One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/apache/2019/10/25/compare-matrices_2019-10-25.151845_icUdke/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/apache/2019/10/25/compare-matrices_2019-10-25.151845_icUdke/compare-matrices.tab

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift0 ; 5 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_shift0 (dyads_test_vs_ctrl_m1)
; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=15; shift=0; ncol=15; ahaAAAGCCCAAawh ; Alignment reference a 61 47 97 112 130 137 15 2 8 2 148 127 98 42 47 c 28 41 31 19 10 1 6 152 148 154 6 8 26 30 44 g 33 28 10 13 6 22 136 6 1 1 0 7 10 32 27 t 40 46 24 18 16 2 5 2 5 5 8 20 28 58 44

DOF5.3_MA1071.1_JASPAR_shift0 (DOF5.3:MA1071.1:JASPAR) 0.901 0.421 1.178 0.941 0.975 1 1 3 1 1 1.400 1
; dyads_test_vs_ctrl_m1 versus DOF5.3_MA1071.1_JASPAR (DOF5.3:MA1071.1:JASPAR); m=1/4; ncol2=7; w=7; offset=0; strand=D; shift=0; score= 1.4; gawAAmG-------- ; cor=0.901; Ncor=0.421; logoDP=1.178; NsEucl=0.941; NSW=0.975; rcor=1; rNcor=1; rlogoDP=3; rNsEucl=1; rNSW=1; rank_mean=1.400; match_rank=1 a 247 327 396 842 850 611 66 0 0 0 0 0 0 0 0 c 247 213 128 61 79 329 52 0 0 0 0 0 0 0 0 g 262 228 146 17 0 14 767 0 0 0 0 0 0 0 0 t 244 233 331 81 70 47 116 0 0 0 0 0 0 0 0

TMO6_M0654_1.02_CISBP_shift0 (TMO6:M0654_1.02:CISBP) 0.901 0.421 1.169 0.941 0.975 2 2 4 2 2 2.400 2
; dyads_test_vs_ctrl_m1 versus TMO6_M0654_1.02_CISBP (TMO6:M0654_1.02:CISBP); m=2/4; ncol2=7; w=7; offset=0; strand=D; shift=0; score= 2.4; vawAAmG-------- ; cor=0.901; Ncor=0.421; logoDP=1.169; NsEucl=0.941; NSW=0.975; rcor=2; rNcor=2; rlogoDP=4; rNsEucl=2; rNSW=2; rank_mean=2.400; match_rank=2 a 25 33 40 84 85 61 7 0 0 0 0 0 0 0 0 c 25 21 13 6 8 33 5 0 0 0 0 0 0 0 0 g 26 23 14 2 0 1 76 0 0 0 0 0 0 0 0 t 24 23 33 8 7 5 12 0 0 0 0 0 0 0 0

DOF5.6_MA0983.1_JASPAR_shift0 (DOF5.6:MA0983.1:JASPAR) 0.769 0.410 1.682 0.908 0.933 3 3 2 3 3 2.800 3
; dyads_test_vs_ctrl_m1 versus DOF5.6_MA0983.1_JASPAR (DOF5.6:MA0983.1:JASPAR); m=3/4; ncol2=8; w=8; offset=0; strand=D; shift=0; score= 2.8; vawAAmGt------- ; cor=0.769; Ncor=0.410; logoDP=1.682; NsEucl=0.908; NSW=0.933; rcor=3; rNcor=3; rlogoDP=2; rNsEucl=3; rNSW=3; rank_mean=2.800; match_rank=3 a 254 364 432 955 928 613 50 152 0 0 0 0 0 0 0 c 257 170 84 35 40 308 28 247 0 0 0 0 0 0 0 g 262 227 108 1 1 56 884 213 0 0 0 0 0 0 0 t 228 239 376 10 32 24 38 388 0 0 0 0 0 0 0

DOF5.6_M0657_1.02_CISBP_shift0 (DOF5.6:M0657_1.02:CISBP) 0.768 0.410 1.691 0.908 0.932 4 4 1 4 4 3.400 4
; dyads_test_vs_ctrl_m1 versus DOF5.6_M0657_1.02_CISBP (DOF5.6:M0657_1.02:CISBP); m=4/4; ncol2=8; w=8; offset=0; strand=D; shift=0; score= 3.4; vawAAmGy------- ; cor=0.768; Ncor=0.410; logoDP=1.691; NsEucl=0.908; NSW=0.932; rcor=4; rNcor=4; rlogoDP=1; rNsEucl=4; rNSW=4; rank_mean=3.400; match_rank=4 a 25 36 43 96 93 61 5 15 0 0 0 0 0 0 0 c 26 17 8 3 4 31 3 25 0 0 0 0 0 0 0 g 26 23 11 0 0 6 88 21 0 0 0 0 0 0 0 t 23 24 38 1 3 2 4 39 0 0 0 0 0 0 0

