One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 WRI1/regulonWRI1.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 WRI1/regulonWRI1.rm.fna.peaks-rm/results/discovered_vs_db/peaks_motifs_vs_db_footDB.tab

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m5_shift2 ; 62 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NIcor NsEucl SSD NSW rcor rNcor rlogoDP rNIcor rNsEucl rSSD rNSW rank_mean match_rank Aligned matrices
oligos_5-7nt_m5_shift2 (oligos_5-7nt_m5)                                 
; oligos_5-7nt_m5; m=0 (reference); ncol1=12; shift=2; ncol=14; --gcCGCCGCCGcc
; Alignment reference
a	0	0	18	16	6	4	2	5	3	4	5	10	23	27
c	0	0	43	85	155	4	161	163	2	153	156	7	92	97
g	0	0	81	42	8	158	8	1	164	8	5	148	23	28
t	0	0	32	31	5	8	3	5	5	9	8	9	36	22
7251_RAP2.6_ArabidopsisPBM_20140210__shift2 (7251_RAP2.6_ArabidopsisPBM_20140210_) 0.957 0.797 7.687 0.793 0.953 0.444 0.978 5 2 8 2 5 6 5 4.714 1 
; oligos_5-7nt_m5 versus 7251_RAP2.6_ArabidopsisPBM_20140210_; m=1/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score= 4.7143; --gSCGCCGCCr--
; cor=0.957; Ncor=0.797; logoDP=7.687; NIcor=0.793; NsEucl=0.953; SSD=0.444; NSW=0.978; rcor=5; rNcor=2; rlogoDP=8; rNIcor=2; rNsEucl=5; rSSD=6; rNSW=5; rank_mean=4.714; match_rank=1
a	0	0	12	3	3	1	0	2	0	2	7	30	0	0
c	0	0	19	27	96	0	89	98	0	95	92	3	0	0
g	0	0	48	69	1	99	11	0	100	1	0	61	0	0
t	0	0	21	1	0	0	0	0	0	2	1	6	0	0
10960_ERF1_M0025_1.02_CISBP_1.02__shift3 (10960_ERF1_M0025_1.02_CISBP_1.02_) 0.933 0.777 7.908 0.760 0.943 0.644 0.968 9 4 7 4 6 9 7 6.571 2 
; oligos_5-7nt_m5 versus 10960_ERF1_M0025_1.02_CISBP_1.02_; m=2/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score= 6.5714; ---smGCCGCCry-
; cor=0.933; Ncor=0.777; logoDP=7.908; NIcor=0.760; NsEucl=0.943; SSD=0.644; NSW=0.968; rcor=9; rNcor=4; rlogoDP=7; rNIcor=4; rNsEucl=6; rSSD=9; rNSW=7; rank_mean=6.571; match_rank=2
a	0	0	0	18	30	0	0	0	0	0	0	36	15	0
c	0	0	0	38	50	0	100	100	0	100	100	8	26	0
g	0	0	0	27	10	100	0	0	100	0	0	49	24	0
t	0	0	0	17	10	0	0	0	0	0	0	7	35	0
7221_ERF1_ArabidopsisPBM_20140210__shift2 (7221_ERF1_ArabidopsisPBM_20140210_) 0.904 0.753 6.867 0.752 0.933 0.907 0.955 15 6 20 6 11 17 13 12.571 3 
; oligos_5-7nt_m5 versus 7221_ERF1_ArabidopsisPBM_20140210_; m=3/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=12.5714; --rsCGCCGCCa--
; cor=0.904; Ncor=0.753; logoDP=6.867; NIcor=0.752; NsEucl=0.933; SSD=0.907; NSW=0.955; rcor=15; rNcor=6; rlogoDP=20; rNIcor=6; rNsEucl=11; rSSD=17; rNSW=13; rank_mean=12.571; match_rank=3
a	0	0	38	6	15	1	0	4	2	5	1	59	0	0
c	0	0	12	33	82	1	96	95	0	90	97	5	0	0
g	0	0	27	46	1	97	3	0	97	2	1	24	0	0
t	0	0	23	15	2	1	1	1	1	3	1	12	0	0
10843_CRF2_M0029_1.02_CISBP_1.02__shift3 (10843_CRF2_M0029_1.02_CISBP_1.02_) 0.988 0.659 6.886 0.653 0.971 0.106 0.993 2 42 19 38 1 2 2 15.143 4 
; oligos_5-7nt_m5 versus 10843_CRF2_M0029_1.02_CISBP_1.02_; m=4/61; ncol2=8; w=8; offset=1; strand=D; shift=3; score=15.1429; ---sCGCCGCC---
; cor=0.988; Ncor=0.659; logoDP=6.886; NIcor=0.653; NsEucl=0.971; SSD=0.106; NSW=0.993; rcor=2; rNcor=42; rlogoDP=19; rNIcor=38; rNsEucl=1; rSSD=2; rNSW=2; rank_mean=15.143; match_rank=4
a	0	0	0	4	11	0	0	0	0	2	12	0	0	0
c	0	0	0	48	78	0	98	100	0	93	73	0	0	0
g	0	0	0	35	8	100	2	0	100	0	6	0	0	0
t	0	0	0	13	3	0	0	0	0	5	9	0	0	0
10845_CRF4_M0033_1.02_CISBP_1.02__shift3 (10845_CRF4_M0033_1.02_CISBP_1.02_) 0.975 0.650 6.388 0.645 0.960 0.206 0.987 4 48 34 43 4 4 4 20.143 6 
; oligos_5-7nt_m5 versus 10845_CRF4_M0033_1.02_CISBP_1.02_; m=5/61; ncol2=8; w=8; offset=1; strand=D; shift=3; score=20.1429; ---sCGCCGCC---
; cor=0.975; Ncor=0.650; logoDP=6.388; NIcor=0.645; NsEucl=0.960; SSD=0.206; NSW=0.987; rcor=4; rNcor=48; rlogoDP=34; rNIcor=43; rNsEucl=4; rSSD=4; rNSW=4; rank_mean=20.143; match_rank=6
a	0	0	0	7	11	0	0	0	0	7	10	0	0	0
c	0	0	0	33	77	0	97	100	1	75	79	0	0	0
g	0	0	0	53	6	100	3	0	99	7	6	0	0	0
t	0	0	0	7	6	0	0	0	0	11	5	0	0	0
11289_LOC_Os05g41760_M0043_1.02_CISBP_1.02__shift4 (11289_LOC_Os05g41760_M0043_1.02_CISBP_1.02_) 0.945 0.630 8.256 0.621 0.935 0.542 0.966 7 58 4 52 8 7 8 20.571 7 
; oligos_5-7nt_m5 versus 11289_LOC_Os05g41760_M0043_1.02_CISBP_1.02_; m=6/61; ncol2=8; w=8; offset=2; strand=D; shift=4; score=20.5714; ----CGsCGCCr--
; cor=0.945; Ncor=0.630; logoDP=8.256; NIcor=0.621; NsEucl=0.935; SSD=0.542; NSW=0.966; rcor=7; rNcor=58; rlogoDP=4; rNIcor=52; rNsEucl=8; rSSD=7; rNSW=8; rank_mean=20.571; match_rank=7
a	0	0	0	0	0	0	0	0	0	0	0	50	0	0
c	0	0	0	0	100	0	67	100	0	100	100	0	0	0
g	0	0	0	0	0	100	33	0	100	0	0	50	0	0
t	0	0	0	0	0	0	0	0	0	0	0	0	0	0
10683_ATERF-4_M0022_1.02_CISBP_1.02__shift3 (10683_ATERF-4_M0022_1.02_CISBP_1.02_) 0.983 0.655 5.504 0.650 0.966 0.146 0.991 3 45 52 41 3 3 3 21.429 8 
; oligos_5-7nt_m5 versus 10683_ATERF-4_M0022_1.02_CISBP_1.02_; m=7/61; ncol2=8; w=8; offset=1; strand=D; shift=3; score=21.4286; ---cCGCCGcC---
; cor=0.983; Ncor=0.655; logoDP=5.504; NIcor=0.650; NsEucl=0.966; SSD=0.146; NSW=0.991; rcor=3; rNcor=45; rlogoDP=52; rNIcor=41; rNsEucl=3; rSSD=3; rNSW=3; rank_mean=21.429; match_rank=8
a	0	0	0	17	6	2	1	1	0	6	12	0	0	0
c	0	0	0	52	73	2	90	98	1	66	80	0	0	0
g	0	0	0	22	12	95	8	1	99	13	4	0	0	0
t	0	0	0	9	9	1	1	0	0	15	4	0	0	0
10649_AT2G33710_M0018_1.02_CISBP_1.02__shift2 (10649_AT2G33710_M0018_1.02_CISBP_1.02_) 0.888 0.740 4.856 0.722 0.929 1.010 0.949 18 7 67 12 13 23 16 22.286 9 
; oligos_5-7nt_m5 versus 10649_AT2G33710_M0018_1.02_CISBP_1.02_; m=8/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=22.2857; --gscGCCGcca--
; cor=0.888; Ncor=0.740; logoDP=4.856; NIcor=0.722; NsEucl=0.929; SSD=1.010; NSW=0.949; rcor=18; rNcor=7; rlogoDP=67; rNIcor=12; rNsEucl=13; rSSD=23; rNSW=16; rank_mean=22.286; match_rank=9
a	0	0	19	10	22	1	0	5	4	17	24	48	0	0
c	0	0	24	44	61	0	100	95	3	52	66	13	0	0
g	0	0	39	34	12	92	0	0	90	10	4	24	0	0
t	0	0	18	12	5	7	0	0	3	21	6	15	0	0
7256_RRTF1_ArabidopsisPBM_20140210__shift2 (7256_RRTF1_ArabidopsisPBM_20140210_) 0.875 0.729 6.750 0.720 0.923 1.187 0.941 23 12 26 13 22 31 29 22.286 10 
; oligos_5-7nt_m5 versus 7256_RRTF1_ArabidopsisPBM_20140210_; m=9/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=22.2857; --gsCGCCGCCA--
; cor=0.875; Ncor=0.729; logoDP=6.750; NIcor=0.720; NsEucl=0.923; SSD=1.187; NSW=0.941; rcor=23; rNcor=12; rlogoDP=26; rNIcor=13; rNsEucl=22; rSSD=31; rNSW=29; rank_mean=22.286; match_rank=10
a	0	0	24	4	4	0	0	2	0	4	21	69	0	0
c	0	0	15	29	94	0	83	98	1	86	77	2	0	0
g	0	0	46	66	1	100	17	0	99	1	0	21	0	0
t	0	0	15	1	1	0	0	0	0	9	2	8	0	0
10670_AT5G43410_M0037_1.02_CISBP_1.02__shift3 (10670_AT5G43410_M0037_1.02_CISBP_1.02_) 0.884 0.737 4.545 0.723 0.927 1.061 0.947 20 9 70 11 15 25 18 24.000 11 
; oligos_5-7nt_m5 versus 10670_AT5G43410_M0037_1.02_CISBP_1.02_; m=10/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=     24; ---smGCCGcCay-
; cor=0.884; Ncor=0.737; logoDP=4.545; NIcor=0.723; NsEucl=0.927; SSD=1.061; NSW=0.947; rcor=20; rNcor=9; rlogoDP=70; rNIcor=11; rNsEucl=15; rSSD=25; rNSW=18; rank_mean=24.000; match_rank=11
a	0	0	0	19	29	3	3	10	4	13	3	38	23	0
c	0	0	0	30	47	1	91	85	1	59	90	18	25	0
g	0	0	0	28	17	95	3	2	93	13	3	24	22	0
t	0	0	0	23	7	1	3	3	2	15	4	20	30	0
11540_ORA59_M0005_1.02_CISBP_1.02__shift4 (11540_ORA59_M0005_1.02_CISBP_1.02_) 0.939 0.626 7.080 0.609 0.935 0.545 0.966 8 62 16 57 9 8 9 24.143 12 
; oligos_5-7nt_m5 versus 11540_ORA59_M0005_1.02_CISBP_1.02_; m=11/61; ncol2=8; w=8; offset=2; strand=D; shift=4; score=24.1429; ----mGCCGCCg--
; cor=0.939; Ncor=0.626; logoDP=7.080; NIcor=0.609; NsEucl=0.935; SSD=0.545; NSW=0.966; rcor=8; rNcor=62; rlogoDP=16; rNIcor=57; rNsEucl=9; rSSD=8; rNSW=9; rank_mean=24.143; match_rank=12
a	0	0	0	0	35	0	0	12	2	0	0	24	0	0
c	0	0	0	0	46	0	100	88	0	95	100	10	0	0
g	0	0	0	0	19	100	0	0	98	5	0	49	0	0
t	0	0	0	0	0	0	0	0	0	0	0	17	0	0
7248_RAP2.3_ArabidopsisPBM_20140210__shift2 (7248_RAP2.3_ArabidopsisPBM_20140210_) 0.873 0.727 5.422 0.726 0.925 1.130 0.943 26 13 54 10 18 28 25 24.857 13 
; oligos_5-7nt_m5 versus 7248_RAP2.3_ArabidopsisPBM_20140210_; m=12/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=24.8571; --rgCGCCGCmw--
; cor=0.873; Ncor=0.727; logoDP=5.422; NIcor=0.726; NsEucl=0.925; SSD=1.130; NSW=0.943; rcor=26; rNcor=13; rlogoDP=54; rNIcor=10; rNsEucl=18; rSSD=28; rNSW=25; rank_mean=24.857; match_rank=13
a	0	0	25	12	15	1	1	2	1	10	26	49	0	0
c	0	0	13	23	76	1	75	98	0	78	66	9	0	0
g	0	0	47	54	3	98	24	0	98	3	1	17	0	0
t	0	0	15	11	6	0	0	0	1	9	7	25	0	0
7213_DEAR3_ArabidopsisPBM_20140210__shift3 (7213_DEAR3_ArabidopsisPBM_20140210_) 0.883 0.736 4.053 0.739 0.926 1.087 0.946 21 10 81 8 17 26 22 26.429 15 
; oligos_5-7nt_m5 versus 7213_DEAR3_ArabidopsisPBM_20140210_; m=13/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=26.4286; ---kCrCCGmCsw-
; cor=0.883; Ncor=0.736; logoDP=4.053; NIcor=0.739; NsEucl=0.926; SSD=1.087; NSW=0.946; rcor=21; rNcor=10; rlogoDP=81; rNIcor=8; rNsEucl=17; rSSD=26; rNSW=22; rank_mean=26.429; match_rank=15
a	0	0	0	19	15	33	3	4	7	32	7	10	32	0
c	0	0	0	23	79	2	89	93	4	52	83	42	23	0
g	0	0	0	33	2	63	5	2	86	6	7	33	15	0
t	0	0	0	25	4	2	3	1	3	10	3	15	30	0
755_M01057_TRANSFAC_2012.1__shift4 (755_M01057_TRANSFAC_2012.1_) 0.990 0.577 5.802 0.575 0.971 0.083 0.994 1 81 51 72 2 1 1 29.857 18 
; oligos_5-7nt_m5 versus 755_M01057_TRANSFAC_2012.1_; m=14/61; ncol2=7; w=7; offset=2; strand=D; shift=4; score=29.8571; ----CGCCGCC---
; cor=0.990; Ncor=0.577; logoDP=5.802; NIcor=0.575; NsEucl=0.971; SSD=0.083; NSW=0.994; rcor=1; rNcor=81; rlogoDP=51; rNIcor=72; rNsEucl=2; rSSD=1; rNSW=1; rank_mean=29.857; match_rank=18
a	0	0	0	0	2	0	1	0	1	3	0	0	0	0
c	0	0	0	0	26	1	26	30	0	28	32	0	0	0
