One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/03/compare-matrices_2019-07-03.154341_lxWP6C/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/2019/07/03/compare-matrices_2019-07-03.154341_lxWP6C/compare-matrices.tab

One-to-n matrix alignment; reference matrix: dyads_test_vs_ctrl_m1_shift3 ; 77 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_shift3 (dyads_test_vs_ctrl_m1)
; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=20; shift=3; ncol=26; ---wwwttGACACGTGTCaawhw--- ; Alignment reference a 0 0 0 66 60 52 46 33 14 143 8 181 10 10 3 6 14 27 90 89 72 51 65 0 0 0 c 0 0 0 31 33 34 30 36 12 30 175 2 170 3 7 4 6 142 33 27 33 51 29 0 0 0 g 0 0 0 29 48 33 26 33 141 6 4 7 3 170 2 173 29 12 37 31 36 33 31 0 0 0 t 0 0 0 67 52 74 91 91 26 14 6 3 10 10 181 10 144 12 33 46 52 58 68 0 0 0

HY5_MA0551.1_JASPAR_shift5 (HY5:MA0551.1:JASPAR) 0.943 0.755 7.589 0.964 0.979 3 3 10 1 1 3.600 1
; dyads_test_vs_ctrl_m1 versus HY5_MA0551.1_JASPAR (HY5:MA0551.1:JASPAR); m=1/76; ncol2=16; w=16; offset=2; strand=D; shift=5; score= 3.6; -----wwtGmCACGTGkCaww----- ; cor=0.943; Ncor=0.755; logoDP=7.589; NsEucl=0.964; NSW=0.979; rcor=3; rNcor=3; rlogoDP=10; rNsEucl=1; rNSW=1; rank_mean=3.600; 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 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 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 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 0 0

bHLH31_MA1359.1_JASPAR_shift3 (bHLH31:MA1359.1:JASPAR) 0.828 0.788 7.086 0.954 0.957 30 1 17 6 10 12.800 3
; dyads_test_vs_ctrl_m1 versus bHLH31_MA1359.1_JASPAR (bHLH31:MA1359.1:JASPAR); m=3/76; ncol2=21; w=20; offset=0; strand=D; shift=3; score= 12.8; ---swkgwgrCACGTGbswwwcwc-- ; cor=0.828; Ncor=0.788; logoDP=7.086; NsEucl=0.954; NSW=0.957; rcor=30; rNcor=1; rlogoDP=17; rNsEucl=6; rNSW=10; rank_mean=12.800; match_rank=3 a 0 0 0 138 263 97 136 164 126 153 0 595 0 48 0 0 83 113 190 187 155 101 251 98 0 0 c 0 0 0 179 44 122 100 116 131 142 595 0 581 0 0 0 167 182 141 121 95 257 101 259 0 0 g 0 0 0 215 54 204 230 83 231 194 0 0 0 547 0 595 180 163 94 97 87 146 83 115 0 0 t 0 0 0 63 234 172 129 232 107 106 0 0 14 0 595 0 165 137 170 190 258 91 160 123 0 0

bHLH34.DAP_M0166_AthalianaCistrome_rc_shift1 (bHLH34.DAP:M0166:AthalianaCistrome_rc) 0.869 0.756 0.353 0.960 0.967 12 2 73 2 4 18.600 8
; dyads_test_vs_ctrl_m1 versus bHLH34.DAP_M0166_AthalianaCistrome_rc (bHLH34.DAP:M0166:AthalianaCistrome_rc); m=8/76; ncol2=23; w=20; offset=-2; strand=R; shift=1; score= 18.6; -wcrwgytgrCACGTGycwwycac-- ; cor=0.869; Ncor=0.756; logoDP=0.353; NsEucl=0.960; NSW=0.967; rcor=12; rNcor=2; rlogoDP=73; rNsEucl=2; rNSW=4; rank_mean=18.600; match_rank=8 a 0 204 115 173 157 110 134 124 85 197 8 484 0 0 3 0 74 113 169 167 127 57 313 52 0 0 c 0 97 211 106 106 105 152 132 85 117 559 2 522 0 9 0 153 242 122 101 162 365 62 329 0 0 g 0 104 105 202 101 213 99 87 308 188 0 68 0 567 6 560 135 72 124 119 124 37 69 68 0 0 t 0 162 136 86 203 139 182 224 89 65 0 13 45 0 549 7 205 140 152 180 154 108 123 118 0 0

