_3D-footprint_rc)		0.774	0.476	1.550	-0.074	0.873	2.071	0.871	94	98	103	115	119	120	120	109.857	123	; oligos_5-7nt_m4 versus _TATA_BINDING_TBP_1cdw_A_3D-footprint_rc; m=35/37; ncol2=8; w=8; offset=3; strand=R; shift=3; score=109.857; ---TATAAaAg---- ; cor=0.774; Ncor=0.476; logoDP=1.550; NIcor=-0.074; NsEucl=0.873; SSD=2.071; NSW=0.871; rcor=94; rNcor=98; rlogoDP=103; rNIcor=115; rNsEucl=119; rSSD=120; rNSW=120; rank_mean=109.857; match_rank=123 a 0 0 0 0 96 0 96 96 54 96 13 0 0 0 0 c 0 0 0 0 0 0 0 0 13 0 16 0 0 0 0 g 0 0 0 0 0 0 0 0 13 0 54 0 0 0 0 t 0 0 0 96 0 96 0 0 16 0 13 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc_shift3 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc)		0.774	0.476	1.545	-0.075	0.873	2.071	0.871	94	98	104	116	119	120	120	110.143	124	; oligos_5-7nt_m4 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc; m=36/37; ncol2=8; w=8; offset=3; strand=R; shift=3; score=110.143; ---TATAAaAg---- ; cor=0.774; Ncor=0.476; logoDP=1.545; NIcor=-0.075; NsEucl=0.873; SSD=2.071; NSW=0.871; rcor=94; rNcor=98; rlogoDP=104; rNIcor=116; rNsEucl=119; rSSD=120; rNSW=120; rank_mean=110.143; match_rank=124 a 0 0 0 0 96 0 96 96 54 96 13 0 0 0 0 c 0 0 0 0 0 0 0 0 13 0 16 0 0 0 0 g 0 0 0 0 0 0 0 0 16 0 54 0 0 0 0 t 0 0 0 96 0 96 0 0 13 0 13 0 0 0 0
_TATA_BINDING_TBP_1vol_AB_3D-footprint_rc_shift3 (_TATA_BINDING_TBP_1vol_AB_3D-footprint_rc)		0.775	0.477	1.594	-0.077	0.872	2.081	0.870	93	96	100	117	122	123	123	110.571	125	; oligos_5-7nt_m4 versus _TATA_BINDING_TBP_1vol_AB_3D-footprint_rc; m=37/37; ncol2=8; w=8; offset=3; strand=R; shift=3; score=110.571; ---TATAAaAg---- ; cor=0.775; Ncor=0.477; logoDP=1.594; NIcor=-0.077; NsEucl=0.872; SSD=2.081; NSW=0.870; rcor=93; rNcor=96; rlogoDP=100; rNIcor=117; rNsEucl=122; rSSD=123; rNSW=123; rank_mean=110.571; match_rank=125 a 0 0 0 0 96 0 96 96 48 96 16 0 0 0 0 c 0 0 0 0 0 0 0 0 16 0 16 0 0 0 0 g 0 0 0 0 0 0 0 0 16 0 64 0 0 0 0 t 0 0 0 96 0 96 0 0 16 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m3_shift0 ; 40 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_5-7nt_m3_shift0 (oligos_5-7nt_m3)																		; oligos_5-7nt_m3; m=0 (reference); ncol1=12; shift=0; ncol=15; whATAAAAAGdw--- ; Alignment reference a 82 79 207 0 214 221 230 225 221 22 70 83 0 0 0 c 36 62 14 9 8 9 4 2 10 18 40 39 0 0 0 g 46 39 9 18 11 9 4 7 5 180 65 52 0 0 0 t 80 64 14 217 11 5 6 10 8 24 69 70 0 0 0
Dof_M01136_TRANSFAC_shift2 (Dof_M01136_TRANSFAC)		0.845	0.650	5.192	0.625	0.921	1.262	0.937	38	10	8	5	15	44	35	22.143	6	; oligos_5-7nt_m3 versus Dof_M01136_TRANSFAC; m=1/39; ncol2=11; w=10; offset=2; strand=D; shift=2; score=22.1429; --amaaAAAGwar-- ; cor=0.845; Ncor=0.650; logoDP=5.192; NIcor=0.625; NsEucl=0.921; SSD=1.262; NSW=0.937; rcor=38; rNcor=10; rlogoDP=8; rNIcor=5; rNsEucl=15; rSSD=44; rNSW=35; rank_mean=22.143; match_rank=6 a 0 0 4 3 6 6 9 9 9 0 3 5 3 0 0 c 0 0 2 3 0 0 0 0 0 0 1 1 2 0 0 g 0 0 2 1 2 2 0 0 0 9 2 2 3 0 0 t 0 0 1 2 1 1 0 0 0 0 3 1 1 0 0
cdf3_M0651_1.02_CISBP_shift4 (cdf3_M0651_1.02_CISBP)		0.889	0.547	4.141	0.535	0.925	0.714	0.955	21	43	35	26	6	18	11	22.857	7	; oligos_5-7nt_m3 versus cdf3_M0651_1.02_CISBP; m=2/39; ncol2=9; w=8; offset=4; strand=D; shift=4; score=22.8571; ----awAAAGygm-- ; cor=0.889; Ncor=0.547; logoDP=4.141; NIcor=0.535; NsEucl=0.925; SSD=0.714; NSW=0.955; rcor=21; rNcor=43; rlogoDP=35; rNIcor=26; rNsEucl=6; rSSD=18; rNSW=11; rank_mean=22.857; match_rank=7 a 0 0 0 0 45 61 100 99 88 2 7 22 29 0 0 c 0 0 0 0 14 3 0 0 3 1 29 10 34 0 0 g 0 0 0 0 22 7 0 0 8 96 16 50 17 0 0 t 0 0 0 0 19 29 0 1 1 1 48 18 20 0 0
CDF3_MA0974.1_JASPAR_shift4 (CDF3_MA0974.1_JASPAR)		0.887	0.546	4.097	0.534	0.925	0.724	0.955	24	45	37	29	7	19	12	24.714	8	; oligos_5-7nt_m3 versus CDF3_MA0974.1_JASPAR; m=3/39; ncol2=9; w=8; offset=4; strand=D; shift=4; score=24.7143; ----awAAAGygm-- ; cor=0.887; Ncor=0.546; logoDP=4.097; NIcor=0.534; NsEucl=0.925; SSD=0.724; NSW=0.955; rcor=24; rNcor=45; rlogoDP=37; rNIcor=29; rNsEucl=7; rSSD=19; rNSW=12; rank_mean=24.714; match_rank=8 a 0 0 0 0 447 607 994 989 880 19 70 222 286 0 0 c 0 0 0 0 143 29 3 5 27 7 291 102 343 0 0 g 0 0 0 0 220 65 1 0 83 969 160 495 169 0 0 t 0 0 0 0 191 298 2 6 10 6 479 180 202 0 0
DOF2.5_MA0977.1_JASPAR_shift4 (DOF2.5_MA0977.1_JASPAR)		0.868	0.579	4.337	0.576	0.916	0.911	0.943	34	26	28	11	25	35	29	26.857	9	; oligos_5-7nt_m3 versus DOF2.5_MA0977.1_JASPAR; m=4/39; ncol2=8; w=8; offset=4; strand=D; shift=4; score=26.8571; ----AwAARGTg--- ; cor=0.868; Ncor=0.579; logoDP=4.337; NIcor=0.576; NsEucl=0.916; SSD=0.911; NSW=0.943; rcor=34; rNcor=26; rlogoDP=28; rNIcor=11; rNsEucl=25; rSSD=35; rNSW=29; rank_mean=26.857; match_rank=9 a 0 0 0 0 756 598 990 986 744 4 8 238 0 0 0 c 0 0 0 0 26 1 1 1 1 1 198 44 0 0 0 g 0 0 0 0 182 12 4 8 254 977 65 557 0 0 0 t 0 0 0 0 36 389 5 6 1 18 729 160 0 0 0