g	0	0	0	0	1	31	6	2	32	2	1	0	0	0
t	0	0	0	0	4	1	0	1	0	0	0	0	0	0
7216_DEAR4_2_ArabidopsisPBM_20140210__shift2 (7216_DEAR4_2_ArabidopsisPBM_20140210_) 0.859 0.716 6.188 0.715 0.919 1.319 0.934 31 17 41 16 31 43 34 30.429 19 
; oligos_5-7nt_m5 versus 7216_DEAR4_2_ArabidopsisPBM_20140210_; m=15/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=30.4286; --rGCGCCGCCt--
; cor=0.859; Ncor=0.716; logoDP=6.188; NIcor=0.715; NsEucl=0.919; SSD=1.319; NSW=0.934; rcor=31; rNcor=17; rlogoDP=41; rNIcor=16; rNsEucl=31; rSSD=43; rNSW=34; rank_mean=30.429; match_rank=19
a	0	0	29	3	2	12	1	0	1	1	3	3	0	0
c	0	0	22	13	94	0	91	98	1	84	86	21	0	0
g	0	0	37	76	2	87	8	1	95	8	2	15	0	0
t	0	0	12	8	2	1	0	1	3	7	9	61	0	0
7246_ORA47_2_ArabidopsisPBM_20140210__shift2 (7246_ORA47_2_ArabidopsisPBM_20140210_) 0.853 0.711 6.491 0.715 0.917 1.372 0.931 36 18 33 15 33 44 36 30.714 20 
; oligos_5-7nt_m5 versus 7246_ORA47_2_ArabidopsisPBM_20140210_; m=16/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=30.7143; --kGCGCCGmCy--
; cor=0.853; Ncor=0.711; logoDP=6.491; NIcor=0.715; NsEucl=0.917; SSD=1.372; NSW=0.931; rcor=36; rNcor=18; rlogoDP=33; rNIcor=15; rNsEucl=33; rSSD=44; rNSW=36; rank_mean=30.714; match_rank=20
a	0	0	17	9	2	7	0	1	1	25	4	20	0	0
c	0	0	6	13	93	1	96	98	0	65	93	25	0	0
g	0	0	30	73	1	92	4	1	97	5	1	13	0	0
t	0	0	47	5	4	0	0	0	2	5	2	42	0	0
4995_ABI4_Athamap_20091028__shift4 (4995_ABI4_Athamap_20091028_) 0.852 0.710 7.338 0.695 0.915 1.447 0.928 37 19 12 22 36 51 41 31.143 21 
; oligos_5-7nt_m5 versus 4995_ABI4_Athamap_20091028_; m=17/61; ncol2=10; w=10; offset=2; strand=D; shift=4; score=31.1429; ----CrCCGCCccs
; cor=0.852; Ncor=0.710; logoDP=7.338; NIcor=0.695; NsEucl=0.915; SSD=1.447; NSW=0.928; rcor=37; rNcor=19; rlogoDP=12; rNIcor=22; rNsEucl=36; rSSD=51; rNSW=41; rank_mean=31.143; match_rank=21
a	0	0	0	0	0	12	0	0	1	0	1	1	2	4
c	0	0	0	0	20	0	21	21	0	21	20	14	13	7
g	0	0	0	0	0	9	0	0	20	0	0	5	4	6
t	0	0	0	0	1	0	0	0	0	0	0	1	2	4
11601_PK19363.1_M0004_1.02_CISBP_1.02__shift4 (11601_PK19363.1_M0004_1.02_CISBP_1.02_) 0.924 0.616 5.352 0.604 0.927 0.679 0.958 10 70 55 62 16 10 11 33.429 23 
; oligos_5-7nt_m5 versus 11601_PK19363.1_M0004_1.02_CISBP_1.02_; m=18/61; ncol2=8; w=8; offset=2; strand=D; shift=4; score=33.4286; ----CGCCGcCr--
; cor=0.924; Ncor=0.616; logoDP=5.352; NIcor=0.604; NsEucl=0.927; SSD=0.679; NSW=0.958; rcor=10; rNcor=70; rlogoDP=55; rNIcor=62; rNsEucl=16; rSSD=10; rNSW=11; rank_mean=33.429; match_rank=23
a	0	0	0	0	15	3	2	2	0	6	16	49	0	0
c	0	0	0	0	72	1	87	97	1	63	77	7	0	0
g	0	0	0	0	7	95	11	1	99	14	1	30	0	0
t	0	0	0	0	6	1	0	0	0	17	6	14	0	0
10565_0100010458_M0076_1.02_CISBP_1.02__shift4 (10565_0100010458_M0076_1.02_CISBP_1.02_) 0.913 0.609 6.742 0.593 0.922 0.770 0.952 13 76 27 67 24 13 15 33.571 24 
; oligos_5-7nt_m5 versus 10565_0100010458_M0076_1.02_CISBP_1.02_; m=19/61; ncol2=8; w=8; offset=2; strand=D; shift=4; score=33.5714; ----cGCCGCCr--
; cor=0.913; Ncor=0.609; logoDP=6.742; NIcor=0.593; NsEucl=0.922; SSD=0.770; NSW=0.952; rcor=13; rNcor=76; rlogoDP=27; rNIcor=67; rNsEucl=24; rSSD=13; rNSW=15; rank_mean=33.571; match_rank=24
a	0	0	0	0	18	0	0	0	0	2	0	59	0	0
c	0	0	0	0	61	0	92	98	0	71	100	3	0	0
g	0	0	0	0	13	100	8	2	100	22	0	32	0	0
t	0	0	0	0	8	0	0	0	0	5	0	6	0	0
10962_ERF3_M0011_1.02_CISBP_1.02__shift4 (10962_ERF3_M0011_1.02_CISBP_1.02_) 0.916 0.611 6.216 0.598 0.924 0.737 0.954 12 74 39 65 20 12 14 33.714 25 
; oligos_5-7nt_m5 versus 10962_ERF3_M0011_1.02_CISBP_1.02_; m=20/61; ncol2=8; w=8; offset=2; strand=D; shift=4; score=33.7143; ----CGCCGcCr--
; cor=0.916; Ncor=0.611; logoDP=6.216; NIcor=0.598; NsEucl=0.924; SSD=0.737; NSW=0.954; rcor=12; rNcor=74; rlogoDP=39; rNIcor=65; rNsEucl=20; rSSD=12; rNSW=14; rank_mean=33.714; match_rank=25
a	0	0	0	0	8	1	0	0	1	6	8	58	0	0
c	0	0	0	0	76	0	89	99	0	64	90	2	0	0
g	0	0	0	0	8	99	11	1	99	19	0	28	0	0
t	0	0	0	0	8	0	0	0	0	11	2	12	0	0
11906_WIN1_M0006_1.02_CISBP_1.02__shift3 (11906_WIN1_M0006_1.02_CISBP_1.02_) 0.867 0.723 3.304 0.720 0.919 1.299 0.935 27 14 92 14 30 42 33 36.000 27 
; oligos_5-7nt_m5 versus 11906_WIN1_M0006_1.02_CISBP_1.02_; m=21/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=     36; ---vCrCCGCmrt-
; cor=0.867; Ncor=0.723; logoDP=3.304; NIcor=0.720; NsEucl=0.919; SSD=1.299; NSW=0.935; rcor=27; rNcor=14; rlogoDP=92; rNIcor=14; rNsEucl=30; rSSD=42; rNSW=33; rank_mean=36.000; match_rank=27
a	0	0	0	25	14	39	0	0	20	16	35	25	18	0
c	0	0	0	39	72	0	80	96	1	68	35	16	24	0
g	0	0	0	27	13	61	18	0	71	8	16	43	17	0
t	0	0	0	9	1	0	2	4	8	8	14	16	41	0
5032_NtERF2_Athamap_20091028__shift4 (5032_NtERF2_Athamap_20091028_) 0.955 0.557 4.119 0.551 0.934 0.422 0.970 6 86 79 77 10 5 6 38.429 28 
; oligos_5-7nt_m5 versus 5032_NtERF2_Athamap_20091028_; m=22/61; ncol2=7; w=7; offset=2; strand=D; shift=4; score=38.4286; ----yGCCGCC---
; cor=0.955; Ncor=0.557; logoDP=4.119; NIcor=0.551; NsEucl=0.934; SSD=0.422; NSW=0.970; rcor=6; rNcor=86; rlogoDP=79; rNIcor=77; rNsEucl=10; rSSD=5; rNSW=6; rank_mean=38.429; match_rank=28
a	0	0	0	0	2	0	1	0	1	2	0	0	0	0
c	0	0	0	0	7	1	10	11	0	10	13	0	0	0
g	0	0	0	0	1	12	3	2	13	2	1	0	0	0
t	0	0	0	0	4	1	0	1	0	0	0	0	0	0
2117_M03169_TRANSFAC_2012.1__shift3 (2117_M03169_TRANSFAC_2012.1_) 0.834 0.695 8.163 0.702 0.907 1.714 0.914 47 25 6 19 46 73 56 38.857 29 
; oligos_5-7nt_m5 versus 2117_M03169_TRANSFAC_2012.1_; m=23/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=38.8571; ---wYGCCGCCGA-
; cor=0.834; Ncor=0.695; logoDP=8.163; NIcor=0.702; NsEucl=0.907; SSD=1.714; NSW=0.914; rcor=47; rNcor=25; rlogoDP=6; rNIcor=19; rNsEucl=46; rSSD=73; rNSW=56; rank_mean=38.857; match_rank=29
a	0	0	0	34	0	0	0	0	0	2	0	0	68	0
c	0	0	0	22	25	0	100	100	0	98	98	22	3	0
g	0	0	0	17	1	100	0	0	100	0	0	78	9	0
t	0	0	0	27	74	0	0	0	0	0	2	0	20	0
9050_MA0567_JASPAR_2014__shift4 (9050_MA0567_JASPAR_2014_) 0.895 0.597 6.775 0.586 0.914 0.949 0.941 17 78 25 69 38 18 28 39.000 30 
; oligos_5-7nt_m5 versus 9050_MA0567_JASPAR_2014_; m=24/61; ncol2=8; w=8; offset=2; strand=D; shift=4; score=     39; ----mGCCGCCa--
; cor=0.895; Ncor=0.597; logoDP=6.775; NIcor=0.586; NsEucl=0.914; SSD=0.949; NSW=0.941; rcor=17; rNcor=78; rlogoDP=25; rNIcor=69; rNsEucl=38; rSSD=18; rNSW=28; rank_mean=39.000; match_rank=30
a	0	0	0	0	42	1	0	4	2	2	1	58	0	0
c	0	0	0	0	54	1	98	96	0	92	98	5	0	0
g	0	0	0	0	3	98	1	0	97	2	1	24	0	0
t	0	0	0	0	1	1	1	0	1	4	1	12	0	0
10686_ATERF13_M0020_1.02_CISBP_1.02__shift4 (10686_ATERF13_M0020_1.02_CISBP_1.02_) 0.900 0.600 6.181 0.580 0.917 0.872 0.946 16 77 42 70 32 15 23 39.286 31 
; oligos_5-7nt_m5 versus 10686_ATERF13_M0020_1.02_CISBP_1.02_; m=25/61; ncol2=8; w=8; offset=2; strand=D; shift=4; score=39.2857; ----sGCCGcCr--
; cor=0.900; Ncor=0.600; logoDP=6.181; NIcor=0.580; NsEucl=0.917; SSD=0.872; NSW=0.946; rcor=16; rNcor=77; rlogoDP=42; rNIcor=70; rNsEucl=32; rSSD=15; rNSW=23; rank_mean=39.286; match_rank=31
a	0	0	0	0	22	0	2	0	0	10	0	47	0	0
c	0	0	0	0	48	5	95	98	2	64	100	10	0	0
g	0	0	0	0	28	95	3	2	98	15	0	28	0	0
t	0	0	0	0	2	0	0	0	0	11	0	15	0	0
7249_RAP2.3_2_ArabidopsisPBM_20140210__shift3 (7249_RAP2.3_2_ArabidopsisPBM_20140210_) 0.824 0.687 6.076 0.689 0.911 1.597 0.920 58 29 46 23 41 59 51 43.857 34 
; oligos_5-7nt_m5 versus 7249_RAP2.3_2_ArabidopsisPBM_20140210_; m=26/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=43.8571; ---smGCCGCmaw-
; cor=0.824; Ncor=0.687; logoDP=6.076; NIcor=0.689; NsEucl=0.911; SSD=1.597; NSW=0.920; rcor=58; rNcor=29; rlogoDP=46; rNIcor=23; rNsEucl=41; rSSD=59; rNSW=51; rank_mean=43.857; match_rank=34
a	0	0	0	9	34	0	0	1	1	2	28	62	38	0
c	0	0	0	29	57	0	96	98	1	87	67	7	17	0
g	0	0	0	57	4	100	3	1	97	3	1	11	9	0
t	0	0	0	5	5	0	1	0	1	8	4	20	36	0
10654_AT3G23230_M0024_1.02_CISBP_1.02__shift3 (10654_AT3G23230_M0024_1.02_CISBP_1.02_) 0.923 0.616 2.310 0.609 0.916 0.907 0.943 11 71 105 58 34 16 26 45.857 36 
; oligos_5-7nt_m5 versus 10654_AT3G23230_M0024_1.02_CISBP_1.02_; m=27/61; ncol2=8; w=8; offset=1; strand=D; shift=3; score=45.8571; ---smGCCGcC---
; cor=0.923; Ncor=0.616; logoDP=2.310; NIcor=0.609; NsEucl=0.916; SSD=0.907; NSW=0.943; rcor=11; rNcor=71; rlogoDP=105; rNIcor=58; rNsEucl=34; rSSD=16; rNSW=26; rank_mean=45.857; match_rank=36
a	0	0	0	21	25	10	3	15	19	19	12	0	0	0
c	0	0	0	32	36	6	75	77	4	45	68	0	0	0
g	0	0	0	27	22	80	17	1	76	17	10	0	0	0
t	0	0	0	20	17	4	5	7	1	19	10	0	0	0
10685_ATERF-8_M0012_1.02_CISBP_1.02__shift4 (10685_ATERF-8_M0012_1.02_CISBP_1.02_) 0.832 0.694 3.568 0.685 0.913 1.522 0.924 50 26 87 24 39 53 45 46.286 37 
; oligos_5-7nt_m5 versus 10685_ATERF-8_M0012_1.02_CISBP_1.02_; m=28/61; ncol2=10; w=10; offset=2; strand=D; shift=4; score=46.2857; ----cGCCGccaww
; cor=0.832; Ncor=0.694; logoDP=3.568; NIcor=0.685; NsEucl=0.913; SSD=1.522; NSW=0.924; rcor=50; rNcor=26; rlogoDP=87; rNIcor=24; rNsEucl=39; rSSD=53; rNSW=45; rank_mean=46.286; match_rank=37
a	0	0	0	0	20	4	1	11	8	15	20	45	27	29
c	0	0	0	0	57	0	91	81	5	45	60	18	21	21
g	0	0	0	0	10	96	6	3	84	16	6	18	18	19
t	0	0	0	0	13	0	2	5	3	24	14	19	34	31
10961_ERF2_M0038_1.02_CISBP_1.02__shift2 (10961_ERF2_M0038_1.02_CISBP_1.02_) 0.845 0.704 1.862 0.705 0.908 1.690 0.916 40 20 108 17 44 67 53 49.857 44 
; oligos_5-7nt_m5 versus 10961_ERF2_M0038_1.02_CISBP_1.02_; m=29/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=49.8571; --hsmGCCGcCa--
; cor=0.845; Ncor=0.704; logoDP=1.862; NIcor=0.705; NsEucl=0.908; SSD=1.690; NSW=0.916; rcor=40; rNcor=20; rlogoDP=108; rNIcor=17; rNsEucl=44; rSSD=67; rNSW=53; rank_mean=49.857; match_rank=44
a	0	0	26	23	29	13	9	17	16	18	12	34	0	0
c	0	0	26	27	32	8	70	71	3	46	68	22	0	0
g	0	0	21	27	24	73	14	4	77	15	9	22	0	0
