One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/dyads_m4/peak-motifs_dyads_m4.tf -format2 tf -file2 $RSAT/public_html/data/motif_databases/JASPAR/jaspar_core_vertebrates_2013-11.tf -mode matches -DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.75 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,logoDP,NIcor,NsEucl,SSD,NSW,match_rank,width,strand,offset,consensus,alignments_1ton -sort Ncor -o $RSAT/public_html/tmp/apache/2014/10/07/peak-motifs.2014-10-07.093009_2014-10-07.093009_rKpHEN/results/discovered_motifs/dyads_m4/peak-motifs_dyads_m4_vs_db_jaspar_core_vertebrates

One-to-n matrix alignment; reference matrix: dyads_m4_shift8 ; 17 matrices ; sort_field=rank_mean

Matrix name Aligned logos cor Ncor logoDP NIcor NsEucl SSD NSW rcor rNcor rlogoDP rNIcor rNsEucl rSSD rNSW rank_mean match_rank Aligned matrices
dyads_m4_shift8 (dyads_m4)
; dyads_m4; m=0 (reference); ncol1=13; shift=8; ncol=21; --------cyAAGGTCACCst ; Alignment reference a 0 0 0 0 0 0 0 0 16 15 64 78 0 0 0 0 76 0 1 19 16 c 0 0 0 0 0 0 0 0 26 32 4 0 1 0 0 78 0 77 75 25 16 g 0 0 0 0 0 0 0 0 19 11 9 0 77 78 0 0 2 1 2 20 19 t 0 0 0 0 0 0 0 0 17 20 1 0 0 0 78 0 0 0 0 14 27

MA0071.1_shift7 (RORA_1) 0.936 0.601 10.432 0.608 0.938 0.618 0.966 4 2 2 2 3 4 4 3.000 1
; dyads_m4 versus MA0071.1 (RORA_1); m=1/16; ncol2=10; w=9; offset=-1; strand=D; shift=7; score= 3; -------wwcwAGGTCA---- ; cor=0.936; Ncor=0.601; logoDP=10.432; NIcor=0.608; NsEucl=0.938; SSD=0.618; NSW=0.966; rcor=4; rNcor=2; rlogoDP=2; rNIcor=2; rNsEucl=3; rSSD=4; rNSW=4; rank_mean=3.000; match_rank=1 a 0 0 0 0 0 0 0 15 9 6 11 21 0 0 0 0 25 0 0 0 0 c 0 0 0 0 0 0 0 1 1 12 2 0 0 0 0 25 0 0 0 0 0 g 0 0 0 0 0 0 0 2 0 4 5 4 25 25 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 7 15 3 7 0 0 0 25 0 0 0 0 0 0

MA0141.2_shift5 (Esrrb) 0.968 0.545 9.638 0.544 0.956 0.312 0.983 1 5 5 4 2 2 2 3.000 2
; dyads_m4 versus MA0141.2 (Esrrb); m=2/16; ncol2=12; w=9; offset=-3; strand=D; shift=5; score= 3; -----rgsyCAAGGTCA---- ; cor=0.968; Ncor=0.545; logoDP=9.638; NIcor=0.544; NsEucl=0.956; SSD=0.312; NSW=0.983; rcor=1; rNcor=5; rlogoDP=5; rNIcor=4; rNsEucl=2; rSSD=2; rNSW=2; rank_mean=3.000; match_rank=2 a 0 0 0 0 0 1055 673 403 260 312 3347 3590 33 12 180 9 3478 0 0 0 0 c 0 0 0 0 0 801 832 1212 1230 2653 32 2 2 11 43 3394 21 0 0 0 0 g 0 0 0 0 0 984 1352 1212 449 630 248 60 3597 3622 243 167 128 0 0 0 0 t 0 0 0 0 0 773 767 807 1702 51 27 6 29 16 3192 85 26 0 0 0 0

MA0141.1_shift5 (Esrrb) 0.968 0.545 9.506 0.544 0.956 0.312 0.983 2 6 6 5 1 1 1 3.143 3
; dyads_m4 versus MA0141.1 (Esrrb); m=3/16; ncol2=12; w=9; offset=-3; strand=D; shift=5; score= 3.1429; -----rgsyCAAGGTCA---- ; cor=0.968; Ncor=0.545; logoDP=9.506; NIcor=0.544; NsEucl=0.956; SSD=0.312; NSW=0.983; rcor=2; rNcor=6; rlogoDP=6; rNIcor=5; rNsEucl=1; rSSD=1; rNSW=1; rank_mean=3.143; match_rank=3 a 0 0 0 0 0 1054 673 420 259 310 3326 3567 32 21 182 9 3458 0 0 0 0 c 0 0 0 0 0 800 829 1211 1250 2664 32 2 5 12 46 3376 20 0 0 0 0 g 0 0 0 0 0 985 1370 1209 448 627 248 60 3586 3602 244 170 129 0 0 0 0 t 0 0 0 0 0 793 767 805 1693 52 50 27 31 17 3175 85 27 0 0 0 0

