One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/04/compare-matrices_2019-07-04.132353_ePE4A5/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/2019/07/04/compare-matrices_2019-07-04.132353_ePE4A5/compare-matrices.tab

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift11 ; 160 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

dyads_test_vs_ctrl_m1_shift11 (dyads_test_vs_ctrl_m1)
; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=11; shift=11; ncol=22; -----------wwGCCGACAww ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 120 109 24 27 18 27 307 11 248 122 106 c 0 0 0 0 0 0 0 0 0 0 0 57 63 9 280 308 23 12 322 23 55 75 g 0 0 0 0 0 0 0 0 0 0 0 73 51 303 2 3 285 5 3 43 59 76 t 0 0 0 0 0 0 0 0 0 0 0 99 126 13 40 20 14 25 13 35 113 92

DREB1G_MA1032.1_JASPAR_shift11 (DREB1G:MA1032.1:JASPAR) 0.970 0.882 5.628 0.959 0.983 1 2 8 1 1 2.600 1
; dyads_test_vs_ctrl_m1 versus DREB1G_MA1032.1_JASPAR (DREB1G:MA1032.1:JASPAR); m=1/159; ncol2=10; w=10; offset=0; strand=D; shift=11; score= 2.6; -----------atGCCGACAt- ; cor=0.970; Ncor=0.882; logoDP=5.628; NsEucl=0.959; NSW=0.983; rcor=1; rNcor=2; rlogoDP=8; rNsEucl=1; rNSW=1; rank_mean=2.600; match_rank=1 a 0 0 0 0 0 0 0 0 0 0 0 314 119 180 0 0 0 884 0 845 131 0 c 0 0 0 0 0 0 0 0 0 0 0 229 226 0 999 999 0 0 999 22 219 0 g 0 0 0 0 0 0 0 0 0 0 0 229 119 820 0 0 999 115 0 22 221 0 t 0 0 0 0 0 0 0 0 0 0 0 229 535 0 0 0 0 0 0 111 430 0

LOC_Os02g45450_M0042_1.02_CISBP_shift11 (LOC_Os02g45450:M0042_1.02:CISBP) 0.969 0.881 5.623 0.959 0.983 2 3 9 2 2 3.600 2
; dyads_test_vs_ctrl_m1 versus LOC_Os02g45450_M0042_1.02_CISBP (LOC_Os02g45450:M0042_1.02:CISBP); m=2/159; ncol2=10; w=10; offset=0; strand=D; shift=11; score= 3.6; -----------atGCCGACAt- ; cor=0.969; Ncor=0.881; logoDP=5.623; NsEucl=0.959; NSW=0.983; rcor=2; rNcor=3; rlogoDP=9; rNsEucl=2; rNSW=2; rank_mean=3.600; match_rank=2 a 0 0 0 0 0 0 0 0 0 0 0 31 12 18 0 0 0 88 0 85 13 0 c 0 0 0 0 0 0 0 0 0 0 0 23 23 0 100 100 0 0 100 2 22 0 g 0 0 0 0 0 0 0 0 0 0 0 23 12 82 0 0 100 12 0 2 22 0 t 0 0 0 0 0 0 0 0 0 0 0 23 53 0 0 0 0 0 0 11 43 0

ATCBF3_M0031_1.02_CISBP_rc_shift12 (ATCBF3:M0031_1.02:CISBP_rc) 0.934 0.849 0.254 0.952 0.977 7 4 149 5 5 34.000 12
; dyads_test_vs_ctrl_m1 versus ATCBF3_M0031_1.02_CISBP_rc (ATCBF3:M0031_1.02:CISBP_rc); m=12/159; ncol2=10; w=10; offset=1; strand=R; shift=12; score= 34; ------------yrCCGACatm ; cor=0.934; Ncor=0.849; logoDP=0.254; NsEucl=0.952; NSW=0.977; rcor=7; rNcor=4; rlogoDP=149; rNsEucl=5; rNSW=5; rank_mean=34.000; match_rank=12 a 0 0 0 0 0 0 0 0 0 0 0 0 15 44 2 4 3 96 1 52 18 31 c 0 0 0 0 0 0 0 0 0 0 0 0 27 1 89 89 0 0 96 14 17 25 g 0 0 0 0 0 0 0 0 0 0 0 0 21 53 0 0 96 1 0 21 14 22 t 0 0 0 0 0 0 0 0 0 0 0 0 37 2 9 7 1 3 3 13 51 22

CBF3.ampDAP_M0041_AthalianaCistrome_rc_shift11 (CBF3.ampDAP:M0041:AthalianaCistrome_rc) 0.890 0.890 0.268 0.935 0.953 31 1 148 30 32 48.400 26
; dyads_test_vs_ctrl_m1 versus CBF3.ampDAP_M0041_AthalianaCistrome_rc (CBF3.ampDAP:M0041:AthalianaCistrome_rc); m=26/159; ncol2=11; w=11; offset=0; strand=R; shift=11; score= 48.4; -----------yyrCCGACATm ; cor=0.890; Ncor=0.890; logoDP=0.268; NsEucl=0.935; NSW=0.953; rcor=31; rNcor=1; rlogoDP=148; rNsEucl=30; rNSW=32; rank_mean=48.400; match_rank=26 a 0 0 0 0 0 0 0 0 0 0 0 77 50 318 0 0 0 598 0 460 81 207 c 0 0 0 0 0 0 0 0 0 0 0 186 198 0 591 598 0 0 598 42 46 192 g 0 0 0 0 0 0 0 0 0 0 0 45 112 280 0 0 598 0 0 57 11 120 t 0 0 0 0 0 0 0 0 0 0 0 290 238 0 7 0 0 0 0 39 460 79