t	0	0	27	23	15	6	7	8	4	21	11	22	0	0
7258_RRTF1_3_ArabidopsisPBM_20140210__shift3 (7258_RRTF1_3_ArabidopsisPBM_20140210_) 0.815 0.679 6.811 0.678 0.904 1.835 0.908 65 33 22 27 57 83 69 50.857 45 
; oligos_5-7nt_m5 versus 7258_RRTF1_3_ArabidopsisPBM_20140210_; m=30/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=50.8571; ---sCGCCGCCAt-
; cor=0.815; Ncor=0.679; logoDP=6.811; NIcor=0.678; NsEucl=0.904; SSD=1.835; NSW=0.908; rcor=65; rNcor=33; rlogoDP=22; rNIcor=27; rNsEucl=57; rSSD=83; rNSW=69; rank_mean=50.857; match_rank=45
a	0	0	0	6	5	0	0	2	1	6	17	81	21	0
c	0	0	0	30	92	0	97	97	1	82	77	4	9	0
g	0	0	0	60	2	100	3	0	98	1	0	8	3	0
t	0	0	0	4	1	0	0	1	0	11	6	7	67	0
10684_ATERF-7_M0023_1.02_CISBP_1.02__shift4 (10684_ATERF-7_M0023_1.02_CISBP_1.02_) 0.825 0.688 3.057 0.679 0.910 1.627 0.919 57 28 95 25 43 62 52 51.714 46 
; oligos_5-7nt_m5 versus 10684_ATERF-7_M0023_1.02_CISBP_1.02_; m=31/61; ncol2=10; w=10; offset=2; strand=D; shift=4; score=51.7143; ----mGCCGycaww
; cor=0.825; Ncor=0.688; logoDP=3.057; NIcor=0.679; NsEucl=0.910; SSD=1.627; NSW=0.919; rcor=57; rNcor=28; rlogoDP=95; rNIcor=25; rNsEucl=43; rSSD=62; rNSW=52; rank_mean=51.714; match_rank=46
a	0	0	0	0	26	9	5	13	9	15	21	42	27	28
c	0	0	0	0	44	1	87	76	2	45	59	17	21	21
g	0	0	0	0	14	87	8	4	88	13	7	21	20	20
t	0	0	0	0	16	3	0	7	1	27	13	20	32	31
7250_RAP2.3_3_ArabidopsisPBM_20140210__shift3 (7250_RAP2.3_3_ArabidopsisPBM_20140210_) 0.800 0.667 5.487 0.674 0.905 1.792 0.910 74 36 53 30 54 80 65 56.000 50 
; oligos_5-7nt_m5 versus 7250_RAP2.3_3_ArabidopsisPBM_20140210_; m=32/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=     56; ---gCGCCGCCAw-
; cor=0.800; Ncor=0.667; logoDP=5.487; NIcor=0.674; NsEucl=0.905; SSD=1.792; NSW=0.910; rcor=74; rNcor=36; rlogoDP=53; rNIcor=30; rNsEucl=54; rSSD=80; rNSW=65; rank_mean=56.000; match_rank=50
a	0	0	0	14	21	0	0	9	1	16	8	73	31	0
c	0	0	0	16	70	0	98	91	22	70	90	3	17	0
g	0	0	0	65	3	100	1	0	76	4	0	6	18	0
t	0	0	0	5	6	0	1	0	1	10	2	18	34	0
2146_M03199_TRANSFAC_2012.1__shift3 (2146_M03199_TRANSFAC_2012.1_) 0.792 0.660 6.567 0.678 0.902 1.926 0.904 81 40 32 29 62 87 76 58.143 51 
; oligos_5-7nt_m5 versus 2146_M03199_TRANSFAC_2012.1_; m=33/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=58.1429; ---aTGCCGCCsm-
; cor=0.792; Ncor=0.660; logoDP=6.567; NIcor=0.678; NsEucl=0.902; SSD=1.926; NSW=0.904; rcor=81; rNcor=40; rlogoDP=32; rNIcor=29; rNsEucl=62; rSSD=87; rNSW=76; rank_mean=58.143; match_rank=51
a	0	0	0	33	1	0	0	0	0	8	9	1	48	0
c	0	0	0	22	3	0	100	100	0	74	79	38	27	0
g	0	0	0	21	18	100	0	0	100	15	1	60	16	0
t	0	0	0	24	78	0	0	0	0	3	11	1	9	0
2131_M03183_TRANSFAC_2012.1__shift0 (2131_M03183_TRANSFAC_2012.1_) 0.851 0.486 5.987 0.486 0.903 1.200 0.925 38 102 47 92 59 33 43 59.143 52 
; oligos_5-7nt_m5 versus 2131_M03183_TRANSFAC_2012.1_; m=34/61; ncol2=10; w=8; offset=-2; strand=D; shift=0; score=59.1429; cTvCCGCCGr----
; cor=0.851; Ncor=0.486; logoDP=5.987; NIcor=0.486; NsEucl=0.903; SSD=1.200; NSW=0.925; rcor=38; rNcor=102; rlogoDP=47; rNIcor=92; rNsEucl=59; rSSD=33; rNSW=43; rank_mean=59.143; match_rank=52
a	23	0	28	1	0	0	0	0	0	31	0	0	0	0
c	34	2	26	88	100	0	99	94	7	11	0	0	0	0
g	23	0	45	7	0	100	1	0	93	51	0	0	0	0
t	20	98	1	4	0	0	0	6	0	7	0	0	0	0
7257_RRTF1_2_ArabidopsisPBM_20140210__shift3 (7257_RRTF1_2_ArabidopsisPBM_20140210_) 0.797 0.664 6.799 0.665 0.900 1.990 0.901 77 37 23 34 70 94 81 59.429 53 
; oligos_5-7nt_m5 versus 7257_RRTF1_2_ArabidopsisPBM_20140210_; m=35/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=59.4286; ---sCGCCGCmAw-
; cor=0.797; Ncor=0.664; logoDP=6.799; NIcor=0.665; NsEucl=0.900; SSD=1.990; NSW=0.901; rcor=77; rNcor=37; rlogoDP=23; rNIcor=34; rNsEucl=70; rSSD=94; rNSW=81; rank_mean=59.429; match_rank=53
a	0	0	0	7	10	0	0	1	0	3	44	90	27	0
c	0	0	0	46	87	1	98	99	1	91	54	2	17	0
g	0	0	0	43	2	99	2	0	98	2	0	3	8	0
t	0	0	0	4	1	0	0	0	1	4	2	5	48	0
11692_Rap2.6L_M0036_1.02_CISBP_1.02__shift3 (11692_Rap2.6L_M0036_1.02_CISBP_1.02_) 0.818 0.681 2.361 0.669 0.906 1.750 0.912 63 31 104 32 49 78 62 59.857 55 
; oligos_5-7nt_m5 versus 11692_Rap2.6L_M0036_1.02_CISBP_1.02_; m=36/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=59.8571; ---smGCCGymaw-
; cor=0.818; Ncor=0.681; logoDP=2.361; NIcor=0.669; NsEucl=0.906; SSD=1.750; NSW=0.912; rcor=63; rNcor=31; rlogoDP=104; rNIcor=32; rNsEucl=49; rSSD=78; rNSW=62; rank_mean=59.857; match_rank=55
a	0	0	0	18	26	7	4	10	11	18	28	39	29	0
c	0	0	0	35	44	3	76	80	8	41	46	21	21	0
g	0	0	0	27	17	89	15	4	75	12	9	19	19	0
t	0	0	0	20	13	1	5	6	6	29	17	21	31	0
10959_ERF11_M0009_1.02_CISBP_1.02__shift3 (10959_ERF11_M0009_1.02_CISBP_1.02_) 0.812 0.676 2.683 0.666 0.906 1.750 0.913 68 34 99 33 48 77 61 60.000 56 
; oligos_5-7nt_m5 versus 10959_ERF11_M0009_1.02_CISBP_1.02_; m=37/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=     60; ---scGCCGymaw-
; cor=0.812; Ncor=0.676; logoDP=2.683; NIcor=0.666; NsEucl=0.906; SSD=1.750; NSW=0.913; rcor=68; rNcor=34; rlogoDP=99; rNIcor=33; rNsEucl=48; rSSD=77; rNSW=61; rank_mean=60.000; match_rank=56
a	0	0	0	21	21	11	2	15	13	19	26	43	28	0
c	0	0	0	30	50	0	83	70	1	38	49	16	20	0
g	0	0	0	32	12	89	6	5	83	16	8	18	20	0
t	0	0	0	17	17	0	9	10	3	27	17	23	32	0
2142_M03195_TRANSFAC_2012.1__shift3 (2142_M03195_TRANSFAC_2012.1_) 0.791 0.659 6.929 0.670 0.900 1.997 0.900 83 41 18 31 71 96 83 60.429 58 
; oligos_5-7nt_m5 versus 2142_M03195_TRANSFAC_2012.1_; m=38/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=60.4286; ---aTGCCGCyGm-
; cor=0.791; Ncor=0.659; logoDP=6.929; NIcor=0.670; NsEucl=0.900; SSD=1.997; NSW=0.900; rcor=83; rNcor=41; rlogoDP=18; rNIcor=31; rNsEucl=71; rSSD=96; rNSW=83; rank_mean=60.429; match_rank=58
a	0	0	0	33	1	0	0	0	0	12	11	0	42	0
c	0	0	0	22	2	0	100	100	0	82	52	4	29	0
g	0	0	0	21	14	100	0	0	100	5	1	95	16	0
t	0	0	0	24	83	0	0	0	0	1	36	1	13	0
2141_M03194_TRANSFAC_2012.1__shift6 (2141_M03194_TRANSFAC_2012.1_) 0.849 0.485 5.112 0.462 0.904 1.185 0.926 39 103 61 98 58 30 42 61.571 62 
; oligos_5-7nt_m5 versus 2141_M03194_TRANSFAC_2012.1_; m=39/61; ncol2=10; w=8; offset=4; strand=D; shift=6; score=61.5714; ------wcGCCGmC
; cor=0.849; Ncor=0.485; logoDP=5.112; NIcor=0.462; NsEucl=0.904; SSD=1.185; NSW=0.926; rcor=39; rNcor=103; rlogoDP=61; rNIcor=98; rNsEucl=58; rSSD=30; rNSW=42; rank_mean=61.571; match_rank=62
a	0	0	0	0	0	0	32	1	0	0	0	0	30	0
c	0	0	0	0	0	0	22	63	0	100	100	0	61	95
g	0	0	0	0	0	0	18	21	100	0	0	100	8	0
t	0	0	0	0	0	0	28	15	0	0	0	0	1	5
2155_M03208_TRANSFAC_2012.1__shift3 (2155_M03208_TRANSFAC_2012.1_) 0.787 0.655 6.848 0.660 0.899 2.035 0.898 85 44 21 36 73 97 85 63.000 64 
; oligos_5-7nt_m5 versus 2155_M03208_TRANSFAC_2012.1_; m=40/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=     63; ---wsGCCGCCCs-
; cor=0.787; Ncor=0.655; logoDP=6.848; NIcor=0.660; NsEucl=0.899; SSD=2.035; NSW=0.898; rcor=85; rNcor=44; rlogoDP=21; rNIcor=36; rNsEucl=73; rSSD=97; rNSW=85; rank_mean=63.000; match_rank=64
a	0	0	0	33	0	0	0	0	0	18	0	8	5	0
c	0	0	0	22	56	0	100	100	0	71	90	87	35	0
g	0	0	0	18	26	100	0	0	100	10	0	4	58	0
t	0	0	0	27	18	0	0	0	0	1	10	1	2	0
10844_CRF3_M0041_1.02_CISBP_1.02__shift3 (10844_CRF3_M0041_1.02_CISBP_1.02_) 0.839 0.629 2.563 0.601 0.902 1.561 0.913 41 61 101 64 63 55 58 63.286 65 
; oligos_5-7nt_m5 versus 10844_CRF3_M0041_1.02_CISBP_1.02_; m=41/61; ncol2=9; w=9; offset=1; strand=D; shift=3; score=63.2857; ---scGCCgcca--
; cor=0.839; Ncor=0.629; logoDP=2.563; NIcor=0.601; NsEucl=0.902; SSD=1.561; NSW=0.913; rcor=41; rNcor=61; rlogoDP=101; rNIcor=64; rNsEucl=63; rSSD=55; rNSW=58; rank_mean=63.286; match_rank=65
a	0	0	0	19	22	6	2	10	17	20	22	34	0	0
c	0	0	0	31	48	0	88	77	10	42	46	24	0	0
g	0	0	0	30	16	94	5	6	62	14	13	21	0	0
t	0	0	0	20	14	0	5	7	11	24	19	21	0	0
2136_M03189_TRANSFAC_2012.1__shift6 (2136_M03189_TRANSFAC_2012.1_) 0.839 0.479 5.057 0.464 0.903 1.213 0.924 42 105 62 97 61 34 44 63.571 66 
; oligos_5-7nt_m5 versus 2136_M03189_TRANSFAC_2012.1_; m=42/61; ncol2=10; w=8; offset=4; strand=D; shift=6; score=63.5714; ------wsGCCGmC
; cor=0.839; Ncor=0.479; logoDP=5.057; NIcor=0.464; NsEucl=0.903; SSD=1.213; NSW=0.924; rcor=42; rNcor=105; rlogoDP=62; rNIcor=97; rNsEucl=61; rSSD=34; rNSW=44; rank_mean=63.571; match_rank=66
a	0	0	0	0	0	0	33	0	0	0	0	0	46	0
c	0	0	0	0	0	0	22	60	0	100	100	0	46	81
g	0	0	0	0	0	0	18	26	100	0	0	100	7	0
t	0	0	0	0	0	0	27	14	0	0	0	0	1	19
7202_ATERF1_ArabidopsisPBM_20140210__shift2 (7202_ATERF1_ArabidopsisPBM_20140210_) 0.794 0.662 2.970 0.622 0.906 1.749 0.913 78 39 96 51 47 76 60 63.857 67 
; oligos_5-7nt_m5 versus 7202_ATERF1_ArabidopsisPBM_20140210_; m=43/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=63.8571; --GGcGsCGsCb--
; cor=0.794; Ncor=0.662; logoDP=2.970; NIcor=0.622; NsEucl=0.906; SSD=1.749; NSW=0.913; rcor=78; rNcor=39; rlogoDP=96; rNIcor=51; rNsEucl=47; rSSD=76; rNSW=60; rank_mean=63.857; match_rank=67
a	0	0	5	4	19	3	4	6	7	8	6	9	0	0
c	0	0	3	15	60	2	48	85	9	52	80	37	0	0
g	0	0	83	71	15	93	38	5	73	35	10	29	0	0
t	0	0	9	10	6	2	10	4	11	5	4	25	0	0
2145_M03198_TRANSFAC_2012.1__shift6 (2145_M03198_TRANSFAC_2012.1_) 0.834 0.476 5.046 0.461 0.901 1.250 0.922 48 108 63 99 66 38 46 66.857 70 
; oligos_5-7nt_m5 versus 2145_M03198_TRANSFAC_2012.1_; m=44/61; ncol2=10; w=8; offset=4; strand=D; shift=6; score=66.8571; ------wsGCCGmC
; cor=0.834; Ncor=0.476; logoDP=5.046; NIcor=0.461; NsEucl=0.901; SSD=1.250; NSW=0.922; rcor=48; rNcor=108; rlogoDP=63; rNIcor=99; rNsEucl=66; rSSD=38; rNSW=46; rank_mean=66.857; match_rank=70
a	0	0	0	0	0	0	33	0	0	0	0	0	49	0
c	0	0	0	0	0	0	22	59	0	100	100	0	44	81
g	0	0	0	0	0	0	18	26	100	0	0	100	7	0