MA0160.1_shift10 (NR4A2) 0.964 0.593 8.026 0.586 0.936 0.516 0.968 3 3 8 3 4 3 3 3.857 4
; dyads_m4 versus MA0160.1 (NR4A2); m=4/16; ncol2=8; w=8; offset=2; strand=D; shift=10; score= 3.8571; ----------aAGGTCAc--- ; cor=0.964; Ncor=0.593; logoDP=8.026; NIcor=0.586; NsEucl=0.936; SSD=0.516; NSW=0.968; rcor=3; rNcor=3; rlogoDP=8; rNIcor=3; rNsEucl=4; rSSD=3; rNSW=3; rank_mean=3.857; match_rank=4 a 0 0 0 0 0 0 0 0 0 0 8 13 0 3 2 0 14 3 0 0 0 c 0 0 0 0 0 0 0 0 0 0 1 0 0 0 2 13 0 8 0 0 0 g 0 0 0 0 0 0 0 0 0 0 3 1 13 11 0 0 0 2 0 0 0 t 0 0 0 0 0 0 0 0 0 0 1 0 1 0 10 1 0 0 0 0 0

MA0592.1_shift8 (ESRRA) 0.883 0.747 10.206 0.719 0.924 1.406 0.936 6 1 3 1 6 6 6 4.143 5
; dyads_m4 versus MA0592.1 (ESRRA); m=5/16; ncol2=11; w=11; offset=0; strand=D; shift=8; score= 4.1429; --------yCAAGGTCAcm-- ; cor=0.883; Ncor=0.747; logoDP=10.206; NIcor=0.719; NsEucl=0.924; SSD=1.406; NSW=0.936; rcor=6; rNcor=1; rlogoDP=3; rNIcor=1; rNsEucl=6; rSSD=6; rNSW=6; rank_mean=4.143; match_rank=5 a 0 0 0 0 0 0 0 0 17 18 200 198 0 0 6 0 197 23 70 0 0 c 0 0 0 0 0 0 0 0 118 174 2 0 0 0 0 205 1 108 54 0 0 g 0 0 0 0 0 0 0 0 11 15 6 10 203 207 22 3 10 44 40 0 0 t 0 0 0 0 0 0 0 0 62 1 0 0 5 1 180 0 0 33 44 0 0

MA0258.2_shift11 (ESR2) 0.899 0.500 7.603 0.485 0.923 1.183 0.941 5 10 10 8 7 5 5 7.143 6
; dyads_m4 versus MA0258.2 (ESR2); m=6/16; ncol2=15; w=10; offset=3; strand=D; shift=11; score= 7.1429; -----------rGGTCAsmst ; cor=0.899; Ncor=0.500; logoDP=7.603; NIcor=0.485; NsEucl=0.923; SSD=1.183; NSW=0.941; rcor=5; rNcor=10; rlogoDP=10; rNIcor=8; rNsEucl=7; rSSD=5; rNSW=5; rank_mean=7.143; match_rank=6 a 0 0 0 0 0 0 0 0 0 0 0 5410 429 59 74 0 8098 502 2092 1808 1602 c 0 0 0 0 0 0 0 0 0 0 0 96 0 0 147 7621 1 4202 3235 2510 975 g 0 0 0 0 0 0 0 0 0 0 0 2563 7170 8143 989 533 57 2738 1688 2173 533 t 0 0 0 0 0 0 0 0 0 0 0 174 644 41 7033 89 87 801 1228 1752 5133

MA0112.1_shift9 (ESR1) 0.851 0.538 7.739 0.537 0.922 1.761 0.927 7 7 9 6 8 8 7 7.429 7
; dyads_m4 versus MA0112.1 (ESR1); m=7/16; ncol2=18; w=12; offset=1; strand=D; shift=9; score= 7.4286; ---------ccAGGTCaCcrt ; cor=0.851; Ncor=0.538; logoDP=7.739; NIcor=0.537; NsEucl=0.922; SSD=1.761; NSW=0.927; rcor=7; rNcor=7; rlogoDP=9; rNIcor=6; rNsEucl=8; rSSD=8; rNSW=7; rank_mean=7.429; match_rank=7 a 0 0 0 0 0 0 0 0 0 1 1 7 2 0 0 0 6 1 2 3 1 c 0 0 0 0 0 0 0 0 0 5 5 1 0 0 0 7 0 7 5 2 1 g 0 0 0 0 0 0 0 0 0 1 1 1 7 9 0 2 2 1 1 4 1 t 0 0 0 0 0 0 0 0 0 2 2 0 0 0 9 0 1 0 1 0 6

