One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/apache/2019/10/25/compare-matrices_2019-10-25.153146_k6ifDv/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_2019-10-25.153146_k6ifDv/compare-matrices.tab

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift5 ; 112 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

HY5_MA0551.1_JASPAR_shift5 (HY5:MA0551.1:JASPAR) 0.920 0.920 8.196 0.957 0.971 12 1 10 6 8 7.400 1
; dyads_test_vs_ctrl_m1 versus HY5_MA0551.1_JASPAR (HY5:MA0551.1:JASPAR); m=1/111; ncol2=16; w=16; offset=0; strand=D; shift=5; score= 7.4; -----wwtGmCACGTGkCaww--- ; cor=0.920; Ncor=0.920; logoDP=8.196; NsEucl=0.957; NSW=0.971; rcor=12; rNcor=1; rlogoDP=10; rNsEucl=6; rNSW=8; rank_mean=7.400; match_rank=1 a 0 0 0 0 0 103 108 52 9 150 0 310 3 1 0 2 4 24 183 94 89 0 0 0 c 0 0 0 0 0 60 56 55 8 165 317 1 311 5 9 1 1 279 30 62 68 0 0 0 g 0 0 0 0 0 68 62 30 279 1 1 9 5 311 1 317 165 8 55 56 60 0 0 0 t 0 0 0 0 0 89 94 183 24 4 2 0 1 3 310 0 150 9 52 108 103 0 0 0

BZR1_MA0550.1_JASPAR_shift6 (BZR1:MA0550.1:JASPAR) 0.867 0.758 7.339 0.942 0.953 40 2 33 16 22 22.600 6
; dyads_test_vs_ctrl_m1 versus BZR1_MA0550.1_JASPAR (BZR1:MA0550.1:JASPAR); m=6/111; ncol2=14; w=14; offset=1; strand=D; shift=6; score= 22.6; ------mmkmCACGTGdvmm---- ; cor=0.867; Ncor=0.758; logoDP=7.339; NsEucl=0.942; NSW=0.953; rcor=40; rNcor=2; rlogoDP=33; rNsEucl=16; rNSW=22; rank_mean=22.600; match_rank=6 a 0 0 0 0 0 0 63 55 30 49 0 147 6 0 0 6 42 41 42 81 0 0 0 0 c 0 0 0 0 0 0 60 47 20 66 153 2 147 0 0 5 0 53 61 39 0 0 0 0 g 0 0 0 0 0 0 30 27 52 26 0 0 0 153 0 142 39 43 22 0 0 0 0 0 t 0 0 0 0 0 0 0 24 51 12 0 4 0 0 153 0 72 16 28 33 0 0 0 0

PIF3_PIF3_1_Athamap_rc_shift4 (PIF3:PIF3_1:Athamap_rc) 0.834 0.741 8.317 0.940 0.941 55 3 5 17 31 22.200 5
; dyads_test_vs_ctrl_m1 versus PIF3_PIF3_1_Athamap_rc (PIF3:PIF3_1:Athamap_rc); m=5/111; ncol2=18; w=16; offset=-1; strand=R; shift=4; score= 22.2; ----mGwskyCACGTGkccymc-- ; cor=0.834; Ncor=0.741; logoDP=8.317; NsEucl=0.940; NSW=0.941; rcor=55; rNcor=3; rlogoDP=5; rNsEucl=17; rNSW=31; rank_mean=22.200; match_rank=5 a 0 0 0 0 12 0 10 2 0 1 0 27 0 0 0 0 0 2 4 2 11 5 0 0 c 0 0 0 0 9 4 0 13 6 13 27 0 27 0 0 0 5 17 17 12 10 15 0 0 g 0 0 0 0 2 19 6 9 12 2 0 0 0 27 0 27 11 3 0 2 1 5 0 0 t 0 0 0 0 4 4 11 3 9 11 0 0 0 0 27 0 11 5 6 11 5 2 0 0