t	0	0	0	0	0	0	27	15	0	0	0	0	0	19
10635_AT1G22985_M0007_1.02_CISBP_1.02__shift3 (10635_AT1G22985_M0007_1.02_CISBP_1.02_) 0.830 0.622 2.933 0.592 0.901 1.584 0.912 53 66 97 68 67 57 63 67.286 72 
; oligos_5-7nt_m5 versus 10635_AT1G22985_M0007_1.02_CISBP_1.02_; m=45/61; ncol2=9; w=9; offset=1; strand=D; shift=3; score=67.2857; ---scGCCGcca--
; cor=0.830; Ncor=0.622; logoDP=2.933; NIcor=0.592; NsEucl=0.901; SSD=1.584; NSW=0.912; rcor=53; rNcor=66; rlogoDP=97; rNIcor=68; rNsEucl=67; rSSD=57; rNSW=63; rank_mean=67.286; match_rank=72
a	0	0	0	19	20	2	6	10	18	14	23	35	0	0
c	0	0	0	29	47	0	83	68	0	42	40	21	0	0
g	0	0	0	32	17	98	9	8	82	21	19	23	0	0
t	0	0	0	20	16	0	2	14	0	23	18	21	0	0
10682_ATERF-1_M0028_1.02_CISBP_1.02__shift3 (10682_ATERF-1_M0028_1.02_CISBP_1.02_) 0.819 0.615 2.701 0.605 0.899 1.640 0.909 62 72 98 60 72 63 67 70.571 76 
; oligos_5-7nt_m5 versus 10682_ATERF-1_M0028_1.02_CISBP_1.02_; m=46/61; ncol2=9; w=9; offset=1; strand=D; shift=3; score=70.5714; ---smGCCgyCm--
; cor=0.819; Ncor=0.615; logoDP=2.701; NIcor=0.605; NsEucl=0.899; SSD=1.640; NSW=0.909; rcor=62; rNcor=72; rlogoDP=98; rNIcor=60; rNsEucl=72; rSSD=63; rNSW=67; rank_mean=70.571; match_rank=76
a	0	0	0	22	30	5	6	13	21	24	13	31	0	0
c	0	0	0	32	47	0	83	78	9	35	68	32	0	0
g	0	0	0	26	11	95	5	3	62	13	7	14	0	0
t	0	0	0	20	12	0	6	6	8	28	12	23	0	0
2122_M03174_TRANSFAC_2012.1__shift3 (2122_M03174_TRANSFAC_2012.1_) 0.766 0.638 7.151 0.663 0.893 2.297 0.885 100 56 15 35 85 107 96 70.571 77 
; oligos_5-7nt_m5 versus 2122_M03174_TRANSFAC_2012.1_; m=47/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=70.5714; ---wsGCCGCCAr-
; cor=0.766; Ncor=0.638; logoDP=7.151; NIcor=0.663; NsEucl=0.893; SSD=2.297; NSW=0.885; rcor=100; rNcor=56; rlogoDP=15; rNIcor=35; rNsEucl=85; rSSD=107; rNSW=96; rank_mean=70.571; match_rank=77
a	0	0	0	33	1	0	0	0	0	6	0	88	58	0
c	0	0	0	22	55	0	100	100	0	88	90	10	2	0
g	0	0	0	17	30	100	0	0	100	6	0	1	35	0
t	0	0	0	28	14	0	0	0	0	0	10	1	5	0
1584_M01999_TRANSFAC_2012.1__rc_shift3 (1584_M01999_TRANSFAC_2012.1__rc) 0.854 0.569 0.359 -0.160 0.901 1.254 0.922 35 83 112 112 68 39 47 70.857 78 
; oligos_5-7nt_m5 versus 1584_M01999_TRANSFAC_2012.1__rc; m=48/61; ncol2=8; w=8; offset=1; strand=R; shift=3; score=70.8571; ---vAGCCGCC---
; cor=0.854; Ncor=0.569; logoDP=0.359; NIcor=-0.160; NsEucl=0.901; SSD=1.254; NSW=0.922; rcor=35; rNcor=83; rlogoDP=112; rNIcor=112; rNsEucl=68; rSSD=39; rNSW=47; rank_mean=70.857; match_rank=78
a	0	0	0	2	5	1	0	0	0	1	0	0	0	0
c	0	0	0	2	1	0	7	7	0	6	7	0	0	0
g	0	0	0	3	0	6	0	0	7	0	0	0	0	0
t	0	0	0	0	1	0	0	0	0	0	0	0	0	0
8786_MA0123_JASPAR_2014__shift4 (8786_MA0123_JASPAR_2014_) 0.775 0.646 4.331 0.612 0.902 1.937 0.903 95 50 76 55 64 88 77 72.143 81 
; oligos_5-7nt_m5 versus 8786_MA0123_JASPAR_2014_; m=49/61; ncol2=10; w=10; offset=2; strand=D; shift=4; score=72.1429; ----CGsyGCcccc
; cor=0.775; Ncor=0.646; logoDP=4.331; NIcor=0.612; NsEucl=0.902; SSD=1.937; NSW=0.903; rcor=95; rNcor=50; rlogoDP=76; rNIcor=55; rNsEucl=64; rSSD=88; rNSW=77; rank_mean=72.143; match_rank=81
a	0	0	0	0	0	12	0	0	1	0	5	3	3	4
c	0	0	0	0	49	0	20	23	3	45	28	25	31	26
g	0	0	0	0	0	37	29	1	45	4	6	11	5	7
t	0	0	0	0	0	0	0	25	0	0	10	10	10	12
2137_M03190_TRANSFAC_2012.1__shift3 (2137_M03190_TRANSFAC_2012.1_) 0.756 0.630 7.425 0.659 0.892 2.348 0.883 107 59 11 37 87 108 98 72.429 82 
; oligos_5-7nt_m5 versus 2137_M03190_TRANSFAC_2012.1_; m=50/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=72.4286; ---wkGCCGCCmg-
; cor=0.756; Ncor=0.630; logoDP=7.425; NIcor=0.659; NsEucl=0.892; SSD=2.348; NSW=0.883; rcor=107; rNcor=59; rlogoDP=11; rNIcor=37; rNsEucl=87; rSSD=108; rNSW=98; rank_mean=72.429; match_rank=82
a	0	0	0	33	1	0	0	0	0	6	0	34	19	0
c	0	0	0	22	20	0	100	100	0	93	98	63	22	0
g	0	0	0	18	35	100	0	0	100	0	0	2	55	0
t	0	0	0	27	44	0	0	0	0	1	2	1	4	0
10963_ERF5_M0039_1.02_CISBP_1.02__shift2 (10963_ERF5_M0039_1.02_CISBP_1.02_) 0.806 0.672 1.228 0.678 0.897 2.123 0.894 70 35 109 28 80 101 89 73.143 84 
; oligos_5-7nt_m5 versus 10963_ERF5_M0039_1.02_CISBP_1.02_; m=51/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=73.1429; --hsmGccgccm--
; cor=0.806; Ncor=0.672; logoDP=1.228; NIcor=0.678; NsEucl=0.897; SSD=2.123; NSW=0.894; rcor=70; rNcor=35; rlogoDP=109; rNIcor=28; rNsEucl=80; rSSD=101; rNSW=89; rank_mean=73.143; match_rank=84
a	0	0	27	23	28	14	12	19	21	20	17	33	0	0
c	0	0	27	27	36	6	61	67	12	35	60	29	0	0
g	0	0	21	27	19	75	18	7	59	21	11	17	0	0
t	0	0	25	23	17	5	9	7	8	24	12	21	0	0
2140_M03193_TRANSFAC_2012.1__shift3 (2140_M03193_TRANSFAC_2012.1_) 0.756 0.630 7.508 0.638 0.890 2.403 0.880 106 57 9 46 88 109 99 73.429 85 
; oligos_5-7nt_m5 versus 2140_M03193_TRANSFAC_2012.1_; m=52/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=73.4286; ---wkGCCGCCCs-
; cor=0.756; Ncor=0.630; logoDP=7.508; NIcor=0.638; NsEucl=0.890; SSD=2.403; NSW=0.880; rcor=106; rNcor=57; rlogoDP=9; rNIcor=46; rNsEucl=88; rSSD=109; rNSW=99; rank_mean=73.429; match_rank=85
a	0	0	0	33	0	0	0	0	0	4	0	14	7	0
c	0	0	0	22	17	0	100	100	0	96	96	77	36	0
g	0	0	0	18	55	100	0	0	100	0	0	8	55	0
t	0	0	0	27	28	0	0	0	0	0	4	1	2	0
11293_LOC_Os08g36920_M0044_1.02_CISBP_1.02__shift2 (11293_LOC_Os08g36920_M0044_1.02_CISBP_1.02_) 0.771 0.643 3.915 0.613 0.902 1.940 0.903 97 53 82 54 65 89 79 74.143 87 
; oligos_5-7nt_m5 versus 11293_LOC_Os08g36920_M0044_1.02_CISBP_1.02_; m=53/61; ncol2=10; w=10; offset=0; strand=D; shift=2; score=74.1429; --bscGsCGyma--
; cor=0.771; Ncor=0.643; logoDP=3.915; NIcor=0.613; NsEucl=0.902; SSD=1.940; NSW=0.903; rcor=97; rNcor=53; rlogoDP=82; rNIcor=54; rNsEucl=65; rSSD=89; rNSW=79; rank_mean=74.143; match_rank=87
a	0	0	23	20	23	17	2	0	0	21	30	35	0	0
c	0	0	25	32	34	0	64	100	0	49	32	19	0	0
g	0	0	25	25	24	79	30	0	100	0	16	23	0	0
t	0	0	27	23	19	4	4	0	0	30	22	23	0	0
2161_M03214_TRANSFAC_2012.1__shift6 (2161_M03214_TRANSFAC_2012.1_) 0.812 0.464 4.985 0.452 0.896 1.388 0.913 67 109 64 100 83 46 59 75.429 88 
; oligos_5-7nt_m5 versus 2161_M03214_TRANSFAC_2012.1_; m=54/61; ncol2=10; w=8; offset=4; strand=D; shift=6; score=75.4286; ------wsGCCGmY
; cor=0.812; Ncor=0.464; logoDP=4.985; NIcor=0.452; NsEucl=0.896; SSD=1.388; NSW=0.913; rcor=67; rNcor=109; rlogoDP=64; rNIcor=100; rNsEucl=83; rSSD=46; rNSW=59; rank_mean=75.429; match_rank=88
a	0	0	0	0	0	0	33	0	0	0	0	0	50	0
c	0	0	0	0	0	0	21	51	0	100	100	0	42	72
g	0	0	0	0	0	0	18	38	100	0	0	100	7	0
t	0	0	0	0	0	0	28	11	0	0	0	0	1	28
2151_M03204_TRANSFAC_2012.1__shift3 (2151_M03204_TRANSFAC_2012.1_) 0.755 0.630 7.319 0.645 0.889 2.472 0.876 108 60 13 42 92 110 104 75.571 89 
; oligos_5-7nt_m5 versus 2151_M03204_TRANSFAC_2012.1_; m=55/61; ncol2=10; w=10; offset=1; strand=D; shift=3; score=75.5714; ---wsGCCGCCAa-
; cor=0.755; Ncor=0.630; logoDP=7.319; NIcor=0.645; NsEucl=0.889; SSD=2.472; NSW=0.876; rcor=108; rNcor=60; rlogoDP=13; rNIcor=42; rNsEucl=92; rSSD=110; rNSW=104; rank_mean=75.571; match_rank=89
a	0	0	0	33	0	0	0	0	0	6	0	98	65	0
c	0	0	0	22	57	0	100	100	0	86	96	2	2	0
g	0	0	0	18	27	100	0	0	100	8	0	0	21	0
t	0	0	0	27	16	0	0	0	0	0	4	0	12	0
11657_RAP2.6_M0010_1.02_CISBP_1.02__shift3 (11657_RAP2.6_M0010_1.02_CISBP_1.02_) 0.804 0.536 2.215 0.520 0.888 1.597 0.900 72 92 106 82 94 58 82 83.714 99 
; oligos_5-7nt_m5 versus 11657_RAP2.6_M0010_1.02_CISBP_1.02_; m=56/61; ncol2=8; w=8; offset=1; strand=D; shift=3; score=83.7143; ---syGCcGkc---
; cor=0.804; Ncor=0.536; logoDP=2.215; NIcor=0.520; NsEucl=0.888; SSD=1.597; NSW=0.900; rcor=72; rNcor=92; rlogoDP=106; rNIcor=82; rNsEucl=94; rSSD=58; rNSW=82; rank_mean=83.714; match_rank=99
a	0	0	0	18	11	5	4	3	14	18	20	0	0	0
c	0	0	0	26	38	0	78	63	9	19	48	0	0	0
g	0	0	0	32	18	95	5	11	70	36	10	0	0	0
t	0	0	0	24	33	0	13	23	7	27	22	0	0	0
675_M00958_TRANSFAC_2012.1__shift1 (675_M00958_TRANSFAC_2012.1_) 0.752 0.579 7.236 0.562 0.888 2.517 0.874 110 80 14 74 95 112 106 84.429 101 
; oligos_5-7nt_m5 versus 675_M00958_TRANSFAC_2012.1_; m=57/61; ncol2=11; w=10; offset=-1; strand=D; shift=1; score=84.4286; -vrGCACCGCCC--
; cor=0.752; Ncor=0.579; logoDP=7.236; NIcor=0.562; NsEucl=0.888; SSD=2.517; NSW=0.874; rcor=110; rNcor=80; rlogoDP=14; rNIcor=74; rNsEucl=95; rSSD=112; rNSW=106; rank_mean=84.429; match_rank=101
a	0	11	13	3	1	40	0	0	1	0	1	1	0	0
c	0	8	5	4	43	0	52	52	0	21	20	14	0	0
g	0	10	12	32	0	12	0	0	20	0	0	4	0	0
t	0	2	4	1	1	0	0	0	0	0	0	1	0	0
10687_ATERF15_M0017_1.02_CISBP_1.02__rc_shift4 (10687_ATERF15_M0017_1.02_CISBP_1.02__rc) 0.791 0.527 3.628 0.477 0.884 1.710 0.893 82 94 85 94 100 72 91 88.286 105 
; oligos_5-7nt_m5 versus 10687_ATERF15_M0017_1.02_CISBP_1.02__rc; m=58/61; ncol2=8; w=8; offset=2; strand=R; shift=4; score=88.2857; ----gGCCGsCg--
; cor=0.791; Ncor=0.527; logoDP=3.628; NIcor=0.477; NsEucl=0.884; SSD=1.710; NSW=0.893; rcor=82; rNcor=94; rlogoDP=85; rNIcor=94; rNsEucl=100; rSSD=72; rNSW=91; rank_mean=88.286; match_rank=105
a	0	0	0	0	14	3	2	5	3	2	3	17	0	0
c	0	0	0	0	17	3	71	84	5	34	89	13	0	0
g	0	0	0	0	59	92	24	3	89	61	5	50	0	0
t	0	0	0	0	10	2	3	8	3	3	3	20	0	0
7219_DREB2C_ArabidopsisPBM_20140210__shift1 (7219_DREB2C_ArabidopsisPBM_20140210_) 0.780 0.540 5.834 0.511 0.884 2.193 0.878 91 89 50 89 101 102 103 89.286 107 
; oligos_5-7nt_m5 versus 7219_DREB2C_ArabidopsisPBM_20140210_; m=59/61; ncol2=10; w=9; offset=-1; strand=D; shift=1; score=89.2857; -gGCGGCCGCc---
; cor=0.780; Ncor=0.540; logoDP=5.834; NIcor=0.511; NsEucl=0.884; SSD=2.193; NSW=0.878; rcor=91; rNcor=89; rlogoDP=50; rNIcor=89; rNsEucl=101; rSSD=102; rNSW=103; rank_mean=89.286; match_rank=107
a	0	14	3	0	1	3	0	0	4	3	13	0	0	0
c	0	5	2	96	5	0	97	94	0	93	67	0	0	0
g	0	67	92	0	94	97	0	5	96	2	7	0	0	0
