One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/09/compare-matrices_2026-01-09.163202_s4iGzw/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/2026/01/09/compare-matrices_2026-01-09.163202_s4iGzw/compare-matrices.tab

One-to-n matrix alignment; reference matrix: cluster_3_shift7 ; 21 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
cluster_3_shift7 (cluster_3)
; cluster_3; m=0 (reference); ncol1=12; shift=7; ncol=19; -------wwTATAGwATww ; Alignment reference a 0 0 0 0 0 0 0 1306 1590 141 3713 126 3711 335 1322 2871 613 1040 947 c 0 0 0 0 0 0 0 522 521 54 47 65 34 172 58 215 184 337 363 g 0 0 0 0 0 0 0 469 521 40 45 40 48 3079 47 221 244 390 373 t 0 0 0 0 0 0 0 1642 1307 3704 134 3708 146 353 2512 632 2898 978 1062

AT1G04880.DAP_M0148_AthalianaCistrome_shift2 (AT1G04880.DAP:M0148:AthalianaCistrome) 0.826 0.534 4.964 0.919 0.928 4 4 5 2 5 4.000 1
; cluster_3 versus AT1G04880.DAP_M0148_AthalianaCistrome (AT1G04880.DAP:M0148:AthalianaCistrome); m=1/20; ncol2=16; w=-5; offset=-5; strand=D; shift=2; score= 4; --TWTAwTATAWaGTTTw- ; cor=0.826; Ncor=0.534; logoDP=4.964; NsEucl=0.919; NSW=0.928; rcor=4; rNcor=4; rlogoDP=5; rNsEucl=2; rNSW=5; rank_mean=4.000; match_rank=1 a 0 0 22 219 15 309 108 65 286 0 315 86 202 41 3 71 32 80 0 c 0 0 26 4 0 2 26 19 18 1 0 0 0 19 2 20 20 22 0 g 0 0 11 0 0 2 25 13 7 0 0 0 72 248 0 6 17 33 0 t 0 0 256 92 300 2 156 218 4 314 0 229 41 7 310 218 246 180 0

HMGB15_UN0400.1_JASPAR_shift2 (HMGB15:UN0400.1:JASPAR) 0.826 0.534 4.964 0.919 0.928 5 5 6 3 6 5.000 2
; cluster_3 versus HMGB15_UN0400.1_JASPAR (HMGB15:UN0400.1:JASPAR); m=2/20; ncol2=16; w=-5; offset=-5; strand=D; shift=2; score= 5; --TWTAwTATAWaGTTTw- ; cor=0.826; Ncor=0.534; logoDP=4.964; NsEucl=0.919; NSW=0.928; rcor=5; rNcor=5; rlogoDP=6; rNsEucl=3; rNSW=6; rank_mean=5.000; match_rank=2 a 0 0 69.841 695 47.619 981 343 206 908 0 1000 273 641.27 130 9.524 225 102 254 0 c 0 0 82.54 12.698 0 6.349 82.54 60.317 57.143 3.175 0 0 0 60.317 6.349 63.492 63.492 69.841 0 g 0 0 34.921 0 0 6.349 79.365 41.27 22.222 0 0 0 229 787 0 19.048 53.968 105 0 t 0 0 813 292 952 6.349 495 692 12.698 997 0 727 130 22.222 984 692 781 571 0

AT1G04880.ampDAP_M0144_AthalianaCistrome_shift3 (AT1G04880.ampDAP:M0144:AthalianaCistrome) 0.801 0.551 5.009 0.913 0.917 8 2 4 4 9 5.400 3
; cluster_3 versus AT1G04880.ampDAP_M0144_AthalianaCistrome (AT1G04880.ampDAP:M0144:AthalianaCistrome); m=3/20; ncol2=15; w=-4; offset=-4; strand=D; shift=3; score= 5.4; ---aaAcyATATawTATA- ; cor=0.801; Ncor=0.551; logoDP=5.009; NsEucl=0.913; NSW=0.917; rcor=8; rNcor=2; rlogoDP=4; rNsEucl=4; rNSW=9; rank_mean=5.400; match_rank=3 a 0 0 0 371 327 549 37 33 434 0 555 8 339 265 3 564 108 415 0 c 0 0 0 45 38 1 375 237 0 0 0 34 32 31 9 0 1 44 0 g 0 0 0 71 64 0 67 0 0 0 9 67 95 52 2 0 9 70 0 t 0 0 0 77 135 14 85 294 130 564 0 455 98 216 550 0 446 35 0

AGL3_AGL3_Athamap_shift0 (AGL3:AGL3:Athamap) 0.790 0.458 2.513 0.921 0.932 9 12 10 1 4 7.200 4
; cluster_3 versus AGL3_AGL3_Athamap (AGL3:AGL3:Athamap); m=4/20; ncol2=18; w=-7; offset=-7; strand=D; shift=0; score= 7.2; skwwCCAwwwWwrGwwab- ; cor=0.790; Ncor=0.458; logoDP=2.513; NsEucl=0.921; NSW=0.932; rcor=9; rNcor=12; rlogoDP=10; rNsEucl=1; rNSW=4; rank_mean=7.200; match_rank=4 a 22 16 25 27 0 0 82 40 56 35 65 25 64 0 33 52 45 21 0 c 29 9 8 16 92 79 1 4 0 0 1 4 0 0 14 5 23 24 0 g 34 29 4 13 0 0 2 3 1 0 4 3 28 92 15 7 13 26 0 t 10 41 58 39 3 16 10 48 38 60 25 63 3 3 33 31 14 24 0