CDF2_M0653_1.02_CISBP_shift3 (CDF2_M0653_1.02_CISBP)		0.835	0.578	4.149	0.574	0.914	1.187	0.934	41	27	34	12	26	40	38	31.143	13	; oligos_5-7nt_m3 versus CDF2_M0653_1.02_CISBP; m=5/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score=31.1429; ---maWAAAGyrh-- ; cor=0.835; Ncor=0.578; logoDP=4.149; NIcor=0.574; NsEucl=0.914; SSD=1.187; NSW=0.934; rcor=41; rNcor=27; rlogoDP=34; rNIcor=12; rNsEucl=26; rSSD=40; rNSW=38; rank_mean=31.143; match_rank=13 a 0 0 0 33 61 69 98 98 87 2 5 33 30 0 0 c 0 0 0 28 9 2 1 1 3 0 29 8 28 0 0 g 0 0 0 23 15 4 0 0 8 97 15 39 16 0 0 t 0 0 0 16 15 25 1 1 2 1 51 20 26 0 0
Dof3_MA0021.1_JASPAR_shift6 (Dof3_MA0021.1_JASPAR)		0.932	0.466	4.536	0.484	0.919	0.469	0.961	6	103	24	59	20	6	6	32.000	15	; oligos_5-7nt_m3 versus Dof3_MA0021.1_JASPAR; m=6/39; ncol2=6; w=6; offset=6; strand=D; shift=6; score= 32; ------AAAGyv--- ; cor=0.932; Ncor=0.466; logoDP=4.536; NIcor=0.484; NsEucl=0.919; SSD=0.469; NSW=0.961; rcor=6; rNcor=103; rlogoDP=24; rNIcor=59; rNsEucl=20; rSSD=6; rNSW=6; rank_mean=32.000; match_rank=15 a 0 0 0 0 0 0 21 21 21 0 0 6 0 0 0 c 0 0 0 0 0 0 0 0 0 0 10 6 0 0 0 g 0 0 0 0 0 0 0 0 0 21 3 9 0 0 0 t 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0
CDF2_MA0973.1_JASPAR_shift3 (CDF2_MA0973.1_JASPAR)		0.832	0.576	4.135	0.573	0.914	1.207	0.933	43	29	36	13	27	41	39	32.571	19	; oligos_5-7nt_m3 versus CDF2_MA0973.1_JASPAR; m=7/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score=32.5714; ---maWAAAGyrh-- ; cor=0.832; Ncor=0.576; logoDP=4.135; NIcor=0.573; NsEucl=0.914; SSD=1.207; NSW=0.933; rcor=43; rNcor=29; rlogoDP=36; rNIcor=13; rNsEucl=27; rSSD=41; rNSW=39; rank_mean=32.571; match_rank=19 a 0 0 0 334 608 693 980 979 868 17 53 328 299 0 0 c 0 0 0 284 92 16 10 10 29 7 295 77 282 0 0 g 0 0 0 235 150 41 4 2 81 969 154 395 155 0 0 t 0 0 0 148 150 250 5 9 22 6 498 200 264 0 0
Dof2_MA0020.1_JASPAR_shift6 (Dof2_MA0020.1_JASPAR)		0.931	0.465	4.534	0.470	0.918	0.478	0.960	7	104	25	64	22	8	8	34.000	22	; oligos_5-7nt_m3 versus Dof2_MA0020.1_JASPAR; m=8/39; ncol2=6; w=6; offset=6; strand=D; shift=6; score= 34; ------AAAGcm--- ; cor=0.931; Ncor=0.465; logoDP=4.534; NIcor=0.470; NsEucl=0.918; SSD=0.478; NSW=0.960; rcor=7; rNcor=104; rlogoDP=25; rNIcor=64; rNsEucl=22; rSSD=8; rNSW=8; rank_mean=34.000; match_rank=22 a 0 0 0 0 0 0 21 21 21 0 3 7 0 0 0 c 0 0 0 0 0 0 0 0 0 0 14 6 0 0 0 g 0 0 0 0 0 0 0 0 0 21 2 3 0 0 0 t 0 0 0 0 0 0 0 0 0 0 2 5 0 0 0
PBF_M01130_TRANSFAC_shift5 (PBF_M01130_TRANSFAC)		0.908	0.454	4.765	0.448	0.909	0.599	0.950	15	111	18	75	34	12	21	40.857	25	; oligos_5-7nt_m3 versus PBF_M01130_TRANSFAC; m=9/39; ncol2=6; w=6; offset=5; strand=D; shift=5; score=40.8571; -----wAAAGg---- ; cor=0.908; Ncor=0.454; logoDP=4.765; NIcor=0.448; NsEucl=0.909; SSD=0.599; NSW=0.950; rcor=15; rNcor=111; rlogoDP=18; rNIcor=75; rNsEucl=34; rSSD=12; rNSW=21; rank_mean=40.857; match_rank=25 a 0 0 0 0 0 6 11 11 11 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 2 0 0 0 0 g 0 0 0 0 0 1 0 0 0 11 7 0 0 0 0 t 0 0 0 0 0 4 0 0 0 0 2 0 0 0 0
ATGRP2B_M0583_1.02_CISBP_rc_shift1 (ATGRP2B_M0583_1.02_CISBP_rc)		0.897	0.598	1.979	-0.014	0.912	0.997	0.938	19	20	83	107	32	36	34	47.286	33	; oligos_5-7nt_m3 versus ATGRP2B_M0583_1.02_CISBP_rc; m=10/39; ncol2=8; w=8; offset=1; strand=R; shift=1; score=47.2857; -AAwAAAAm------ ; cor=0.897; Ncor=0.598; logoDP=1.979; NIcor=-0.014; NsEucl=0.912; SSD=0.997; NSW=0.938; rcor=19; rNcor=20; rlogoDP=83; rNIcor=107; rNsEucl=32; rSSD=36; rNSW=34; rank_mean=47.286; match_rank=33 a 0 100 100 33 100 100 100 100 67 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 33 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 67 0 0 0 0 0 0 0 0 0 0 0
PHYPADRAFT_153324_MA0989.1_JASPAR_shift3 (PHYPADRAFT_153324_MA0989.1_JASPAR)		0.787	0.590	2.422	0.565	0.905	1.461	0.919	79	21	63	14	46	58	51	47.429	34	; oligos_5-7nt_m3 versus PHYPADRAFT_153324_MA0989.1_JASPAR; m=11/39; ncol2=9; w=9; offset=3; strand=D; shift=3; score=47.4286; ---vrwAAaGyd--- ; cor=0.787; Ncor=0.590; logoDP=2.422; NIcor=0.565; NsEucl=0.905; SSD=1.461; NSW=0.919; rcor=79; rNcor=21; rlogoDP=63; rNIcor=14; rNsEucl=46; rSSD=58; rNSW=51; rank_mean=47.429; match_rank=34 a 0 0 0 253 334 482 861 926 672 71 139 285 0 0 0 c 0 0 0 264 193 71 62 36 147 27 288 158 0 0 0 g 0 0 0 261 255 118 13 0 52 898 195 297 0 0 0 t 0 0 0 222 218 330 65 38 129 5 378 260 0 0 0
e_gw1.392.16.1_M0660_1.02_CISBP_shift3 (e_gw1.392.16.1_M0660_1.02_CISBP)		0.783	0.587	2.436	0.563	0.904	1.480	0.918	81	22	62	18	52	62	54	50.143	35	; oligos_5-7nt_m3 versus e_gw1.392.16.1_M0660_1.02_CISBP; m=12/39; ncol2=9; w=9; offset=3; strand=D; shift=3; score=50.1429; ---vrwAAaGyd--- ; cor=0.783; Ncor=0.587; logoDP=2.436; NIcor=0.563; NsEucl=0.904; SSD=1.480; NSW=0.918; rcor=81; rNcor=22; rlogoDP=62; rNIcor=18; rNsEucl=52; rSSD=62; rNSW=54; rank_mean=50.143; match_rank=35 a 0 0 0 26 33 48 86 93 67 7 13 28 0 0 0 c 0 0 0 26 19 7 6 3 15 3 29 16 0 0 0 g 0 0 0 26 26 12 2 0 5 90 20 30 0 0 0 t 0 0 0 22 22 33 6 4 13 0 38 26 0 0 0
