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/positions_6nt_m2/peak-motifs_positions_6nt_m2.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_motifs/positions_6nt_m2/peak-motifs_positions_6nt_m2_vs_db_footprintDB

One-to-n matrix alignment; reference matrix: positions_6nt_m2_shift5 ; 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
positions_6nt_m2_shift5 (positions_6nt_m2)
; positions_6nt_m2; m=0 (reference); ncol1=11; shift=5; ncol=19; -----TCCCCTAGCGC--- ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 c 0 0 0 0 0 0 1 1 1 1 0 0 0 1 0 1 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 t 0 0 0 0 0 1 0 0 0 0 1 0 0 0 0 0 0 0 0

2623_MA0396.1_JASPAR_CORE_2009__shift8 (2623_MA0396.1_JASPAR_CORE_2009_) 0.837 0.558 10.099 0.542 0.882 1.797 0.888 7 2 4 2 7 9 7 5.429 1
; positions_6nt_m2 versus 2623_MA0396.1_JASPAR_CORE_2009_; m=1/16; ncol2=9; w=8; offset=3; strand=D; shift=8; score= 5.4286; --------rcTAGCGca-- ; cor=0.837; Ncor=0.558; logoDP=10.099; NIcor=0.542; NsEucl=0.882; SSD=1.797; NSW=0.888; rcor=7; rNcor=2; rlogoDP=4; rNIcor=2; rNsEucl=7; rSSD=9; rNSW=7; rank_mean=5.429; match_rank=1 a 0 0 0 0 0 0 0 0 25 18 0 100 0 0 0 0 45 0 0 c 0 0 0 0 0 0 0 0 9 42 0 0 0 100 0 64 17 0 0 g 0 0 0 0 0 0 0 0 48 21 0 0 100 0 100 18 19 0 0 t 0 0 0 0 0 0 0 0 18 19 100 0 0 0 0 18 20 0 0

3076_HipB_RegulonDB_7.5__shift3 (3076_HipB_RegulonDB_7.5_) 0.850 0.492 11.098 0.472 0.901 2.375 0.892 6 5 1 5 5 13 6 5.857 2
; positions_6nt_m2 versus 3076_HipB_RegulonDB_7.5_; m=2/16; ncol2=19; w=11; offset=-2; strand=D; shift=3; score= 5.8571; ---TATCCbbKWdhGMGGA ; cor=0.850; Ncor=0.492; logoDP=11.098; NIcor=0.472; NsEucl=0.901; SSD=2.375; NSW=0.892; rcor=6; rNcor=5; rlogoDP=1; rNIcor=5; rNsEucl=5; rSSD=13; rNSW=6; rank_mean=5.857; match_rank=2 a 0 0 0 0 4 0 0 0 0 0 0 3 1 2 0 1 0 0 4 c 0 0 0 0 0 0 4 4 2 2 0 0 0 1 0 3 0 0 0 g 0 0 0 0 0 0 0 0 1 1 1 0 2 0 4 0 4 4 0 t 0 0 0 4 0 4 0 0 1 1 3 1 1 1 0 0 0 0 0

2588_MA0342.1_JASPAR_CORE_2009__rc_shift6 (2588_MA0342.1_JASPAR_CORE_2009__rc) 0.994 0.452 0.018 -0.150 0.968 0.052 0.995 1 9 15 14 1 1 1 6.000 3
; positions_6nt_m2 versus 2588_MA0342.1_JASPAR_CORE_2009__rc; m=3/16; ncol2=5; w=5; offset=1; strand=R; shift=6; score= 6; ------CCCCT-------- ; cor=0.994; Ncor=0.452; logoDP=0.018; NIcor=-0.150; NsEucl=0.968; SSD=0.052; NSW=0.995; rcor=1; rNcor=9; rlogoDP=15; rNIcor=14; rNsEucl=1; rSSD=1; rNSW=1; rank_mean=6.000; match_rank=3 a 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 99 99 99 99 16 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 0 t 0 0 0 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 0

2604_MA0366.1_JASPAR_CORE_2009__rc_shift6 (2604_MA0366.1_JASPAR_CORE_2009__rc) 0.990 0.450 0.000 -0.143 0.960 0.079 0.992 2 10 16 13 2 2 2 6.714 4
; positions_6nt_m2 versus 2604_MA0366.1_JASPAR_CORE_2009__rc; m=4/16; ncol2=5; w=5; offset=1; strand=R; shift=6; score= 6.7143; ------CCCCT-------- ; cor=0.990; Ncor=0.450; logoDP=0.000; NIcor=-0.143; NsEucl=0.960; SSD=0.079; NSW=0.992; rcor=2; rNcor=10; rlogoDP=16; rNIcor=13; rNsEucl=2; rSSD=2; rNSW=2; rank_mean=6.714; match_rank=4 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 77 100 100 100 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 12 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 11 0 0 0 100 0 0 0 0 0 0 0 0