MA0112.2_shift6 (ESR1) 0.841 0.547 4.679 0.520 0.925 1.921 0.926 8 4 13 7 5 10 8 7.857 8
; dyads_m4 versus MA0112.2 (ESR1); m=8/16; ncol2=20; w=13; offset=-2; strand=D; shift=6; score= 7.8571; ------vkscmaGGtCAcccT ; cor=0.841; Ncor=0.547; logoDP=4.679; NIcor=0.520; NsEucl=0.925; SSD=1.921; NSW=0.926; rcor=8; rNcor=4; rlogoDP=13; rNIcor=7; rNsEucl=5; rSSD=10; rNSW=8; rank_mean=7.857; match_rank=8 a 0 0 0 0 0 0 122 107 64 83 134 308 36 19 33 4 398 58 63 64 32 c 0 0 0 0 0 0 120 80 173 229 232 28 8 18 41 394 13 250 276 258 19 g 0 0 0 0 0 0 154 164 149 65 47 89 387 420 91 53 27 107 53 97 8 t 0 0 0 0 0 0 71 117 82 93 57 48 43 18 310 24 37 60 83 56 416

MA0505.1_shift4 (Nr5a2) 0.788 0.510 8.750 0.473 0.899 2.483 0.887 10 9 7 9 12 12 14 10.429 9
; dyads_m4 versus MA0505.1 (Nr5a2); m=9/16; ncol2=15; w=11; offset=-4; strand=D; shift=4; score=10.4286; ----ragtTCAAGGyCAgs-- ; cor=0.788; Ncor=0.510; logoDP=8.750; NIcor=0.473; NsEucl=0.899; SSD=2.483; NSW=0.887; rcor=10; rNcor=9; rlogoDP=7; rNIcor=9; rNsEucl=12; rSSD=12; rNSW=14; rank_mean=10.429; match_rank=9 a 0 0 0 0 645 985 276 122 71 8 1685 1679 39 0 169 0 1437 271 249 0 0 c 0 0 0 0 224 170 198 378 351 1616 14 0 0 0 584 1568 20 345 693 0 0 g 0 0 0 0 634 336 990 366 23 74 0 23 1663 1702 61 12 90 740 454 0 0 t 0 0 0 0 199 211 238 836 1257 4 3 0 0 0 888 122 155 346 306 0 0

MA0065.1_shift0 (PPARG::RXRA) 0.787 0.450 9.805 0.420 0.904 2.629 0.890 11 12 4 12 11 14 12 10.857 10
; dyads_m4 versus MA0065.1 (PPARG::RXRA); m=10/16; ncol2=20; w=12; offset=-8; strand=D; shift=0; score=10.8571; yywrrGGTCAAAGGTCAymk- ; cor=0.787; Ncor=0.450; logoDP=9.805; NIcor=0.420; NsEucl=0.904; SSD=2.629; NSW=0.890; rcor=11; rNcor=12; rlogoDP=4; rNIcor=12; rNsEucl=11; rSSD=14; rNSW=12; rank_mean=10.857; match_rank=10 a 10 7 19 13 17 0 0 0 2 41 41 39 0 0 0 2 38 10 13 7 0 c 12 13 4 1 0 0 0 2 37 0 0 0 0 0 2 36 1 12 15 10 0 g 7 8 6 27 24 41 39 0 2 0 0 2 41 39 0 1 2 4 9 12 0 t 12 13 12 0 0 0 2 39 0 0 0 0 0 2 39 2 0 15 4 12 0

MA0258.1_shift9 (ESR2) 0.774 0.489 6.472 0.471 0.906 2.542 0.894 13 11 12 10 10 13 11 11.429 11
; dyads_m4 versus MA0258.1 (ESR2); m=11/16; ncol2=18; w=12; offset=1; strand=D; shift=9; score=11.4286; ---------cwrGGTCAsgkT ; cor=0.774; Ncor=0.489; logoDP=6.472; NIcor=0.471; NsEucl=0.906; SSD=2.542; NSW=0.894; rcor=13; rNcor=11; rlogoDP=12; rNIcor=10; rNsEucl=10; rSSD=13; rNSW=11; rank_mean=11.429; match_rank=11 a 0 0 0 0 0 0 0 0 0 78 158 186 27 18 13 0 337 49 64 52 21 c 0 0 0 0 0 0 0 0 0 161 51 15 0 20 19 357 1 123 63 61 33 g 0 0 0 0 0 0 0 0 0 63 41 154 275 319 33 0 0 113 149 147 24 t 0 0 0 0 0 0 0 0 0 55 107 2 55 0 292 0 19 72 81 97 279