ATDOF2.4_M0648_1.02_CISBP_shift4 (ATDOF2.4_M0648_1.02_CISBP)		0.875	0.510	1.772	0.499	0.906	0.864	0.938	31	78	95	50	39	27	32	50.286	36	; oligos_5-7nt_m3 versus ATDOF2.4_M0648_1.02_CISBP; m=13/39; ncol2=7; w=7; offset=4; strand=D; shift=4; score=50.2857; ----awAAaGt---- ; cor=0.875; Ncor=0.510; logoDP=1.772; NIcor=0.499; NsEucl=0.906; SSD=0.864; NSW=0.938; rcor=31; rNcor=78; rlogoDP=95; rNIcor=50; rNsEucl=39; rSSD=27; rNSW=32; rank_mean=50.286; match_rank=36 a 0 0 0 0 38 43 81 81 66 8 18 0 0 0 0 c 0 0 0 0 17 8 7 7 24 8 24 0 0 0 0 g 0 0 0 0 23 13 2 0 2 76 21 0 0 0 0 t 0 0 0 0 22 36 10 12 8 8 37 0 0 0 0
DOF2.4_MA0982.1_JASPAR_shift4 (DOF2.4_MA0982.1_JASPAR)		0.873	0.509	1.779	0.498	0.906	0.870	0.938	32	79	94	51	41	28	33	51.143	38	; oligos_5-7nt_m3 versus DOF2.4_MA0982.1_JASPAR; m=14/39; ncol2=7; w=7; offset=4; strand=D; shift=4; score=51.1429; ----awAAmGt---- ; cor=0.873; Ncor=0.509; logoDP=1.779; NIcor=0.498; NsEucl=0.906; SSD=0.870; NSW=0.938; rcor=32; rNcor=79; rlogoDP=94; rNIcor=51; rNsEucl=41; rSSD=28; rNSW=33; rank_mean=51.143; match_rank=38 a 0 0 0 0 381 426 807 815 658 81 177 0 0 0 0 c 0 0 0 0 171 90 71 66 252 73 242 0 0 0 0 g 0 0 0 0 233 127 18 1 16 762 210 0 0 0 0 t 0 0 0 0 215 356 104 118 75 84 371 0 0 0 0
PHYPADRAFT_38837_MA1022.1_JASPAR_shift3 (PHYPADRAFT_38837_MA1022.1_JASPAR)		0.789	0.546	1.974	0.526	0.905	1.476	0.918	75	44	84	32	49	60	52	56.571	45	; oligos_5-7nt_m3 versus PHYPADRAFT_38837_MA1022.1_JASPAR; m=15/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score=56.5714; ---vrwAAaGydm-- ; cor=0.789; Ncor=0.546; logoDP=1.974; NIcor=0.526; NsEucl=0.905; SSD=1.476; NSW=0.918; rcor=75; rNcor=44; rlogoDP=84; rNIcor=32; rNsEucl=49; rSSD=60; rNSW=52; rank_mean=56.571; match_rank=45 a 0 0 0 251 343 463 828 855 644 61 150 259 283 0 0 c 0 0 0 264 186 85 68 62 216 27 269 174 262 0 0 g 0 0 0 257 254 129 24 1 54 860 207 307 227 0 0 t 0 0 0 228 217 323 81 82 86 52 374 259 227 0 0
SED_M01128_TRANSFAC_rc_shift5 (SED_M01128_TRANSFAC_rc)		0.910	0.425	0.230	-0.048	0.924	0.564	0.960	11	119	126	113	9	10	9	56.714	47	; oligos_5-7nt_m3 versus SED_M01128_TRANSFAC_rc; m=16/39; ncol2=10; w=7; offset=5; strand=R; shift=5; score=56.7143; -----dAAAGbddrb ; cor=0.910; Ncor=0.425; logoDP=0.230; NIcor=-0.048; NsEucl=0.924; SSD=0.564; NSW=0.960; rcor=11; rNcor=119; rlogoDP=126; rNIcor=113; rNsEucl=9; rSSD=10; rNSW=9; rank_mean=56.714; match_rank=47 a 0 0 0 0 0 4 8 8 8 0 0 2 2 5 0 c 0 0 0 0 0 0 0 0 0 0 2 1 1 0 3 g 0 0 0 0 0 2 0 0 0 8 4 3 2 3 2 t 0 0 0 0 0 2 0 0 0 0 2 2 3 0 3
e_gw1.170.52.1_M0659_1.02_CISBP_shift3 (e_gw1.170.52.1_M0659_1.02_CISBP)		0.782	0.542	2.374	0.521	0.904	1.495	0.917	83	47	64	34	54	64	55	57.286	50	; oligos_5-7nt_m3 versus e_gw1.170.52.1_M0659_1.02_CISBP; m=17/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score=57.2857; ---srwAAAGydr-- ; cor=0.782; Ncor=0.542; logoDP=2.374; NIcor=0.521; NsEucl=0.904; SSD=1.495; NSW=0.917; rcor=83; rNcor=47; rlogoDP=64; rNIcor=34; rNsEucl=54; rSSD=64; rNSW=55; rank_mean=57.286; match_rank=50 a 0 0 0 24 30 40 89 89 72 7 18 27 28 0 0 c 0 0 0 27 22 11 4 5 20 2 26 19 22 0 0 g 0 0 0 25 26 17 1 0 3 84 23 27 27 0 0 t 0 0 0 24 22 32 6 6 5 7 33 27 23 0 0
gw1.385.26.1_M0663_1.02_CISBP_shift3 (gw1.385.26.1_M0663_1.02_CISBP)		0.788	0.546	1.996	0.525	0.904	1.479	0.918	78	46	82	33	51	61	53	57.714	51	; oligos_5-7nt_m3 versus gw1.385.26.1_M0663_1.02_CISBP; m=18/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score=57.7143; ---vrwAAaGydm-- ; cor=0.788; Ncor=0.546; logoDP=1.996; NIcor=0.525; NsEucl=0.904; SSD=1.479; NSW=0.918; rcor=78; rNcor=46; rlogoDP=82; rNIcor=33; rNsEucl=51; rSSD=61; rNSW=53; rank_mean=57.714; match_rank=51 a 0 0 0 25 34 46 83 86 64 6 15 26 28 0 0 c 0 0 0 26 19 9 7 6 22 3 27 17 26 0 0 g 0 0 0 26 25 13 2 0 5 86 21 31 23 0 0 t 0 0 0 23 22 32 8 8 9 5 37 26 23 0 0
DOF5.7_DOF5.7_ArabidopsisPBM_shift4 (DOF5.7_DOF5.7_ArabidopsisPBM)		0.811	0.463	2.560	0.461	0.907	1.117	0.930	52	106	60	71	38	38	41	58.000	52	; oligos_5-7nt_m3 versus DOF5.7_DOF5.7_ArabidopsisPBM; m=19/39; ncol2=10; w=8; offset=4; strand=D; shift=4; score= 58; ----raAAArrkgr- ; cor=0.811; Ncor=0.463; logoDP=2.560; NIcor=0.461; NsEucl=0.907; SSD=1.117; NSW=0.930; rcor=52; rNcor=106; rlogoDP=60; rNIcor=71; rNsEucl=38; rSSD=38; rNSW=41; rank_mean=58.000; match_rank=52 a 0 0 0 0 39 45 68 97 90 36 48 10 18 29 0 c 0 0 0 0 21 9 1 0 0 4 6 19 21 22 0 g 0 0 0 0 27 22 7 1 8 59 44 46 41 31 0 t 0 0 0 0 13 24 24 2 2 1 2 25 20 18 0
