One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/07/compare-matrices_2019-07-07.130146_VIelW2/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_2019-07-07.130146_VIelW2/compare-matrices.tab

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m2_shift7 ; 102 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_m2_shift7 (dyads_test_vs_ctrl_m2)
; dyads_test_vs_ctrl_m2; m=0 (reference); ncol1=18; shift=7; ncol=25; -------wdtkGaCACGTGkCgdaw ; Alignment reference a 0 0 0 0 0 0 0 37 34 26 18 14 88 2 122 2 5 2 2 5 14 31 40 41 44 c 0 0 0 0 0 0 0 28 19 30 28 5 30 109 0 125 2 4 2 7 92 19 26 30 28 g 0 0 0 0 0 0 0 30 42 32 53 103 7 9 6 0 124 1 126 86 9 64 33 32 26 t 0 0 0 0 0 0 0 37 37 44 33 10 7 12 4 5 1 125 2 34 17 18 33 29 34

HY5_MA0551.1_JASPAR_shift8 (HY5:MA0551.1:JASPAR) 0.934 0.830 8.187 0.961 0.975 10 2 17 4 8 8.200 1
; dyads_test_vs_ctrl_m2 versus HY5_MA0551.1_JASPAR (HY5:MA0551.1:JASPAR); m=1/101; ncol2=16; w=16; offset=1; strand=D; shift=8; score= 8.2; --------wwtGmCACGTGkCaww- ; cor=0.934; Ncor=0.830; logoDP=8.187; NsEucl=0.961; NSW=0.975; rcor=10; rNcor=2; rlogoDP=17; rNsEucl=4; rNSW=8; rank_mean=8.200; match_rank=1 a 0 0 0 0 0 0 0 0 103 108 52 9 150 0 310 3 1 0 2 4 24 183 94 89 0 c 0 0 0 0 0 0 0 0 60 56 55 8 165 317 1 311 5 9 1 1 279 30 62 68 0 g 0 0 0 0 0 0 0 0 68 62 30 279 1 1 9 5 311 1 317 165 8 55 56 60 0 t 0 0 0 0 0 0 0 0 89 94 183 24 4 2 0 1 3 310 0 150 9 52 108 103 0

ABI5.DAP_M0201_AthalianaCistrome_shift6 (ABI5.DAP:M0201:AthalianaCistrome) 0.874 0.782 8.245 0.951 0.958 40 3 12 14 29 19.600 8
; dyads_test_vs_ctrl_m2 versus ABI5.DAP_M0201_AthalianaCistrome (ABI5.DAP:M0201:AthalianaCistrome); m=8/101; ncol2=18; w=17; offset=-1; strand=D; shift=6; score= 19.6; ------wdrwgrwsACGTGKCarw- ; cor=0.874; Ncor=0.782; logoDP=8.245; NsEucl=0.951; NSW=0.958; rcor=40; rNcor=3; rlogoDP=12; rNsEucl=14; rNSW=29; rank_mean=19.600; match_rank=8 a 0 0 0 0 0 0 241 217 224 161 44 157 198 0 595 0 0 0 0 0 27 394 151 190 0 c 0 0 0 0 0 0 71 59 80 39 19 119 92 289 0 595 0 0 0 0 568 50 124 117 0 g 0 0 0 0 0 0 131 167 158 98 400 296 0 294 0 0 595 0 595 446 0 123 174 87 0 t 0 0 0 0 0 0 152 152 133 297 132 23 305 12 0 0 0 595 0 149 0 28 146 201 0