t	0	14	3	4	0	0	3	1	0	2	13	0	0	0
10674_AT5G51190_M0040_1.02_CISBP_1.02__shift4 (10674_AT5G51190_M0040_1.02_CISBP_1.02_) 0.754 0.503 6.708 0.485 0.867 2.259 0.859 109 100 28 93 109 104 110 93.286 108 
; oligos_5-7nt_m5 versus 10674_AT5G51190_M0040_1.02_CISBP_1.02_; m=60/61; ncol2=8; w=8; offset=2; strand=D; shift=4; score=93.2857; ----kGCCGGCG--
; cor=0.754; Ncor=0.503; logoDP=6.708; NIcor=0.485; NsEucl=0.867; SSD=2.259; NSW=0.859; rcor=109; rNcor=100; rlogoDP=28; rNIcor=93; rNsEucl=109; rSSD=104; rNSW=110; rank_mean=93.286; match_rank=108
a	0	0	0	0	0	0	0	0	0	0	0	10	0	0
c	0	0	0	0	13	0	100	93	0	14	100	10	0	0
g	0	0	0	0	25	100	0	7	100	86	0	70	0	0
t	0	0	0	0	62	0	0	0	0	0	0	10	0	0
2154_M03207_TRANSFAC_2012.1__shift0 (2154_M03207_TRANSFAC_2012.1_) 0.752 0.430 5.143 0.405 0.868 2.214 0.862 111 112 59 103 108 103 109 100.714 109 
; oligos_5-7nt_m5 versus 2154_M03207_TRANSFAC_2012.1_; m=61/61; ncol2=10; w=8; offset=-2; strand=D; shift=0; score=100.714; wkGCCGCCAC----
; cor=0.752; Ncor=0.430; logoDP=5.143; NIcor=0.405; NsEucl=0.868; SSD=2.214; NSW=0.862; rcor=111; rNcor=112; rlogoDP=59; rNIcor=103; rNsEucl=108; rSSD=103; rNSW=109; rank_mean=100.714; match_rank=109
a	33	0	0	0	0	0	12	0	74	4	0	0	0	0
c	22	13	0	100	100	0	69	99	20	93	0	0	0	0
g	18	49	100	0	0	100	19	0	6	2	0	0	0	0
t	27	38	0	0	0	0	0	1	0	1	0	0	0	0

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift0 ; 8 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor 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=11; shift=0; ncol=13; aaAACCCTAkh--
; Alignment reference
a	39	39	101	104	5	7	8	0	99	24	33	0	0
c	23	27	4	2	102	97	96	1	9	20	31	0	0
g	23	27	1	2	3	4	6	3	2	36	19	0	0
t	28	20	7	5	3	5	3	109	3	33	30	0	0
10566_0100010593_M1389_1.02_CISBP_1.02__shift1 (10566_0100010593_M1389_1.02_CISBP_1.02_) 0.906 0.824 3.234 0.818 0.939 0.736 0.963 14 1 94 1 7 11 10 19.714 5 
; dyads_test_vs_ctrl_m1 versus 10566_0100010593_M1389_1.02_CISBP_1.02_; m=1/7; ncol2=10; w=10; offset=1; strand=D; shift=1; score=19.7143; -wwAMCCTarw--
; cor=0.906; Ncor=0.824; logoDP=3.234; NIcor=0.818; NsEucl=0.939; SSD=0.736; NSW=0.963; rcor=14; rNcor=1; rlogoDP=94; rNIcor=1; rNsEucl=7; rSSD=11; rNSW=10; rank_mean=19.714; match_rank=5
a	0	39	41	78	27	5	8	2	59	34	28	0	0
c	0	10	6	0	69	87	84	5	11	18	24	0	0
g	0	20	5	15	1	3	5	2	16	27	19	0	0
t	0	31	48	7	3	5	3	91	14	21	29	0	0
10572_1200010153_M1391_1.02_CISBP_1.02__shift2 (10572_1200010153_M1391_1.02_CISBP_1.02_) 0.874 0.656 4.874 0.640 0.923 0.957 0.947 24 43 66 45 21 19 19 33.857 26 
; dyads_test_vs_ctrl_m1 versus 10572_1200010153_M1391_1.02_CISBP_1.02_; m=2/7; ncol2=10; w=9; offset=2; strand=D; shift=2; score=33.8571; --amCCCTAryy-
; cor=0.874; Ncor=0.656; logoDP=4.874; NIcor=0.640; NsEucl=0.923; SSD=0.957; NSW=0.947; rcor=24; rNcor=43; rlogoDP=66; rNIcor=45; rNsEucl=21; rSSD=19; rNSW=19; rank_mean=33.857; match_rank=26
a	0	0	63	29	13	1	2	0	90	29	24	23	0
c	0	0	5	60	87	98	98	5	1	17	25	26	0
g	0	0	8	3	0	1	0	0	6	41	17	18	0
t	0	0	24	8	0	0	0	95	3	13	34	33	0
11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02__shift2 (11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02_) 0.864 0.648 4.158 0.630 0.922 0.993 0.945 29 49 77 47 28 22 24 39.429 32 
; dyads_test_vs_ctrl_m1 versus 11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02_; m=3/7; ncol2=10; w=9; offset=2; strand=D; shift=2; score=39.4286; --wrmCCTArhy-
; cor=0.864; Ncor=0.648; logoDP=4.158; NIcor=0.630; NsEucl=0.922; SSD=0.993; NSW=0.945; rcor=29; rNcor=49; rlogoDP=77; rNIcor=47; rNsEucl=28; rSSD=22; rNSW=24; rank_mean=39.429; match_rank=32
a	0	0	42	53	42	3	4	1	83	37	27	24	0
c	0	0	11	3	56	96	93	0	3	13	26	26	0
g	0	0	6	37	1	0	3	0	9	39	22	22	0
t	0	0	41	7	1	1	0	99	5	11	25	28	0
12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02__shift2 (12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02_) 0.835 0.683 3.774 0.652 0.914 1.190 0.934 46 30 84 39 37 32 35 43.286 33 
; dyads_test_vs_ctrl_m1 versus 12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02_; m=4/7; ncol2=9; w=9; offset=2; strand=D; shift=2; score=43.2857; --wrmCCTArh--
; cor=0.835; Ncor=0.683; logoDP=3.774; NIcor=0.652; NsEucl=0.914; SSD=1.190; NSW=0.934; rcor=46; rNcor=30; rlogoDP=84; rNIcor=39; rNsEucl=37; rSSD=32; rNSW=35; rank_mean=43.286; match_rank=33
a	0	0	34	48	45	1	1	0	73	36	26	0	0
c	0	0	20	2	52	98	98	6	7	17	25	0	0
g	0	0	15	39	1	0	1	0	6	31	21	0	0
t	0	0	31	11	2	1	0	94	14	16	28	0	0
12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02__shift1 (12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02_) 0.832 0.681 2.560 0.651 0.912 1.246 0.931 51 32 102 40 40 37 37 48.429 41 
; dyads_test_vs_ctrl_m1 versus 12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02_; m=5/7; ncol2=9; w=9; offset=1; strand=D; shift=1; score=48.4286; -wwrmCCYar---
; cor=0.832; Ncor=0.681; logoDP=2.560; NIcor=0.651; NsEucl=0.912; SSD=1.246; NSW=0.931; rcor=51; rNcor=32; rlogoDP=102; rNIcor=40; rNsEucl=40; rSSD=37; rNSW=37; rank_mean=48.429; match_rank=41
a	0	30	44	56	47	3	8	1	51	27	0	0	0
c	0	22	7	3	51	97	88	29	18	21	0	0	0
g	0	17	12	25	0	0	4	2	14	33	0	0	0
t	0	31	37	16	2	0	0	68	17	19	0	0	0
10701_ATTRB2_M1346_1.02_CISBP_1.02__shift2 (10701_ATTRB2_M1346_1.02_CISBP_1.02_) 0.805 0.585 5.153 0.557 0.892 1.489 0.907 71 79 58 75 86 52 72 70.429 75 
; dyads_test_vs_ctrl_m1 versus 10701_ATTRB2_M1346_1.02_CISBP_1.02_; m=6/7; ncol2=8; w=8; offset=2; strand=D; shift=2; score=70.4286; --wrmCCTAr---
; cor=0.805; Ncor=0.585; logoDP=5.153; NIcor=0.557; NsEucl=0.892; SSD=1.489; NSW=0.907; rcor=71; rNcor=79; rlogoDP=58; rNIcor=75; rNsEucl=86; rSSD=52; rNSW=72; rank_mean=70.429; match_rank=75
a	0	0	37	35	37	0	0	0	98	45	0	0	0
c	0	0	12	0	63	100	100	1	0	7	0	0	0
g	0	0	7	61	0	0	0	0	1	41	0	0	0
t	0	0	44	4	0	0	0	99	1	7	0	0	0
7264_STY1_ArabidopsisPBM_20140210__rc_shift3 (7264_STY1_ArabidopsisPBM_20140210__rc) 0.787 0.485 4.404 0.437 0.884 1.708 0.893 84 104 74 102 99 71 90 89.143 106 
; dyads_test_vs_ctrl_m1 versus 7264_STY1_ArabidopsisPBM_20140210__rc; m=7/7; ncol2=10; w=8; offset=3; strand=R; shift=3; score=89.1429; ---rCCCTAGGGg
; cor=0.787; Ncor=0.485; logoDP=4.404; NIcor=0.437; NsEucl=0.884; SSD=1.708; NSW=0.893; rcor=84; rNcor=104; rlogoDP=74; rNIcor=102; rNsEucl=99; rSSD=71; rNSW=90; rank_mean=89.143; match_rank=106
a	0	0	0	39	6	5	1	1	97	1	3	2	19
c	0	0	0	24	87	91	95	1	1	3	1	6	19
g	0	0	0	27	5	1	3	1	1	95	91	87	44
t	0	0	0	10	2	3	1	97	1	1	5	5	18

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m4_shift4 ; 11 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NIcor NsEucl SSD NSW rcor rNcor rlogoDP rNIcor rNsEucl rSSD rNSW rank_mean match_rank Aligned matrices
oligos_5-7nt_m4_shift4 (oligos_5-7nt_m4)                                 
; oligos_5-7nt_m4; m=0 (reference); ncol1=12; shift=4; ncol=16; ----wwATTATAATww
; Alignment reference
a	0	0	0	0	42	33	94	7	7	96	4	97	92	5	37	38
c	0	0	0	0	9	16	4	5	0	4	2	2	2	3	20	17
g	0	0	0	0	17	20	3	2	2	2	4	0	5	4	16	9
t	0	0	0	0	38	37	5	92	97	4	96	7	7	94	33	42
7188_AHL20_3_ArabidopsisPBM_20140210__rc_shift5 (7188_AHL20_3_ArabidopsisPBM_20140210__rc) 0.881 0.734 3.535 0.747 0.928 1.039 0.948 22 11 89 7 14 24 17 26.286 14 
; oligos_5-7nt_m4 versus 7188_AHL20_3_ArabidopsisPBM_20140210__rc; m=1/10; ncol2=10; w=10; offset=1; strand=R; shift=5; score=26.2857; -----tAwwWWwwTa-
; cor=0.881; Ncor=0.734; logoDP=3.535; NIcor=0.747; NsEucl=0.928; SSD=1.039; NSW=0.948; rcor=22; rNcor=11; rlogoDP=89; rNIcor=7; rNsEucl=14; rSSD=24; rNSW=17; rank_mean=26.286; match_rank=14
a	0	0	0	0	0	19	89	40	37	70	29	61	58	3	42	0
c	0	0	0	0	0	11	5	1	1	2	0	1	1	3	21	0
g	0	0	0	0	0	22	3	1	1	0	2	1	1	5	20	0
t	0	0	0	0	0	48	3	58	61	28	69	37	40	89	17	0
7283_YAB1_ArabidopsisPBM_20140210__shift4 (7283_YAB1_ArabidopsisPBM_20140210_) 0.828 0.690 3.617 0.696 0.916 1.427 0.929 55 27 86 21 35 48 39 44.429 35 
; oligos_5-7nt_m4 versus 7283_YAB1_ArabidopsisPBM_20140210_; m=2/10; ncol2=10; w=10; offset=0; strand=D; shift=4; score=44.4286; ----ywATmATAAt--
; cor=0.828; Ncor=0.690; logoDP=3.617; NIcor=0.696; NsEucl=0.916; SSD=1.427; NSW=0.929; rcor=55; rNcor=27; rlogoDP=86; rNIcor=21; rNsEucl=35; rSSD=48; rNSW=39; rank_mean=44.429; match_rank=35
a	0	0	0	0	9	64	86	4	30	91	5	73	77	14	0	0
c	0	0	0	0	46	3	3	2	42	1	3	8	5	19	0	0
g	0	0	0	0	11	4	2	4	13	5	4	12	8	10	0	0
t	0	0	0	0	34	29	9	90	15	3	88	7	10	57	0	0
9871_1qn6_B_3D-footprint_20150526__shift4 (9871_1qn6_B_3D-footprint_20150526_) 0.831 0.554 4.549 0.543 0.896 1.375 0.914 52 87 69 79 81 45 57 67.143 71 
; oligos_5-7nt_m4 versus 9871_1qn6_B_3D-footprint_20150526_; m=3/10; ncol2=8; w=8; offset=0; strand=D; shift=4; score=67.1429; ----CTATTATA----
; cor=0.831; Ncor=0.554; logoDP=4.549; NIcor=0.543; NsEucl=0.896; SSD=1.375; NSW=0.914; rcor=52; rNcor=87; rlogoDP=69; rNIcor=79; rNsEucl=81; rSSD=45; rNSW=57; rank_mean=67.143; match_rank=71
a	0	0	0	0	6	0	76	1	0	90	0	78	0	0	0	0
c	0	0	0	0	78	0	6	6	0	0	6	6	0	0	0	0
g	0	0	0	0	6	0	6	6	0	6	7	6	0	0	0	0
t	0	0	0	0	6	96	8	83	96	0	83	6	0	0	0	0
7190_AHL25_2_ArabidopsisPBM_20140210__shift5 (7190_AHL25_2_ArabidopsisPBM_20140210_) 0.771 0.642 3.414 0.616 0.904 1.827 0.909 98 54 91 53 56 82 68 71.714 79 
; oligos_5-7nt_m4 versus 7190_AHL25_2_ArabidopsisPBM_20140210_; m=4/10; ncol2=10; w=10; offset=1; strand=D; shift=5; score=71.7143; -----aAwwWWwwTw-
; cor=0.771; Ncor=0.642; logoDP=3.414; NIcor=0.616; NsEucl=0.904; SSD=1.827; NSW=0.909; rcor=98; rNcor=54; rlogoDP=91; rNIcor=53; rNsEucl=56; rSSD=82; rNSW=68; rank_mean=71.714; match_rank=79
a	0	0	0	0	0	49	86	65	35	70	30	64	34	4	36	0
c	0	0	0	0	0	14	4	0	0	0	0	1	2	6	16	0