5966_1a3q_A_3D-footprint_20130124__rc_shift4 (5966_1a3q_A_3D-footprint_20130124__rc) 0.967 0.403 0.084 -0.125 0.928 0.256 0.974 3 15 12 9 3 3 3 6.857 5
; positions_6nt_m2 versus 5966_1a3q_A_3D-footprint_20130124__rc; m=5/16; ncol2=6; w=5; offset=-1; strand=R; shift=4; score= 6.8571; ----ttCCCC--------- ; cor=0.967; Ncor=0.403; logoDP=0.084; NIcor=-0.125; NsEucl=0.928; SSD=0.256; NSW=0.974; rcor=3; rNcor=15; rlogoDP=12; rNIcor=9; rNsEucl=3; rSSD=3; rNSW=3; rank_mean=6.857; match_rank=5 a 0 0 0 0 16 16 0 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 13 13 96 96 96 96 0 0 0 0 0 0 0 0 0 g 0 0 0 0 13 13 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 54 54 0 0 0 0 0 0 0 0 0 0 0 0 0

2624_MA0397.1_JASPAR_CORE_2009__shift8 (2624_MA0397.1_JASPAR_CORE_2009_) 0.816 0.544 10.327 0.529 0.875 2.012 0.874 10 4 2 4 10 10 9 7.000 6
; positions_6nt_m2 versus 2624_MA0397.1_JASPAR_CORE_2009_; m=6/16; ncol2=9; w=8; offset=3; strand=D; shift=8; score= 7; --------gmTAGCGCa-- ; cor=0.816; Ncor=0.544; logoDP=10.327; NIcor=0.529; NsEucl=0.875; SSD=2.012; NSW=0.874; rcor=10; rNcor=4; rlogoDP=2; rNIcor=4; rNsEucl=10; rSSD=10; rNSW=9; rank_mean=7.000; match_rank=6 a 0 0 0 0 0 0 0 0 19 40 0 100 0 0 0 0 54 0 0 c 0 0 0 0 0 0 0 0 11 28 0 0 0 100 0 73 15 0 0 g 0 0 0 0 0 0 0 0 56 24 0 0 100 0 100 17 16 0 0 t 0 0 0 0 0 0 0 0 15 7 100 0 0 0 0 10 15 0 0

2447_MA0056.1_JASPAR_CORE_2009__rc_shift5 (2447_MA0056.1_JASPAR_CORE_2009__rc) 0.878 0.479 0.037 -0.132 0.880 1.035 0.914 5 6 14 11 8 5 5 7.714 7
; positions_6nt_m2 versus 2447_MA0056.1_JASPAR_CORE_2009__rc; m=7/16; ncol2=6; w=6; offset=0; strand=R; shift=5; score= 7.7143; -----TCCCCr-------- ; cor=0.878; Ncor=0.479; logoDP=0.037; NIcor=-0.132; NsEucl=0.880; SSD=1.035; NSW=0.914; rcor=5; rNcor=6; rlogoDP=14; rNIcor=11; rNsEucl=8; rSSD=5; rNSW=5; rank_mean=7.714; match_rank=7 a 0 0 0 0 0 0 0 1 0 1 8 0 0 0 0 0 0 0 0 c 0 0 0 0 0 2 20 19 18 19 4 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 t 0 0 0 0 0 18 0 0 2 0 3 0 0 0 0 0 0 0 0

2587_MA0341.1_JASPAR_CORE_2009__rc_shift6 (2587_MA0341.1_JASPAR_CORE_2009__rc) 0.965 0.439 0.052 -0.152 0.927 0.265 0.974 4 12 13 15 4 4 4 8.000 8
; positions_6nt_m2 versus 2587_MA0341.1_JASPAR_CORE_2009__rc; m=8/16; ncol2=5; w=5; offset=1; strand=R; shift=6; score= 8; ------CCCCy-------- ; cor=0.965; Ncor=0.439; logoDP=0.052; NIcor=-0.152; NsEucl=0.927; SSD=0.265; NSW=0.974; rcor=4; rNcor=12; rlogoDP=13; rNIcor=15; rNsEucl=4; rSSD=4; rNSW=4; rank_mean=8.000; match_rank=8 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 100 100 100 100 32 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 0