PHYPADRAFT_140773_MA0987.1_JASPAR_shift3 (PHYPADRAFT_140773_MA0987.1_JASPAR)		0.781	0.541	2.357	0.520	0.904	1.503	0.916	88	48	65	35	55	66	57	59.143	54	; oligos_5-7nt_m3 versus PHYPADRAFT_140773_MA0987.1_JASPAR; m=20/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score=59.1429; ---srwAAAGydr-- ; cor=0.781; Ncor=0.541; logoDP=2.357; NIcor=0.520; NsEucl=0.904; SSD=1.503; NSW=0.916; rcor=88; rNcor=48; rlogoDP=65; rNIcor=35; rNsEucl=55; rSSD=66; rNSW=57; rank_mean=59.143; match_rank=54 a 0 0 0 243 302 396 888 892 715 72 182 271 280 0 0 c 0 0 0 266 215 111 43 46 205 22 258 193 218 0 0 g 0 0 0 253 260 173 10 1 28 839 229 271 272 0 0 t 0 0 0 238 222 321 60 61 52 67 331 265 229 0 0
PBF_M01829_TRANSFAC_rc_shift5 (PBF_M01829_TRANSFAC_rc)		0.908	0.454	0.280	-0.114	0.912	0.560	0.953	14	110	125	121	31	9	14	60.571	57	; oligos_5-7nt_m3 versus PBF_M01829_TRANSFAC_rc; m=21/39; ncol2=6; w=6; offset=5; strand=R; shift=5; score=60.5714; -----wAAAGk---- ; cor=0.908; Ncor=0.454; logoDP=0.280; NIcor=-0.114; NsEucl=0.912; SSD=0.560; NSW=0.953; rcor=14; rNcor=110; rlogoDP=125; rNIcor=121; rNsEucl=31; rSSD=9; rNSW=14; rank_mean=60.571; match_rank=57 a 0 0 0 0 0 7 16 16 16 0 1 0 0 0 0 c 0 0 0 0 0 2 0 0 0 0 2 0 0 0 0 g 0 0 0 0 0 1 0 0 0 16 7 0 0 0 0 t 0 0 0 0 0 6 0 0 0 0 6 0 0 0 0
PBF_M00355_TRANSFAC_shift2 (PBF_M00355_TRANSFAC)		0.761	0.586	4.909	0.563	0.902	1.903	0.905	114	23	12	16	63	112	85	60.714	58	; oligos_5-7nt_m3 versus PBF_M00355_TRANSFAC; m=22/39; ncol2=11; w=10; offset=2; strand=D; shift=2; score=60.7143; --wwdwAAAGhgm-- ; cor=0.761; Ncor=0.586; logoDP=4.909; NIcor=0.563; NsEucl=0.902; SSD=1.903; NSW=0.905; rcor=114; rNcor=23; rlogoDP=12; rNIcor=16; rNsEucl=63; rSSD=112; rNSW=85; rank_mean=60.714; match_rank=58 a 0 0 7 7 4 9 16 16 16 0 4 3 7 0 0 c 0 0 3 2 3 1 0 0 0 0 7 3 5 0 0 g 0 0 2 1 4 0 0 0 0 16 1 9 3 0 0 t 0 0 4 6 5 6 0 0 0 0 4 1 1 0 0
DOF1.8_MA0981.1_JASPAR_shift3 (DOF1.8_MA0981.1_JASPAR)		0.779	0.539	1.856	0.519	0.902	1.544	0.914	91	49	90	37	64	79	64	67.714	74	; oligos_5-7nt_m3 versus DOF1.8_MA0981.1_JASPAR; m=23/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score=67.7143; ---vawAAaGtdr-- ; cor=0.779; Ncor=0.539; logoDP=1.856; NIcor=0.519; NsEucl=0.902; SSD=1.544; NSW=0.914; rcor=91; rNcor=49; rlogoDP=90; rNIcor=37; rNsEucl=64; rSSD=79; rNSW=64; rank_mean=67.714; match_rank=74 a 0 0 0 251 321 415 812 831 658 65 170 268 288 0 0 c 0 0 0 259 197 100 72 64 233 23 241 189 209 0 0 g 0 0 0 256 250 135 38 3 27 846 231 270 269 0 0 t 0 0 0 234 233 350 77 102 83 65 359 273 234 0 0
AT1G64620_M0647_1.02_CISBP_shift3 (AT1G64620_M0647_1.02_CISBP)		0.776	0.537	1.857	0.517	0.902	1.558	0.913	92	50	89	38	66	80	66	68.714	77	; oligos_5-7nt_m3 versus AT1G64620_M0647_1.02_CISBP; m=24/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score=68.7143; ---vrwAAaGtdr-- ; cor=0.776; Ncor=0.537; logoDP=1.857; NIcor=0.517; NsEucl=0.902; SSD=1.558; NSW=0.913; rcor=92; rNcor=50; rlogoDP=89; rNIcor=38; rNsEucl=66; rSSD=80; rNSW=66; rank_mean=68.714; match_rank=77 a 0 0 0 25 32 41 81 83 66 7 17 27 29 0 0 c 0 0 0 26 20 10 7 7 23 2 24 19 21 0 0 g 0 0 0 26 25 14 4 0 3 85 23 27 27 0 0 t 0 0 0 23 23 35 8 10 8 6 36 27 23 0 0
DAG2_DAG2_ArabidopsisPBM_shift3 (DAG2_DAG2_ArabidopsisPBM)		0.766	0.530	4.370	0.528	0.896	1.755	0.903	110	53	27	31	82	98	89	70.000	79	; oligos_5-7nt_m3 versus DAG2_DAG2_ArabidopsisPBM; m=25/39; ncol2=10; w=9; offset=3; strand=D; shift=3; score= 70; ---sAwAARGTgr-- ; cor=0.766; Ncor=0.530; logoDP=4.370; NIcor=0.528; NsEucl=0.896; SSD=1.755; NSW=0.903; rcor=110; rNcor=53; rlogoDP=27; rNIcor=31; rNsEucl=82; rSSD=98; rNSW=89; rank_mean=70.000; match_rank=79 a 0 0 0 16 76 60 99 98 74 0 1 24 39 0 0 c 0 0 0 42 2 0 0 0 0 0 20 4 17 0 0 g 0 0 0 31 18 1 0 1 26 98 6 56 31 0 0 t 0 0 0 11 4 39 1 1 0 2 73 16 13 0 0
DOF5.7_MA0984.1_JASPAR_shift4 (DOF5.7_MA0984.1_JASPAR)		0.761	0.507	2.762	0.502	0.896	1.380	0.914	115	82	55	47	81	49	65	70.571	80	; oligos_5-7nt_m3 versus DOF5.7_MA0984.1_JASPAR; m=26/39; ncol2=8; w=8; offset=4; strand=D; shift=4; score=70.5714; ----aAAArrgg--- ; cor=0.761; Ncor=0.507; logoDP=2.762; NIcor=0.502; NsEucl=0.896; SSD=1.380; NSW=0.914; rcor=115; rNcor=82; rlogoDP=55; rNIcor=47; rNsEucl=81; rSSD=49; rNSW=65; rank_mean=70.571; match_rank=80 a 0 0 0 0 448 684 970 899 363 485 102 174 0 0 0 c 0 0 0 0 86 12 4 3 42 61 191 215 0 0 0 g 0 0 0 0 224 61 10 79 589 443 460 408 0 0 0 t 0 0 0 0 241 243 16 19 6 11 247 204 0 0 0
DOF5.6_MA0983.1_JASPAR_shift3 (DOF5.6_MA0983.1_JASPAR)		0.773	0.515	2.788	0.489	0.891	1.526	0.905	100	68	53	57	87	72	86	74.714	84	; oligos_5-7nt_m3 versus DOF5.6_MA0983.1_JASPAR; m=27/39; ncol2=8; w=8; offset=3; strand=D; shift=3; score=74.7143; ---vawAAmGt---- ; cor=0.773; Ncor=0.515; logoDP=2.788; NIcor=0.489; NsEucl=0.891; SSD=1.526; NSW=0.905; rcor=100; rNcor=68; rlogoDP=53; rNIcor=57; rNsEucl=87; rSSD=72; rNSW=86; rank_mean=74.714; match_rank=84 a 0 0 0 254 364 432 955 928 613 50 152 0 0 0 0 c 0 0 0 257 170 84 35 40 308 28 247 0 0 0 0 g 0 0 0 262 227 108 1 1 56 884 213 0 0 0 0 t 0 0 0 228 239 376 10 32 24 38 388 0 0 0 0