g	0	0	0	0	0	14	6	1	1	0	0	0	0	4	12	0
t	0	0	0	0	0	23	4	34	64	30	70	35	64	86	36	0
9870_1qn4_B_3D-footprint_20150526__shift4 (9870_1qn4_B_3D-footprint_20150526_) 0.815 0.543 6.228 0.527 0.888 1.616 0.899 66 88 36 81 96 61 84 73.143 83 
; oligos_5-7nt_m4 versus 9870_1qn4_B_3D-footprint_20150526_; m=5/10; ncol2=8; w=8; offset=0; strand=D; shift=4; score=73.1429; ----aTtTTATA----
; cor=0.815; Ncor=0.543; logoDP=6.228; NIcor=0.527; NsEucl=0.888; SSD=1.616; NSW=0.899; rcor=66; rNcor=88; rlogoDP=36; rNIcor=81; rNsEucl=96; rSSD=61; rNSW=84; rank_mean=73.143; match_rank=83
a	0	0	0	0	54	0	13	0	0	96	0	96	0	0	0	0
c	0	0	0	0	13	0	13	0	0	0	0	0	0	0	0	0
g	0	0	0	0	16	0	13	0	0	0	0	0	0	0	0	0
t	0	0	0	0	13	96	57	96	96	0	96	0	0	0	0	0
10694_ATHB22_M0844_1.02_CISBP_1.02__rc_shift0 (10694_ATHB22_M0844_1.02_CISBP_1.02__rc) 0.822 0.462 0.889 0.097 0.910 1.298 0.928 61 110 110 110 42 41 40 73.429 86 
; oligos_5-7nt_m4 versus 10694_ATHB22_M0844_1.02_CISBP_1.02__rc; m=6/10; ncol2=13; w=9; offset=-4; strand=R; shift=0; score=73.4286; awwwawATTATwa---
; cor=0.822; Ncor=0.462; logoDP=0.889; NIcor=0.097; NsEucl=0.910; SSD=1.298; NSW=0.928; rcor=61; rNcor=110; rlogoDP=110; rNIcor=110; rNsEucl=42; rSSD=41; rNSW=40; rank_mean=73.429; match_rank=86
a	32	31	36	27	63	50	100	0	13	74	10	28	31	0	0	0
c	22	20	14	7	2	0	0	10	2	5	10	18	23	0	0	0
g	23	20	15	7	13	0	0	0	2	5	10	18	23	0	0	0
t	23	29	35	59	22	50	0	90	83	16	70	36	23	0	0	0
9932_1vto_B_3D-footprint_20150526__shift4 (9932_1vto_B_3D-footprint_20150526_) 0.792 0.528 6.223 0.519 0.882 1.790 0.888 79 93 37 84 102 79 94 81.143 97 
; oligos_5-7nt_m4 versus 9932_1vto_B_3D-footprint_20150526_; m=7/10; ncol2=8; w=8; offset=0; strand=D; shift=4; score=81.1429; ----cTtTTATA----
; cor=0.792; Ncor=0.528; logoDP=6.223; NIcor=0.519; NsEucl=0.882; SSD=1.790; NSW=0.888; rcor=79; rNcor=93; rlogoDP=37; rNIcor=84; rNsEucl=102; rSSD=79; rNSW=94; rank_mean=81.143; match_rank=97
a	0	0	0	0	13	0	16	0	0	96	0	96	0	0	0	0
c	0	0	0	0	54	0	13	0	0	0	0	0	0	0	0	0
g	0	0	0	0	13	0	13	0	0	0	0	0	0	0	0	0
t	0	0	0	0	16	96	54	96	96	0	96	0	0	0	0	0
9878_1qne_B_3D-footprint_20150526__shift4 (9878_1qne_B_3D-footprint_20150526_) 0.786 0.524 6.218 0.517 0.880 1.841 0.885 87 95 38 86 104 84 97 84.429 102 
; oligos_5-7nt_m4 versus 9878_1qne_B_3D-footprint_20150526_; m=8/10; ncol2=8; w=8; offset=0; strand=D; shift=4; score=84.4286; ----cTtTTATA----
; cor=0.786; Ncor=0.524; logoDP=6.218; NIcor=0.517; NsEucl=0.880; SSD=1.841; NSW=0.885; rcor=87; rNcor=95; rlogoDP=38; rNIcor=86; rNsEucl=104; rSSD=84; rNSW=97; rank_mean=84.429; match_rank=102
a	0	0	0	0	16	0	13	0	0	96	0	96	0	0	0	0
c	0	0	0	0	54	0	16	0	0	0	0	0	0	0	0	0
g	0	0	0	0	13	0	13	0	0	0	0	0	0	0	0	0
t	0	0	0	0	13	96	54	96	96	0	96	0	0	0	0	0
7997_1vol_AB_3D-footprint_20150526__1vol_B_3D-footprint_20150526__shift4 (7997_1vol_AB_3D-footprint_20150526__1vol_B_3D-footprint_20150526_) 0.777 0.518 6.215 0.516 0.877 1.943 0.879 93 97 40 87 106 91 101 87.857 104 
; oligos_5-7nt_m4 versus 7997_1vol_AB_3D-footprint_20150526__1vol_B_3D-footprint_20150526_; m=9/10; ncol2=8; w=8; offset=0; strand=D; shift=4; score=87.8571; ----cTtTTATA----
; cor=0.777; Ncor=0.518; logoDP=6.215; NIcor=0.516; NsEucl=0.877; SSD=1.943; NSW=0.879; rcor=93; rNcor=97; rlogoDP=40; rNIcor=87; rNsEucl=106; rSSD=91; rNSW=101; rank_mean=87.857; match_rank=104
a	0	0	0	0	0	0	16	0	0	96	0	96	0	0	0	0
c	0	0	0	0	64	0	16	0	0	0	0	0	0	0	0	0
g	0	0	0	0	16	0	16	0	0	0	0	0	0	0	0	0
t	0	0	0	0	16	96	48	96	96	0	96	0	0	0	0	0
7999_1vtl_E_3D-footprint_20150526__rc_shift4 (7999_1vtl_E_3D-footprint_20150526__rc) 0.777 0.518 0.534 -0.125 0.877 1.943 0.879 93 97 111 111 106 91 101 101.429 110 
; oligos_5-7nt_m4 versus 7999_1vtl_E_3D-footprint_20150526__rc; m=10/10; ncol2=8; w=8; offset=0; strand=R; shift=4; score=101.429; ----cTtTTATA----
; cor=0.777; Ncor=0.518; logoDP=0.534; NIcor=-0.125; NsEucl=0.877; SSD=1.943; NSW=0.879; rcor=93; rNcor=97; rlogoDP=111; rNIcor=111; rNsEucl=106; rSSD=91; rNSW=101; rank_mean=101.429; match_rank=110
a	0	0	0	0	0	0	16	0	0	96	0	96	0	0	0	0
c	0	0	0	0	64	0	16	0	0	0	0	0	0	0	0	0
g	0	0	0	0	16	0	16	0	0	0	0	0	0	0	0	0
t	0	0	0	0	16	96	48	96	96	0	96	0	0	0	0	0

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m1_shift0 ; 8 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor 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=12; shift=0; ncol=13; rrAACCCTAGyb-
; Alignment reference
a	16	21	48	51	2	3	2	0	47	5	11	4	0
c	9	10	1	1	47	49	49	0	4	4	20	15	0
g	15	13	0	0	2	0	1	1	0	38	8	19	0
t	12	8	3	0	1	0	0	51	1	5	13	14	0
10566_0100010593_M1389_1.02_CISBP_1.02__shift1 (10566_0100010593_M1389_1.02_CISBP_1.02_) 0.886 0.738 4.078 0.734 0.924 1.144 0.943 19 8 80 9 19 29 27 27.286 16 
; oligos_5-7nt_m1 versus 10566_0100010593_M1389_1.02_CISBP_1.02_; m=1/7; ncol2=10; w=10; offset=1; strand=D; shift=1; score=27.2857; -wwAMCCTarw--
; cor=0.886; Ncor=0.738; logoDP=4.078; NIcor=0.734; NsEucl=0.924; SSD=1.144; NSW=0.943; rcor=19; rNcor=8; rlogoDP=80; rNIcor=9; rNsEucl=19; rSSD=29; rNSW=27; rank_mean=27.286; match_rank=16
a	0	39	41	78	27	5	8	2	59	34	28	0	0
c	0	10	6	0	69	87	84	5	11	18	24	0	0
g	0	20	5	15	1	3	5	2	16	27	19	0	0
t	0	31	48	7	3	5	3	91	14	21	29	0	0
10572_1200010153_M1391_1.02_CISBP_1.02__shift2 (10572_1200010153_M1391_1.02_CISBP_1.02_) 0.865 0.721 6.153 0.702 0.922 1.217 0.939 28 15 43 18 26 35 30 27.857 17 
; oligos_5-7nt_m1 versus 10572_1200010153_M1391_1.02_CISBP_1.02_; m=2/7; ncol2=10; w=10; offset=2; strand=D; shift=2; score=27.8571; --amCCCTAryy-
; cor=0.865; Ncor=0.721; logoDP=6.153; NIcor=0.702; NsEucl=0.922; SSD=1.217; NSW=0.939; rcor=28; rNcor=15; rlogoDP=43; rNIcor=18; rNsEucl=26; rSSD=35; rNSW=30; rank_mean=27.857; match_rank=17
a	0	0	63	29	13	1	2	0	90	29	24	23	0
c	0	0	5	60	87	98	98	5	1	17	25	26	0
g	0	0	8	3	0	1	0	0	6	41	17	18	0
t	0	0	24	8	0	0	0	95	3	13	34	33	0
11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02__shift2 (11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02_) 0.859 0.716 5.295 0.701 0.920 1.284 0.936 30 16 57 20 29 40 32 32.000 22 
; oligos_5-7nt_m1 versus 11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02_; m=3/7; ncol2=10; w=10; offset=2; strand=D; shift=2; score=     32; --wrmCCTArhy-
; cor=0.859; Ncor=0.716; logoDP=5.295; NIcor=0.701; NsEucl=0.920; SSD=1.284; NSW=0.936; rcor=30; rNcor=16; rlogoDP=57; rNIcor=20; rNsEucl=29; rSSD=40; rNSW=32; rank_mean=32.000; match_rank=22
a	0	0	42	53	42	3	4	1	83	37	27	24	0
c	0	0	11	3	56	96	93	0	3	13	26	26	0
g	0	0	6	37	1	0	3	0	9	39	22	22	0
t	0	0	41	7	1	1	0	99	5	11	25	28	0
12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02__shift2 (12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02_) 0.827 0.620 4.945 0.596 0.903 1.535 0.915 56 67 65 66 60 54 55 60.429 57 
; oligos_5-7nt_m1 versus 12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02_; m=4/7; ncol2=9; w=9; offset=2; strand=D; shift=2; score=60.4286; --wrmCCTArh--
; cor=0.827; Ncor=0.620; logoDP=4.945; NIcor=0.596; NsEucl=0.903; SSD=1.535; NSW=0.915; rcor=56; rNcor=67; rlogoDP=65; rNIcor=66; rNsEucl=60; rSSD=54; rNSW=55; rank_mean=60.429; match_rank=57
a	0	0	34	48	45	1	1	0	73	36	26	0	0
c	0	0	20	2	52	98	98	6	7	17	25	0	0
g	0	0	15	39	1	0	1	0	6	31	21	0	0
t	0	0	31	11	2	1	0	94	14	16	28	0	0
12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02__shift1 (12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02_) 0.833 0.625 3.464 0.606 0.900 1.606 0.911 49 63 90 59 69 60 64 64.857 68 
; oligos_5-7nt_m1 versus 12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02_; m=5/7; ncol2=9; w=9; offset=1; strand=D; shift=1; score=64.8571; -wwrmCCYar---
; cor=0.833; Ncor=0.625; logoDP=3.464; NIcor=0.606; NsEucl=0.900; SSD=1.606; NSW=0.911; rcor=49; rNcor=63; rlogoDP=90; rNIcor=59; rNsEucl=69; rSSD=60; rNSW=64; rank_mean=64.857; match_rank=68
a	0	30	44	56	47	3	8	1	51	27	0	0	0
c	0	22	7	3	51	97	88	29	18	21	0	0	0
g	0	17	12	25	0	0	4	2	14	33	0	0	0
t	0	31	37	16	2	0	0	68	17	19	0	0	0
7264_STY1_ArabidopsisPBM_20140210__rc_shift3 (7264_STY1_ArabidopsisPBM_20140210__rc) 0.816 0.565 5.879 0.512 0.897 1.703 0.905 64 84 49 88 77 69 73 72.000 80 
; oligos_5-7nt_m1 versus 7264_STY1_ArabidopsisPBM_20140210__rc; m=6/7; ncol2=10; w=9; offset=3; strand=R; shift=3; score=     72; ---rCCCTAGGGg
; cor=0.816; Ncor=0.565; logoDP=5.879; NIcor=0.512; NsEucl=0.897; SSD=1.703; NSW=0.905; rcor=64; rNcor=84; rlogoDP=49; rNIcor=88; rNsEucl=77; rSSD=69; rNSW=73; rank_mean=72.000; match_rank=80
a	0	0	0	39	6	5	1	1	97	1	3	2	19
c	0	0	0	24	87	91	95	1	1	3	1	6	19
g	0	0	0	27	5	1	3	1	1	95	91	87	44
t	0	0	0	10	2	3	1	97	1	1	5	5	18
10701_ATTRB2_M1346_1.02_CISBP_1.02__shift2 (10701_ATTRB2_M1346_1.02_CISBP_1.02_) 0.808 0.539 6.629 0.510 0.885 1.679 0.895 69 90 31 90 98 66 88 76.000 91 
; oligos_5-7nt_m1 versus 10701_ATTRB2_M1346_1.02_CISBP_1.02_; m=7/7; ncol2=8; w=8; offset=2; strand=D; shift=2; score=     76; --wrmCCTAr---
; cor=0.808; Ncor=0.539; logoDP=6.629; NIcor=0.510; NsEucl=0.885; SSD=1.679; NSW=0.895; rcor=69; rNcor=90; rlogoDP=31; rNIcor=90; rNsEucl=98; rSSD=66; rNSW=88; rank_mean=76.000; match_rank=91
a	0	0	37	35	37	0	0	0	98	45	0	0	0
c	0	0	12	0	63	100	100	1	0	7	0	0	0
g	0	0	7	61	0	0	0	0	1	41	0	0	0
t	0	0	44	4	0	0	0	99	1	7	0	0	0

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m3_shift2 ; 17 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NIcor NsEucl SSD NSW rcor rNcor rlogoDP rNIcor rNsEucl rSSD rNSW rank_mean match_rank Aligned matrices
dyads_test_vs_ctrl_m3_shift2 (dyads_test_vs_ctrl_m3)                                 
; dyads_test_vs_ctrl_m3; m=0 (reference); ncol1=10; shift=2; ncol=12; --hmGGCCCAkk