5080_Mta_DBTBS_1.0__shift0 (5080_Mta_DBTBS_1.0_) 0.818 0.460 8.656 0.449 0.882 2.264 0.874 9 8 6 6 6 12 10 8.143 9
; positions_6nt_m2 versus 5080_Mta_DBTBS_1.0_; m=9/16; ncol2=14; w=9; offset=-5; strand=D; shift=0; score= 8.1429; GACyCTmCssTWGs----- ; cor=0.818; Ncor=0.460; logoDP=8.656; NIcor=0.449; NsEucl=0.882; SSD=2.264; NSW=0.874; rcor=9; rNcor=8; rlogoDP=6; rNIcor=6; rNsEucl=6; rSSD=12; rNSW=10; rank_mean=8.143; match_rank=9 a 0 1 0 0 0.21 0 0.53 0.21 0 0 0 0.69 0.21 0 0 0 0 0 0 c 0 0 1 0.47 0.79 0 0.47 0.79 0.66 0.34 0 0 0 0.66 0 0 0 0 0 g 1 0 0 0 0 0 0 0 0.34 0.66 0 0 0.79 0.34 0 0 0 0 0 t 0 0 0 0.53 0 1 0 0 0 0 1 0.31 0 0 0 0 0 0 0

7264_STY1_ArabidopsisPBM_20140210__shift6 (7264_STY1_ArabidopsisPBM_20140210_) 0.773 0.702 9.744 0.689 0.877 3.036 0.848 13 1 5 1 9 16 13 8.286 10
; positions_6nt_m2 versus 7264_STY1_ArabidopsisPBM_20140210_; m=10/16; ncol2=10; w=10; offset=1; strand=D; shift=6; score= 8.2857; ------cCCCTAGGGy--- ; cor=0.773; Ncor=0.702; logoDP=9.744; NIcor=0.689; NsEucl=0.877; SSD=3.036; NSW=0.848; rcor=13; rNcor=1; rlogoDP=5; rNIcor=1; rNsEucl=9; rSSD=16; rNSW=13; rank_mean=8.286; match_rank=10 a 0 0 0 0 0 0 17 6 5 1 1 97 1 3 2 10 0 0 0 c 0 0 0 0 0 0 45 87 91 95 1 1 3 1 6 27 0 0 0 g 0 0 0 0 0 0 19 5 1 3 1 1 95 91 87 24 0 0 0 t 0 0 0 0 0 0 19 2 3 1 97 1 1 5 5 39 0 0 0

2609_MA0372.1_JASPAR_CORE_2009__shift5 (2609_MA0372.1_JASPAR_CORE_2009_) 0.757 0.551 10.156 0.538 0.857 2.618 0.836 15 3 3 3 13 15 16 9.714 11
; positions_6nt_m2 versus 2609_MA0372.1_JASPAR_CORE_2009_; m=11/16; ncol2=8; w=8; offset=0; strand=D; shift=5; score= 9.7143; -----aCCCCTwA------ ; cor=0.757; Ncor=0.551; logoDP=10.156; NIcor=0.538; NsEucl=0.857; SSD=2.618; NSW=0.836; rcor=15; rNcor=3; rlogoDP=3; rNIcor=3; rNsEucl=13; rSSD=15; rNSW=16; rank_mean=9.714; match_rank=11 a 0 0 0 0 0 53 0 0 0 0 0 63 74 0 0 0 0 0 0 c 0 0 0 0 0 14 100 100 100 100 0 1 7 0 0 0 0 0 0 g 0 0 0 0 0 14 0 0 0 0 0 7 7 0 0 0 0 0 0 t 0 0 0 0 0 19 0 0 0 0 100 28 13 0 0 0 0 0 0

6016_1cf7_A_3D-footprint_20130124__rc_shift10 (6016_1cf7_A_3D-footprint_20130124__rc) 0.834 0.417 0.108 -0.155 0.862 1.375 0.885 8 14 11 16 11 6 8 10.571 12
; positions_6nt_m2 versus 6016_1cf7_A_3D-footprint_20130124__rc; m=12/16; ncol2=7; w=6; offset=5; strand=R; shift=10; score=10.5714; ----------tcgCGCG-- ; cor=0.834; Ncor=0.417; logoDP=0.108; NIcor=-0.155; NsEucl=0.862; SSD=1.375; NSW=0.885; rcor=8; rNcor=14; rlogoDP=11; rNIcor=16; rNsEucl=11; rSSD=6; rNSW=8; rank_mean=10.571; match_rank=12 a 0 0 0 0 0 0 0 0 0 0 8 16 8 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 16 56 8 96 0 96 0 0 0 g 0 0 0 0 0 0 0 0 0 0 8 16 64 0 96 0 96 0 0 t 0 0 0 0 0 0 0 0 0 0 64 8 16 0 0 0 0 0 0