ABI5.DAP_M0201_AthalianaCistrome_rc_shift5 (ABI5.DAP:M0201:AthalianaCistrome_rc) 0.818 0.727 2.483 0.937 0.936 73 4 79 21 38 43.000 31
; dyads_test_vs_ctrl_m1 versus ABI5.DAP_M0201_AthalianaCistrome_rc (ABI5.DAP:M0201:AthalianaCistrome_rc); m=31/111; ncol2=18; w=16; offset=0; strand=R; shift=5; score= 43; -----wytGMCACGTswycwyhw- ; cor=0.818; Ncor=0.727; logoDP=2.483; NsEucl=0.937; NSW=0.936; rcor=73; rNcor=4; rlogoDP=79; rNsEucl=21; rNSW=38; rank_mean=43.000; match_rank=31 a 0 0 0 0 0 201 146 28 0 149 0 595 0 0 0 12 305 23 132 297 133 152 152 0 c 0 0 0 0 0 87 174 123 0 446 595 0 595 0 0 294 0 296 400 98 158 167 131 0 g 0 0 0 0 0 117 124 50 568 0 0 0 0 595 0 289 92 119 19 39 80 59 71 0 t 0 0 0 0 0 190 151 394 27 0 0 0 0 0 595 0 198 157 44 161 224 217 241 0

dyads_test_vs_ctrl_m1_shift5 (dyads_test_vs_ctrl_m1)
; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=16; shift=5; ncol=24; -----dkgGACACGTGTCcmy--- ; Alignment reference a 0 0 0 0 0 28 19 16 7 73 1 98 2 3 1 5 5 9 23 33 26 0 0 0 c 0 0 0 0 0 20 25 22 6 21 96 2 97 3 4 3 6 82 45 28 30 0 0 0 g 0 0 0 0 0 30 28 45 83 6 3 4 3 97 2 96 20 6 21 24 20 0 0 0 t 0 0 0 0 0 27 33 22 9 5 5 1 3 2 98 1 74 8 16 20 29 0 0 0

