One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/07/compare-matrices_2019-07-07.150445_rowPNA/compare-matrices_query_matrices.transfac -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf -format2 tf -strand DR -lth cor 0.7 -lth Ncor 0.4 -uth match_rank 50 -return cor,Ncor,logoDP,NsEucl,NSW,match_rank,matrix_id,matrix_name,width,strand,offset,consensus,alignments_1ton -o $RSAT/public_html/tmp/www-data/2019/07/07/compare-matrices_2019-07-07.150445_rowPNA/compare-matrices.tab

One-to-n matrix alignment; reference matrix: oligos_5-8nt_m1_shift6 ; 20 matrices ; sort_field=rank_mean

Matrix name Aligned logos cor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices

oligos_5-8nt_m1_shift6 (oligos_5-8nt_m1)
; oligos_5-8nt_m1; m=0 (reference); ncol1=10; shift=6; ncol=19; ------myACGCGTrk--- ; Alignment reference a 0 0 0 0 0 0 17 11 45 1 8 5 2 0 23 13 0 0 0 c 0 0 0 0 0 0 23 16 8 59 0 49 0 7 10 8 0 0 0 g 0 0 0 0 0 0 10 12 7 0 48 0 56 8 16 23 0 0 0 t 0 0 0 0 0 0 10 21 0 0 4 6 2 45 11 16 0 0 0

CAMTA1_MA1197.1_JASPAR_shift5 (CAMTA1:MA1197.1:JASPAR) 0.827 0.689 5.544 0.915 0.928 7 3 2 7 7 5.200 1
; oligos_5-8nt_m1 versus CAMTA1_MA1197.1_JASPAR (CAMTA1:MA1197.1:JASPAR); m=1/19; ncol2=12; w=10; offset=-1; strand=D; shift=5; score= 5.2; -----aAarCGCGTkdr-- ; cor=0.827; Ncor=0.689; logoDP=5.544; NsEucl=0.915; NSW=0.928; rcor=7; rNcor=3; rlogoDP=2; rNsEucl=7; rNSW=7; rank_mean=5.200; match_rank=1 a 0 0 0 0 0 301 430 405 172 0 0 0 0 0 63 235 237 0 0 c 0 0 0 0 0 56 46 6 140 598 0 578 0 0 58 33 58 0 0 g 0 0 0 0 0 117 45 132 285 0 598 0 598 3 326 156 170 0 0 t 0 0 0 0 0 124 77 55 1 0 0 20 0 595 151 174 133 0 0

ABF1_M0257_1.02_CISBP_shift6 (ABF1:M0257_1.02:CISBP) 0.752 0.683 2.759 0.915 0.927 8 4 11 8 8 7.800 6
; oligos_5-8nt_m1 versus ABF1_M0257_1.02_CISBP (ABF1:M0257_1.02:CISBP); m=6/19; ncol2=11; w=10; offset=0; strand=D; shift=6; score= 7.8; ------gdACACGTGkb-- ; cor=0.752; Ncor=0.683; logoDP=2.759; NsEucl=0.915; NSW=0.927; rcor=8; rNcor=4; rlogoDP=11; rNsEucl=8; rNSW=8; rank_mean=7.800; match_rank=6 a 0 0 0 0 0 0 21 26 68 16 73 0 18 0 12 16 18 0 0 c 0 0 0 0 0 0 21 16 18 75 8 91 0 10 4 19 28 0 0 g 0 0 0 0 0 0 37 33 7 0 10 0 82 0 71 40 28 0 0 t 0 0 0 0 0 0 21 25 7 9 9 9 0 90 13 25 26 0 0

ABI5_M0261_1.02_CISBP_shift6 (ABI5:M0261_1.02:CISBP) 0.708 0.708 4.606 0.894 0.888 17 1 8 12 12 10.000 10
; oligos_5-8nt_m1 versus ABI5_M0261_1.02_CISBP (ABI5:M0261_1.02:CISBP); m=10/19; ncol2=10; w=10; offset=0; strand=D; shift=6; score= 10; ------bgmCACGTGk--- ; cor=0.708; Ncor=0.708; logoDP=4.606; NsEucl=0.894; NSW=0.888; rcor=17; rNcor=1; rlogoDP=8; rNsEucl=12; rNSW=12; rank_mean=10.000; match_rank=10 a 0 0 0 0 0 0 18 9 61 0 100 0 0 0 15 16 0 0 0 c 0 0 0 0 0 0 26 9 31 92 0 100 0 0 7 16 0 0 0 g 0 0 0 0 0 0 25 65 0 8 0 0 100 0 71 34 0 0 0 t 0 0 0 0 0 0 31 17 8 0 0 0 0 100 7 34 0 0 0

ABI5_MA0931.1_JASPAR_shift6 (ABI5:MA0931.1:JASPAR) 0.707 0.707 4.615 0.894 0.887 18 2 7 13 13 10.600 11
; oligos_5-8nt_m1 versus ABI5_MA0931.1_JASPAR (ABI5:MA0931.1:JASPAR); m=11/19; ncol2=10; w=10; offset=0; strand=D; shift=6; score= 10.6; ------bgmCACGTGk--- ; cor=0.707; Ncor=0.707; logoDP=4.615; NsEucl=0.894; NSW=0.887; rcor=18; rNcor=2; rlogoDP=7; rNsEucl=13; rNSW=13; rank_mean=10.600; match_rank=11 a 0 0 0 0 0 0 181 87 608 0 999 0 0 0 152 164 0 0 0 c 0 0 0 0 0 0 257 87 314 922 0 999 0 0 70 164 0 0 0 g 0 0 0 0 0 0 257 660 0 78 0 0 999 0 709 337 0 0 0 t 0 0 0 0 0 0 306 167 78 0 0 0 0 999 70 336 0 0 0