6459_2isz_B_3D-footprint_20130124__rc_shift7 (6459_2isz_B_3D-footprint_20130124__rc) 0.788 0.430 1.714 -0.040 0.846 1.703 0.858 12 13 7 7 16 8 12 10.714 13
; positions_6nt_m2 versus 6459_2isz_B_3D-footprint_20130124__rc; m=13/16; ncol2=6; w=6; offset=2; strand=R; shift=7; score=10.7143; -------CCCTAA------ ; cor=0.788; Ncor=0.430; logoDP=1.714; NIcor=-0.040; NsEucl=0.846; SSD=1.703; NSW=0.858; rcor=12; rNcor=13; rlogoDP=7; rNIcor=7; rNsEucl=16; rSSD=8; rNSW=12; rank_mean=10.714; match_rank=13 a 0 0 0 0 0 0 0 0 0 6 9 75 75 0 0 0 0 0 0 c 0 0 0 0 0 0 0 90 96 75 6 6 9 0 0 0 0 0 0 g 0 0 0 0 0 0 0 6 0 9 6 6 6 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 6 75 9 6 0 0 0 0 0 0

2448_MA0057.1_JASPAR_CORE_2009__rc_shift3 (2448_MA0057.1_JASPAR_CORE_2009__rc) 0.755 0.465 0.728 -0.108 0.858 2.594 0.838 16 7 8 8 12 14 15 11.429 14
; positions_6nt_m2 versus 2448_MA0057.1_JASPAR_CORE_2009__rc; m=14/16; ncol2=10; w=8; offset=-2; strand=R; shift=3; score=11.4286; ---yymCCCMTmv------ ; cor=0.755; Ncor=0.465; logoDP=0.728; NIcor=-0.108; NsEucl=0.858; SSD=2.594; NSW=0.838; rcor=16; rNcor=7; rlogoDP=8; rNIcor=8; rNsEucl=12; rSSD=14; rNSW=15; rank_mean=11.429; match_rank=14 a 0 0 0 2 2 4 2 0 1 5 0 7 4 0 0 0 0 0 0 c 0 0 0 4 4 8 14 14 15 11 0 7 7 0 0 0 0 0 0 g 0 0 0 2 0 1 0 2 0 0 1 0 4 0 0 0 0 0 0 t 0 0 0 8 10 3 0 0 0 0 15 2 1 0 0 0 0 0 0

2471_MA0081.1_JASPAR_CORE_2009__rc_shift4 (2471_MA0081.1_JASPAR_CORE_2009__rc) 0.801 0.401 0.209 -0.140 0.850 1.616 0.865 11 16 10 12 14 7 11 11.571 15
; positions_6nt_m2 versus 2471_MA0081.1_JASPAR_CORE_2009__rc; m=15/16; ncol2=7; w=6; offset=-1; strand=R; shift=4; score=11.5714; ----TTCCksw-------- ; cor=0.801; Ncor=0.401; logoDP=0.209; NIcor=-0.140; NsEucl=0.850; SSD=1.616; NSW=0.865; rcor=11; rNcor=16; rlogoDP=10; rNIcor=12; rNsEucl=14; rSSD=7; rNSW=11; rank_mean=11.571; match_rank=15 a 0 0 0 0 2 1 1 0 2 2 18 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 47 47 7 29 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 16 14 0 0 0 0 0 0 0 0 0 t 0 0 0 0 47 48 1 2 24 4 31 0 0 0 0 0 0 0 0

7511_MZF1_f1_HOCOMOCO_v9__rc_shift4 (7511_MZF1_f1_HOCOMOCO_v9__rc) 0.766 0.447 0.267 -0.129 0.849 2.228 0.841 14 11 9 10 15 11 14 12.000 16
; positions_6nt_m2 versus 7511_MZF1_f1_HOCOMOCO_v9__rc; m=16/16; ncol2=8; w=7; offset=-1; strand=R; shift=4; score= 12; ----wTCCCCmy------- ; cor=0.766; Ncor=0.447; logoDP=0.267; NIcor=-0.129; NsEucl=0.849; SSD=2.228; NSW=0.841; rcor=14; rNcor=11; rlogoDP=9; rNIcor=10; rNsEucl=15; rSSD=11; rNSW=14; rank_mean=12.000; match_rank=16 a 0 0 0 0 19 3 0 0 0 0 28 4 0 0 0 0 0 0 0 c 0 0 0 0 15 0 70 70 70 70 23 44 0 0 0 0 0 0 0 g 0 0 0 0 5 0 0 0 0 0 3 3 0 0 0 0 0 0 0 t 0 0 0 0 31 67 0 0 0 0 16 19 0 0 0 0 0 0 0

