One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/07/compare-matrices_2019-07-07.131542_yXBujP/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_2019-07-07.131542_yXBujP/compare-matrices.tab

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift6 ; 11 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_shift6 (dyads_test_vs_ctrl_m1)
; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=17; shift=6; ncol=23; ------dwtTTGGCGGGAAAwtr ; Alignment reference a 0 0 0 0 0 0 13 16 7 6 4 6 0 8 4 1 0 42 39 38 21 10 18 c 0 0 0 0 0 0 1 6 4 2 1 1 0 35 0 3 0 2 1 1 4 8 5 g 0 0 0 0 0 0 21 10 5 7 5 39 48 0 42 44 46 2 3 5 9 11 15 t 0 0 0 0 0 0 13 16 32 33 38 2 0 5 2 0 2 2 5 4 14 19 10

DEL1.DAP_M0367_AthalianaCistrome_rc_shift7 (DEL1.DAP:M0367:AthalianaCistrome_rc) 0.962 0.700 0.405 0.959 0.973 3 3 7 1 3 3.400 1
; dyads_test_vs_ctrl_m1 versus DEL1.DAP_M0367_AthalianaCistrome_rc (DEL1.DAP:M0367:AthalianaCistrome_rc); m=1/10; ncol2=21; w=16; offset=1; strand=R; shift=7; score= 3.4; -------TTTTGGCGGGAAAwwt ; cor=0.962; Ncor=0.700; logoDP=0.405; NsEucl=0.959; NSW=0.973; rcor=3; rNcor=3; rlogoDP=7; rNsEucl=1; rNSW=3; rank_mean=3.400; match_rank=1 a 0 0 0 0 0 0 0 75 44 25 12 1 0 0 0 0 0 325 324 279 203 87 70 c 0 0 0 0 0 0 0 0 2 4 0 16 1 326 0 3 3 0 1 10 22 36 44 g 0 0 0 0 0 0 0 5 1 3 11 308 324 0 326 323 323 0 0 13 15 21 57 t 0 0 0 0 0 0 0 246 279 294 303 1 1 0 0 0 0 1 1 24 86 182 155

DEL2.DAP_M0363_AthalianaCistrome_shift1 (DEL2.DAP:M0363:AthalianaCistrome) 0.953 0.650 9.961 0.952 0.966 4 4 4 3 5 4.000 3
; dyads_test_vs_ctrl_m1 versus DEL2.DAP_M0363_AthalianaCistrome (DEL2.DAP:M0363:AthalianaCistrome); m=3/10; ncol2=20; w=15; offset=-5; strand=D; shift=1; score= 4; -wwwwdtTTTTGGCGGGAAAA-- ; cor=0.953; Ncor=0.650; logoDP=9.961; NsEucl=0.952; NSW=0.966; rcor=4; rNcor=4; rlogoDP=4; rNsEucl=3; rNSW=5; rank_mean=4.000; match_rank=3 a 0 192 234 317 185 180 131 61 38 28 21 7 2 15 5 0 33 570 565 527 399 0 0 c 0 25 25 23 138 29 18 11 3 4 0 7 0 550 0 8 6 0 2 15 41 0 0 g 0 111 56 65 49 166 103 21 4 12 12 550 574 0 571 566 532 6 7 12 18 0 0 t 0 248 261 171 204 201 324 483 531 532 543 12 0 11 0 2 5 0 2 22 118 0 0