DOF5.6_M0657_1.02_CISBP_shift3 (DOF5.6_M0657_1.02_CISBP)		0.771	0.514	2.830	0.488	0.890	1.535	0.904	102	70	50	58	88	75	87	75.714	86	; oligos_5-7nt_m3 versus DOF5.6_M0657_1.02_CISBP; m=28/39; ncol2=8; w=8; offset=3; strand=D; shift=3; score=75.7143; ---vawAAmGy---- ; cor=0.771; Ncor=0.514; logoDP=2.830; NIcor=0.488; NsEucl=0.890; SSD=1.535; NSW=0.904; rcor=102; rNcor=70; rlogoDP=50; rNIcor=58; rNsEucl=88; rSSD=75; rNSW=87; rank_mean=75.714; match_rank=86 a 0 0 0 25 36 43 96 93 61 5 15 0 0 0 0 c 0 0 0 26 17 8 3 4 31 3 25 0 0 0 0 g 0 0 0 26 23 11 0 0 6 88 21 0 0 0 0 t 0 0 0 23 24 38 1 3 2 4 39 0 0 0 0
PEND_M02233_TRANSFAC_rc_shift1 (PEND_M02233_TRANSFAC_rc)		0.773	0.644	1.636	0.047	0.903	1.866	0.907	99	11	99	97	58	110	83	79.571	92	; oligos_5-7nt_m3 versus PEND_M02233_TRANSFAC_rc; m=29/39; ncol2=10; w=10; offset=1; strand=R; shift=1; score=79.5714; -mATAAGAAgT---- ; cor=0.773; Ncor=0.644; logoDP=1.636; NIcor=0.047; NsEucl=0.903; SSD=1.866; NSW=0.907; rcor=99; rNcor=11; rlogoDP=99; rNIcor=97; rNsEucl=58; rSSD=110; rNSW=83; rank_mean=79.571; match_rank=92 a 0 21 35 1 39 38 4 34 39 10 2 0 0 0 0 c 0 14 0 2 1 2 2 4 2 7 8 0 0 0 0 g 0 5 3 7 0 2 33 0 0 19 2 0 0 0 0 t 0 2 4 32 2 0 3 4 1 6 30 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc)		0.793	0.529	3.012	0.132	0.880	1.841	0.885	70	55	45	93	100	105	107	82.143	93	; oligos_5-7nt_m3 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc; m=30/39; ncol2=8; w=8; offset=1; strand=R; shift=1; score=82.1429; -TATAAaAt------ ; cor=0.793; Ncor=0.529; logoDP=3.012; NIcor=0.132; NsEucl=0.880; SSD=1.841; NSW=0.885; rcor=70; rNcor=55; rlogoDP=45; rNIcor=93; rNsEucl=100; rSSD=105; rNSW=107; rank_mean=82.143; match_rank=93 a 0 0 96 0 96 96 57 96 16 0 0 0 0 0 0 c 0 0 0 0 0 0 13 0 13 0 0 0 0 0 0 g 0 0 0 0 0 0 13 0 13 0 0 0 0 0 0 t 0 96 0 96 0 0 13 0 54 0 0 0 0 0 0
fgenesh1_pg.C_Chr_08.0001000114_M0664_1.02_CISBP_shift3 (fgenesh1_pg.C_Chr_08.0001000114_M0664_1.02_CISBP)		0.786	0.524	0.826	0.512	0.883	1.765	0.890	80	61	116	40	97	99	103	85.143	96	; oligos_5-7nt_m3 versus fgenesh1_pg.C_Chr_08.0001000114_M0664_1.02_CISBP; m=31/39; ncol2=8; w=8; offset=3; strand=D; shift=3; score=85.1429; ---sawaamGt---- ; cor=0.786; Ncor=0.524; logoDP=0.826; NIcor=0.512; NsEucl=0.883; SSD=1.765; NSW=0.890; rcor=80; rNcor=61; rlogoDP=116; rNIcor=40; rNsEucl=97; rSSD=99; rNSW=103; rank_mean=85.143; match_rank=96 a 0 0 0 24 36 41 62 65 55 13 17 0 0 0 0 c 0 0 0 26 19 15 14 12 29 9 24 0 0 0 0 g 0 0 0 27 23 15 9 7 0 71 21 0 0 0 0 t 0 0 0 23 22 29 15 16 16 7 38 0 0 0 0
_TATA_BINDING_TBP_1cdw_A_3D-footprint_rc_shift1 (_TATA_BINDING_TBP_1cdw_A_3D-footprint_rc)		0.781	0.521	2.984	0.124	0.877	1.937	0.879	84	63	47	94	106	113	113	88.571	104	; oligos_5-7nt_m3 versus _TATA_BINDING_TBP_1cdw_A_3D-footprint_rc; m=32/39; ncol2=8; w=8; offset=1; strand=R; shift=1; score=88.5714; -TATAAaAg------ ; cor=0.781; Ncor=0.521; logoDP=2.984; NIcor=0.124; NsEucl=0.877; SSD=1.937; NSW=0.879; rcor=84; rNcor=63; rlogoDP=47; rNIcor=94; rNsEucl=106; rSSD=113; rNSW=113; rank_mean=88.571; match_rank=104 a 0 0 96 0 96 96 54 96 13 0 0 0 0 0 0 c 0 0 0 0 0 0 13 0 16 0 0 0 0 0 0 g 0 0 0 0 0 0 13 0 54 0 0 0 0 0 0 t 0 96 0 96 0 0 16 0 13 0 0 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc)		0.781	0.521	2.984	0.124	0.877	1.937	0.879	85	64	46	95	107	114	114	89.286	105	; oligos_5-7nt_m3 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc; m=33/39; ncol2=8; w=8; offset=1; strand=R; shift=1; score=89.2857; -TATAAaAg------ ; cor=0.781; Ncor=0.521; logoDP=2.984; NIcor=0.124; NsEucl=0.877; SSD=1.937; NSW=0.879; rcor=85; rNcor=64; rlogoDP=46; rNIcor=95; rNsEucl=107; rSSD=114; rNSW=114; rank_mean=89.286; match_rank=105 a 0 0 96 0 96 96 54 96 13 0 0 0 0 0 0 c 0 0 0 0 0 0 13 0 16 0 0 0 0 0 0 g 0 0 0 0 0 0 16 0 54 0 0 0 0 0 0 t 0 96 0 96 0 0 13 0 13 0 0 0 0 0 0
e_gw1.149.93.1_M0658_1.02_CISBP_shift3 (e_gw1.149.93.1_M0658_1.02_CISBP)		0.770	0.513	1.012	0.498	0.883	1.748	0.891	103	72	113	55	96	97	100	90.857	109	; oligos_5-7nt_m3 versus e_gw1.149.93.1_M0658_1.02_CISBP; m=34/39; ncol2=8; w=8; offset=3; strand=D; shift=3; score=90.8571; ---vrwaAmGy---- ; cor=0.770; Ncor=0.513; logoDP=1.012; NIcor=0.498; NsEucl=0.883; SSD=1.748; NSW=0.891; rcor=103; rNcor=72; rlogoDP=113; rNIcor=55; rNsEucl=96; rSSD=97; rNSW=100; rank_mean=90.857; match_rank=109 a 0 0 0 26 33 40 65 71 57 8 17 0 0 0 0 c 0 0 0 26 20 14 13 10 25 8 26 0 0 0 0 g 0 0 0 26 25 16 8 5 0 76 22 0 0 0 0 t 0 0 0 22 22 30 14 14 18 8 35 0 0 0 0