Matrix name	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
positions_6nt_m2_shift5 (positions_6nt_m2)																	; positions_6nt_m2; m=0 (reference); ncol1=11; shift=5; ncol=19; -----TCCCCTAGCGC--- ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 c 0 0 0 0 0 0 1 1 1 1 0 0 0 1 0 1 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 t 0 0 0 0 0 1 0 0 0 0 1 0 0 0 0 0 0 0 0
2623_MA0396.1_JASPAR_CORE_2009__shift8 (2623_MA0396.1_JASPAR_CORE_2009_)	0.837	0.558	10.099	0.542	0.882	1.797	0.888	7	2	4	2	7	9	7	5.429	1	; positions_6nt_m2 versus 2623_MA0396.1_JASPAR_CORE_2009_; m=1/16; ncol2=9; w=8; offset=3; strand=D; shift=8; score= 5.4286; --------rcTAGCGca-- ; cor=0.837; Ncor=0.558; logoDP=10.099; NIcor=0.542; NsEucl=0.882; SSD=1.797; NSW=0.888; rcor=7; rNcor=2; rlogoDP=4; rNIcor=2; rNsEucl=7; rSSD=9; rNSW=7; rank_mean=5.429; match_rank=1 a 0 0 0 0 0 0 0 0 25 18 0 100 0 0 0 0 45 0 0 c 0 0 0 0 0 0 0 0 9 42 0 0 0 100 0 64 17 0 0 g 0 0 0 0 0 0 0 0 48 21 0 0 100 0 100 18 19 0 0 t 0 0 0 0 0 0 0 0 18 19 100 0 0 0 0 18 20 0 0
3076_HipB_RegulonDB_7.5__shift3 (3076_HipB_RegulonDB_7.5_)	0.850	0.492	11.098	0.472	0.901	2.375	0.892	6	5	1	5	5	13	6	5.857	2	; positions_6nt_m2 versus 3076_HipB_RegulonDB_7.5_; m=2/16; ncol2=19; w=11; offset=-2; strand=D; shift=3; score= 5.8571; ---TATCCbbKWdhGMGGA ; cor=0.850; Ncor=0.492; logoDP=11.098; NIcor=0.472; NsEucl=0.901; SSD=2.375; NSW=0.892; rcor=6; rNcor=5; rlogoDP=1; rNIcor=5; rNsEucl=5; rSSD=13; rNSW=6; rank_mean=5.857; match_rank=2 a 0 0 0 0 4 0 0 0 0 0 0 3 1 2 0 1 0 0 4 c 0 0 0 0 0 0 4 4 2 2 0 0 0 1 0 3 0 0 0 g 0 0 0 0 0 0 0 0 1 1 1 0 2 0 4 0 4 4 0 t 0 0 0 4 0 4 0 0 1 1 3 1 1 1 0 0 0 0 0
2588_MA0342.1_JASPAR_CORE_2009__rc_shift6 (2588_MA0342.1_JASPAR_CORE_2009__rc)	0.994	0.452	0.018	-0.150	0.968	0.052	0.995	1	9	15	14	1	1	1	6.000	3	; positions_6nt_m2 versus 2588_MA0342.1_JASPAR_CORE_2009__rc; m=3/16; ncol2=5; w=5; offset=1; strand=R; shift=6; score= 6; ------CCCCT-------- ; cor=0.994; Ncor=0.452; logoDP=0.018; NIcor=-0.150; NsEucl=0.968; SSD=0.052; NSW=0.995; rcor=1; rNcor=9; rlogoDP=15; rNIcor=14; rNsEucl=1; rSSD=1; rNSW=1; rank_mean=6.000; match_rank=3 a 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 99 99 99 99 16 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 0 t 0 0 0 0 0 0 0 0 0 0 83 0 0 0 0 0 0 0 0
2604_MA0366.1_JASPAR_CORE_2009__rc_shift6 (2604_MA0366.1_JASPAR_CORE_2009__rc)	0.990	0.450	0.000	-0.143	0.960	0.079	0.992	2	10	16	13	2	2	2	6.714	4	; positions_6nt_m2 versus 2604_MA0366.1_JASPAR_CORE_2009__rc; m=4/16; ncol2=5; w=5; offset=1; strand=R; shift=6; score= 6.7143; ------CCCCT-------- ; cor=0.990; Ncor=0.450; logoDP=0.000; NIcor=-0.143; NsEucl=0.960; SSD=0.079; NSW=0.992; rcor=2; rNcor=10; rlogoDP=16; rNIcor=13; rNsEucl=2; rSSD=2; rNSW=2; rank_mean=6.714; match_rank=4 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 77 100 100 100 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 12 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 11 0 0 0 100 0 0 0 0 0 0 0 0