TRANSCRIPTION_1qnb_B_3D-footprint_shift6 (TRANSCRIPTION:1qnb_B:3D-footprint) 0.876 0.404 4.581 0.897 0.936 1 17 8 9 2 7.400 5
; cluster_3 versus TRANSCRIPTION_1qnb_B_3D-footprint (TRANSCRIPTION:1qnb_B:3D-footprint); m=5/20; ncol2=7; w=-1; offset=-1; strand=D; shift=6; score= 7.4; ------AtTTATA------ ; cor=0.876; Ncor=0.404; logoDP=4.581; NsEucl=0.897; NSW=0.936; rcor=1; rNcor=17; rlogoDP=8; rNsEucl=9; rNSW=2; rank_mean=7.400; match_rank=5 a 0 0 0 0 0 0 96 16 0 0 80 0 80 0 0 0 0 0 0 c 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 16 0 0 16 0 16 0 0 0 0 0 0 t 0 0 0 0 0 0 0 48 96 96 0 96 0 0 0 0 0 0 0

AGL3_MA0001.3_JASPAR_shift4 (AGL3:MA0001.3:JASPAR) 0.867 0.404 2.396 0.912 0.946 3 16 12 5 1 7.400 6
; cluster_3 versus AGL3_MA0001.3_JASPAR (AGL3:MA0001.3:JASPAR); m=6/20; ncol2=10; w=-3; offset=-3; strand=D; shift=4; score= 7.4; ----CCAwwwWwrG----- ; cor=0.867; Ncor=0.404; logoDP=2.396; NsEucl=0.912; NSW=0.946; rcor=3; rNcor=16; rlogoDP=12; rNsEucl=5; rNSW=1; rank_mean=7.400; match_rank=6 a 0 0 0 0 0 0 82 40 56 35 65 25 64 0 0 0 0 0 0 c 0 0 0 0 92 79 1 4 0 0 1 4 0 0 0 0 0 0 0 g 0 0 0 0 0 0 2 3 1 0 4 3 28 92 0 0 0 0 0 t 0 0 0 0 3 16 10 48 38 60 25 63 3 3 0 0 0 0 0

PRH_M1167_1.02_CISBP_shift8 (PRH:M1167_1.02:CISBP) 0.802 0.535 6.409 0.883 0.890 7 3 3 14 15 8.400 7
; cluster_3 versus PRH_M1167_1.02_CISBP (PRH:M1167_1.02:CISBP); m=7/20; ncol2=8; w=0; offset=1; strand=D; shift=8; score= 8.4; --------ATATATwA--- ; cor=0.802; Ncor=0.535; logoDP=6.409; NsEucl=0.883; NSW=0.890; rcor=7; rNcor=3; rlogoDP=3; rNsEucl=14; rNSW=15; rank_mean=8.400; match_rank=7 a 0 0 0 0 0 0 0 0 99 0 100 0 100 15 50 80 0 0 0 c 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 100 0 100 0 85 50 20 0 0 0

TATA-box-binding_6njq_A_3D-footprint_shift6 (TATA-box-binding:6njq_A:3D-footprint) 0.869 0.401 4.737 0.890 0.928 2 19 7 12 7 9.400 8
; cluster_3 versus TATA-box-binding_6njq_A_3D-footprint (TATA-box-binding:6njq_A:3D-footprint); m=8/20; ncol2=7; w=-1; offset=-1; strand=D; shift=6; score= 9.4; ------GTTTATA------ ; cor=0.869; Ncor=0.401; logoDP=4.737; NsEucl=0.890; NSW=0.928; rcor=2; rNcor=19; rlogoDP=7; rNsEucl=12; rNSW=7; rank_mean=9.400; match_rank=8 a 0 0 0 0 0 0 9 11 0 0 67 0 96 0 0 0 0 0 0 c 0 0 0 0 0 0 9 9 0 0 9 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 69 9 0 0 11 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 9 67 96 96 9 96 0 0 0 0 0 0 0

FUL-3_EEAD0142_EEADannot_rc_shift5 (FUL-3:EEAD0142:EEADannot_rc) 0.736 0.589 2.062 0.911 0.905 15 1 15 6 12 9.800 9
; cluster_3 versus FUL-3_EEAD0142_EEADannot_rc (FUL-3:EEAD0142:EEADannot_rc); m=9/20; ncol2=15; w=-2; offset=-2; strand=R; shift=5; score= 9.8; -----yATTTATRGtAwgt ; cor=0.736; Ncor=0.589; logoDP=2.062; NsEucl=0.911; NSW=0.905; rcor=15; rNcor=1; rlogoDP=15; rNsEucl=6; rNSW=12; rank_mean=9.800; match_rank=9 a 0 0 0 0 0 1 86 5 23 15 74 5 25 0 23 90 61 22 23 c 0 0 0 0 0 56 1 7 0 1 1 2 0 1 11 4 1 14 11 g 0 0 0 0 0 1 1 1 1 0 2 0 74 98 3 2 4 41 21 t 0 0 0 0 0 42 12 87 76 84 23 93 1 1 63 4 34 23 45