Matrix name	cor	Ncor	logoDP	NsEucl	NSW	rcor	rNcor	rlogoDP	rNsEucl	rNSW	rank_mean	match_rank	Aligned matrices
dyads_test_vs_ctrl_m1_shift11 (dyads_test_vs_ctrl_m1)													; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=11; shift=11; ncol=22; -----------wwGCCGACAww ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 120 109 24 27 18 27 307 11 248 122 106 c 0 0 0 0 0 0 0 0 0 0 0 57 63 9 280 308 23 12 322 23 55 75 g 0 0 0 0 0 0 0 0 0 0 0 73 51 303 2 3 285 5 3 43 59 76 t 0 0 0 0 0 0 0 0 0 0 0 99 126 13 40 20 14 25 13 35 113 92
DREB1G_MA1032.1_JASPAR_shift11 (DREB1G:MA1032.1:JASPAR)	0.970	0.882	5.628	0.959	0.983	1	2	8	1	1	2.600	1	; dyads_test_vs_ctrl_m1 versus DREB1G_MA1032.1_JASPAR (DREB1G:MA1032.1:JASPAR); m=1/159; ncol2=10; w=10; offset=0; strand=D; shift=11; score= 2.6; -----------atGCCGACAt- ; cor=0.970; Ncor=0.882; logoDP=5.628; NsEucl=0.959; NSW=0.983; rcor=1; rNcor=2; rlogoDP=8; rNsEucl=1; rNSW=1; rank_mean=2.600; match_rank=1 a 0 0 0 0 0 0 0 0 0 0 0 314 119 180 0 0 0 884 0 845 131 0 c 0 0 0 0 0 0 0 0 0 0 0 229 226 0 999 999 0 0 999 22 219 0 g 0 0 0 0 0 0 0 0 0 0 0 229 119 820 0 0 999 115 0 22 221 0 t 0 0 0 0 0 0 0 0 0 0 0 229 535 0 0 0 0 0 0 111 430 0
LOC_Os02g45450_M0042_1.02_CISBP_shift11 (LOC_Os02g45450:M0042_1.02:CISBP)	0.969	0.881	5.623	0.959	0.983	2	3	9	2	2	3.600	2	; dyads_test_vs_ctrl_m1 versus LOC_Os02g45450_M0042_1.02_CISBP (LOC_Os02g45450:M0042_1.02:CISBP); m=2/159; ncol2=10; w=10; offset=0; strand=D; shift=11; score= 3.6; -----------atGCCGACAt- ; cor=0.969; Ncor=0.881; logoDP=5.623; NsEucl=0.959; NSW=0.983; rcor=2; rNcor=3; rlogoDP=9; rNsEucl=2; rNSW=2; rank_mean=3.600; match_rank=2 a 0 0 0 0 0 0 0 0 0 0 0 31 12 18 0 0 0 88 0 85 13 0 c 0 0 0 0 0 0 0 0 0 0 0 23 23 0 100 100 0 0 100 2 22 0 g 0 0 0 0 0 0 0 0 0 0 0 23 12 82 0 0 100 12 0 2 22 0 t 0 0 0 0 0 0 0 0 0 0 0 23 53 0 0 0 0 0 0 11 43 0
ATCBF3_M0031_1.02_CISBP_rc_shift12 (ATCBF3:M0031_1.02:CISBP_rc)	0.934	0.849	0.254	0.952	0.977	7	4	149	5	5	34.000	12	; dyads_test_vs_ctrl_m1 versus ATCBF3_M0031_1.02_CISBP_rc (ATCBF3:M0031_1.02:CISBP_rc); m=12/159; ncol2=10; w=10; offset=1; strand=R; shift=12; score= 34; ------------yrCCGACatm ; cor=0.934; Ncor=0.849; logoDP=0.254; NsEucl=0.952; NSW=0.977; rcor=7; rNcor=4; rlogoDP=149; rNsEucl=5; rNSW=5; rank_mean=34.000; match_rank=12 a 0 0 0 0 0 0 0 0 0 0 0 0 15 44 2 4 3 96 1 52 18 31 c 0 0 0 0 0 0 0 0 0 0 0 0 27 1 89 89 0 0 96 14 17 25 g 0 0 0 0 0 0 0 0 0 0 0 0 21 53 0 0 96 1 0 21 14 22 t 0 0 0 0 0 0 0 0 0 0 0 0 37 2 9 7 1 3 3 13 51 22
CBF3.ampDAP_M0041_AthalianaCistrome_rc_shift11 (CBF3.ampDAP:M0041:AthalianaCistrome_rc)	0.890	0.890	0.268	0.935	0.953	31	1	148	30	32	48.400	26	; dyads_test_vs_ctrl_m1 versus CBF3.ampDAP_M0041_AthalianaCistrome_rc (CBF3.ampDAP:M0041:AthalianaCistrome_rc); m=26/159; ncol2=11; w=11; offset=0; strand=R; shift=11; score= 48.4; -----------yyrCCGACATm ; cor=0.890; Ncor=0.890; logoDP=0.268; NsEucl=0.935; NSW=0.953; rcor=31; rNcor=1; rlogoDP=148; rNsEucl=30; rNSW=32; rank_mean=48.400; match_rank=26 a 0 0 0 0 0 0 0 0 0 0 0 77 50 318 0 0 0 598 0 460 81 207 c 0 0 0 0 0 0 0 0 0 0 0 186 198 0 591 598 0 0 598 42 46 192 g 0 0 0 0 0 0 0 0 0 0 0 45 112 280 0 0 598 0 0 57 11 120 t 0 0 0 0 0 0 0 0 0 0 0 290 238 0 7 0 0 0 0 39 460 79