5966_1a3q_A_3D-footprint_20130124__rc_shift4 (5966_1a3q_A_3D-footprint_20130124__rc)	0.967	0.403	0.084	-0.125	0.928	0.256	0.974	3	15	12	9	3	3	3	6.857	5	; positions_6nt_m2 versus 5966_1a3q_A_3D-footprint_20130124__rc; m=5/16; ncol2=6; w=5; offset=-1; strand=R; shift=4; score= 6.8571; ----ttCCCC--------- ; cor=0.967; Ncor=0.403; logoDP=0.084; NIcor=-0.125; NsEucl=0.928; SSD=0.256; NSW=0.974; rcor=3; rNcor=15; rlogoDP=12; rNIcor=9; rNsEucl=3; rSSD=3; rNSW=3; rank_mean=6.857; match_rank=5 a 0 0 0 0 16 16 0 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 13 13 96 96 96 96 0 0 0 0 0 0 0 0 0 g 0 0 0 0 13 13 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 54 54 0 0 0 0 0 0 0 0 0 0 0 0 0
2624_MA0397.1_JASPAR_CORE_2009__shift8 (2624_MA0397.1_JASPAR_CORE_2009_)	0.816	0.544	10.327	0.529	0.875	2.012	0.874	10	4	2	4	10	10	9	7.000	6	; positions_6nt_m2 versus 2624_MA0397.1_JASPAR_CORE_2009_; m=6/16; ncol2=9; w=8; offset=3; strand=D; shift=8; score= 7; --------gmTAGCGCa-- ; cor=0.816; Ncor=0.544; logoDP=10.327; NIcor=0.529; NsEucl=0.875; SSD=2.012; NSW=0.874; rcor=10; rNcor=4; rlogoDP=2; rNIcor=4; rNsEucl=10; rSSD=10; rNSW=9; rank_mean=7.000; match_rank=6 a 0 0 0 0 0 0 0 0 19 40 0 100 0 0 0 0 54 0 0 c 0 0 0 0 0 0 0 0 11 28 0 0 0 100 0 73 15 0 0 g 0 0 0 0 0 0 0 0 56 24 0 0 100 0 100 17 16 0 0 t 0 0 0 0 0 0 0 0 15 7 100 0 0 0 0 10 15 0 0
2447_MA0056.1_JASPAR_CORE_2009__rc_shift5 (2447_MA0056.1_JASPAR_CORE_2009__rc)	0.878	0.479	0.037	-0.132	0.880	1.035	0.914	5	6	14	11	8	5	5	7.714	7	; positions_6nt_m2 versus 2447_MA0056.1_JASPAR_CORE_2009__rc; m=7/16; ncol2=6; w=6; offset=0; strand=R; shift=5; score= 7.7143; -----TCCCCr-------- ; cor=0.878; Ncor=0.479; logoDP=0.037; NIcor=-0.132; NsEucl=0.880; SSD=1.035; NSW=0.914; rcor=5; rNcor=6; rlogoDP=14; rNIcor=11; rNsEucl=8; rSSD=5; rNSW=5; rank_mean=7.714; match_rank=7 a 0 0 0 0 0 0 0 1 0 1 8 0 0 0 0 0 0 0 0 c 0 0 0 0 0 2 20 19 18 19 4 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 0 0 0 0 t 0 0 0 0 0 18 0 0 2 0 3 0 0 0 0 0 0 0 0
2587_MA0341.1_JASPAR_CORE_2009__rc_shift6 (2587_MA0341.1_JASPAR_CORE_2009__rc)	0.965	0.439	0.052	-0.152	0.927	0.265	0.974	4	12	13	15	4	4	4	8.000	8	; positions_6nt_m2 versus 2587_MA0341.1_JASPAR_CORE_2009__rc; m=8/16; ncol2=5; w=5; offset=1; strand=R; shift=6; score= 8; ------CCCCy-------- ; cor=0.965; Ncor=0.439; logoDP=0.052; NIcor=-0.152; NsEucl=0.927; SSD=0.265; NSW=0.974; rcor=4; rNcor=12; rlogoDP=13; rNIcor=15; rNsEucl=4; rSSD=4; rNSW=4; rank_mean=8.000; match_rank=8 a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 100 100 100 100 32 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 7 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 0 60 0 0 0 0 0 0 0 0