AGL15_AGL15_Athamap_shift1 (AGL15:AGL15:Athamap) 0.773 0.429 2.279 0.911 0.920 11 14 14 7 8 10.800 10
; cluster_3 versus AGL15_AGL15_Athamap (AGL15:AGL15:Athamap); m=10/20; ncol2=16; w=-6; offset=-6; strand=D; shift=1; score= 10.8; -tTwCywwwwwwrGwAa-- ; cor=0.773; Ncor=0.429; logoDP=2.279; NsEucl=0.911; NSW=0.920; rcor=11; rNcor=14; rlogoDP=14; rNsEucl=7; rNSW=8; rank_mean=10.800; match_rank=10 a 0 5 4 16 0 1 17 10 17 13 19 8 19 0 9 26 19 0 0 c 0 4 2 2 32 15 4 3 0 0 1 1 0 0 5 1 3 0 0 g 0 3 1 4 0 0 1 2 1 0 2 4 12 31 4 1 4 0 0 t 0 20 25 10 0 16 10 17 14 19 10 19 1 1 14 4 6 0 0

KAN1_MA1027.2_JASPAR_rc_shift13 (KAN1:MA1027.2:JASPAR_rc) 0.803 0.402 0.789 0.896 0.935 6 18 20 10 3 11.400 11
; cluster_3 versus KAN1_MA1027.2_JASPAR_rc (KAN1:MA1027.2:JASPAR_rc); m=11/20; ncol2=6; w=0; offset=6; strand=R; shift=13; score= 11.4; -------------GaATaw ; cor=0.803; Ncor=0.402; logoDP=0.789; NsEucl=0.896; NSW=0.935; rcor=6; rNcor=18; rlogoDP=20; rNsEucl=10; rNSW=3; rank_mean=11.400; match_rank=11 a 0 0 0 0 0 0 0 0 0 0 0 0 0 44 648 840 20 623 323 c 0 0 0 0 0 0 0 0 0 0 0 0 0 18 169 19 68 58 43 g 0 0 0 0 0 0 0 0 0 0 0 0 0 876 147 87 14 192 16 t 0 0 0 0 0 0 0 0 0 0 0 0 0 63 36 54 898 128 618

TRANSCRIPTION_1qn6_B_3D-footprint_shift9 (TRANSCRIPTION:1qn6_B:3D-footprint) 0.743 0.495 6.488 0.867 0.859 14 7 1 18 18 11.600 12
; cluster_3 versus TRANSCRIPTION_1qn6_B_3D-footprint (TRANSCRIPTION:1qn6_B:3D-footprint); m=12/20; ncol2=8; w=0; offset=2; strand=D; shift=9; score= 11.6; ---------TATAAtAg-- ; cor=0.743; Ncor=0.495; logoDP=6.488; NsEucl=0.867; NSW=0.859; rcor=14; rNcor=7; rlogoDP=1; rNsEucl=18; rNSW=18; rank_mean=11.600; match_rank=12 a 0 0 0 0 0 0 0 0 0 0 96 0 96 96 13 96 13 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 13 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 54 0 0 t 0 0 0 0 0 0 0 0 0 96 0 96 0 0 54 0 16 0 0

SEP1_MA0584.2_JASPAR_shift4 (SEP1:MA0584.2:JASPAR) 0.704 0.469 2.417 0.898 0.895 20 11 11 8 14 12.800 13
; cluster_3 versus SEP1_MA0584.2_JASPAR (SEP1:MA0584.2:JASPAR); m=13/20; ncol2=13; w=-3; offset=-3; strand=D; shift=4; score= 12.8; ----CCAwWwwTrGwAa-- ; cor=0.704; Ncor=0.469; logoDP=2.417; NsEucl=0.898; NSW=0.895; rcor=20; rNcor=11; rlogoDP=11; rNsEucl=8; rNSW=14; rank_mean=12.800; match_rank=13 a 0 0 0 0 0 0 39 20 37 25 28 4 26 0 23 40 33 0 0 c 0 0 0 0 51 46 5 2 0 0 4 6 0 0 11 3 5 0 0 g 0 0 0 0 0 0 1 4 0 0 4 3 25 51 3 0 5 0 0 t 0 0 0 0 0 5 6 25 14 26 15 38 0 0 14 8 8 0 0

DcWRKY75_EEAD0058_EEADannot_shift12 (DcWRKY75:EEAD0058:EEADannot) 0.747 0.436 2.396 0.881 0.900 12 13 13 15 13 13.200 14
; cluster_3 versus DcWRKY75_EEAD0058_EEADannot (DcWRKY75:EEAD0058:EEADannot); m=14/20; ncol2=7; w=0; offset=5; strand=D; shift=12; score= 13.2; ------------AGAAkbT ; cor=0.747; Ncor=0.436; logoDP=2.396; NsEucl=0.881; NSW=0.900; rcor=12; rNcor=13; rlogoDP=13; rNsEucl=15; rNSW=13; rank_mean=13.200; match_rank=14 a 0 0 0 0 0 0 0 0 0 0 0 0 83 0 83 100 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 17 34 17 g 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 33 33 0 t 0 0 0 0 0 0 0 0 0 0 0 0 17 0 17 0 50 33 83

AHL20_AHL20_ArabidopsisPBM_shift6 (AHL20:AHL20:ArabidopsisPBM) 0.709 0.491 4.380 0.877 0.864 17 8 9 16 17 13.400 15
; cluster_3 versus AHL20_AHL20_ArabidopsisPBM (AHL20:AHL20:ArabidopsisPBM); m=15/20; ncol2=10; w=-1; offset=-1; strand=D; shift=6; score= 13.4; ------wAATATATTw--- ; cor=0.709; Ncor=0.491; logoDP=4.380; NsEucl=0.877; NSW=0.864; rcor=17; rNcor=8; rlogoDP=9; rNsEucl=16; rNSW=17; rank_mean=13.400; match_rank=15 a 0 0 0 0 0 0 44 95 88 8 87 13 91 11 3 44 0 0 0 c 0 0 0 0 0 0 16 1 0 1 0 0 1 1 1 10 0 0 0 g 0 0 0 0 0 0 11 1 1 1 0 0 0 0 1 21 0 0 0 t 0 0 0 0 0 0 29 3 11 90 13 87 8 88 95 25 0 0 0