; Alignment reference
a	0	0	14	14	0	0	0	0	0	56	12	6
c	0	0	14	19	0	0	56	56	56	0	7	13
g	0	0	10	13	56	56	0	0	0	0	17	14
t	0	0	18	10	0	0	0	0	0	0	20	23
1445_M01850_TRANSFAC_2012.1__rc_shift0 (1445_M01850_TRANSFAC_2012.1__rc) 0.836 0.696 7.447 0.519 0.908 1.699 0.915 44 24 10 83 45 68 54 46.857 38 
; dyads_test_vs_ctrl_m3 versus 1445_M01850_TRANSFAC_2012.1__rc; m=1/16; ncol2=12; w=10; offset=-2; strand=R; shift=0; score=46.8571; yksgGGCCCACm
; cor=0.836; Ncor=0.696; logoDP=7.447; NIcor=0.519; NsEucl=0.908; SSD=1.699; NSW=0.915; rcor=44; rNcor=24; rlogoDP=10; rNIcor=83; rNsEucl=45; rSSD=68; rNSW=54; rank_mean=46.857; match_rank=38
a	4	4	2	3	0	0	0	0	0	20	0	11
c	5	2	5	4	0	0	19	20	20	0	20	9
g	4	8	9	9	20	20	1	0	0	0	0	0
t	7	6	4	4	0	0	0	0	0	0	0	0
2130_M03182_TRANSFAC_2012.1__M03188_TRANSFAC_2012.1__rc_shift1 (2130_M03182_TRANSFAC_2012.1__M03188_TRANSFAC_2012.1__rc) 0.858 0.702 6.631 0.388 0.906 1.420 0.921 33 21 30 107 51 47 48 48.143 40 
; dyads_test_vs_ctrl_m3 versus 2130_M03182_TRANSFAC_2012.1__M03188_TRANSFAC_2012.1__rc; m=2/16; ncol2=10; w=9; offset=-1; strand=R; shift=1; score=48.1429; -AATGGCCCAm-
; cor=0.858; Ncor=0.702; logoDP=6.631; NIcor=0.388; NsEucl=0.906; SSD=1.420; NSW=0.921; rcor=33; rNcor=21; rlogoDP=30; rNIcor=107; rNsEucl=51; rSSD=47; rNSW=48; rank_mean=48.143; match_rank=40
a	0	85	73	2	0	0	0	0	3	100	49	0
c	0	1	18	0	8	1	100	96	97	0	29	0
g	0	13	3	0	92	96	0	4	0	0	15	0
t	0	1	6	98	0	3	0	0	0	0	7	0
2138_M03191_TRANSFAC_2012.1__rc_shift1 (2138_M03191_TRANSFAC_2012.1__rc) 0.857 0.701 6.654 0.390 0.906 1.431 0.921 34 22 29 106 52 49 49 48.714 42 
; dyads_test_vs_ctrl_m3 versus 2138_M03191_TRANSFAC_2012.1__rc; m=3/16; ncol2=10; w=9; offset=-1; strand=R; shift=1; score=48.7143; -AATGGCCCAm-
; cor=0.857; Ncor=0.701; logoDP=6.654; NIcor=0.390; NsEucl=0.906; SSD=1.431; NSW=0.921; rcor=34; rNcor=22; rlogoDP=29; rNIcor=106; rNsEucl=52; rSSD=49; rNSW=49; rank_mean=48.714; match_rank=42
a	0	85	73	1	0	0	0	0	4	100	48	0
c	0	1	18	0	7	1	100	97	96	0	29	0
g	0	13	3	0	92	96	0	3	0	0	16	0
t	0	1	6	99	1	3	0	0	0	0	7	0
11812_TCP3_M1645_1.02_CISBP_1.02__shift2 (11812_TCP3_M1645_1.02_CISBP_1.02_) 0.782 0.782 6.152 0.792 0.905 1.815 0.909 90 3 44 3 55 81 66 48.857 43 
; dyads_test_vs_ctrl_m3 versus 11812_TCP3_M1645_1.02_CISBP_1.02_; m=4/16; ncol2=10; w=10; offset=0; strand=D; shift=2; score=48.8571; --kgGGaCCAch
; cor=0.782; Ncor=0.782; logoDP=6.152; NIcor=0.792; NsEucl=0.905; SSD=1.815; NSW=0.909; rcor=90; rNcor=3; rlogoDP=44; rNIcor=3; rNsEucl=55; rSSD=81; rNSW=66; rank_mean=48.857; match_rank=43
a	0	0	17	17	4	3	62	2	3	80	8	29
c	0	0	24	5	2	12	24	96	97	7	67	30
g	0	0	31	58	90	80	3	2	0	11	11	15
t	0	0	28	20	4	5	11	0	0	2	14	26
11547_OsI_08196_M1658_1.02_CISBP_1.02__shift3 (11547_OsI_08196_M1658_1.02_CISBP_1.02_) 0.829 0.663 8.235 0.642 0.889 1.580 0.901 54 38 5 44 91 56 80 52.571 48 
; dyads_test_vs_ctrl_m3 versus 11547_OsI_08196_M1658_1.02_CISBP_1.02_; m=5/16; ncol2=8; w=8; offset=1; strand=D; shift=3; score=52.5714; ---GGGCCCAC-
; cor=0.829; Ncor=0.663; logoDP=8.235; NIcor=0.642; NsEucl=0.889; SSD=1.580; NSW=0.901; rcor=54; rNcor=38; rlogoDP=5; rNIcor=44; rNsEucl=91; rSSD=56; rNSW=80; rank_mean=52.571; match_rank=48
a	0	0	0	0	5	9	0	0	0	90	0	0
c	0	0	0	0	0	9	86	100	100	5	86	0
g	0	0	0	95	95	73	5	0	0	5	7	0
t	0	0	0	5	0	9	9	0	0	0	7	0
7266_TCP15_ArabidopsisPBM_20140210__shift2 (7266_TCP15_ArabidopsisPBM_20140210_) 0.766 0.766 9.339 0.754 0.889 2.473 0.876 99 5 1 5 93 111 105 59.857 54 
; dyads_test_vs_ctrl_m3 versus 7266_TCP15_ArabidopsisPBM_20140210_; m=6/16; ncol2=10; w=10; offset=0; strand=D; shift=2; score=59.8571; --GGGGCCCACm
; cor=0.766; Ncor=0.766; logoDP=9.339; NIcor=0.754; NsEucl=0.889; SSD=2.473; NSW=0.876; rcor=99; rNcor=5; rlogoDP=1; rNIcor=5; rNsEucl=93; rSSD=111; rNSW=105; rank_mean=59.857; match_rank=54
a	0	0	1	1	0	6	1	0	0	95	1	27
c	0	0	5	0	0	14	95	99	99	1	96	45
g	0	0	81	98	100	77	0	0	0	4	2	12
t	0	0	13	1	0	3	4	1	1	0	1	16
11280_LOC_Os02g42380_M1657_1.02_CISBP_1.02__shift1 (11280_LOC_Os02g42380_M1657_1.02_CISBP_1.02_) 0.800 0.654 6.116 0.623 0.899 1.663 0.908 75 46 45 50 74 64 70 60.571 59 
; dyads_test_vs_ctrl_m3 versus 11280_LOC_Os02g42380_M1657_1.02_CISBP_1.02_; m=7/16; ncol2=10; w=9; offset=-1; strand=D; shift=1; score=60.5714; -kkGGgcCCmm-
; cor=0.800; Ncor=0.654; logoDP=6.116; NIcor=0.623; NsEucl=0.899; SSD=1.663; NSW=0.908; rcor=75; rNcor=46; rlogoDP=45; rNIcor=50; rNsEucl=74; rSSD=64; rNSW=70; rank_mean=60.571; match_rank=59
a	0	18	7	0	0.0000	13	11	0.0000	7	45	28	0
c	0	13	15	0	0.0000	10	66	1.0000	93	33	41	0
g	0	41	33	93	1.0000	66	10	0.0000	0	15	13	0
t	0	28	45	7	0.0000	11	13	0.0000	0	7	18	0
11146_Glyma19g26560.1_M1661_1.02_CISBP_1.02__shift2 (11146_Glyma19g26560.1_M1661_1.02_CISBP_1.02_) 0.778 0.700 7.062 0.679 0.890 1.955 0.891 92 23 17 26 89 93 92 61.714 63 
; dyads_test_vs_ctrl_m3 versus 11146_Glyma19g26560.1_M1661_1.02_CISBP_1.02_; m=8/16; ncol2=9; w=9; offset=0; strand=D; shift=2; score=61.7143; --gGGsCCCAC-
; cor=0.778; Ncor=0.700; logoDP=7.062; NIcor=0.679; NsEucl=0.890; SSD=1.955; NSW=0.891; rcor=92; rNcor=23; rlogoDP=17; rNIcor=26; rNsEucl=89; rSSD=93; rNSW=92; rank_mean=61.714; match_rank=63
a	0	0	10	2	9	11	4	0	0	89	2	0
c	0	0	20	1	2	31	88	100	98	2	84	0
g	0	0	48	91	86	44	3	0	0	8	5	0
t	0	0	22	6	3	14	5	0	2	1	9	0
11598_PK14653.1_M1643_1.02_CISBP_1.02__shift1 (11598_PK14653.1_M1643_1.02_CISBP_1.02_) 0.798 0.653 4.528 0.627 0.899 1.669 0.907 76 47 72 48 75 65 71 64.857 69 
; dyads_test_vs_ctrl_m3 versus 11598_PK14653.1_M1643_1.02_CISBP_1.02_; m=9/16; ncol2=10; w=9; offset=-1; strand=D; shift=1; score=64.8571; -gTGGGCCCAc-
; cor=0.798; Ncor=0.653; logoDP=4.528; NIcor=0.627; NsEucl=0.899; SSD=1.669; NSW=0.907; rcor=76; rNcor=47; rlogoDP=72; rNIcor=48; rNsEucl=75; rSSD=65; rNSW=71; rank_mean=64.857; match_rank=69
a	0	9	5	0	9	8	12	8	9	68	16	0
c	0	14	11	0	0	11	69	83	91	16	61	0
g	0	61	16	91	84	69	11	0	0	11	14	0
t	0	16	68	9	7	12	8	9	0	5	9	0
11809_TCP20_M1647_1.02_CISBP_1.02__shift3 (11809_TCP20_M1647_1.02_CISBP_1.02_) 0.782 0.640 6.340 0.626 0.893 1.851 0.897 89 55 35 49 84 86 86 69.143 73 
; dyads_test_vs_ctrl_m3 versus 11809_TCP20_M1647_1.02_CISBP_1.02_; m=10/16; ncol2=10; w=9; offset=1; strand=D; shift=3; score=69.1429; ---GGsCCCACm
; cor=0.782; Ncor=0.640; logoDP=6.340; NIcor=0.626; NsEucl=0.893; SSD=1.851; NSW=0.897; rcor=89; rNcor=55; rlogoDP=35; rNIcor=49; rNsEucl=84; rSSD=86; rNSW=86; rank_mean=69.143; match_rank=73
a	0	0	0	5	12	9	5	0	1	82	2	30
c	0	0	0	3	2	36	88	100	96	6	83	34
g	0	0	0	80	79	42	0	0	0	8	8	15
t	0	0	0	12	7	13	7	0	3	4	7	21
11811_TCP2_M1648_1.02_CISBP_1.02__rc_shift1 (11811_TCP2_M1648_1.02_CISBP_1.02__rc) 0.786 0.643 5.112 0.610 0.896 1.745 0.903 88 52 60 56 82 75 78 70.143 74 
; dyads_test_vs_ctrl_m3 versus 11811_TCP2_M1648_1.02_CISBP_1.02__rc; m=11/16; ncol2=10; w=9; offset=-1; strand=R; shift=1; score=70.1429; -gtGGkmCCac-
; cor=0.786; Ncor=0.643; logoDP=5.112; NIcor=0.610; NsEucl=0.896; SSD=1.745; NSW=0.903; rcor=88; rNcor=52; rlogoDP=60; rNIcor=56; rNsEucl=82; rSSD=75; rNSW=78; rank_mean=70.143; match_rank=74
a	0	22	9	4	0	7	33	2	12	57	18	0
c	0	16	20	0	0	8	52	98	84	15	43	0
g	0	43	15	84	98	52	8	0	0	19	17	0
t	0	19	56	12	2	33	7	0	4	9	22	0
1446_M01851_TRANSFAC_2012.1__rc_shift1 (1446_M01851_TRANSFAC_2012.1__rc) 0.786 0.643 8.610 0.545 0.881 2.283 0.873 86 51 3 78 103 106 107 76.286 92 
; dyads_test_vs_ctrl_m3 versus 1446_M01851_TRANSFAC_2012.1__rc; m=12/16; ncol2=10; w=9; offset=-1; strand=R; shift=1; score=76.2857; -hsGGGYCCAC-
; cor=0.786; Ncor=0.643; logoDP=8.610; NIcor=0.545; NsEucl=0.881; SSD=2.283; NSW=0.873; rcor=86; rNcor=51; rlogoDP=3; rNIcor=78; rNsEucl=103; rSSD=106; rNSW=107; rank_mean=76.286; match_rank=92
a	0	8	0	0	0	0	0	0	0	19	0	0
c	0	5	5	0	0	0	14	19	19	0	19	0
g	0	1	12	19	19	19	0	0	0	0	0	0
t	0	5	2	0	0	0	5	0	0	0	0	0
665_M00948_TRANSFAC_2012.1__PCF2_Athamap_20091028__shift1 (665_M00948_TRANSFAC_2012.1__PCF2_Athamap_20091028_) 0.762 0.624 6.780 0.604 0.887 2.058 0.886 102 64 24 61 97 99 95 77.429 94 
; dyads_test_vs_ctrl_m3 versus 665_M00948_TRANSFAC_2012.1__PCF2_Athamap_20091028_; m=13/16; ncol2=10; w=9; offset=-1; strand=D; shift=1; score=77.4286; -tgGGsCCCAC-
; cor=0.762; Ncor=0.624; logoDP=6.780; NIcor=0.604; NsEucl=0.887; SSD=2.058; NSW=0.886; rcor=102; rNcor=64; rlogoDP=24; rNIcor=61; rNsEucl=97; rSSD=99; rNSW=95; rank_mean=77.429; match_rank=94
a	0	15	16	3	3	17	2	0	0	64	1	0
c	0	14	14	1	6	19	71	73	75	1	66	0
g	0	11	30	66	65	25	2	3	0	8	2	0
t	0	24	14	6	2	15	1	0	1	3	7	0
10675_AT5G51910_M1649_1.02_CISBP_1.02__shift1 (10675_AT5G51910_M1649_1.02_CISBP_1.02_) 0.762 0.623 5.934 0.601 0.889 1.996 0.889 103 65 48 63 90 95 93 79.571 95 
; dyads_test_vs_ctrl_m3 versus 10675_AT5G51910_M1649_1.02_CISBP_1.02_; m=14/16; ncol2=10; w=9; offset=-1; strand=D; shift=1; score=79.5714; -tgGGsCCCAC-
; cor=0.762; Ncor=0.623; logoDP=5.934; NIcor=0.601; NsEucl=0.889; SSD=1.996; NSW=0.889; rcor=103; rNcor=65; rlogoDP=48; rNIcor=63; rNsEucl=90; rSSD=95; rNSW=93; rank_mean=79.571; match_rank=95
a	0	15	14	3	11	19	11	1	0	84	0	0
c	0	22	15	1	6	28	74	97	100	3	81	0
g	0	18	50	85	78	41	2	0	0	13	11	0
t	0	45	21	11	5	12	13	2	0	0	8	0
11940_XM_002867953.1_M1653_1.02_CISBP_1.02__shift3 (11940_XM_002867953.1_M1653_1.02_CISBP_1.02_) 0.765 0.612 9.088 0.577 0.867 2.279 0.858 101 73 2 71 110 105 111 81.857 98 
; dyads_test_vs_ctrl_m3 versus 11940_XM_002867953.1_M1653_1.02_CISBP_1.02_; m=15/16; ncol2=8; w=8; offset=1; strand=D; shift=3; score=81.8571; ---GGsmCCAC-