5080_Mta_DBTBS_1.0__shift0 (5080_Mta_DBTBS_1.0_)	0.818	0.460	8.656	0.449	0.882	2.264	0.874	9	8	6	6	6	12	10	8.143	9	; positions_6nt_m2 versus 5080_Mta_DBTBS_1.0_; m=9/16; ncol2=14; w=9; offset=-5; strand=D; shift=0; score= 8.1429; GACyCTmCssTWGs----- ; cor=0.818; Ncor=0.460; logoDP=8.656; NIcor=0.449; NsEucl=0.882; SSD=2.264; NSW=0.874; rcor=9; rNcor=8; rlogoDP=6; rNIcor=6; rNsEucl=6; rSSD=12; rNSW=10; rank_mean=8.143; match_rank=9 a 0 1 0 0 0.21 0 0.53 0.21 0 0 0 0.69 0.21 0 0 0 0 0 0 c 0 0 1 0.47 0.79 0 0.47 0.79 0.66 0.34 0 0 0 0.66 0 0 0 0 0 g 1 0 0 0 0 0 0 0 0.34 0.66 0 0 0.79 0.34 0 0 0 0 0 t 0 0 0 0.53 0 1 0 0 0 0 1 0.31 0 0 0 0 0 0 0
7264_STY1_ArabidopsisPBM_20140210__shift6 (7264_STY1_ArabidopsisPBM_20140210_)	0.773	0.702	9.744	0.689	0.877	3.036	0.848	13	1	5	1	9	16	13	8.286	10	; positions_6nt_m2 versus 7264_STY1_ArabidopsisPBM_20140210_; m=10/16; ncol2=10; w=10; offset=1; strand=D; shift=6; score= 8.2857; ------cCCCTAGGGy--- ; cor=0.773; Ncor=0.702; logoDP=9.744; NIcor=0.689; NsEucl=0.877; SSD=3.036; NSW=0.848; rcor=13; rNcor=1; rlogoDP=5; rNIcor=1; rNsEucl=9; rSSD=16; rNSW=13; rank_mean=8.286; match_rank=10 a 0 0 0 0 0 0 17 6 5 1 1 97 1 3 2 10 0 0 0 c 0 0 0 0 0 0 45 87 91 95 1 1 3 1 6 27 0 0 0 g 0 0 0 0 0 0 19 5 1 3 1 1 95 91 87 24 0 0 0 t 0 0 0 0 0 0 19 2 3 1 97 1 1 5 5 39 0 0 0
2609_MA0372.1_JASPAR_CORE_2009__shift5 (2609_MA0372.1_JASPAR_CORE_2009_)	0.757	0.551	10.156	0.538	0.857	2.618	0.836	15	3	3	3	13	15	16	9.714	11	; positions_6nt_m2 versus 2609_MA0372.1_JASPAR_CORE_2009_; m=11/16; ncol2=8; w=8; offset=0; strand=D; shift=5; score= 9.7143; -----aCCCCTwA------ ; cor=0.757; Ncor=0.551; logoDP=10.156; NIcor=0.538; NsEucl=0.857; SSD=2.618; NSW=0.836; rcor=15; rNcor=3; rlogoDP=3; rNIcor=3; rNsEucl=13; rSSD=15; rNSW=16; rank_mean=9.714; match_rank=11 a 0 0 0 0 0 53 0 0 0 0 0 63 74 0 0 0 0 0 0 c 0 0 0 0 0 14 100 100 100 100 0 1 7 0 0 0 0 0 0 g 0 0 0 0 0 14 0 0 0 0 0 7 7 0 0 0 0 0 0 t 0 0 0 0 0 19 0 0 0 0 100 28 13 0 0 0 0 0 0
6016_1cf7_A_3D-footprint_20130124__rc_shift10 (6016_1cf7_A_3D-footprint_20130124__rc)	0.834	0.417	0.108	-0.155	0.862	1.375	0.885	8	14	11	16	11	6	8	10.571	12	; positions_6nt_m2 versus 6016_1cf7_A_3D-footprint_20130124__rc; m=12/16; ncol2=7; w=6; offset=5; strand=R; shift=10; score=10.5714; ----------tcgCGCG-- ; cor=0.834; Ncor=0.417; logoDP=0.108; NIcor=-0.155; NsEucl=0.862; SSD=1.375; NSW=0.885; rcor=8; rNcor=14; rlogoDP=11; rNIcor=16; rNsEucl=11; rSSD=6; rNSW=8; rank_mean=10.571; match_rank=12 a 0 0 0 0 0 0 0 0 0 0 8 16 8 0 0 0 0 0 0 c 0 0 0 0 0 0 0 0 0 0 16 56 8 96 0 96 0 0 0 g 0 0 0 0 0 0 0 0 0 0 8 16 64 0 96 0 96 0 0 t 0 0 0 0 0 0 0 0 0 0 64 8 16 0 0 0 0 0 0