TRANSCRIPTION_1qn4_B_3D-footprint_rc_shift9 (TRANSCRIPTION:1qn4_B:3D-footprint_rc) 0.779 0.520 0.886 0.877 0.879 10 6 19 17 16 13.600 16
; cluster_3 versus TRANSCRIPTION_1qn4_B_3D-footprint_rc (TRANSCRIPTION:1qn4_B:3D-footprint_rc); m=16/20; ncol2=8; w=0; offset=2; strand=R; shift=9; score= 13.6; ---------TATAAaAt-- ; cor=0.779; Ncor=0.520; logoDP=0.886; NsEucl=0.877; NSW=0.879; rcor=10; rNcor=6; rlogoDP=19; rNsEucl=17; rNSW=16; rank_mean=13.600; match_rank=16 a 0 0 0 0 0 0 0 0 0 0 96 0 96 96 54 96 13 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 13 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 16 0 0 t 0 0 0 0 0 0 0 0 0 96 0 96 0 0 16 0 54 0 0

AHL20_AHL20_3_ArabidopsisPBM_rc_shift11 (AHL20:AHL20_3:ArabidopsisPBM_rc) 0.709 0.405 1.585 0.894 0.910 18 15 16 11 10 14.000 17
; cluster_3 versus AHL20_AHL20_3_ArabidopsisPBM_rc (AHL20:AHL20_3:ArabidopsisPBM_rc); m=17/20; ncol2=10; w=0; offset=4; strand=R; shift=11; score= 14; -----------tAwwWWww ; cor=0.709; Ncor=0.405; logoDP=1.585; NsEucl=0.894; NSW=0.910; rcor=18; rNcor=15; rlogoDP=16; rNsEucl=11; rNSW=10; rank_mean=14.000; match_rank=17 a 0 0 0 0 0 0 0 0 0 0 0 19 89 40 37 69 28 61 58 c 0 0 0 0 0 0 0 0 0 0 0 11 5 1 1 3 0 1 1 g 0 0 0 0 0 0 0 0 0 0 0 22 3 1 1 0 3 1 1 t 0 0 0 0 0 0 0 0 0 0 0 48 3 58 61 28 69 37 40

TATA_1vto_B_3D-footprint_shift9 (TATA:1vto_B:3D-footprint) 0.706 0.470 6.472 0.858 0.839 19 10 2 20 20 14.200 18
; cluster_3 versus TATA_1vto_B_3D-footprint (TATA:1vto_B:3D-footprint); m=18/20; ncol2=8; w=0; offset=2; strand=D; shift=9; score= 14.2; ---------TATAAaAg-- ; cor=0.706; Ncor=0.470; logoDP=6.472; NsEucl=0.858; NSW=0.839; rcor=19; rNcor=10; rlogoDP=2; rNsEucl=20; rNSW=20; rank_mean=14.200; match_rank=18 a 0 0 0 0 0 0 0 0 0 0 96 0 96 96 54 96 13 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 13 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 57 0 0 t 0 0 0 0 0 0 0 0 0 96 0 96 0 0 13 0 13 0 0

AT1G14600_MA1706.2_JASPAR_rc_shift12 (AT1G14600:MA1706.2:JASPAR_rc) 0.743 0.400 1.303 0.885 0.908 13 20 17 13 11 14.800 19
; cluster_3 versus AT1G14600_MA1706.2_JASPAR_rc (AT1G14600:MA1706.2:JASPAR_rc); m=19/20; ncol2=8; w=0; offset=5; strand=R; shift=12; score= 14.8; ------------rGAATrT ; cor=0.743; Ncor=0.400; logoDP=1.303; NsEucl=0.885; NSW=0.908; rcor=13; rNcor=20; rlogoDP=17; rNsEucl=13; rNSW=11; rank_mean=14.800; match_rank=19 a 0 0 0 0 0 0 0 0 0 0 0 0 537 201 705 999 94 310 99 c 0 0 0 0 0 0 0 0 0 0 0 0 54 0 94 0 0 0 94 g 0 0 0 0 0 0 0 0 0 0 0 0 261 799 0 0 0 596 0 t 0 0 0 0 0 0 0 0 0 0 0 0 148 0 201 0 906 94 806

TRANSCRIPTION_1qne_B_3D-footprint_rc_shift9 (TRANSCRIPTION:1qne_B:3D-footprint_rc) 0.710 0.473 0.890 0.859 0.841 16 9 18 19 19 16.200 20
; cluster_3 versus TRANSCRIPTION_1qne_B_3D-footprint_rc (TRANSCRIPTION:1qne_B:3D-footprint_rc); m=20/20; ncol2=8; w=0; offset=2; strand=R; shift=9; score= 16.2; ---------TATAAaAg-- ; cor=0.710; Ncor=0.473; logoDP=0.890; NsEucl=0.859; NSW=0.841; rcor=16; rNcor=9; rlogoDP=18; rNsEucl=19; rNSW=19; rank_mean=16.200; match_rank=20 a 0 0 0 0 0 0 0 0 0 0 96 0 96 96 54 96 13 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 13 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 57 0 0 t 0 0 0 0 0 0 0 0 0 96 0 96 0 0 16 0 13 0 0