PIF3_PIF3_1_Athamap_shift7 (PIF3:PIF3_1:Athamap) 0.859 0.859 8.503 0.950 0.954 49 1 7 18 35 22.000 12
; dyads_test_vs_ctrl_m2 versus PIF3_PIF3_1_Athamap (PIF3:PIF3_1:Athamap); m=12/101; ncol2=18; w=18; offset=0; strand=D; shift=7; score= 22; -------gkrggmCACGTGrmswCk ; cor=0.859; Ncor=0.859; logoDP=8.503; NsEucl=0.950; NSW=0.954; rcor=49; rNcor=1; rlogoDP=7; rNsEucl=18; rNSW=35; rank_mean=22.000; match_rank=12 a 0 0 0 0 0 0 0 2 5 11 6 5 11 0 27 0 0 0 0 11 9 3 11 4 4 c 0 0 0 0 0 0 0 5 1 2 0 3 11 27 0 27 0 0 0 2 12 9 6 19 2 g 0 0 0 0 0 0 0 15 10 12 17 17 5 0 0 0 27 0 27 13 6 13 0 4 9 t 0 0 0 0 0 0 0 5 11 2 4 2 0 0 0 0 0 27 0 1 0 2 10 0 12

PIF3_PIF3_2_Athamap_shift8 (PIF3:PIF3_2:Athamap) 0.805 0.760 8.808 0.937 0.933 76 4 2 35 55 34.400 27
; dyads_test_vs_ctrl_m2 versus PIF3_PIF3_2_Athamap (PIF3:PIF3_2:Athamap); m=27/101; ncol2=17; w=17; offset=1; strand=D; shift=8; score= 34.4; --------rdrvCCACGTGGvmvsy ; cor=0.805; Ncor=0.760; logoDP=8.808; NsEucl=0.937; NSW=0.933; rcor=76; rNcor=4; rlogoDP=2; rNsEucl=35; rNSW=55; rank_mean=34.400; match_rank=27 a 0 0 0 0 0 0 0 0 15 9 10 8 1 0 32 0 0 0 0 0 9 15 11 7 4 c 0 0 0 0 0 0 0 0 2 4 2 11 26 32 0 32 0 0 0 0 10 15 13 8 11 g 0 0 0 0 0 0 0 0 9 10 13 13 5 0 0 0 32 0 32 32 11 0 8 11 6 t 0 0 0 0 0 0 0 0 6 9 7 0 0 0 0 0 0 32 0 0 2 2 0 6 11