DEL1.ampDAP_M0365_AthalianaCistrome_shift6 (DEL1.ampDAP:M0365:AthalianaCistrome) 0.952 0.840 10.825 0.948 0.960 5 1 2 6 6 4.000 4
; dyads_test_vs_ctrl_m1 versus DEL1.ampDAP_M0365_AthalianaCistrome (DEL1.ampDAP:M0365:AthalianaCistrome); m=4/10; ncol2=15; w=15; offset=0; strand=D; shift=6; score= 4; ------tTTTTGGCGGGAAAA-- ; cor=0.952; Ncor=0.840; logoDP=10.825; NsEucl=0.948; NSW=0.960; rcor=5; rNcor=1; rlogoDP=2; rNsEucl=6; rNSW=6; rank_mean=4.000; match_rank=4 a 0 0 0 0 0 0 136 64 16 9 10 5 2 1 0 0 10 581 584 541 419 0 0 c 0 0 0 0 0 0 6 2 0 0 1 4 0 583 0 11 3 0 0 5 33 0 0 g 0 0 0 0 0 0 125 12 0 1 3 571 582 0 583 572 569 3 0 9 16 0 0 t 0 0 0 0 0 0 317 506 568 574 570 4 0 0 1 1 2 0 0 29 116 0 0

DEL2.ampDAP_M0366_AthalianaCistrome_shift6 (DEL2.ampDAP:M0366:AthalianaCistrome) 0.951 0.839 11.011 0.948 0.959 6 2 1 7 7 4.600 5
; dyads_test_vs_ctrl_m1 versus DEL2.ampDAP_M0366_AthalianaCistrome (DEL2.ampDAP:M0366:AthalianaCistrome); m=5/10; ncol2=15; w=15; offset=0; strand=D; shift=6; score= 4.6; ------tTTTTGGCGGGAAAA-- ; cor=0.951; Ncor=0.839; logoDP=11.011; NsEucl=0.948; NSW=0.959; rcor=6; rNcor=2; rlogoDP=1; rNsEucl=7; rNSW=7; rank_mean=4.600; match_rank=5 a 0 0 0 0 0 0 114 57 26 20 8 3 0 1 1 1 0 545 549 526 425 0 0 c 0 0 0 0 0 0 5 1 2 0 1 2 0 548 0 8 6 0 0 7 28 0 0 g 0 0 0 0 0 0 135 7 1 4 3 543 549 0 547 540 542 4 0 6 12 0 0 t 0 0 0 0 0 0 295 484 520 525 537 1 0 0 1 0 1 0 0 10 84 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_shift6 (dyads_test_vs_ctrl_m1)													; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=17; shift=6; ncol=23; ------dwtTTGGCGGGAAAwtr ; Alignment reference a 0 0 0 0 0 0 13 16 7 6 4 6 0 8 4 1 0 42 39 38 21 10 18 c 0 0 0 0 0 0 1 6 4 2 1 1 0 35 0 3 0 2 1 1 4 8 5 g 0 0 0 0 0 0 21 10 5 7 5 39 48 0 42 44 46 2 3 5 9 11 15 t 0 0 0 0 0 0 13 16 32 33 38 2 0 5 2 0 2 2 5 4 14 19 10
DEL1.DAP_M0367_AthalianaCistrome_rc_shift7 (DEL1.DAP:M0367:AthalianaCistrome_rc)	0.962	0.700	0.405	0.959	0.973	3	3	7	1	3	3.400	1	; dyads_test_vs_ctrl_m1 versus DEL1.DAP_M0367_AthalianaCistrome_rc (DEL1.DAP:M0367:AthalianaCistrome_rc); m=1/10; ncol2=21; w=16; offset=1; strand=R; shift=7; score= 3.4; -------TTTTGGCGGGAAAwwt ; cor=0.962; Ncor=0.700; logoDP=0.405; NsEucl=0.959; NSW=0.973; rcor=3; rNcor=3; rlogoDP=7; rNsEucl=1; rNSW=3; rank_mean=3.400; match_rank=1 a 0 0 0 0 0 0 0 75 44 25 12 1 0 0 0 0 0 325 324 279 203 87 70 c 0 0 0 0 0 0 0 0 2 4 0 16 1 326 0 3 3 0 1 10 22 36 44 g 0 0 0 0 0 0 0 5 1 3 11 308 324 0 326 323 323 0 0 13 15 21 57 t 0 0 0 0 0 0 0 246 279 294 303 1 1 0 0 0 0 1 1 24 86 182 155
