One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/04/compare-matrices_2019-07-04.155753_aoBaHo/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_2019-07-04.155753_aoBaHo/compare-matrices.tab

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift0 ; 6 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=13; shift=0; ncol=13; wmGGACGCGGTkk ; Alignment reference a 31 38 15 8 104 18 9 10 6 7 12 26 21 c 21 29 9 10 1 82 5 90 3 7 9 20 19 g 27 18 78 87 5 6 93 6 100 85 6 34 31 t 34 28 11 8 3 7 6 7 4 14 86 33 42

CMTA2_MA0969.1_JASPAR_rc_shift4 (CMTA2:MA0969.1:JASPAR_rc) 0.906 0.627 0.749 0.940 0.968 1 2 3 1 1 1.600 1
; dyads_test_vs_ctrl_m1 versus CMTA2_MA0969.1_JASPAR_rc (CMTA2:MA0969.1:JASPAR_rc); m=1/5; ncol2=9; w=9; offset=4; strand=R; shift=4; score= 1.6; ----ACRCGstww ; cor=0.906; Ncor=0.627; logoDP=0.749; NsEucl=0.940; NSW=0.968; rcor=1; rNcor=2; rlogoDP=3; rNsEucl=1; rNSW=1; rank_mean=1.600; match_rank=1 a 0 0 0 0 928 15 280 1 11 36 243 260 264 c 0 0 0 0 54 970 7 970 8 306 243 176 220 g 0 0 0 0 11 7 682 11 955 438 121 237 203 t 0 0 0 0 7 8 31 18 26 220 393 327 313

AT5G64220_M0582_1.02_CISBP_rc_shift4 (AT5G64220:M0582_1.02:CISBP_rc) 0.905 0.627 0.755 0.940 0.968 2 3 2 2 2 2.200 2
; dyads_test_vs_ctrl_m1 versus AT5G64220_M0582_1.02_CISBP_rc (AT5G64220:M0582_1.02:CISBP_rc); m=2/5; ncol2=9; w=9; offset=4; strand=R; shift=4; score= 2.2; ----ACRCGsyww ; cor=0.905; Ncor=0.627; logoDP=0.755; NsEucl=0.940; NSW=0.968; rcor=2; rNcor=3; rlogoDP=2; rNsEucl=2; rNSW=2; rank_mean=2.200; match_rank=2 a 0 0 0 0 93 2 28 0 1 3 24 25 26 c 0 0 0 0 5 97 1 97 1 31 25 18 22 g 0 0 0 0 1 1 68 1 95 44 12 24 20 t 0 0 0 0 1 0 3 2 3 22 39 33 32

CAMTA1_MA1197.1_JASPAR_rc_shift1 (CAMTA1:MA1197.1:JASPAR_rc) 0.729 0.673 3.455 0.911 0.904 5 1 1 5 5 3.400 3
; dyads_test_vs_ctrl_m1 versus CAMTA1_MA1197.1_JASPAR_rc (CAMTA1:MA1197.1:JASPAR_rc); m=3/5; ncol2=12; w=12; offset=1; strand=R; shift=1; score= 3.4; -yhmACGCGytTt ; cor=0.729; Ncor=0.673; logoDP=3.455; NsEucl=0.911; NSW=0.904; rcor=5; rNcor=1; rlogoDP=1; rNsEucl=5; rNSW=5; rank_mean=3.400; match_rank=3 a 0 133 174 151 595 0 20 0 0 1 55 77 124 c 0 170 156 326 3 598 0 598 0 285 132 45 117 g 0 58 33 58 0 0 578 0 598 140 6 46 56 t 0 237 235 63 0 0 0 0 0 172 405 430 301