MA0017.1_rc_shift3 (NR2F1_rc) 0.821 0.410 0.698 -0.117 0.897 1.725 0.904 9 15 16 16 13 7 9 12.143 12
; dyads_m4 versus MA0017.1_rc (NR2F1_rc); m=12/16; ncol2=14; w=9; offset=-5; strand=R; shift=3; score=12.1429; ---arGkkCAAAGkTCA---- ; cor=0.821; Ncor=0.410; logoDP=0.698; NIcor=-0.117; NsEucl=0.897; SSD=1.725; NSW=0.904; rcor=9; rNcor=15; rlogoDP=16; rNIcor=16; rNsEucl=13; rSSD=7; rNSW=9; rank_mean=12.143; match_rank=12 a 0 0 0 7 4 1 1 0 0 12 11 10 0 0 0 0 11 0 0 0 0 c 0 0 0 3 0 1 1 3 11 0 0 0 0 0 1 12 2 0 0 0 0 g 0 0 0 3 6 10 5 4 0 0 2 3 13 7 0 0 0 0 0 0 0 t 0 0 0 0 3 1 6 6 2 1 0 0 0 6 12 1 0 0 0 0 0

MA0494.1_rc_shift8 (Nr1h3::Rxra_rc) 0.764 0.523 0.784 -0.068 0.910 2.721 0.895 14 8 15 15 9 15 10 12.286 13
; dyads_m4 versus MA0494.1_rc (Nr1h3::Rxra_rc); m=13/16; ncol2=19; w=13; offset=0; strand=R; shift=8; score=12.2857; --------cmrrGGTyACyyb ; cor=0.764; Ncor=0.523; logoDP=0.784; NIcor=-0.068; NsEucl=0.910; SSD=2.721; NSW=0.895; rcor=14; rNcor=8; rlogoDP=15; rNIcor=15; rNsEucl=9; rSSD=15; rNSW=10; rank_mean=12.286; match_rank=13 a 0 0 0 0 0 0 0 0 303 459 430 714 112 32 0 193 1188 69 154 302 250 c 0 0 0 0 0 0 0 0 439 333 196 42 0 20 192 440 4 903 321 336 343 g 0 0 0 0 0 0 0 0 290 196 508 502 1040 962 177 77 0 19 0 257 318 t 0 0 0 0 0 0 0 0 237 281 135 11 117 255 900 559 77 278 794 374 358

MA0115.1_shift2 (NR1H2::RXRA) 0.760 0.440 12.314 0.422 0.883 3.288 0.851 15 13 1 11 15 16 16 12.429 14
; dyads_m4 versus MA0115.1 (NR1H2::RXRA); m=14/16; ncol2=17; w=11; offset=-6; strand=D; shift=2; score=12.4286; --AAAGGTCAAAGGTCAAc-- ; cor=0.760; Ncor=0.440; logoDP=12.314; NIcor=0.422; NsEucl=0.883; SSD=3.288; NSW=0.851; rcor=15; rNcor=13; rlogoDP=1; rNIcor=11; rNsEucl=15; rSSD=16; rNSW=16; rank_mean=12.429; match_rank=14 a 0 0 17 17 20 0 0 0 0 25 24 25 0 0 0 0 25 20 0 0 0 c 0 0 5 1 0 0 0 0 25 0 0 0 0 0 0 25 0 1 15 0 0 g 0 0 0 5 5 25 24 0 0 0 0 0 25 25 0 0 0 2 6 0 0 t 0 0 3 2 0 0 1 25 0 0 1 0 0 0 25 0 0 2 4 0 0

MA0595.1_shift13 (SREBF1) 0.786 0.419 7.218 0.408 0.882 1.780 0.889 12 14 11 13 16 9 13 12.571 15
; dyads_m4 versus MA0595.1 (SREBF1); m=15/16; ncol2=10; w=8; offset=5; strand=D; shift=13; score=12.5714; -------------rTCACcCC ; cor=0.786; Ncor=0.419; logoDP=7.218; NIcor=0.408; NsEucl=0.882; SSD=1.780; NSW=0.889; rcor=12; rNcor=14; rlogoDP=11; rNIcor=13; rNsEucl=16; rSSD=9; rNSW=13; rank_mean=12.571; match_rank=15 a 0 0 0 0 0 0 0 0 0 0 0 0 0 28 0 0 58 0 6 0 2 c 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 58 0 51 38 44 45 g 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 0 0 7 13 0 11 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 58 0 0 0 1 14 0

MA0114.1_shift4 (HNF4A) 0.758 0.401 3.463 0.369 0.886 2.096 0.884 16 16 14 14 14 11 15 14.286 16
; dyads_m4 versus MA0114.1 (HNF4A); m=16/16; ncol2=13; w=9; offset=-4; strand=D; shift=4; score=14.2857; ----rGgbCAAAGkyCa---- ; cor=0.758; Ncor=0.401; logoDP=3.463; NIcor=0.369; NsEucl=0.886; SSD=2.096; NSW=0.884; rcor=16; rNcor=16; rlogoDP=14; rNIcor=14; rNsEucl=14; rSSD=11; rNSW=15; rank_mean=14.286; match_rank=16 a 0 0 0 0 28 2 12 5 3 59 53 56 4 6 3 4 42 0 0 0 0 c 0 0 0 0 7 2 4 23 51 1 2 1 4 2 22 49 7 0 0 0 0 g 0 0 0 0 27 56 35 20 4 3 10 8 58 33 11 5 10 0 0 0 0 t 0 0 0 0 5 7 16 19 9 4 2 2 1 26 31 9 8 0 0 0 0