Matrix name	cor	Ncor	logoDP	NsEucl	NSW	rcor	rNcor	rlogoDP	rNsEucl	rNSW	rank_mean	match_rank	Aligned matrices
cluster_3_shift7 (cluster_3)													; cluster_3; m=0 (reference); ncol1=12; shift=7; ncol=19; -------wwTATAGwATww ; Alignment reference a 0 0 0 0 0 0 0 1306 1590 141 3713 126 3711 335 1322 2871 613 1040 947 c 0 0 0 0 0 0 0 522 521 54 47 65 34 172 58 215 184 337 363 g 0 0 0 0 0 0 0 469 521 40 45 40 48 3079 47 221 244 390 373 t 0 0 0 0 0 0 0 1642 1307 3704 134 3708 146 353 2512 632 2898 978 1062
AT1G04880.DAP_M0148_AthalianaCistrome_shift2 (AT1G04880.DAP:M0148:AthalianaCistrome)	0.826	0.534	4.964	0.919	0.928	4	4	5	2	5	4.000	1	; cluster_3 versus AT1G04880.DAP_M0148_AthalianaCistrome (AT1G04880.DAP:M0148:AthalianaCistrome); m=1/20; ncol2=16; w=-5; offset=-5; strand=D; shift=2; score= 4; --TWTAwTATAWaGTTTw- ; cor=0.826; Ncor=0.534; logoDP=4.964; NsEucl=0.919; NSW=0.928; rcor=4; rNcor=4; rlogoDP=5; rNsEucl=2; rNSW=5; rank_mean=4.000; match_rank=1 a 0 0 22 219 15 309 108 65 286 0 315 86 202 41 3 71 32 80 0 c 0 0 26 4 0 2 26 19 18 1 0 0 0 19 2 20 20 22 0 g 0 0 11 0 0 2 25 13 7 0 0 0 72 248 0 6 17 33 0 t 0 0 256 92 300 2 156 218 4 314 0 229 41 7 310 218 246 180 0
HMGB15_UN0400.1_JASPAR_shift2 (HMGB15:UN0400.1:JASPAR)	0.826	0.534	4.964	0.919	0.928	5	5	6	3	6	5.000	2	; cluster_3 versus HMGB15_UN0400.1_JASPAR (HMGB15:UN0400.1:JASPAR); m=2/20; ncol2=16; w=-5; offset=-5; strand=D; shift=2; score= 5; --TWTAwTATAWaGTTTw- ; cor=0.826; Ncor=0.534; logoDP=4.964; NsEucl=0.919; NSW=0.928; rcor=5; rNcor=5; rlogoDP=6; rNsEucl=3; rNSW=6; rank_mean=5.000; match_rank=2 a 0 0 69.841 695 47.619 981 343 206 908 0 1000 273 641.27 130 9.524 225 102 254 0 c 0 0 82.54 12.698 0 6.349 82.54 60.317 57.143 3.175 0 0 0 60.317 6.349 63.492 63.492 69.841 0 g 0 0 34.921 0 0 6.349 79.365 41.27 22.222 0 0 0 229 787 0 19.048 53.968 105 0 t 0 0 813 292 952 6.349 495 692 12.698 997 0 727 130 22.222 984 692 781 571 0
AT1G04880.ampDAP_M0144_AthalianaCistrome_shift3 (AT1G04880.ampDAP:M0144:AthalianaCistrome)	0.801	0.551	5.009	0.913	0.917	8	2	4	4	9	5.400	3	; cluster_3 versus AT1G04880.ampDAP_M0144_AthalianaCistrome (AT1G04880.ampDAP:M0144:AthalianaCistrome); m=3/20; ncol2=15; w=-4; offset=-4; strand=D; shift=3; score= 5.4; ---aaAcyATATawTATA- ; cor=0.801; Ncor=0.551; logoDP=5.009; NsEucl=0.913; NSW=0.917; rcor=8; rNcor=2; rlogoDP=4; rNsEucl=4; rNSW=9; rank_mean=5.400; match_rank=3 a 0 0 0 371 327 549 37 33 434 0 555 8 339 265 3 564 108 415 0 c 0 0 0 45 38 1 375 237 0 0 0 34 32 31 9 0 1 44 0 g 0 0 0 71 64 0 67 0 0 0 9 67 95 52 2 0 9 70 0 t 0 0 0 77 135 14 85 294 130 564 0 455 98 216 550 0 446 35 0
AGL3_AGL3_Athamap_shift0 (AGL3:AGL3:Athamap)	0.790	0.458	2.513	0.921	0.932	9	12	10	1	4	7.200	4	; cluster_3 versus AGL3_AGL3_Athamap (AGL3:AGL3:Athamap); m=4/20; ncol2=18; w=-7; offset=-7; strand=D; shift=0; score= 7.2; skwwCCAwwwWwrGwwab- ; cor=0.790; Ncor=0.458; logoDP=2.513; NsEucl=0.921; NSW=0.932; rcor=9; rNcor=12; rlogoDP=10; rNsEucl=1; rNSW=4; rank_mean=7.200; match_rank=4 a 22 16 25 27 0 0 82 40 56 35 65 25 64 0 33 52 45 21 0 c 29 9 8 16 92 79 1 4 0 0 1 4 0 0 14 5 23 24 0 g 34 29 4 13 0 0 2 3 1 0 4 3 28 92 15 7 13 26 0 t 10 41 58 39 3 16 10 48 38 60 25 63 3 3 33 31 14 24 0