DEL2.DAP_M0363_AthalianaCistrome_shift1 (DEL2.DAP:M0363:AthalianaCistrome)	0.953	0.650	9.961	0.952	0.966	4	4	4	3	5	4.000	3	; dyads_test_vs_ctrl_m1 versus DEL2.DAP_M0363_AthalianaCistrome (DEL2.DAP:M0363:AthalianaCistrome); m=3/10; ncol2=20; w=15; offset=-5; strand=D; shift=1; score= 4; -wwwwdtTTTTGGCGGGAAAA-- ; cor=0.953; Ncor=0.650; logoDP=9.961; NsEucl=0.952; NSW=0.966; rcor=4; rNcor=4; rlogoDP=4; rNsEucl=3; rNSW=5; rank_mean=4.000; match_rank=3 a 0 192 234 317 185 180 131 61 38 28 21 7 2 15 5 0 33 570 565 527 399 0 0 c 0 25 25 23 138 29 18 11 3 4 0 7 0 550 0 8 6 0 2 15 41 0 0 g 0 111 56 65 49 166 103 21 4 12 12 550 574 0 571 566 532 6 7 12 18 0 0 t 0 248 261 171 204 201 324 483 531 532 543 12 0 11 0 2 5 0 2 22 118 0 0
DEL1.ampDAP_M0365_AthalianaCistrome_shift6 (DEL1.ampDAP:M0365:AthalianaCistrome)	0.952	0.840	10.825	0.948	0.960	5	1	2	6	6	4.000	4	; dyads_test_vs_ctrl_m1 versus DEL1.ampDAP_M0365_AthalianaCistrome (DEL1.ampDAP:M0365:AthalianaCistrome); m=4/10; ncol2=15; w=15; offset=0; strand=D; shift=6; score= 4; ------tTTTTGGCGGGAAAA-- ; cor=0.952; Ncor=0.840; logoDP=10.825; NsEucl=0.948; NSW=0.960; rcor=5; rNcor=1; rlogoDP=2; rNsEucl=6; rNSW=6; rank_mean=4.000; match_rank=4 a 0 0 0 0 0 0 136 64 16 9 10 5 2 1 0 0 10 581 584 541 419 0 0 c 0 0 0 0 0 0 6 2 0 0 1 4 0 583 0 11 3 0 0 5 33 0 0 g 0 0 0 0 0 0 125 12 0 1 3 571 582 0 583 572 569 3 0 9 16 0 0 t 0 0 0 0 0 0 317 506 568 574 570 4 0 0 1 1 2 0 0 29 116 0 0
DEL2.ampDAP_M0366_AthalianaCistrome_shift6 (DEL2.ampDAP:M0366:AthalianaCistrome)	0.951	0.839	11.011	0.948	0.959	6	2	1	7	7	4.600	5	; dyads_test_vs_ctrl_m1 versus DEL2.ampDAP_M0366_AthalianaCistrome (DEL2.ampDAP:M0366:AthalianaCistrome); m=5/10; ncol2=15; w=15; offset=0; strand=D; shift=6; score= 4.6; ------tTTTTGGCGGGAAAA-- ; cor=0.951; Ncor=0.839; logoDP=11.011; NsEucl=0.948; NSW=0.959; rcor=6; rNcor=2; rlogoDP=1; rNsEucl=7; rNSW=7; rank_mean=4.600; match_rank=5 a 0 0 0 0 0 0 114 57 26 20 8 3 0 1 1 1 0 545 549 526 425 0 0 c 0 0 0 0 0 0 5 1 2 0 1 2 0 548 0 8 6 0 0 7 28 0 0 g 0 0 0 0 0 0 135 7 1 4 3 543 549 0 547 540 542 4 0 6 12 0 0 t 0 0 0 0 0 0 295 484 520 525 537 1 0 0 1 0 1 0 0 10 84 0 0