Matrix name	cor	Ncor	logoDP	NIcor	NsEucl	SSD	NSW	rcor	rNcor	rlogoDP	rNIcor	rNsEucl	rSSD	rNSW	rank_mean	match_rank	Aligned matrices
dyads_m4_shift8 (dyads_m4)																	; dyads_m4; m=0 (reference); ncol1=13; shift=8; ncol=21; --------cyAAGGTCACCst ; Alignment reference a 0 0 0 0 0 0 0 0 16 15 64 78 0 0 0 0 76 0 1 19 16 c 0 0 0 0 0 0 0 0 26 32 4 0 1 0 0 78 0 77 75 25 16 g 0 0 0 0 0 0 0 0 19 11 9 0 77 78 0 0 2 1 2 20 19 t 0 0 0 0 0 0 0 0 17 20 1 0 0 0 78 0 0 0 0 14 27
MA0071.1_shift7 (RORA_1)	0.936	0.601	10.432	0.608	0.938	0.618	0.966	4	2	2	2	3	4	4	3.000	1	; dyads_m4 versus MA0071.1 (RORA_1); m=1/16; ncol2=10; w=9; offset=-1; strand=D; shift=7; score= 3; -------wwcwAGGTCA---- ; cor=0.936; Ncor=0.601; logoDP=10.432; NIcor=0.608; NsEucl=0.938; SSD=0.618; NSW=0.966; rcor=4; rNcor=2; rlogoDP=2; rNIcor=2; rNsEucl=3; rSSD=4; rNSW=4; rank_mean=3.000; match_rank=1 a 0 0 0 0 0 0 0 15 9 6 11 21 0 0 0 0 25 0 0 0 0 c 0 0 0 0 0 0 0 1 1 12 2 0 0 0 0 25 0 0 0 0 0 g 0 0 0 0 0 0 0 2 0 4 5 4 25 25 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 7 15 3 7 0 0 0 25 0 0 0 0 0 0
MA0141.2_shift5 (Esrrb)	0.968	0.545	9.638	0.544	0.956	0.312	0.983	1	5	5	4	2	2	2	3.000	2	; dyads_m4 versus MA0141.2 (Esrrb); m=2/16; ncol2=12; w=9; offset=-3; strand=D; shift=5; score= 3; -----rgsyCAAGGTCA---- ; cor=0.968; Ncor=0.545; logoDP=9.638; NIcor=0.544; NsEucl=0.956; SSD=0.312; NSW=0.983; rcor=1; rNcor=5; rlogoDP=5; rNIcor=4; rNsEucl=2; rSSD=2; rNSW=2; rank_mean=3.000; match_rank=2 a 0 0 0 0 0 1055 673 403 260 312 3347 3590 33 12 180 9 3478 0 0 0 0 c 0 0 0 0 0 801 832 1212 1230 2653 32 2 2 11 43 3394 21 0 0 0 0 g 0 0 0 0 0 984 1352 1212 449 630 248 60 3597 3622 243 167 128 0 0 0 0 t 0 0 0 0 0 773 767 807 1702 51 27 6 29 16 3192 85 26 0 0 0 0
MA0141.1_shift5 (Esrrb)	0.968	0.545	9.506	0.544	0.956	0.312	0.983	2	6	6	5	1	1	1	3.143	3	; dyads_m4 versus MA0141.1 (Esrrb); m=3/16; ncol2=12; w=9; offset=-3; strand=D; shift=5; score= 3.1429; -----rgsyCAAGGTCA---- ; cor=0.968; Ncor=0.545; logoDP=9.506; NIcor=0.544; NsEucl=0.956; SSD=0.312; NSW=0.983; rcor=2; rNcor=6; rlogoDP=6; rNIcor=5; rNsEucl=1; rSSD=1; rNSW=1; rank_mean=3.143; match_rank=3 a 0 0 0 0 0 1054 673 420 259 310 3326 3567 32 21 182 9 3458 0 0 0 0 c 0 0 0 0 0 800 829 1211 1250 2664 32 2 5 12 46 3376 20 0 0 0 0 g 0 0 0 0 0 985 1370 1209 448 627 248 60 3586 3602 244 170 129 0 0 0 0 t 0 0 0 0 0 793 767 805 1693 52 50 27 31 17 3175 85 27 0 0 0 0