TMO6_M0654_1.02_CISBP_shift3 (TMO6_M0654_1.02_CISBP)		0.781	0.456	1.924	0.437	0.875	1.536	0.890	87	109	86	79	115	76	101	93.286	111	; oligos_5-7nt_m3 versus TMO6_M0654_1.02_CISBP; m=35/39; ncol2=7; w=7; offset=3; strand=D; shift=3; score=93.2857; ---vawAAmG----- ; cor=0.781; Ncor=0.456; logoDP=1.924; NIcor=0.437; NsEucl=0.875; SSD=1.536; NSW=0.890; rcor=87; rNcor=109; rlogoDP=86; rNIcor=79; rNsEucl=115; rSSD=76; rNSW=101; rank_mean=93.286; match_rank=111 a 0 0 0 25 33 40 84 85 61 7 0 0 0 0 0 c 0 0 0 25 21 13 6 8 33 4 0 0 0 0 0 g 0 0 0 26 23 14 2 0 1 77 0 0 0 0 0 t 0 0 0 24 23 33 8 7 5 12 0 0 0 0 0
DOF5.3_MA1071.1_JASPAR_shift3 (DOF5.3_MA1071.1_JASPAR)		0.781	0.456	1.922	0.437	0.875	1.537	0.890	86	108	87	80	116	77	102	93.714	112	; oligos_5-7nt_m3 versus DOF5.3_MA1071.1_JASPAR; m=36/39; ncol2=7; w=7; offset=3; strand=D; shift=3; score=93.7143; ---gawAAmG----- ; cor=0.781; Ncor=0.456; logoDP=1.922; NIcor=0.437; NsEucl=0.875; SSD=1.537; NSW=0.890; rcor=86; rNcor=108; rlogoDP=87; rNIcor=80; rNsEucl=116; rSSD=77; rNSW=102; rank_mean=93.714; match_rank=112 a 0 0 0 247 327 396 842 850 611 66 0 0 0 0 0 c 0 0 0 247 213 128 61 79 329 52 0 0 0 0 0 g 0 0 0 262 228 146 17 0 14 767 0 0 0 0 0 t 0 0 0 244 233 331 81 70 47 116 0 0 0 0 0
TATA_BINDING_TBP_1vtl_E_3D-footprint_shift1 (TATA_BINDING_TBP_1vtl_E_3D-footprint)		0.753	0.502	5.267	0.469	0.871	2.143	0.866	124	85	6	66	125	125	125	93.714	113	; oligos_5-7nt_m3 versus TATA_BINDING_TBP_1vtl_E_3D-footprint; m=37/39; ncol2=8; w=8; offset=1; strand=D; shift=1; score=93.7143; -TATAAaAG------ ; cor=0.753; Ncor=0.502; logoDP=5.267; NIcor=0.469; NsEucl=0.871; SSD=2.143; NSW=0.866; rcor=124; rNcor=85; rlogoDP=6; rNIcor=66; rNsEucl=125; rSSD=125; rNSW=125; rank_mean=93.714; match_rank=113 a 0 0 96 0 96 72 60 96 12 0 0 0 0 0 0 c 0 0 0 0 0 12 12 0 12 0 0 0 0 0 0 g 0 0 0 0 0 12 12 0 72 0 0 0 0 0 0 t 0 96 0 96 0 0 12 0 0 0 0 0 0 0 0
_TATA_BINDING_TBP_1vol_AB_3D-footprint_rc_shift1 (_TATA_BINDING_TBP_1vol_AB_3D-footprint_rc)		0.768	0.512	2.940	0.112	0.873	2.072	0.871	106	74	48	96	121	122	122	98.429	115	; oligos_5-7nt_m3 versus _TATA_BINDING_TBP_1vol_AB_3D-footprint_rc; m=38/39; ncol2=8; w=8; offset=1; strand=R; shift=1; score=98.4286; -TATAAaAg------ ; cor=0.768; Ncor=0.512; logoDP=2.940; NIcor=0.112; NsEucl=0.873; SSD=2.072; NSW=0.871; rcor=106; rNcor=74; rlogoDP=48; rNIcor=96; rNsEucl=121; rSSD=122; rNSW=122; rank_mean=98.429; match_rank=115 a 0 0 96 0 96 96 48 96 16 0 0 0 0 0 0 c 0 0 0 0 0 0 16 0 16 0 0 0 0 0 0 g 0 0 0 0 0 0 16 0 64 0 0 0 0 0 0 t 0 96 0 96 0 0 16 0 0 0 0 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc)		0.762	0.508	1.790	-0.001	0.874	2.030	0.873	113	80	93	104	117	118	118	106.143	122	; oligos_5-7nt_m3 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc; m=39/39; ncol2=8; w=8; offset=1; strand=R; shift=1; score=106.143; -AATAAaAg------ ; cor=0.762; Ncor=0.508; logoDP=1.790; NIcor=-0.001; NsEucl=0.874; SSD=2.030; NSW=0.873; rcor=113; rNcor=80; rlogoDP=93; rNIcor=104; rNsEucl=117; rSSD=118; rNSW=118; rank_mean=106.143; match_rank=122 a 0 96 96 0 96 74 53 96 10 0 0 0 0 0 0 c 0 0 0 0 0 10 21 0 22 0 0 0 0 0 0 g 0 0 0 0 0 10 10 0 64 0 0 0 0 0 0 t 0 0 0 96 0 2 12 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m5_shift3 ; 8 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_5-7nt_m5_shift3 (oligos_5-7nt_m5)																		; oligos_5-7nt_m5; m=0 (reference); ncol1=10; shift=3; ncol=13; ---wwATTTATwt ; Alignment reference a 0 0 0 41 56 162 0 0 0 162 0 49 38 c 0 0 0 28 33 0 0 0 0 0 3 21 32 g 0 0 0 34 18 0 0 0 0 0 0 32 28 t 0 0 0 59 55 0 162 162 162 0 159 60 64
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnb_B_3D-footprint_shift4 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnb_B_3D-footprint)		0.865	0.692	8.530	0.665	0.902	1.223	0.924	35	4	1	2	65	42	46	27.857	10	; oligos_5-7nt_m5 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnb_B_3D-footprint; m=1/7; ncol2=8; w=8; offset=1; strand=D; shift=4; score=27.8571; ----cAtTTATA- ; cor=0.865; Ncor=0.692; logoDP=8.530; NIcor=0.665; NsEucl=0.902; SSD=1.223; NSW=0.924; rcor=35; rNcor=4; rlogoDP=1; rNIcor=2; rNsEucl=65; rSSD=42; rNSW=46; rank_mean=27.857; match_rank=10 a 0 0 0 0 9 96 9 0 0 86 0 96 0 c 0 0 0 0 59 0 19 0 0 1 0 0 0 g 0 0 0 0 19 0 9 9 0 9 0 0 0 t 0 0 0 0 9 0 59 87 96 0 96 0 0
PDF2_M01194_TRANSFAC_rc_shift3 (PDF2_M01194_TRANSFAC_rc)		0.807	0.734	4.810	0.276	0.907	1.732	0.913	57	2	14	88	37	96	67	51.571	39	; oligos_5-7nt_m5 versus PDF2_M01194_TRANSFAC_rc; m=2/7; ncol2=11; w=10; offset=0; strand=R; shift=3; score=51.5714; ---gCATTTAwks ; cor=0.807; Ncor=0.734; logoDP=4.810; NIcor=0.276; NsEucl=0.907; SSD=1.732; NSW=0.913; rcor=57; rNcor=2; rlogoDP=14; rNIcor=88; rNsEucl=37; rSSD=96; rNSW=67; rank_mean=51.571; match_rank=39 a 0 0 0 2 1 9 1 0 2 9 3 1 1 c 0 0 0 0 7 0 0 0 0 0 1 0 2 g 0 0 0 6 0 0 0 0 0 0 0 3 5 t 0 0 0 1 1 0 8 9 7 0 4 4 0