CAMTA3_M0581_1.02_CISBP_rc_shift1 (CAMTA3:M0581_1.02:CISBP_rc) 0.861 0.596 0.713 0.926 0.950 4 5 5 4 4 4.400 5
; dyads_test_vs_ctrl_m1 versus CAMTA3_M0581_1.02_CISBP_rc (CAMTA3:M0581_1.02:CISBP_rc); m=5/5; ncol2=9; w=9; offset=1; strand=R; shift=1; score= 4.4; -vbrACrCGg--- ; cor=0.861; Ncor=0.596; logoDP=0.713; NsEucl=0.926; NSW=0.950; rcor=4; rNcor=5; rlogoDP=5; rNsEucl=4; rNSW=4; rank_mean=4.400; match_rank=5 a 0 25 21 28 100 0 27 1 1 4 0 0 0 c 0 25 25 21 0 96 0 96 0 18 0 0 0 g 0 26 25 27 0 0 66 0 97 54 0 0 0 t 0 24 29 24 0 4 7 3 2 24 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=13; shift=0; ncol=13; wmGGACGCGGTkk ; Alignment reference a 31 38 15 8 104 18 9 10 6 7 12 26 21 c 21 29 9 10 1 82 5 90 3 7 9 20 19 g 27 18 78 87 5 6 93 6 100 85 6 34 31 t 34 28 11 8 3 7 6 7 4 14 86 33 42
CMTA2_MA0969.1_JASPAR_rc_shift4 (CMTA2:MA0969.1:JASPAR_rc)	0.906	0.627	0.749	0.940	0.968	1	2	3	1	1	1.600	1	; dyads_test_vs_ctrl_m1 versus CMTA2_MA0969.1_JASPAR_rc (CMTA2:MA0969.1:JASPAR_rc); m=1/5; ncol2=9; w=9; offset=4; strand=R; shift=4; score= 1.6; ----ACRCGstww ; cor=0.906; Ncor=0.627; logoDP=0.749; NsEucl=0.940; NSW=0.968; rcor=1; rNcor=2; rlogoDP=3; rNsEucl=1; rNSW=1; rank_mean=1.600; match_rank=1 a 0 0 0 0 928 15 280 1 11 36 243 260 264 c 0 0 0 0 54 970 7 970 8 306 243 176 220 g 0 0 0 0 11 7 682 11 955 438 121 237 203 t 0 0 0 0 7 8 31 18 26 220 393 327 313
AT5G64220_M0582_1.02_CISBP_rc_shift4 (AT5G64220:M0582_1.02:CISBP_rc)	0.905	0.627	0.755	0.940	0.968	2	3	2	2	2	2.200	2	; dyads_test_vs_ctrl_m1 versus AT5G64220_M0582_1.02_CISBP_rc (AT5G64220:M0582_1.02:CISBP_rc); m=2/5; ncol2=9; w=9; offset=4; strand=R; shift=4; score= 2.2; ----ACRCGsyww ; cor=0.905; Ncor=0.627; logoDP=0.755; NsEucl=0.940; NSW=0.968; rcor=2; rNcor=3; rlogoDP=2; rNsEucl=2; rNSW=2; rank_mean=2.200; match_rank=2 a 0 0 0 0 93 2 28 0 1 3 24 25 26 c 0 0 0 0 5 97 1 97 1 31 25 18 22 g 0 0 0 0 1 1 68 1 95 44 12 24 20 t 0 0 0 0 1 0 3 2 3 22 39 33 32
CAMTA1_MA1197.1_JASPAR_rc_shift1 (CAMTA1:MA1197.1:JASPAR_rc)	0.729	0.673	3.455	0.911	0.904	5	1	1	5	5	3.400	3	; dyads_test_vs_ctrl_m1 versus CAMTA1_MA1197.1_JASPAR_rc (CAMTA1:MA1197.1:JASPAR_rc); m=3/5; ncol2=12; w=12; offset=1; strand=R; shift=1; score= 3.4; -yhmACGCGytTt ; cor=0.729; Ncor=0.673; logoDP=3.455; NsEucl=0.911; NSW=0.904; rcor=5; rNcor=1; rlogoDP=1; rNsEucl=5; rNSW=5; rank_mean=3.400; match_rank=3 a 0 133 174 151 595 0 20 0 0 1 55 77 124 c 0 170 156 326 3 598 0 598 0 285 132 45 117 g 0 58 33 58 0 0 578 0 598 140 6 46 56 t 0 237 235 63 0 0 0 0 0 172 405 430 301
CAMTA3_M0581_1.02_CISBP_rc_shift1 (CAMTA3:M0581_1.02:CISBP_rc)	0.861	0.596	0.713	0.926	0.950	4	5	5	4	4	4.400	5	; dyads_test_vs_ctrl_m1 versus CAMTA3_M0581_1.02_CISBP_rc (CAMTA3:M0581_1.02:CISBP_rc); m=5/5; ncol2=9; w=9; offset=1; strand=R; shift=1; score= 4.4; -vbrACrCGg--- ; cor=0.861; Ncor=0.596; logoDP=0.713; NsEucl=0.926; NSW=0.950; rcor=4; rNcor=5; rlogoDP=5; rNsEucl=4; rNSW=4; rank_mean=4.400; match_rank=5 a 0 25 21 28 100 0 27 1 1 4 0 0 0 c 0 25 25 21 0 96 0 96 0 18 0 0 0 g 0 26 25 27 0 0 66 0 97 54 0 0 0 t 0 24 29 24 0 4 7 3 2 24 0 0 0