MA0160.1_shift10 (NR4A2)	0.964	0.593	8.026	0.586	0.936	0.516	0.968	3	3	8	3	4	3	3	3.857	4	; dyads_m4 versus MA0160.1 (NR4A2); m=4/16; ncol2=8; w=8; offset=2; strand=D; shift=10; score= 3.8571; ----------aAGGTCAc--- ; cor=0.964; Ncor=0.593; logoDP=8.026; NIcor=0.586; NsEucl=0.936; SSD=0.516; NSW=0.968; rcor=3; rNcor=3; rlogoDP=8; rNIcor=3; rNsEucl=4; rSSD=3; rNSW=3; rank_mean=3.857; match_rank=4 a 0 0 0 0 0 0 0 0 0 0 8 13 0 3 2 0 14 3 0 0 0 c 0 0 0 0 0 0 0 0 0 0 1 0 0 0 2 13 0 8 0 0 0 g 0 0 0 0 0 0 0 0 0 0 3 1 13 11 0 0 0 2 0 0 0 t 0 0 0 0 0 0 0 0 0 0 1 0 1 0 10 1 0 0 0 0 0
MA0592.1_shift8 (ESRRA)	0.883	0.747	10.206	0.719	0.924	1.406	0.936	6	1	3	1	6	6	6	4.143	5	; dyads_m4 versus MA0592.1 (ESRRA); m=5/16; ncol2=11; w=11; offset=0; strand=D; shift=8; score= 4.1429; --------yCAAGGTCAcm-- ; cor=0.883; Ncor=0.747; logoDP=10.206; NIcor=0.719; NsEucl=0.924; SSD=1.406; NSW=0.936; rcor=6; rNcor=1; rlogoDP=3; rNIcor=1; rNsEucl=6; rSSD=6; rNSW=6; rank_mean=4.143; match_rank=5 a 0 0 0 0 0 0 0 0 17 18 200 198 0 0 6 0 197 23 70 0 0 c 0 0 0 0 0 0 0 0 118 174 2 0 0 0 0 205 1 108 54 0 0 g 0 0 0 0 0 0 0 0 11 15 6 10 203 207 22 3 10 44 40 0 0 t 0 0 0 0 0 0 0 0 62 1 0 0 5 1 180 0 0 33 44 0 0
MA0258.2_shift11 (ESR2)	0.899	0.500	7.603	0.485	0.923	1.183	0.941	5	10	10	8	7	5	5	7.143	6	; dyads_m4 versus MA0258.2 (ESR2); m=6/16; ncol2=15; w=10; offset=3; strand=D; shift=11; score= 7.1429; -----------rGGTCAsmst ; cor=0.899; Ncor=0.500; logoDP=7.603; NIcor=0.485; NsEucl=0.923; SSD=1.183; NSW=0.941; rcor=5; rNcor=10; rlogoDP=10; rNIcor=8; rNsEucl=7; rSSD=5; rNSW=5; rank_mean=7.143; match_rank=6 a 0 0 0 0 0 0 0 0 0 0 0 5410 429 59 74 0 8098 502 2092 1808 1602 c 0 0 0 0 0 0 0 0 0 0 0 96 0 0 147 7621 1 4202 3235 2510 975 g 0 0 0 0 0 0 0 0 0 0 0 2563 7170 8143 989 533 57 2738 1688 2173 533 t 0 0 0 0 0 0 0 0 0 0 0 174 644 41 7033 89 87 801 1228 1752 5133
MA0112.1_shift9 (ESR1)	0.851	0.538	7.739	0.537	0.922	1.761	0.927	7	7	9	6	8	8	7	7.429	7	; dyads_m4 versus MA0112.1 (ESR1); m=7/16; ncol2=18; w=12; offset=1; strand=D; shift=9; score= 7.4286; ---------ccAGGTCaCcrt ; cor=0.851; Ncor=0.538; logoDP=7.739; NIcor=0.537; NsEucl=0.922; SSD=1.761; NSW=0.927; rcor=7; rNcor=7; rlogoDP=9; rNIcor=6; rNsEucl=8; rSSD=8; rNSW=7; rank_mean=7.429; match_rank=7 a 0 0 0 0 0 0 0 0 0 1 1 7 2 0 0 0 6 1 2 3 1 c 0 0 0 0 0 0 0 0 0 5 5 1 0 0 0 7 0 7 5 2 1 g 0 0 0 0 0 0 0 0 0 1 1 1 7 9 0 2 2 1 1 4 1 t 0 0 0 0 0 0 0 0 0 2 2 0 0 0 9 0 1 0 1 0 6
MA0112.2_shift6 (ESR1)	0.841	0.547	4.679	0.520	0.925	1.921	0.926	8	4	13	7	5	10	8	7.857	8	; dyads_m4 versus MA0112.2 (ESR1); m=8/16; ncol2=20; w=13; offset=-2; strand=D; shift=6; score= 7.8571; ------vkscmaGGtCAcccT ; cor=0.841; Ncor=0.547; logoDP=4.679; NIcor=0.520; NsEucl=0.925; SSD=1.921; NSW=0.926; rcor=8; rNcor=4; rlogoDP=13; rNIcor=7; rNsEucl=5; rSSD=10; rNSW=8; rank_mean=7.857; match_rank=8 a 0 0 0 0 0 0 122 107 64 83 134 308 36 19 33 4 398 58 63 64 32 c 0 0 0 0 0 0 120 80 173 229 232 28 8 18 41 394 13 250 276 258 19 g 0 0 0 0 0 0 154 164 149 65 47 89 387 420 91 53 27 107 53 97 8 t 0 0 0 0 0 0 71 117 82 93 57 48 43 18 310 24 37 60 83 56 416