TRANSCRIPTION_1qnb_B_3D-footprint_shift6 (TRANSCRIPTION:1qnb_B:3D-footprint)	0.876	0.404	4.581	0.897	0.936	1	17	8	9	2	7.400	5	; cluster_3 versus TRANSCRIPTION_1qnb_B_3D-footprint (TRANSCRIPTION:1qnb_B:3D-footprint); m=5/20; ncol2=7; w=-1; offset=-1; strand=D; shift=6; score= 7.4; ------AtTTATA------ ; cor=0.876; Ncor=0.404; logoDP=4.581; NsEucl=0.897; NSW=0.936; rcor=1; rNcor=17; rlogoDP=8; rNsEucl=9; rNSW=2; rank_mean=7.400; match_rank=5 a 0 0 0 0 0 0 96 16 0 0 80 0 80 0 0 0 0 0 0 c 0 0 0 0 0 0 0 16 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 16 0 0 16 0 16 0 0 0 0 0 0 t 0 0 0 0 0 0 0 48 96 96 0 96 0 0 0 0 0 0 0
AGL3_MA0001.3_JASPAR_shift4 (AGL3:MA0001.3:JASPAR)	0.867	0.404	2.396	0.912	0.946	3	16	12	5	1	7.400	6	; cluster_3 versus AGL3_MA0001.3_JASPAR (AGL3:MA0001.3:JASPAR); m=6/20; ncol2=10; w=-3; offset=-3; strand=D; shift=4; score= 7.4; ----CCAwwwWwrG----- ; cor=0.867; Ncor=0.404; logoDP=2.396; NsEucl=0.912; NSW=0.946; rcor=3; rNcor=16; rlogoDP=12; rNsEucl=5; rNSW=1; rank_mean=7.400; match_rank=6 a 0 0 0 0 0 0 82 40 56 35 65 25 64 0 0 0 0 0 0 c 0 0 0 0 92 79 1 4 0 0 1 4 0 0 0 0 0 0 0 g 0 0 0 0 0 0 2 3 1 0 4 3 28 92 0 0 0 0 0 t 0 0 0 0 3 16 10 48 38 60 25 63 3 3 0 0 0 0 0
PRH_M1167_1.02_CISBP_shift8 (PRH:M1167_1.02:CISBP)	0.802	0.535	6.409	0.883	0.890	7	3	3	14	15	8.400	7	; cluster_3 versus PRH_M1167_1.02_CISBP (PRH:M1167_1.02:CISBP); m=7/20; ncol2=8; w=0; offset=1; strand=D; shift=8; score= 8.4; --------ATATATwA--- ; cor=0.802; Ncor=0.535; logoDP=6.409; NsEucl=0.883; NSW=0.890; rcor=7; rNcor=3; rlogoDP=3; rNsEucl=14; rNSW=15; rank_mean=8.400; match_rank=7 a 0 0 0 0 0 0 0 0 99 0 100 0 100 15 50 80 0 0 0 c 0 0 0 0 0 0 0 0 1 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 0 0 0 100 0 100 0 85 50 20 0 0 0
TATA-box-binding_6njq_A_3D-footprint_shift6 (TATA-box-binding:6njq_A:3D-footprint)	0.869	0.401	4.737	0.890	0.928	2	19	7	12	7	9.400	8	; cluster_3 versus TATA-box-binding_6njq_A_3D-footprint (TATA-box-binding:6njq_A:3D-footprint); m=8/20; ncol2=7; w=-1; offset=-1; strand=D; shift=6; score= 9.4; ------GTTTATA------ ; cor=0.869; Ncor=0.401; logoDP=4.737; NsEucl=0.890; NSW=0.928; rcor=2; rNcor=19; rlogoDP=7; rNsEucl=12; rNSW=7; rank_mean=9.400; match_rank=8 a 0 0 0 0 0 0 9 11 0 0 67 0 96 0 0 0 0 0 0 c 0 0 0 0 0 0 9 9 0 0 9 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 69 9 0 0 11 0 0 0 0 0 0 0 0 t 0 0 0 0 0 0 9 67 96 96 9 96 0 0 0 0 0 0 0
FUL-3_EEAD0142_EEADannot_rc_shift5 (FUL-3:EEAD0142:EEADannot_rc)	0.736	0.589	2.062	0.911	0.905	15	1	15	6	12	9.800	9	; cluster_3 versus FUL-3_EEAD0142_EEADannot_rc (FUL-3:EEAD0142:EEADannot_rc); m=9/20; ncol2=15; w=-2; offset=-2; strand=R; shift=5; score= 9.8; -----yATTTATRGtAwgt ; cor=0.736; Ncor=0.589; logoDP=2.062; NsEucl=0.911; NSW=0.905; rcor=15; rNcor=1; rlogoDP=15; rNsEucl=6; rNSW=12; rank_mean=9.800; match_rank=9 a 0 0 0 0 0 1 86 5 23 15 74 5 25 0 23 90 61 22 23 c 0 0 0 0 0 56 1 7 0 1 1 2 0 1 11 4 1 14 11 g 0 0 0 0 0 1 1 1 1 0 2 0 74 98 3 2 4 41 21 t 0 0 0 0 0 42 12 87 76 84 23 93 1 1 63 4 34 23 45
AGL15_AGL15_Athamap_shift1 (AGL15:AGL15:Athamap)	0.773	0.429	2.279	0.911	0.920	11	14	14	7	8	10.800	10	; cluster_3 versus AGL15_AGL15_Athamap (AGL15:AGL15:Athamap); m=10/20; ncol2=16; w=-6; offset=-6; strand=D; shift=1; score= 10.8; -tTwCywwwwwwrGwAa-- ; cor=0.773; Ncor=0.429; logoDP=2.279; NsEucl=0.911; NSW=0.920; rcor=11; rNcor=14; rlogoDP=14; rNsEucl=7; rNSW=8; rank_mean=10.800; match_rank=10 a 0 5 4 16 0 1 17 10 17 13 19 8 19 0 9 26 19 0 0 c 0 4 2 2 32 15 4 3 0 0 1 1 0 0 5 1 3 0 0 g 0 3 1 4 0 0 1 2 1 0 2 4 12 31 4 1 4 0 0 t 0 20 25 10 0 16 10 17 14 19 10 19 1 1 14 4 6 0 0