Matrix name	cor	Ncor ▴	logoDP	NsEucl	NSW	rcor	rNcor	rlogoDP	rNsEucl	rNSW	rank_mean	match_rank	Aligned matrices
HY5_MA0551.1_JASPAR_shift5 (HY5:MA0551.1:JASPAR)	0.920	0.920	8.196	0.957	0.971	12	1	10	6	8	7.400	1	; dyads_test_vs_ctrl_m1 versus HY5_MA0551.1_JASPAR (HY5:MA0551.1:JASPAR); m=1/111; ncol2=16; w=16; offset=0; strand=D; shift=5; score= 7.4; -----wwtGmCACGTGkCaww--- ; cor=0.920; Ncor=0.920; logoDP=8.196; NsEucl=0.957; NSW=0.971; rcor=12; rNcor=1; rlogoDP=10; rNsEucl=6; rNSW=8; rank_mean=7.400; match_rank=1 a 0 0 0 0 0 103 108 52 9 150 0 310 3 1 0 2 4 24 183 94 89 0 0 0 c 0 0 0 0 0 60 56 55 8 165 317 1 311 5 9 1 1 279 30 62 68 0 0 0 g 0 0 0 0 0 68 62 30 279 1 1 9 5 311 1 317 165 8 55 56 60 0 0 0 t 0 0 0 0 0 89 94 183 24 4 2 0 1 3 310 0 150 9 52 108 103 0 0 0
BZR1_MA0550.1_JASPAR_shift6 (BZR1:MA0550.1:JASPAR)	0.867	0.758	7.339	0.942	0.953	40	2	33	16	22	22.600	6	; dyads_test_vs_ctrl_m1 versus BZR1_MA0550.1_JASPAR (BZR1:MA0550.1:JASPAR); m=6/111; ncol2=14; w=14; offset=1; strand=D; shift=6; score= 22.6; ------mmkmCACGTGdvmm---- ; cor=0.867; Ncor=0.758; logoDP=7.339; NsEucl=0.942; NSW=0.953; rcor=40; rNcor=2; rlogoDP=33; rNsEucl=16; rNSW=22; rank_mean=22.600; match_rank=6 a 0 0 0 0 0 0 63 55 30 49 0 147 6 0 0 6 42 41 42 81 0 0 0 0 c 0 0 0 0 0 0 60 47 20 66 153 2 147 0 0 5 0 53 61 39 0 0 0 0 g 0 0 0 0 0 0 30 27 52 26 0 0 0 153 0 142 39 43 22 0 0 0 0 0 t 0 0 0 0 0 0 0 24 51 12 0 4 0 0 153 0 72 16 28 33 0 0 0 0
PIF3_PIF3_1_Athamap_rc_shift4 (PIF3:PIF3_1:Athamap_rc)	0.834	0.741	8.317	0.940	0.941	55	3	5	17	31	22.200	5	; dyads_test_vs_ctrl_m1 versus PIF3_PIF3_1_Athamap_rc (PIF3:PIF3_1:Athamap_rc); m=5/111; ncol2=18; w=16; offset=-1; strand=R; shift=4; score= 22.2; ----mGwskyCACGTGkccymc-- ; cor=0.834; Ncor=0.741; logoDP=8.317; NsEucl=0.940; NSW=0.941; rcor=55; rNcor=3; rlogoDP=5; rNsEucl=17; rNSW=31; rank_mean=22.200; match_rank=5 a 0 0 0 0 12 0 10 2 0 1 0 27 0 0 0 0 0 2 4 2 11 5 0 0 c 0 0 0 0 9 4 0 13 6 13 27 0 27 0 0 0 5 17 17 12 10 15 0 0 g 0 0 0 0 2 19 6 9 12 2 0 0 0 27 0 27 11 3 0 2 1 5 0 0 t 0 0 0 0 4 4 11 3 9 11 0 0 0 0 27 0 11 5 6 11 5 2 0 0
ABI5.DAP_M0201_AthalianaCistrome_rc_shift5 (ABI5.DAP:M0201:AthalianaCistrome_rc)	0.818	0.727	2.483	0.937	0.936	73	4	79	21	38	43.000	31	; dyads_test_vs_ctrl_m1 versus ABI5.DAP_M0201_AthalianaCistrome_rc (ABI5.DAP:M0201:AthalianaCistrome_rc); m=31/111; ncol2=18; w=16; offset=0; strand=R; shift=5; score= 43; -----wytGMCACGTswycwyhw- ; cor=0.818; Ncor=0.727; logoDP=2.483; NsEucl=0.937; NSW=0.936; rcor=73; rNcor=4; rlogoDP=79; rNsEucl=21; rNSW=38; rank_mean=43.000; match_rank=31 a 0 0 0 0 0 201 146 28 0 149 0 595 0 0 0 12 305 23 132 297 133 152 152 0 c 0 0 0 0 0 87 174 123 0 446 595 0 595 0 0 294 0 296 400 98 158 167 131 0 g 0 0 0 0 0 117 124 50 568 0 0 0 0 595 0 289 92 119 19 39 80 59 71 0 t 0 0 0 0 0 190 151 394 27 0 0 0 0 0 595 0 198 157 44 161 224 217 241 0
dyads_test_vs_ctrl_m1_shift5 (dyads_test_vs_ctrl_m1)													; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=16; shift=5; ncol=24; -----dkgGACACGTGTCcmy--- ; Alignment reference a 0 0 0 0 0 28 19 16 7 73 1 98 2 3 1 5 5 9 23 33 26 0 0 0 c 0 0 0 0 0 20 25 22 6 21 96 2 97 3 4 3 6 82 45 28 30 0 0 0 g 0 0 0 0 0 30 28 45 83 6 3 4 3 97 2 96 20 6 21 24 20 0 0 0 t 0 0 0 0 0 27 33 22 9 5 5 1 3 2 98 1 74 8 16 20 29 0 0 0