MA0505.1_shift4 (Nr5a2)	0.788	0.510	8.750	0.473	0.899	2.483	0.887	10	9	7	9	12	12	14	10.429	9	; dyads_m4 versus MA0505.1 (Nr5a2); m=9/16; ncol2=15; w=11; offset=-4; strand=D; shift=4; score=10.4286; ----ragtTCAAGGyCAgs-- ; cor=0.788; Ncor=0.510; logoDP=8.750; NIcor=0.473; NsEucl=0.899; SSD=2.483; NSW=0.887; rcor=10; rNcor=9; rlogoDP=7; rNIcor=9; rNsEucl=12; rSSD=12; rNSW=14; rank_mean=10.429; match_rank=9 a 0 0 0 0 645 985 276 122 71 8 1685 1679 39 0 169 0 1437 271 249 0 0 c 0 0 0 0 224 170 198 378 351 1616 14 0 0 0 584 1568 20 345 693 0 0 g 0 0 0 0 634 336 990 366 23 74 0 23 1663 1702 61 12 90 740 454 0 0 t 0 0 0 0 199 211 238 836 1257 4 3 0 0 0 888 122 155 346 306 0 0
MA0065.1_shift0 (PPARG::RXRA)	0.787	0.450	9.805	0.420	0.904	2.629	0.890	11	12	4	12	11	14	12	10.857	10	; dyads_m4 versus MA0065.1 (PPARG::RXRA); m=10/16; ncol2=20; w=12; offset=-8; strand=D; shift=0; score=10.8571; yywrrGGTCAAAGGTCAymk- ; cor=0.787; Ncor=0.450; logoDP=9.805; NIcor=0.420; NsEucl=0.904; SSD=2.629; NSW=0.890; rcor=11; rNcor=12; rlogoDP=4; rNIcor=12; rNsEucl=11; rSSD=14; rNSW=12; rank_mean=10.857; match_rank=10 a 10 7 19 13 17 0 0 0 2 41 41 39 0 0 0 2 38 10 13 7 0 c 12 13 4 1 0 0 0 2 37 0 0 0 0 0 2 36 1 12 15 10 0 g 7 8 6 27 24 41 39 0 2 0 0 2 41 39 0 1 2 4 9 12 0 t 12 13 12 0 0 0 2 39 0 0 0 0 0 2 39 2 0 15 4 12 0
MA0258.1_shift9 (ESR2)	0.774	0.489	6.472	0.471	0.906	2.542	0.894	13	11	12	10	10	13	11	11.429	11	; dyads_m4 versus MA0258.1 (ESR2); m=11/16; ncol2=18; w=12; offset=1; strand=D; shift=9; score=11.4286; ---------cwrGGTCAsgkT ; cor=0.774; Ncor=0.489; logoDP=6.472; NIcor=0.471; NsEucl=0.906; SSD=2.542; NSW=0.894; rcor=13; rNcor=11; rlogoDP=12; rNIcor=10; rNsEucl=10; rSSD=13; rNSW=11; rank_mean=11.429; match_rank=11 a 0 0 0 0 0 0 0 0 0 78 158 186 27 18 13 0 337 49 64 52 21 c 0 0 0 0 0 0 0 0 0 161 51 15 0 20 19 357 1 123 63 61 33 g 0 0 0 0 0 0 0 0 0 63 41 154 275 319 33 0 0 113 149 147 24 t 0 0 0 0 0 0 0 0 0 55 107 2 55 0 292 0 19 72 81 97 279
MA0017.1_rc_shift3 (NR2F1_rc)	0.821	0.410	0.698	-0.117	0.897	1.725	0.904	9	15	16	16	13	7	9	12.143	12	; dyads_m4 versus MA0017.1_rc (NR2F1_rc); m=12/16; ncol2=14; w=9; offset=-5; strand=R; shift=3; score=12.1429; ---arGkkCAAAGkTCA---- ; cor=0.821; Ncor=0.410; logoDP=0.698; NIcor=-0.117; NsEucl=0.897; SSD=1.725; NSW=0.904; rcor=9; rNcor=15; rlogoDP=16; rNIcor=16; rNsEucl=13; rSSD=7; rNSW=9; rank_mean=12.143; match_rank=12 a 0 0 0 7 4 1 1 0 0 12 11 10 0 0 0 0 11 0 0 0 0 c 0 0 0 3 0 1 1 3 11 0 0 0 0 0 1 12 2 0 0 0 0 g 0 0 0 3 6 10 5 4 0 0 2 3 13 7 0 0 0 0 0 0 0 t 0 0 0 0 3 1 6 6 2 1 0 0 0 6 12 1 0 0 0 0 0