Matrix name	cor	Ncor	logoDP	NsEucl	NSW	rcor	rNcor	rlogoDP	rNsEucl	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=15; shift=0; ncol=15; ahaAAAGCCCAAawh ; Alignment reference a 61 47 97 112 130 137 15 2 8 2 148 127 98 42 47 c 28 41 31 19 10 1 6 152 148 154 6 8 26 30 44 g 33 28 10 13 6 22 136 6 1 1 0 7 10 32 27 t 40 46 24 18 16 2 5 2 5 5 8 20 28 58 44
DOF5.3_MA1071.1_JASPAR_shift0 (DOF5.3:MA1071.1:JASPAR)	0.901	0.421	1.178	0.941	0.975	1	1	3	1	1	1.400	1	; dyads_test_vs_ctrl_m1 versus DOF5.3_MA1071.1_JASPAR (DOF5.3:MA1071.1:JASPAR); m=1/4; ncol2=7; w=7; offset=0; strand=D; shift=0; score= 1.4; gawAAmG-------- ; cor=0.901; Ncor=0.421; logoDP=1.178; NsEucl=0.941; NSW=0.975; rcor=1; rNcor=1; rlogoDP=3; rNsEucl=1; rNSW=1; rank_mean=1.400; match_rank=1 a 247 327 396 842 850 611 66 0 0 0 0 0 0 0 0 c 247 213 128 61 79 329 52 0 0 0 0 0 0 0 0 g 262 228 146 17 0 14 767 0 0 0 0 0 0 0 0 t 244 233 331 81 70 47 116 0 0 0 0 0 0 0 0
TMO6_M0654_1.02_CISBP_shift0 (TMO6:M0654_1.02:CISBP)	0.901	0.421	1.169	0.941	0.975	2	2	4	2	2	2.400	2	; dyads_test_vs_ctrl_m1 versus TMO6_M0654_1.02_CISBP (TMO6:M0654_1.02:CISBP); m=2/4; ncol2=7; w=7; offset=0; strand=D; shift=0; score= 2.4; vawAAmG-------- ; cor=0.901; Ncor=0.421; logoDP=1.169; NsEucl=0.941; NSW=0.975; rcor=2; rNcor=2; rlogoDP=4; rNsEucl=2; rNSW=2; rank_mean=2.400; match_rank=2 a 25 33 40 84 85 61 7 0 0 0 0 0 0 0 0 c 25 21 13 6 8 33 5 0 0 0 0 0 0 0 0 g 26 23 14 2 0 1 76 0 0 0 0 0 0 0 0 t 24 23 33 8 7 5 12 0 0 0 0 0 0 0 0
DOF5.6_MA0983.1_JASPAR_shift0 (DOF5.6:MA0983.1:JASPAR)	0.769	0.410	1.682	0.908	0.933	3	3	2	3	3	2.800	3	; dyads_test_vs_ctrl_m1 versus DOF5.6_MA0983.1_JASPAR (DOF5.6:MA0983.1:JASPAR); m=3/4; ncol2=8; w=8; offset=0; strand=D; shift=0; score= 2.8; vawAAmGt------- ; cor=0.769; Ncor=0.410; logoDP=1.682; NsEucl=0.908; NSW=0.933; rcor=3; rNcor=3; rlogoDP=2; rNsEucl=3; rNSW=3; rank_mean=2.800; match_rank=3 a 254 364 432 955 928 613 50 152 0 0 0 0 0 0 0 c 257 170 84 35 40 308 28 247 0 0 0 0 0 0 0 g 262 227 108 1 1 56 884 213 0 0 0 0 0 0 0 t 228 239 376 10 32 24 38 388 0 0 0 0 0 0 0
DOF5.6_M0657_1.02_CISBP_shift0 (DOF5.6:M0657_1.02:CISBP)	0.768	0.410	1.691	0.908	0.932	4	4	1	4	4	3.400	4	; dyads_test_vs_ctrl_m1 versus DOF5.6_M0657_1.02_CISBP (DOF5.6:M0657_1.02:CISBP); m=4/4; ncol2=8; w=8; offset=0; strand=D; shift=0; score= 3.4; vawAAmGy------- ; cor=0.768; Ncor=0.410; logoDP=1.691; NsEucl=0.908; NSW=0.932; rcor=4; rNcor=4; rlogoDP=1; rNsEucl=4; rNSW=4; rank_mean=3.400; match_rank=4 a 25 36 43 96 93 61 5 15 0 0 0 0 0 0 0 c 26 17 8 3 4 31 3 25 0 0 0 0 0 0 0 g 26 23 11 0 0 6 88 21 0 0 0 0 0 0 0 t 23 24 38 1 3 2 4 39 0 0 0 0 0 0 0