KAN1_MA1027.2_JASPAR_rc_shift13 (KAN1:MA1027.2:JASPAR_rc)	0.803	0.402	0.789	0.896	0.935	6	18	20	10	3	11.400	11	; cluster_3 versus KAN1_MA1027.2_JASPAR_rc (KAN1:MA1027.2:JASPAR_rc); m=11/20; ncol2=6; w=0; offset=6; strand=R; shift=13; score= 11.4; -------------GaATaw ; cor=0.803; Ncor=0.402; logoDP=0.789; NsEucl=0.896; NSW=0.935; rcor=6; rNcor=18; rlogoDP=20; rNsEucl=10; rNSW=3; rank_mean=11.400; match_rank=11 a 0 0 0 0 0 0 0 0 0 0 0 0 0 44 648 840 20 623 323 c 0 0 0 0 0 0 0 0 0 0 0 0 0 18 169 19 68 58 43 g 0 0 0 0 0 0 0 0 0 0 0 0 0 876 147 87 14 192 16 t 0 0 0 0 0 0 0 0 0 0 0 0 0 63 36 54 898 128 618
TRANSCRIPTION_1qn6_B_3D-footprint_shift9 (TRANSCRIPTION:1qn6_B:3D-footprint)	0.743	0.495	6.488	0.867	0.859	14	7	1	18	18	11.600	12	; cluster_3 versus TRANSCRIPTION_1qn6_B_3D-footprint (TRANSCRIPTION:1qn6_B:3D-footprint); m=12/20; ncol2=8; w=0; offset=2; strand=D; shift=9; score= 11.6; ---------TATAAtAg-- ; cor=0.743; Ncor=0.495; logoDP=6.488; NsEucl=0.867; NSW=0.859; rcor=14; rNcor=7; rlogoDP=1; rNsEucl=18; rNSW=18; rank_mean=11.600; match_rank=12 a 0 0 0 0 0 0 0 0 0 0 96 0 96 96 13 96 13 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 13 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 54 0 0 t 0 0 0 0 0 0 0 0 0 96 0 96 0 0 54 0 16 0 0
SEP1_MA0584.2_JASPAR_shift4 (SEP1:MA0584.2:JASPAR)	0.704	0.469	2.417	0.898	0.895	20	11	11	8	14	12.800	13	; cluster_3 versus SEP1_MA0584.2_JASPAR (SEP1:MA0584.2:JASPAR); m=13/20; ncol2=13; w=-3; offset=-3; strand=D; shift=4; score= 12.8; ----CCAwWwwTrGwAa-- ; cor=0.704; Ncor=0.469; logoDP=2.417; NsEucl=0.898; NSW=0.895; rcor=20; rNcor=11; rlogoDP=11; rNsEucl=8; rNSW=14; rank_mean=12.800; match_rank=13 a 0 0 0 0 0 0 39 20 37 25 28 4 26 0 23 40 33 0 0 c 0 0 0 0 51 46 5 2 0 0 4 6 0 0 11 3 5 0 0 g 0 0 0 0 0 0 1 4 0 0 4 3 25 51 3 0 5 0 0 t 0 0 0 0 0 5 6 25 14 26 15 38 0 0 14 8 8 0 0
DcWRKY75_EEAD0058_EEADannot_shift12 (DcWRKY75:EEAD0058:EEADannot)	0.747	0.436	2.396	0.881	0.900	12	13	13	15	13	13.200	14	; cluster_3 versus DcWRKY75_EEAD0058_EEADannot (DcWRKY75:EEAD0058:EEADannot); m=14/20; ncol2=7; w=0; offset=5; strand=D; shift=12; score= 13.2; ------------AGAAkbT ; cor=0.747; Ncor=0.436; logoDP=2.396; NsEucl=0.881; NSW=0.900; rcor=12; rNcor=13; rlogoDP=13; rNsEucl=15; rNSW=13; rank_mean=13.200; match_rank=14 a 0 0 0 0 0 0 0 0 0 0 0 0 83 0 83 100 0 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 17 34 17 g 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 0 33 33 0 t 0 0 0 0 0 0 0 0 0 0 0 0 17 0 17 0 50 33 83
AHL20_AHL20_ArabidopsisPBM_shift6 (AHL20:AHL20:ArabidopsisPBM)	0.709	0.491	4.380	0.877	0.864	17	8	9	16	17	13.400	15	; cluster_3 versus AHL20_AHL20_ArabidopsisPBM (AHL20:AHL20:ArabidopsisPBM); m=15/20; ncol2=10; w=-1; offset=-1; strand=D; shift=6; score= 13.4; ------wAATATATTw--- ; cor=0.709; Ncor=0.491; logoDP=4.380; NsEucl=0.877; NSW=0.864; rcor=17; rNcor=8; rlogoDP=9; rNsEucl=16; rNSW=17; rank_mean=13.400; match_rank=15 a 0 0 0 0 0 0 44 95 88 8 87 13 91 11 3 44 0 0 0 c 0 0 0 0 0 0 16 1 0 1 0 0 1 1 1 10 0 0 0 g 0 0 0 0 0 0 11 1 1 1 0 0 0 0 1 21 0 0 0 t 0 0 0 0 0 0 29 3 11 90 13 87 8 88 95 25 0 0 0