AHL25_AHL25_3_ArabidopsisPBM_shift3 (AHL25_AHL25_3_ArabidopsisPBM)		0.774	0.774	4.197	0.765	0.904	1.839	0.908	96	1	33	1	53	104	76	52.000	41	; oligos_5-7nt_m5 versus AHL25_AHL25_3_ArabidopsisPBM; m=3/7; ncol2=10; w=10; offset=0; strand=D; shift=3; score= 52; ---waWwWwAwTw ; cor=0.774; Ncor=0.774; logoDP=4.197; NIcor=0.765; NsEucl=0.904; SSD=1.839; NSW=0.908; rcor=96; rNcor=1; rlogoDP=33; rNIcor=1; rNsEucl=53; rSSD=104; rNSW=76; rank_mean=52.000; match_rank=41 a 0 0 0 37 54 74 38 29 49 83 38 8 27 c 0 0 0 18 9 0 1 0 0 0 1 3 10 g 0 0 0 16 15 1 0 0 0 1 0 6 7 t 0 0 0 29 22 25 61 71 51 16 61 83 56
ANL2_M0850_1.02_CISBP_rc_shift3 (ANL2_M0850_1.02_CISBP_rc)		0.793	0.721	5.372	0.403	0.903	1.866	0.907	71	3	5	86	56	109	82	58.857	53	; oligos_5-7nt_m5 versus ANL2_M0850_1.02_CISBP_rc; m=4/7; ncol2=11; w=10; offset=0; strand=R; shift=3; score=58.8571; ---kCATTWATta ; cor=0.793; Ncor=0.721; logoDP=5.372; NIcor=0.403; NsEucl=0.903; SSD=1.866; NSW=0.907; rcor=71; rNcor=3; rlogoDP=5; rNIcor=86; rNsEucl=56; rSSD=109; rNSW=82; rank_mean=58.857; match_rank=53 a 0 0 0 19 8 94 8 0 74 100 8 6 50 c 0 0 0 19 76 2 0 0 0 0 0 6 17 g 0 0 0 30 8 2 0 0 0 0 0 21 17 t 0 0 0 32 8 2 92 100 26 0 92 67 16
CCA1_MA0972.1_JASPAR_rc_shift1 (CCA1_MA0972.1_JASPAR_rc)		0.823	0.411	4.774	0.255	0.863	1.347	0.888	46	125	16	89	126	47	105	79.143	91	; oligos_5-7nt_m5 versus CCA1_MA0972.1_JASPAR_rc; m=5/7; ncol2=8; w=6; offset=-2; strand=R; shift=1; score=79.1429; -AGATATTT---- ; cor=0.823; Ncor=0.411; logoDP=4.774; NIcor=0.255; NsEucl=0.863; SSD=1.347; NSW=0.888; rcor=46; rNcor=125; rlogoDP=16; rNIcor=89; rNsEucl=126; rSSD=47; rNSW=105; rank_mean=79.143; match_rank=91 a 0 874 4 986 2 960 1 2 54 0 0 0 0 c 0 14 0 1 1 5 10 37 10 0 0 0 0 g 0 91 991 12 5 0 4 1 1 0 0 0 0 t 0 21 5 1 992 35 985 960 934 0 0 0 0
AHL12_AHL12_ArabidopsisPBM_rc_shift0 (AHL12_AHL12_ArabidopsisPBM_rc)		0.756	0.407	2.783	0.390	0.871	1.639	0.883	119	126	54	87	124	86	111	101.000	119	; oligos_5-7nt_m5 versus AHL12_AHL12_ArabidopsisPBM_rc; m=6/7; ncol2=10; w=7; offset=-3; strand=R; shift=0; score= 101; wAAwwwwTTw--- ; cor=0.756; Ncor=0.407; logoDP=2.783; NIcor=0.390; NsEucl=0.871; SSD=1.639; NSW=0.883; rcor=119; rNcor=126; rlogoDP=54; rNIcor=87; rNsEucl=124; rSSD=86; rNSW=111; rank_mean=101.000; match_rank=119 a 37 77 84 48 33 66 50 10 6 42 0 0 0 c 13 2 4 2 1 0 0 2 15 13 0 0 0 g 11 15 2 0 0 1 1 4 2 8 0 0 0 t 39 6 10 50 66 33 49 84 77 37 0 0 0
ATML1_M0852_1.02_CISBP_rc_shift2 (ATML1_M0852_1.02_CISBP_rc)		0.756	0.619	0.489	0.135	0.876	2.481	0.862	118	17	120	91	111	126	126	101.286	120	; oligos_5-7nt_m5 versus ATML1_M0852_1.02_CISBP_rc; m=7/7; ncol2=10; w=9; offset=-1; strand=R; shift=2; score=101.286; --sryawtwawk- ; cor=0.756; Ncor=0.619; logoDP=0.489; NIcor=0.135; NsEucl=0.876; SSD=2.481; NSW=0.862; rcor=118; rNcor=17; rlogoDP=120; rNIcor=91; rNsEucl=111; rSSD=126; rNSW=126; rank_mean=101.286; match_rank=120 a 0 0 22 25 11 62 25 9 35 61 29 21 0 c 0 0 30 18 48 14 12 15 14 11 22 19 0 g 0 0 26 39 11 17 20 13 19 14 17 28 0 t 0 0 22 18 30 7 43 63 32 14 32 32 0

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift0 ; 4 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_test_vs_ctrl_m1_shift0 (dyads_test_vs_ctrl_m1)																		; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=14; shift=0; ncol=16; ctCCGTCcmAAAaw-- ; Alignment reference a 26 27 3 5 9 2 5 24 30 105 107 107 47 32 0 0 c 36 21 108 105 7 0 102 51 42 4 4 4 27 25 0 0 g 27 25 2 4 96 7 4 16 21 6 2 3 17 21 0 0 t 28 44 4 3 5 108 6 26 24 2 4 3 26 39 0 0
ORA47_M0014_1.02_CISBP_shift0 (ORA47_M0014_1.02_CISBP)		0.835	0.537	2.723	0.537	0.926	0.886	0.951	40	51	56	24	4	32	20	32.429	18	; dyads_test_vs_ctrl_m1 versus ORA47_M0014_1.02_CISBP; m=1/3; ncol2=9; w=9; offset=0; strand=D; shift=0; score=32.4286; yrCCGwCca------- ; cor=0.835; Ncor=0.537; logoDP=2.723; NIcor=0.537; NsEucl=0.926; SSD=0.886; NSW=0.951; rcor=40; rNcor=51; rlogoDP=56; rNIcor=24; rNsEucl=4; rSSD=32; rNSW=20; rank_mean=32.429; match_rank=18 a 17 49 4 3 6 35 8 23 37 0 0 0 0 0 0 0 c 40 1 90 94 0 19 81 49 19 0 0 0 0 0 0 0 g 16 40 2 0 91 19 5 10 20 0 0 0 0 0 0 0 t 27 10 4 3 3 27 6 18 24 0 0 0 0 0 0 0
AY750993_VRN1_EEADannot_shift6 (AY750993_VRN1_EEADannot)		0.834	0.417	2.179	0.404	0.920	0.824	0.949	42	121	71	85	17	24	23	54.714	43	; dyads_test_vs_ctrl_m1 versus AY750993_VRN1_EEADannot; m=2/3; ncol2=10; w=8; offset=6; strand=D; shift=6; score=54.7143; ------CCarAAAwGG ; cor=0.834; Ncor=0.417; logoDP=2.179; NIcor=0.404; NsEucl=0.920; SSD=0.824; NSW=0.949; rcor=42; rNcor=121; rlogoDP=71; rNIcor=85; rNsEucl=17; rSSD=24; rNSW=23; rank_mean=54.714; match_rank=43 a 0 0 0 0 0 0 18 10 57 56 95 84 79 57 24 15 c 0 0 0 0 0 0 72 70 17 6 1 1 7 3 0 0 g 0 0 0 0 0 0 7 8 14 32 4 3 7 9 76 85 t 0 0 0 0 0 0 3 12 12 6 0 12 7 31 0 0