MA0494.1_rc_shift8 (Nr1h3::Rxra_rc)	0.764	0.523	0.784	-0.068	0.910	2.721	0.895	14	8	15	15	9	15	10	12.286	13	; dyads_m4 versus MA0494.1_rc (Nr1h3::Rxra_rc); m=13/16; ncol2=19; w=13; offset=0; strand=R; shift=8; score=12.2857; --------cmrrGGTyACyyb ; cor=0.764; Ncor=0.523; logoDP=0.784; NIcor=-0.068; NsEucl=0.910; SSD=2.721; NSW=0.895; rcor=14; rNcor=8; rlogoDP=15; rNIcor=15; rNsEucl=9; rSSD=15; rNSW=10; rank_mean=12.286; match_rank=13 a 0 0 0 0 0 0 0 0 303 459 430 714 112 32 0 193 1188 69 154 302 250 c 0 0 0 0 0 0 0 0 439 333 196 42 0 20 192 440 4 903 321 336 343 g 0 0 0 0 0 0 0 0 290 196 508 502 1040 962 177 77 0 19 0 257 318 t 0 0 0 0 0 0 0 0 237 281 135 11 117 255 900 559 77 278 794 374 358
MA0115.1_shift2 (NR1H2::RXRA)	0.760	0.440	12.314	0.422	0.883	3.288	0.851	15	13	1	11	15	16	16	12.429	14	; dyads_m4 versus MA0115.1 (NR1H2::RXRA); m=14/16; ncol2=17; w=11; offset=-6; strand=D; shift=2; score=12.4286; --AAAGGTCAAAGGTCAAc-- ; cor=0.760; Ncor=0.440; logoDP=12.314; NIcor=0.422; NsEucl=0.883; SSD=3.288; NSW=0.851; rcor=15; rNcor=13; rlogoDP=1; rNIcor=11; rNsEucl=15; rSSD=16; rNSW=16; rank_mean=12.429; match_rank=14 a 0 0 17 17 20 0 0 0 0 25 24 25 0 0 0 0 25 20 0 0 0 c 0 0 5 1 0 0 0 0 25 0 0 0 0 0 0 25 0 1 15 0 0 g 0 0 0 5 5 25 24 0 0 0 0 0 25 25 0 0 0 2 6 0 0 t 0 0 3 2 0 0 1 25 0 0 1 0 0 0 25 0 0 2 4 0 0
MA0595.1_shift13 (SREBF1)	0.786	0.419	7.218	0.408	0.882	1.780	0.889	12	14	11	13	16	9	13	12.571	15	; dyads_m4 versus MA0595.1 (SREBF1); m=15/16; ncol2=10; w=8; offset=5; strand=D; shift=13; score=12.5714; -------------rTCACcCC ; cor=0.786; Ncor=0.419; logoDP=7.218; NIcor=0.408; NsEucl=0.882; SSD=1.780; NSW=0.889; rcor=12; rNcor=14; rlogoDP=11; rNIcor=13; rNsEucl=16; rSSD=9; rNSW=13; rank_mean=12.571; match_rank=15 a 0 0 0 0 0 0 0 0 0 0 0 0 0 28 0 0 58 0 6 0 2 c 0 0 0 0 0 0 0 0 0 0 0 0 0 14 0 58 0 51 38 44 45 g 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 0 0 7 13 0 11 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 58 0 0 0 1 14 0
MA0114.1_shift4 (HNF4A)	0.758	0.401	3.463	0.369	0.886	2.096	0.884	16	16	14	14	14	11	15	14.286	16	; dyads_m4 versus MA0114.1 (HNF4A); m=16/16; ncol2=13; w=9; offset=-4; strand=D; shift=4; score=14.2857; ----rGgbCAAAGkyCa---- ; cor=0.758; Ncor=0.401; logoDP=3.463; NIcor=0.369; NsEucl=0.886; SSD=2.096; NSW=0.884; rcor=16; rNcor=16; rlogoDP=14; rNIcor=14; rNsEucl=14; rSSD=11; rNSW=15; rank_mean=14.286; match_rank=16 a 0 0 0 0 28 2 12 5 3 59 53 56 4 6 3 4 42 0 0 0 0 c 0 0 0 0 7 2 4 23 51 1 2 1 4 2 22 49 7 0 0 0 0 g 0 0 0 0 27 56 35 20 4 3 10 8 58 33 11 5 10 0 0 0 0 t 0 0 0 0 5 7 16 19 9 4 2 2 1 26 31 9 8 0 0 0 0