TRANSCRIPTION_1qn4_B_3D-footprint_rc_shift9 (TRANSCRIPTION:1qn4_B:3D-footprint_rc)	0.779	0.520	0.886	0.877	0.879	10	6	19	17	16	13.600	16	; cluster_3 versus TRANSCRIPTION_1qn4_B_3D-footprint_rc (TRANSCRIPTION:1qn4_B:3D-footprint_rc); m=16/20; ncol2=8; w=0; offset=2; strand=R; shift=9; score= 13.6; ---------TATAAaAt-- ; cor=0.779; Ncor=0.520; logoDP=0.886; NsEucl=0.877; NSW=0.879; rcor=10; rNcor=6; rlogoDP=19; rNsEucl=17; rNSW=16; rank_mean=13.600; match_rank=16 a 0 0 0 0 0 0 0 0 0 0 96 0 96 96 54 96 13 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 13 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 16 0 0 t 0 0 0 0 0 0 0 0 0 96 0 96 0 0 16 0 54 0 0
AHL20_AHL20_3_ArabidopsisPBM_rc_shift11 (AHL20:AHL20_3:ArabidopsisPBM_rc)	0.709	0.405	1.585	0.894	0.910	18	15	16	11	10	14.000	17	; cluster_3 versus AHL20_AHL20_3_ArabidopsisPBM_rc (AHL20:AHL20_3:ArabidopsisPBM_rc); m=17/20; ncol2=10; w=0; offset=4; strand=R; shift=11; score= 14; -----------tAwwWWww ; cor=0.709; Ncor=0.405; logoDP=1.585; NsEucl=0.894; NSW=0.910; rcor=18; rNcor=15; rlogoDP=16; rNsEucl=11; rNSW=10; rank_mean=14.000; match_rank=17 a 0 0 0 0 0 0 0 0 0 0 0 19 89 40 37 69 28 61 58 c 0 0 0 0 0 0 0 0 0 0 0 11 5 1 1 3 0 1 1 g 0 0 0 0 0 0 0 0 0 0 0 22 3 1 1 0 3 1 1 t 0 0 0 0 0 0 0 0 0 0 0 48 3 58 61 28 69 37 40
TATA_1vto_B_3D-footprint_shift9 (TATA:1vto_B:3D-footprint)	0.706	0.470	6.472	0.858	0.839	19	10	2	20	20	14.200	18	; cluster_3 versus TATA_1vto_B_3D-footprint (TATA:1vto_B:3D-footprint); m=18/20; ncol2=8; w=0; offset=2; strand=D; shift=9; score= 14.2; ---------TATAAaAg-- ; cor=0.706; Ncor=0.470; logoDP=6.472; NsEucl=0.858; NSW=0.839; rcor=19; rNcor=10; rlogoDP=2; rNsEucl=20; rNSW=20; rank_mean=14.200; match_rank=18 a 0 0 0 0 0 0 0 0 0 0 96 0 96 96 54 96 13 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 16 0 13 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 57 0 0 t 0 0 0 0 0 0 0 0 0 96 0 96 0 0 13 0 13 0 0
AT1G14600_MA1706.2_JASPAR_rc_shift12 (AT1G14600:MA1706.2:JASPAR_rc)	0.743	0.400	1.303	0.885	0.908	13	20	17	13	11	14.800	19	; cluster_3 versus AT1G14600_MA1706.2_JASPAR_rc (AT1G14600:MA1706.2:JASPAR_rc); m=19/20; ncol2=8; w=0; offset=5; strand=R; shift=12; score= 14.8; ------------rGAATrT ; cor=0.743; Ncor=0.400; logoDP=1.303; NsEucl=0.885; NSW=0.908; rcor=13; rNcor=20; rlogoDP=17; rNsEucl=13; rNSW=11; rank_mean=14.800; match_rank=19 a 0 0 0 0 0 0 0 0 0 0 0 0 537 201 705 999 94 310 99 c 0 0 0 0 0 0 0 0 0 0 0 0 54 0 94 0 0 0 94 g 0 0 0 0 0 0 0 0 0 0 0 0 261 799 0 0 0 596 0 t 0 0 0 0 0 0 0 0 0 0 0 0 148 0 201 0 906 94 806
TRANSCRIPTION_1qne_B_3D-footprint_rc_shift9 (TRANSCRIPTION:1qne_B:3D-footprint_rc)	0.710	0.473	0.890	0.859	0.841	16	9	18	19	19	16.200	20	; cluster_3 versus TRANSCRIPTION_1qne_B_3D-footprint_rc (TRANSCRIPTION:1qne_B:3D-footprint_rc); m=20/20; ncol2=8; w=0; offset=2; strand=R; shift=9; score= 16.2; ---------TATAAaAg-- ; cor=0.710; Ncor=0.473; logoDP=0.890; NsEucl=0.859; NSW=0.841; rcor=16; rNcor=9; rlogoDP=18; rNsEucl=19; rNSW=19; rank_mean=16.200; match_rank=20 a 0 0 0 0 0 0 0 0 0 0 96 0 96 96 54 96 13 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 13 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 13 0 57 0 0 t 0 0 0 0 0 0 0 0 0 96 0 96 0 0 16 0 13 0 0