ABI5.DAP_M0201_AthalianaCistrome_rc_shift5 (ABI5.DAP:M0201:AthalianaCistrome_rc) 0.806 0.725 2.475 0.942 0.939 49 4 47 15 26 28.200 23
; dyads_test_vs_ctrl_m1 versus ABI5.DAP_M0201_AthalianaCistrome_rc (ABI5.DAP:M0201:AthalianaCistrome_rc); m=23/76; ncol2=18; w=18; offset=2; strand=R; shift=5; score= 28.2; -----wytGMCACGTswycwyhw--- ; cor=0.806; Ncor=0.725; logoDP=2.475; NsEucl=0.942; NSW=0.939; rcor=49; rNcor=4; rlogoDP=47; rNsEucl=15; rNSW=26; rank_mean=28.200; match_rank=23 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 0 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 0 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 0 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 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_shift3 (dyads_test_vs_ctrl_m1)													; dyads_test_vs_ctrl_m1; m=0 (reference); ncol1=20; shift=3; ncol=26; ---wwwttGACACGTGTCaawhw--- ; Alignment reference a 0 0 0 66 60 52 46 33 14 143 8 181 10 10 3 6 14 27 90 89 72 51 65 0 0 0 c 0 0 0 31 33 34 30 36 12 30 175 2 170 3 7 4 6 142 33 27 33 51 29 0 0 0 g 0 0 0 29 48 33 26 33 141 6 4 7 3 170 2 173 29 12 37 31 36 33 31 0 0 0 t 0 0 0 67 52 74 91 91 26 14 6 3 10 10 181 10 144 12 33 46 52 58 68 0 0 0
HY5_MA0551.1_JASPAR_shift5 (HY5:MA0551.1:JASPAR)	0.943	0.755	7.589	0.964	0.979	3	3	10	1	1	3.600	1	; dyads_test_vs_ctrl_m1 versus HY5_MA0551.1_JASPAR (HY5:MA0551.1:JASPAR); m=1/76; ncol2=16; w=16; offset=2; strand=D; shift=5; score= 3.6; -----wwtGmCACGTGkCaww----- ; cor=0.943; Ncor=0.755; logoDP=7.589; NsEucl=0.964; NSW=0.979; rcor=3; rNcor=3; rlogoDP=10; rNsEucl=1; rNSW=1; rank_mean=3.600; 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 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 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 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 0 0
bHLH31_MA1359.1_JASPAR_shift3 (bHLH31:MA1359.1:JASPAR)	0.828	0.788	7.086	0.954	0.957	30	1	17	6	10	12.800	3	; dyads_test_vs_ctrl_m1 versus bHLH31_MA1359.1_JASPAR (bHLH31:MA1359.1:JASPAR); m=3/76; ncol2=21; w=20; offset=0; strand=D; shift=3; score= 12.8; ---swkgwgrCACGTGbswwwcwc-- ; cor=0.828; Ncor=0.788; logoDP=7.086; NsEucl=0.954; NSW=0.957; rcor=30; rNcor=1; rlogoDP=17; rNsEucl=6; rNSW=10; rank_mean=12.800; match_rank=3 a 0 0 0 138 263 97 136 164 126 153 0 595 0 48 0 0 83 113 190 187 155 101 251 98 0 0 c 0 0 0 179 44 122 100 116 131 142 595 0 581 0 0 0 167 182 141 121 95 257 101 259 0 0 g 0 0 0 215 54 204 230 83 231 194 0 0 0 547 0 595 180 163 94 97 87 146 83 115 0 0 t 0 0 0 63 234 172 129 232 107 106 0 0 14 0 595 0 165 137 170 190 258 91 160 123 0 0
bHLH34.DAP_M0166_AthalianaCistrome_rc_shift1 (bHLH34.DAP:M0166:AthalianaCistrome_rc)	0.869	0.756	0.353	0.960	0.967	12	2	73	2	4	18.600	8	; dyads_test_vs_ctrl_m1 versus bHLH34.DAP_M0166_AthalianaCistrome_rc (bHLH34.DAP:M0166:AthalianaCistrome_rc); m=8/76; ncol2=23; w=20; offset=-2; strand=R; shift=1; score= 18.6; -wcrwgytgrCACGTGycwwycac-- ; cor=0.869; Ncor=0.756; logoDP=0.353; NsEucl=0.960; NSW=0.967; rcor=12; rNcor=2; rlogoDP=73; rNsEucl=2; rNSW=4; rank_mean=18.600; match_rank=8 a 0 204 115 173 157 110 134 124 85 197 8 484 0 0 3 0 74 113 169 167 127 57 313 52 0 0 c 0 97 211 106 106 105 152 132 85 117 559 2 522 0 9 0 153 242 122 101 162 365 62 329 0 0 g 0 104 105 202 101 213 99 87 308 188 0 68 0 567 6 560 135 72 124 119 124 37 69 68 0 0 t 0 162 136 86 203 139 182 224 89 65 0 13 45 0 549 7 205 140 152 180 154 108 123 118 0 0
ABI5.DAP_M0201_AthalianaCistrome_rc_shift5 (ABI5.DAP:M0201:AthalianaCistrome_rc)	0.806	0.725	2.475	0.942	0.939	49	4	47	15	26	28.200	23	; dyads_test_vs_ctrl_m1 versus ABI5.DAP_M0201_AthalianaCistrome_rc (ABI5.DAP:M0201:AthalianaCistrome_rc); m=23/76; ncol2=18; w=18; offset=2; strand=R; shift=5; score= 28.2; -----wytGMCACGTswycwyhw--- ; cor=0.806; Ncor=0.725; logoDP=2.475; NsEucl=0.942; NSW=0.939; rcor=49; rNcor=4; rlogoDP=47; rNsEucl=15; rNSW=26; rank_mean=28.200; match_rank=23 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 0 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 0 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 0 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 0 0