6459_2isz_B_3D-footprint_20130124__rc_shift7 (6459_2isz_B_3D-footprint_20130124__rc)	0.788	0.430	1.714	-0.040	0.846	1.703	0.858	12	13	7	7	16	8	12	10.714	13	; positions_6nt_m2 versus 6459_2isz_B_3D-footprint_20130124__rc; m=13/16; ncol2=6; w=6; offset=2; strand=R; shift=7; score=10.7143; -------CCCTAA------ ; cor=0.788; Ncor=0.430; logoDP=1.714; NIcor=-0.040; NsEucl=0.846; SSD=1.703; NSW=0.858; rcor=12; rNcor=13; rlogoDP=7; rNIcor=7; rNsEucl=16; rSSD=8; rNSW=12; rank_mean=10.714; match_rank=13 a 0 0 0 0 0 0 0 0 0 6 9 75 75 0 0 0 0 0 0 c 0 0 0 0 0 0 0 90 96 75 6 6 9 0 0 0 0 0 0 g 0 0 0 0 0 0 0 6 0 9 6 6 6 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 6 75 9 6 0 0 0 0 0 0
2448_MA0057.1_JASPAR_CORE_2009__rc_shift3 (2448_MA0057.1_JASPAR_CORE_2009__rc)	0.755	0.465	0.728	-0.108	0.858	2.594	0.838	16	7	8	8	12	14	15	11.429	14	; positions_6nt_m2 versus 2448_MA0057.1_JASPAR_CORE_2009__rc; m=14/16; ncol2=10; w=8; offset=-2; strand=R; shift=3; score=11.4286; ---yymCCCMTmv------ ; cor=0.755; Ncor=0.465; logoDP=0.728; NIcor=-0.108; NsEucl=0.858; SSD=2.594; NSW=0.838; rcor=16; rNcor=7; rlogoDP=8; rNIcor=8; rNsEucl=12; rSSD=14; rNSW=15; rank_mean=11.429; match_rank=14 a 0 0 0 2 2 4 2 0 1 5 0 7 4 0 0 0 0 0 0 c 0 0 0 4 4 8 14 14 15 11 0 7 7 0 0 0 0 0 0 g 0 0 0 2 0 1 0 2 0 0 1 0 4 0 0 0 0 0 0 t 0 0 0 8 10 3 0 0 0 0 15 2 1 0 0 0 0 0 0
2471_MA0081.1_JASPAR_CORE_2009__rc_shift4 (2471_MA0081.1_JASPAR_CORE_2009__rc)	0.801	0.401	0.209	-0.140	0.850	1.616	0.865	11	16	10	12	14	7	11	11.571	15	; positions_6nt_m2 versus 2471_MA0081.1_JASPAR_CORE_2009__rc; m=15/16; ncol2=7; w=6; offset=-1; strand=R; shift=4; score=11.5714; ----TTCCksw-------- ; cor=0.801; Ncor=0.401; logoDP=0.209; NIcor=-0.140; NsEucl=0.850; SSD=1.616; NSW=0.865; rcor=11; rNcor=16; rlogoDP=10; rNIcor=12; rNsEucl=14; rSSD=7; rNSW=11; rank_mean=11.571; match_rank=15 a 0 0 0 0 2 1 1 0 2 2 18 0 0 0 0 0 0 0 0 c 0 0 0 0 0 0 47 47 7 29 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 16 14 0 0 0 0 0 0 0 0 0 t 0 0 0 0 47 48 1 2 24 4 31 0 0 0 0 0 0 0 0
7511_MZF1_f1_HOCOMOCO_v9__rc_shift4 (7511_MZF1_f1_HOCOMOCO_v9__rc)	0.766	0.447	0.267	-0.129	0.849	2.228	0.841	14	11	9	10	15	11	14	12.000	16	; positions_6nt_m2 versus 7511_MZF1_f1_HOCOMOCO_v9__rc; m=16/16; ncol2=8; w=7; offset=-1; strand=R; shift=4; score= 12; ----wTCCCCmy------- ; cor=0.766; Ncor=0.447; logoDP=0.267; NIcor=-0.129; NsEucl=0.849; SSD=2.228; NSW=0.841; rcor=14; rNcor=11; rlogoDP=9; rNIcor=10; rNsEucl=15; rSSD=11; rNSW=14; rank_mean=12.000; match_rank=16 a 0 0 0 0 19 3 0 0 0 0 28 4 0 0 0 0 0 0 0 c 0 0 0 0 15 0 70 70 70 70 23 44 0 0 0 0 0 0 0 g 0 0 0 0 5 0 0 0 0 0 3 3 0 0 0 0 0 0 0 t 0 0 0 0 31 67 0 0 0 0 16 19 0 0 0 0 0 0 0