Matrix name	cor	Ncor	logoDP	NsEucl	NSW	rcor	rNcor	rlogoDP	rNsEucl	rNSW	rank_mean	match_rank	Aligned matrices
dyads_test_vs_ctrl_m2_shift7 (dyads_test_vs_ctrl_m2)													; dyads_test_vs_ctrl_m2; m=0 (reference); ncol1=18; shift=7; ncol=25; -------wdtkGaCACGTGkCgdaw ; Alignment reference a 0 0 0 0 0 0 0 37 34 26 18 14 88 2 122 2 5 2 2 5 14 31 40 41 44 c 0 0 0 0 0 0 0 28 19 30 28 5 30 109 0 125 2 4 2 7 92 19 26 30 28 g 0 0 0 0 0 0 0 30 42 32 53 103 7 9 6 0 124 1 126 86 9 64 33 32 26 t 0 0 0 0 0 0 0 37 37 44 33 10 7 12 4 5 1 125 2 34 17 18 33 29 34
HY5_MA0551.1_JASPAR_shift8 (HY5:MA0551.1:JASPAR)	0.934	0.830	8.187	0.961	0.975	10	2	17	4	8	8.200	1	; dyads_test_vs_ctrl_m2 versus HY5_MA0551.1_JASPAR (HY5:MA0551.1:JASPAR); m=1/101; ncol2=16; w=16; offset=1; strand=D; shift=8; score= 8.2; --------wwtGmCACGTGkCaww- ; cor=0.934; Ncor=0.830; logoDP=8.187; NsEucl=0.961; NSW=0.975; rcor=10; rNcor=2; rlogoDP=17; rNsEucl=4; rNSW=8; rank_mean=8.200; match_rank=1 a 0 0 0 0 0 0 0 0 103 108 52 9 150 0 310 3 1 0 2 4 24 183 94 89 0 c 0 0 0 0 0 0 0 0 60 56 55 8 165 317 1 311 5 9 1 1 279 30 62 68 0 g 0 0 0 0 0 0 0 0 68 62 30 279 1 1 9 5 311 1 317 165 8 55 56 60 0 t 0 0 0 0 0 0 0 0 89 94 183 24 4 2 0 1 3 310 0 150 9 52 108 103 0
ABI5.DAP_M0201_AthalianaCistrome_shift6 (ABI5.DAP:M0201:AthalianaCistrome)	0.874	0.782	8.245	0.951	0.958	40	3	12	14	29	19.600	8	; dyads_test_vs_ctrl_m2 versus ABI5.DAP_M0201_AthalianaCistrome (ABI5.DAP:M0201:AthalianaCistrome); m=8/101; ncol2=18; w=17; offset=-1; strand=D; shift=6; score= 19.6; ------wdrwgrwsACGTGKCarw- ; cor=0.874; Ncor=0.782; logoDP=8.245; NsEucl=0.951; NSW=0.958; rcor=40; rNcor=3; rlogoDP=12; rNsEucl=14; rNSW=29; rank_mean=19.600; match_rank=8 a 0 0 0 0 0 0 241 217 224 161 44 157 198 0 595 0 0 0 0 0 27 394 151 190 0 c 0 0 0 0 0 0 71 59 80 39 19 119 92 289 0 595 0 0 0 0 568 50 124 117 0 g 0 0 0 0 0 0 131 167 158 98 400 296 0 294 0 0 595 0 595 446 0 123 174 87 0 t 0 0 0 0 0 0 152 152 133 297 132 23 305 12 0 0 0 595 0 149 0 28 146 201 0
PIF3_PIF3_1_Athamap_shift7 (PIF3:PIF3_1:Athamap)	0.859	0.859	8.503	0.950	0.954	49	1	7	18	35	22.000	12	; dyads_test_vs_ctrl_m2 versus PIF3_PIF3_1_Athamap (PIF3:PIF3_1:Athamap); m=12/101; ncol2=18; w=18; offset=0; strand=D; shift=7; score= 22; -------gkrggmCACGTGrmswCk ; cor=0.859; Ncor=0.859; logoDP=8.503; NsEucl=0.950; NSW=0.954; rcor=49; rNcor=1; rlogoDP=7; rNsEucl=18; rNSW=35; rank_mean=22.000; match_rank=12 a 0 0 0 0 0 0 0 2 5 11 6 5 11 0 27 0 0 0 0 11 9 3 11 4 4 c 0 0 0 0 0 0 0 5 1 2 0 3 11 27 0 27 0 0 0 2 12 9 6 19 2 g 0 0 0 0 0 0 0 15 10 12 17 17 5 0 0 0 27 0 27 13 6 13 0 4 9 t 0 0 0 0 0 0 0 5 11 2 4 2 0 0 0 0 0 27 0 1 0 2 10 0 12
PIF3_PIF3_2_Athamap_shift8 (PIF3:PIF3_2:Athamap)	0.805	0.760	8.808	0.937	0.933	76	4	2	35	55	34.400	27	; dyads_test_vs_ctrl_m2 versus PIF3_PIF3_2_Athamap (PIF3:PIF3_2:Athamap); m=27/101; ncol2=17; w=17; offset=1; strand=D; shift=8; score= 34.4; --------rdrvCCACGTGGvmvsy ; cor=0.805; Ncor=0.760; logoDP=8.808; NsEucl=0.937; NSW=0.933; rcor=76; rNcor=4; rlogoDP=2; rNsEucl=35; rNSW=55; rank_mean=34.400; match_rank=27 a 0 0 0 0 0 0 0 0 15 9 10 8 1 0 32 0 0 0 0 0 9 15 11 7 4 c 0 0 0 0 0 0 0 0 2 4 2 11 26 32 0 32 0 0 0 0 10 15 13 8 11 g 0 0 0 0 0 0 0 0 9 10 13 13 5 0 0 0 32 0 32 32 11 0 8 11 6 t 0 0 0 0 0 0 0 0 6 9 7 0 0 0 0 0 0 32 0 0 2 2 0 6 11