Matrix name	cor	Ncor	logoDP	NsEucl	NSW	rcor	rNcor	rlogoDP	rNsEucl	rNSW	rank_mean	match_rank	Aligned matrices
oligos_5-8nt_m1_shift6 (oligos_5-8nt_m1)													; oligos_5-8nt_m1; m=0 (reference); ncol1=10; shift=6; ncol=19; ------myACGCGTrk--- ; Alignment reference a 0 0 0 0 0 0 17 11 45 1 8 5 2 0 23 13 0 0 0 c 0 0 0 0 0 0 23 16 8 59 0 49 0 7 10 8 0 0 0 g 0 0 0 0 0 0 10 12 7 0 48 0 56 8 16 23 0 0 0 t 0 0 0 0 0 0 10 21 0 0 4 6 2 45 11 16 0 0 0
CAMTA1_MA1197.1_JASPAR_shift5 (CAMTA1:MA1197.1:JASPAR)	0.827	0.689	5.544	0.915	0.928	7	3	2	7	7	5.200	1	; oligos_5-8nt_m1 versus CAMTA1_MA1197.1_JASPAR (CAMTA1:MA1197.1:JASPAR); m=1/19; ncol2=12; w=10; offset=-1; strand=D; shift=5; score= 5.2; -----aAarCGCGTkdr-- ; cor=0.827; Ncor=0.689; logoDP=5.544; NsEucl=0.915; NSW=0.928; rcor=7; rNcor=3; rlogoDP=2; rNsEucl=7; rNSW=7; rank_mean=5.200; match_rank=1 a 0 0 0 0 0 301 430 405 172 0 0 0 0 0 63 235 237 0 0 c 0 0 0 0 0 56 46 6 140 598 0 578 0 0 58 33 58 0 0 g 0 0 0 0 0 117 45 132 285 0 598 0 598 3 326 156 170 0 0 t 0 0 0 0 0 124 77 55 1 0 0 20 0 595 151 174 133 0 0
ABF1_M0257_1.02_CISBP_shift6 (ABF1:M0257_1.02:CISBP)	0.752	0.683	2.759	0.915	0.927	8	4	11	8	8	7.800	6	; oligos_5-8nt_m1 versus ABF1_M0257_1.02_CISBP (ABF1:M0257_1.02:CISBP); m=6/19; ncol2=11; w=10; offset=0; strand=D; shift=6; score= 7.8; ------gdACACGTGkb-- ; cor=0.752; Ncor=0.683; logoDP=2.759; NsEucl=0.915; NSW=0.927; rcor=8; rNcor=4; rlogoDP=11; rNsEucl=8; rNSW=8; rank_mean=7.800; match_rank=6 a 0 0 0 0 0 0 21 26 68 16 73 0 18 0 12 16 18 0 0 c 0 0 0 0 0 0 21 16 18 75 8 91 0 10 4 19 28 0 0 g 0 0 0 0 0 0 37 33 7 0 10 0 82 0 71 40 28 0 0 t 0 0 0 0 0 0 21 25 7 9 9 9 0 90 13 25 26 0 0
ABI5_M0261_1.02_CISBP_shift6 (ABI5:M0261_1.02:CISBP)	0.708	0.708	4.606	0.894	0.888	17	1	8	12	12	10.000	10	; oligos_5-8nt_m1 versus ABI5_M0261_1.02_CISBP (ABI5:M0261_1.02:CISBP); m=10/19; ncol2=10; w=10; offset=0; strand=D; shift=6; score= 10; ------bgmCACGTGk--- ; cor=0.708; Ncor=0.708; logoDP=4.606; NsEucl=0.894; NSW=0.888; rcor=17; rNcor=1; rlogoDP=8; rNsEucl=12; rNSW=12; rank_mean=10.000; match_rank=10 a 0 0 0 0 0 0 18 9 61 0 100 0 0 0 15 16 0 0 0 c 0 0 0 0 0 0 26 9 31 92 0 100 0 0 7 16 0 0 0 g 0 0 0 0 0 0 25 65 0 8 0 0 100 0 71 34 0 0 0 t 0 0 0 0 0 0 31 17 8 0 0 0 0 100 7 34 0 0 0
ABI5_MA0931.1_JASPAR_shift6 (ABI5:MA0931.1:JASPAR)	0.707	0.707	4.615	0.894	0.887	18	2	7	13	13	10.600	11	; oligos_5-8nt_m1 versus ABI5_MA0931.1_JASPAR (ABI5:MA0931.1:JASPAR); m=11/19; ncol2=10; w=10; offset=0; strand=D; shift=6; score= 10.6; ------bgmCACGTGk--- ; cor=0.707; Ncor=0.707; logoDP=4.615; NsEucl=0.894; NSW=0.887; rcor=18; rNcor=2; rlogoDP=7; rNsEucl=13; rNSW=13; rank_mean=10.600; match_rank=11 a 0 0 0 0 0 0 181 87 608 0 999 0 0 0 152 164 0 0 0 c 0 0 0 0 0 0 257 87 314 922 0 999 0 0 70 164 0 0 0 g 0 0 0 0 0 0 257 660 0 78 0 0 999 0 709 337 0 0 0 t 0 0 0 0 0 0 306 167 78 0 0 0 0 999 70 336 0 0 0