; cor=0.765; Ncor=0.612; logoDP=9.088; NIcor=0.577; NsEucl=0.867; SSD=2.279; NSW=0.858; rcor=101; rNcor=73; rlogoDP=2; rNIcor=71; rNsEucl=110; rSSD=105; rNSW=111; rank_mean=81.857; match_rank=98
a	0	0	0	0	0	0	33	0	0	100	0	0
c	0	0	0	0	0	34	67	100	100	0	100	0
g	0	0	0	100	100	66	0	0	0	0	0	0
t	0	0	0	0	0	0	0	0	0	0	0	0
11937_XM_002865836.1_M1654_1.02_CISBP_1.02__XM_002876964.1_M1652_1.02_CISBP_1.02__rc_shift1 (11937_XM_002865836.1_M1654_1.02_CISBP_1.02__XM_002876964.1_M1652_1.02_CISBP_1.02__rc) 0.752 0.478 3.852 0.138 0.856 2.041 0.854 112 107 83 108 112 98 112 104.571 112 
; dyads_test_vs_ctrl_m3 versus 11937_XM_002865836.1_M1654_1.02_CISBP_1.02__XM_002876964.1_M1652_1.02_CISBP_1.02__rc; m=16/16; ncol2=8; w=7; offset=-1; strand=R; shift=1; score=104.571; -GTGGGsYC---
; cor=0.752; Ncor=0.478; logoDP=3.852; NIcor=0.138; NsEucl=0.856; SSD=2.041; NSW=0.854; rcor=112; rNcor=107; rlogoDP=83; rNIcor=108; rNsEucl=112; rSSD=98; rNSW=112; rank_mean=104.571; match_rank=112
a	0	0	0	0	0	0	0	0	0	0	0	0
c	0	0	0	0	0	0	50	75	100	0	0	0
g	0	100	0	100	100	100	50	0	0	0	0	0
t	0	0	100	0	0	0	0	25	0	0	0	0

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m2_shift0 ; 7 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NIcor NsEucl SSD NSW rcor rNcor rlogoDP rNIcor rNsEucl rSSD rNSW rank_mean match_rank Aligned matrices
dyads_test_vs_ctrl_m2_shift0 (dyads_test_vs_ctrl_m2)                                 
; dyads_test_vs_ctrl_m2; m=0 (reference); ncol1=14; shift=0; ncol=15; vaATCAAscCTArc-
; Alignment reference
a	17	16	38	4	6	38	36	3	3	1	4	46	17	11	0
c	12	11	7	2	33	0	5	27	31	45	1	1	6	17	0
g	14	10	2	7	5	1	7	17	11	0	0	1	15	9	0
t	5	11	1	35	4	9	0	1	3	2	43	0	10	11	0
11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02__shift5 (11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02_) 0.873 0.524 3.557 0.519 0.931 0.781 0.957 25 96 88 85 12 14 12 47.429 39 
; dyads_test_vs_ctrl_m2 versus 11276_LOC_Os01g51154_M1361_1.02_CISBP_1.02_; m=1/6; ncol2=10; w=9; offset=5; strand=D; shift=5; score=47.4286; -----wrmCCTArhy
; cor=0.873; Ncor=0.524; logoDP=3.557; NIcor=0.519; NsEucl=0.931; SSD=0.781; NSW=0.957; rcor=25; rNcor=96; rlogoDP=88; rNIcor=85; rNsEucl=12; rSSD=14; rNSW=12; rank_mean=47.429; match_rank=39
a	0	0	0	0	0	42	53	42	3	4	1	83	37	27	24
c	0	0	0	0	0	11	3	56	96	93	0	3	13	26	26
g	0	0	0	0	0	6	37	1	0	3	0	9	39	22	22
t	0	0	0	0	0	41	7	1	1	0	99	5	11	25	28
10572_1200010153_M1391_1.02_CISBP_1.02__shift5 (10572_1200010153_M1391_1.02_CISBP_1.02_) 0.859 0.515 4.138 0.503 0.923 0.969 0.946 32 99 78 91 23 20 20 51.857 47 
; dyads_test_vs_ctrl_m2 versus 10572_1200010153_M1391_1.02_CISBP_1.02_; m=2/6; ncol2=10; w=9; offset=5; strand=D; shift=5; score=51.8571; -----amCCCTAryy
; cor=0.859; Ncor=0.515; logoDP=4.138; NIcor=0.503; NsEucl=0.923; SSD=0.969; NSW=0.946; rcor=32; rNcor=99; rlogoDP=78; rNIcor=91; rNsEucl=23; rSSD=20; rNSW=20; rank_mean=51.857; match_rank=47
a	0	0	0	0	0	63	29	13	1	2	0	90	29	24	23
c	0	0	0	0	0	5	60	87	98	98	5	1	17	25	26
g	0	0	0	0	0	8	3	0	1	0	0	6	41	17	18
t	0	0	0	0	0	24	8	0	0	0	95	3	13	34	33
12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02__shift5 (12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02_) 0.835 0.537 3.248 0.528 0.922 0.977 0.946 45 91 93 80 25 21 21 53.714 49 
; dyads_test_vs_ctrl_m2 versus 12185_estExt_fgenesh1_pg.C_Chr_13.00_CISBP_1.02_; m=3/6; ncol2=9; w=9; offset=5; strand=D; shift=5; score=53.7143; -----wrmCCTArh-
; cor=0.835; Ncor=0.537; logoDP=3.248; NIcor=0.528; NsEucl=0.922; SSD=0.977; NSW=0.946; rcor=45; rNcor=91; rlogoDP=93; rNIcor=80; rNsEucl=25; rSSD=21; rNSW=21; rank_mean=53.714; match_rank=49
a	0	0	0	0	0	34	48	45	1	1	0	73	36	26	0
c	0	0	0	0	0	20	2	52	98	98	6	7	17	25	0
g	0	0	0	0	0	15	39	1	0	1	0	6	31	21	0
t	0	0	0	0	0	31	11	2	1	0	94	14	16	28	0
10566_0100010593_M1389_1.02_CISBP_1.02__shift4 (10566_0100010593_M1389_1.02_CISBP_1.02_) 0.801 0.572 2.412 0.568 0.922 1.224 0.939 73 82 103 73 27 36 31 60.714 60 
; dyads_test_vs_ctrl_m2 versus 10566_0100010593_M1389_1.02_CISBP_1.02_; m=4/6; ncol2=10; w=10; offset=4; strand=D; shift=4; score=60.7143; ----wwAMCCTarw-
; cor=0.801; Ncor=0.572; logoDP=2.412; NIcor=0.568; NsEucl=0.922; SSD=1.224; NSW=0.939; rcor=73; rNcor=82; rlogoDP=103; rNIcor=73; rNsEucl=27; rSSD=36; rNSW=31; rank_mean=60.714; match_rank=60
a	0	0	0	0	39	41	78	27	5	8	2	59	34	28	0
c	0	0	0	0	10	6	0	69	87	84	5	11	18	24	0
g	0	0	0	0	20	5	15	1	3	5	2	16	27	19	0
t	0	0	0	0	31	48	7	3	5	3	91	14	21	29	0
10701_ATTRB2_M1346_1.02_CISBP_1.02__shift5 (10701_ATTRB2_M1346_1.02_CISBP_1.02_) 0.838 0.479 4.748 0.465 0.906 1.121 0.930 43 106 68 96 50 27 38 61.143 61 
; dyads_test_vs_ctrl_m2 versus 10701_ATTRB2_M1346_1.02_CISBP_1.02_; m=5/6; ncol2=8; w=8; offset=5; strand=D; shift=5; score=61.1429; -----wrmCCTAr--
; cor=0.838; Ncor=0.479; logoDP=4.748; NIcor=0.465; NsEucl=0.906; SSD=1.121; NSW=0.930; rcor=43; rNcor=106; rlogoDP=68; rNIcor=96; rNsEucl=50; rSSD=27; rNSW=38; rank_mean=61.143; match_rank=61
a	0	0	0	0	0	37	35	37	0	0	0	98	45	0	0
c	0	0	0	0	0	12	0	63	100	100	1	0	7	0	0
g	0	0	0	0	0	7	61	0	0	0	0	1	41	0	0
t	0	0	0	0	0	44	4	0	0	0	99	1	7	0	0
12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02__shift4 (12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02_) 0.756 0.486 1.942 0.468 0.906 1.431 0.921 105 101 107 95 53 50 50 80.143 96 
; dyads_test_vs_ctrl_m2 versus 12182_estExt_fgenesh1_pg.C_Chr_03.00_CISBP_1.02_; m=6/6; ncol2=9; w=9; offset=4; strand=D; shift=4; score=80.1429; ----wwrmCCYar--
; cor=0.756; Ncor=0.486; logoDP=1.942; NIcor=0.468; NsEucl=0.906; SSD=1.431; NSW=0.921; rcor=105; rNcor=101; rlogoDP=107; rNIcor=95; rNsEucl=53; rSSD=50; rNSW=50; rank_mean=80.143; match_rank=96
a	0	0	0	0	30	44	56	47	3	8	1	51	27	0	0
c	0	0	0	0	22	7	3	51	97	88	29	18	21	0	0
g	0	0	0	0	17	12	25	0	0	4	2	14	33	0	0
t	0	0	0	0	31	37	16	2	0	0	68	17	19	0	0

One-to-n matrix alignment; reference matrix: oligos_5-7nt_m2_shift2 ; 6 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NIcor NsEucl SSD NSW rcor rNcor rlogoDP rNIcor rNsEucl rSSD rNSW rank_mean match_rank Aligned matrices
oligos_5-7nt_m2_shift2 (oligos_5-7nt_m2)                                 
; oligos_5-7nt_m2; m=0 (reference); ncol1=11; shift=2; ncol=13; --wyGGCCCATty
; Alignment reference
a	0	0	36	30	11	3	4	4	0	121	12	23	31
c	0	0	31	41	3	0	116	120	125	2	7	33	38
g	0	0	26	27	114	125	7	3	5	8	17	33	24
t	0	0	40	35	5	5	6	6	3	2	97	44	40
2130_M03182_TRANSFAC_2012.1__M03188_TRANSFAC_2012.1__rc_shift1 (2130_M03182_TRANSFAC_2012.1__M03188_TRANSFAC_2012.1__rc) 0.823 0.617 4.402 0.391 0.897 1.704 0.905 59 68 75 105 78 70 74 75.571 90 
; oligos_5-7nt_m2 versus 2130_M03182_TRANSFAC_2012.1__M03188_TRANSFAC_2012.1__rc; m=1/5; ncol2=10; w=9; offset=-1; strand=R; shift=1; score=75.5714; -AATGGCCCAm--
; cor=0.823; Ncor=0.617; logoDP=4.402; NIcor=0.391; NsEucl=0.897; SSD=1.704; NSW=0.905; rcor=59; rNcor=68; rlogoDP=75; rNIcor=105; rNsEucl=78; rSSD=70; rNSW=74; rank_mean=75.571; match_rank=90
a	0	85	73	2	0	0	0	0	3	100	49	0	0
c	0	1	18	0	8	1	100	96	97	0	29	0	0
g	0	13	3	0	92	96	0	4	0	0	15	0	0
t	0	1	6	98	0	3	0	0	0	0	7	0	0
2138_M03191_TRANSFAC_2012.1__rc_shift1 (2138_M03191_TRANSFAC_2012.1__rc) 0.822 0.617 4.410 0.392 0.897 1.715 0.905 60 69 73 104 79 74 75 76.286 93 
; oligos_5-7nt_m2 versus 2138_M03191_TRANSFAC_2012.1__rc; m=2/5; ncol2=10; w=9; offset=-1; strand=R; shift=1; score=76.2857; -AATGGCCCAm--
; cor=0.822; Ncor=0.617; logoDP=4.410; NIcor=0.392; NsEucl=0.897; SSD=1.715; NSW=0.905; rcor=60; rNcor=69; rlogoDP=73; rNIcor=104; rNsEucl=79; rSSD=74; rNSW=75; rank_mean=76.286; match_rank=93
a	0	85	73	1	0	0	0	0	4	100	48	0	0
c	0	1	18	0	7	1	100	97	96	0	29	0	0
g	0	13	3	0	92	96	0	3	0	0	16	0	0
t	0	1	6	99	1	3	0	0	0	0	7	0	0
1445_M01850_TRANSFAC_2012.1__rc_shift0 (1445_M01850_TRANSFAC_2012.1__rc) 0.792 0.609 4.531 0.445 0.898 2.069 0.897 80 75 71 101 76 100 87 84.286 100 
; oligos_5-7nt_m2 versus 1445_M01850_TRANSFAC_2012.1__rc; m=3/5; ncol2=12; w=10; offset=-2; strand=R; shift=0; score=84.2857; yksgGGCCCACm-
; cor=0.792; Ncor=0.609; logoDP=4.531; NIcor=0.445; NsEucl=0.898; SSD=2.069; NSW=0.897; rcor=80; rNcor=75; rlogoDP=71; rNIcor=101; rNsEucl=76; rSSD=100; rNSW=87; rank_mean=84.286; match_rank=100
a	4	4	2	3	0	0	0	0	0	20	0	11	0
c	5	2	5	4	0	0	19	20	20	0	20	9	0
g	4	8	9	9	20	20	1	0	0	0	0	0	0
t	7	6	4	4	0	0	0	0	0	0	0	0	0
11547_OsI_08196_M1658_1.02_CISBP_1.02__shift3 (11547_OsI_08196_M1658_1.02_CISBP_1.02_) 0.774 0.563 5.325 0.552 0.877 1.942 0.879 96 85 56 76 105 90 100 86.857 103 
; oligos_5-7nt_m2 versus 11547_OsI_08196_M1658_1.02_CISBP_1.02_; m=4/5; ncol2=8; w=8; offset=1; strand=D; shift=3; score=86.8571; ---GGGCCCAC--
; cor=0.774; Ncor=0.563; logoDP=5.325; NIcor=0.552; NsEucl=0.877; SSD=1.942; NSW=0.879; rcor=96; rNcor=85; rlogoDP=56; rNIcor=76; rNsEucl=105; rSSD=90; rNSW=100; rank_mean=86.857; match_rank=103
a	0	0	0	0	5	9	0	0	0	90	0	0	0
c	0	0	0	0	0	9	86	100	100	5	86	0	0
g	0	0	0	95	95	73	5	0	0	5	7	0	0
t	0	0	0	5	0	9	9	0	0	0	7	0	0
11940_XM_002867953.1_M1653_1.02_CISBP_1.02__rc_shift1 (11940_XM_002867953.1_M1653_1.02_CISBP_1.02__rc) 0.761 0.444 2.579 0.130 0.863 1.842 0.868 104 111 100 109 111 85 108 104.000 111 
; oligos_5-7nt_m2 versus 11940_XM_002867953.1_M1653_1.02_CISBP_1.02__rc; m=5/5; ncol2=8; w=7; offset=-1; strand=R; shift=1; score=    104; -GTGGksCC----
; cor=0.761; Ncor=0.444; logoDP=2.579; NIcor=0.130; NsEucl=0.863; SSD=1.842; NSW=0.868; rcor=104; rNcor=111; rlogoDP=100; rNIcor=109; rNsEucl=111; rSSD=85; rNSW=108; rank_mean=104.000; match_rank=111
a	0	0	0	0	0	0	0	0	0	0	0	0	0
c	0	0	0	0	0	0	66	100	100	0	0	0	0
g	0	100	0	100	100	67	34	0	0	0	0	0	0
t	0	0	100	0	0	33	0	0	0	0	0	0	0