RIN_M01892_TRANSFAC_rc_shift5 (RIN_M01892_TRANSFAC_rc)		0.811	0.456	0.606	-0.087	0.912	1.245	0.931	51	107	117	118	30	43	40	72.286	81	; dyads_test_vs_ctrl_m1 versus RIN_M01892_TRANSFAC_rc; m=3/3; ncol2=11; w=9; offset=5; strand=R; shift=5; score=72.2857; -----yCwwwAAwwdG ; cor=0.811; Ncor=0.456; logoDP=0.606; NIcor=-0.087; NsEucl=0.912; SSD=1.245; NSW=0.931; rcor=51; rNcor=107; rlogoDP=117; rNIcor=118; rNsEucl=30; rSSD=43; rNSW=40; rank_mean=72.286; match_rank=81 a 0 0 0 0 0 1 0 3 4 7 11 11 6 5 4 2 c 0 0 0 0 0 4 11 1 1 0 0 0 1 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 1 4 9 t 0 0 0 0 0 6 0 7 6 4 0 0 4 5 3 0

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m2_shift0 ; 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
oligos_5-7nt_m2_shift0 (oligos_5-7nt_m2)																		; oligos_5-7nt_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; dhaTAAAACcmw ; Alignment reference a 59 54 120 2 181 179 184 176 17 33 69 57 c 35 52 20 11 1 1 1 7 154 108 47 46 g 47 30 22 7 3 4 2 1 5 18 27 34 t 47 52 26 168 3 4 1 4 12 29 45 51
ATGRP2B_M0583_1.02_CISBP_rc_shift1 (ATGRP2B_M0583_1.02_CISBP_rc)		0.829	0.553	2.025	-0.003	0.888	1.610	0.899	44	41	81	105	91	82	91	76.429	88	; oligos_5-7nt_m2 versus ATGRP2B_M0583_1.02_CISBP_rc; m=1/6; ncol2=8; w=8; offset=1; strand=R; shift=1; score=76.4286; -AAwAAAAm--- ; cor=0.829; Ncor=0.553; logoDP=2.025; NIcor=-0.003; NsEucl=0.888; SSD=1.610; NSW=0.899; rcor=44; rNcor=41; rlogoDP=81; rNIcor=105; rNsEucl=91; rSSD=82; rNSW=91; rank_mean=76.429; match_rank=88 a 0 100 100 33 100 100 100 100 67 0 0 0 c 0 0 0 0 0 0 0 0 33 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 67 0 0 0 0 0 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc)		0.792	0.528	2.098	0.013	0.880	1.842	0.885	72	56	74	99	101	106	108	88.000	102	; oligos_5-7nt_m2 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qn4_B_3D-footprint_rc; m=2/6; ncol2=8; w=8; offset=1; strand=R; shift=1; score= 88; -TATAAaAt--- ; cor=0.792; Ncor=0.528; logoDP=2.098; NIcor=0.013; NsEucl=0.880; SSD=1.842; NSW=0.885; rcor=72; rNcor=56; rlogoDP=74; rNIcor=99; rNsEucl=101; rSSD=106; rNSW=108; rank_mean=88.000; match_rank=102 a 0 0 96 0 96 96 57 96 16 0 0 0 c 0 0 0 0 0 0 13 0 13 0 0 0 g 0 0 0 0 0 0 13 0 13 0 0 0 t 0 96 0 96 0 0 13 0 54 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc)		0.789	0.526	2.071	0.008	0.879	1.862	0.884	76	59	77	102	102	107	109	90.286	107	; oligos_5-7nt_m2 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qne_B_3D-footprint_rc; m=3/6; ncol2=8; w=8; offset=1; strand=R; shift=1; score=90.2857; -TATAAaAg--- ; cor=0.789; Ncor=0.526; logoDP=2.071; NIcor=0.008; NsEucl=0.879; SSD=1.862; NSW=0.884; rcor=76; rNcor=59; rlogoDP=77; rNIcor=102; rNsEucl=102; rSSD=107; rNSW=109; rank_mean=90.286; match_rank=107 a 0 0 96 0 96 96 54 96 13 0 0 0 c 0 0 0 0 0 0 13 0 16 0 0 0 g 0 0 0 0 0 0 16 0 54 0 0 0 t 0 96 0 96 0 0 13 0 13 0 0 0
_TATA_BINDING_TBP_1cdw_A_3D-footprint_rc_shift1 (_TATA_BINDING_TBP_1cdw_A_3D-footprint_rc)		0.789	0.526	2.071	0.008	0.879	1.862	0.884	77	60	78	101	103	108	110	91.000	110	; oligos_5-7nt_m2 versus _TATA_BINDING_TBP_1cdw_A_3D-footprint_rc; m=4/6; ncol2=8; w=8; offset=1; strand=R; shift=1; score= 91; -TATAAaAg--- ; cor=0.789; Ncor=0.526; logoDP=2.071; NIcor=0.008; NsEucl=0.879; SSD=1.862; NSW=0.884; rcor=77; rNcor=60; rlogoDP=78; rNIcor=101; rNsEucl=103; rSSD=108; rNSW=110; rank_mean=91.000; match_rank=110 a 0 0 96 0 96 96 54 96 13 0 0 0 c 0 0 0 0 0 0 13 0 16 0 0 0 g 0 0 0 0 0 0 13 0 54 0 0 0 t 0 96 0 96 0 0 16 0 13 0 0 0
TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc_shift1 (TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc)		0.770	0.513	2.047	0.012	0.877	1.948	0.878	104	73	79	100	109	115	115	99.286	116	; oligos_5-7nt_m2 versus TRANSCRIPTION_INITIATION_FACTOR_TFIID-1_1qnc_B_3D-footprint_rc; m=5/6; ncol2=8; w=8; offset=1; strand=R; shift=1; score=99.2857; -AATAAaAg--- ; cor=0.770; Ncor=0.513; logoDP=2.047; NIcor=0.012; NsEucl=0.877; SSD=1.948; NSW=0.878; rcor=104; rNcor=73; rlogoDP=79; rNIcor=100; rNsEucl=109; rSSD=115; rNSW=115; rank_mean=99.286; match_rank=116 a 0 96 96 0 96 74 53 96 10 0 0 0 c 0 0 0 0 0 10 21 0 22 0 0 0 g 0 0 0 0 0 10 10 0 64 0 0 0 t 0 0 0 96 0 2 12 0 0 0 0 0
_TATA_BINDING_TBP_1vol_AB_3D-footprint_rc_shift1 (_TATA_BINDING_TBP_1vol_AB_3D-footprint_rc)		0.768	0.512	2.027	-0.004	0.873	2.061	0.871	107	75	80	106	118	119	119	103.429	121	; oligos_5-7nt_m2 versus _TATA_BINDING_TBP_1vol_AB_3D-footprint_rc; m=6/6; ncol2=8; w=8; offset=1; strand=R; shift=1; score=103.429; -TATAAaAg--- ; cor=0.768; Ncor=0.512; logoDP=2.027; NIcor=-0.004; NsEucl=0.873; SSD=2.061; NSW=0.871; rcor=107; rNcor=75; rlogoDP=80; rNIcor=106; rNsEucl=118; rSSD=119; rNSW=119; rank_mean=103.429; match_rank=121 a 0 0 96 0 96 96 48 96 16 0 0 0 c 0 0 0 0 0 0 16 0 16 0 0 0 g 0 0 0 0 0 0 16 0 64 0 0 0 t 0 96 0 96 0 0 16 0 0 0 0 0