One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/09/15/compare-matrices_2025-09-15.163818_2jSCD9/compare-matrices_query_matrices.transfac -file2 $RSAT/public_html/motif_databases/Cistrome/Cistrome_Athaliana.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/2025/09/15/compare-matrices_2025-09-15.163818_2jSCD9/compare-matrices.tab

One-to-n matrix alignment; reference matrix: tcp4_c1_m6_assembly_6_shift0 ; 3 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m6_assembly_6_shift0 (assembly_6)                         
; tcp4_c1_m6_assembly_6 (assembly_6); m=0 (reference); ncol1=12; shift=0; ncol=12; daAGCAGCAGmw
; Alignment reference
a	127	147	298	44	44	383	17	20	369	30	136	139
c	55	98	29	20	333	2	4	350	5	7	113	56
g	112	63	26	285	7	2	357	15	11	340	52	82
t	100	86	41	45	10	7	16	9	9	17	93	117
NLP_tnt.AtNLP4_col_b_m1_shift0 (NLP_tnt.AtNLP4_col_b_m1) 0.950 0.760 6.320 0.962 0.983 1 1 41 1 1 9.000 1 
; tcp4_c1_m6_assembly_6 versus NLP_tnt.AtNLP4_col_b_m1; m=1/2; ncol2=15; w=0; offset=0; strand=D; shift=0; score=      9; dhwgCAGCAgcr
; cor=0.950; Ncor=0.760; logoDP=6.320; NsEucl=0.962; NSW=0.983; rcor=1; rNcor=1; rlogoDP=41; rNsEucl=1; rNSW=1; rank_mean=9.000; match_rank=1
a	94	96	174	48	0	360	3	0	360	80	74	134
c	56	118	43	41	362	0	0	365	0	47	159	52
g	122	55	48	229	0	5	362	0	4	196	70	92
t	93	96	100	47	3	0	0	0	1	42	62	87
ABI3VP1_tnt.AT5G25475_col_a_m1_shift0 (ABI3VP1_tnt.AT5G25475_col_a_m1) 0.820 0.410 3.776 0.854 0.873 9 95 58 108 78 69.600 
; tcp4_c1_m6_assembly_6 versus ABI3VP1_tnt.AT5G25475_col_a_m1; m=2/2; ncol2=6; w=0; offset=0; strand=D; shift=0; score=   69.6; CAAGCA------
; cor=0.820; Ncor=0.410; logoDP=3.776; NsEucl=0.854; NSW=0.873; rcor=9; rNcor=95; rlogoDP=58; rNsEucl=108; rNSW=78; rank_mean=69.600; match_rank=
a	0	218	218	0	0	218	0	0	0	0	0	0
c	196	0	0	0	218	0	0	0	0	0	0	0
g	22	0	0	218	0	0	0	0	0	0	0	0
t	0	0	0	0	0	0	0	0	0	0	0	0

One-to-n matrix alignment; reference matrix: tcp4_c1_m5_assembly_5_shift7 ; 9 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m5_assembly_5_shift7 (assembly_5)                         
; tcp4_c1_m5_assembly_5 (assembly_5); m=0 (reference); ncol1=11; shift=7; ncol=18; -------hdCCGGCGAww
; Alignment reference
a	0	0	0	0	0	0	0	127	122	30	13	16	21	38	21	371	139	127
c	0	0	0	0	0	0	0	106	50	336	376	3	10	337	19	11	83	63
g	0	0	0	0	0	0	0	62	112	24	8	379	358	8	352	15	71	100
t	0	0	0	0	0	0	0	117	128	22	15	14	23	29	20	15	119	122
Trihelix_tnt.AT5G05550_col_a_m1_shift4 (Trihelix_tnt.AT5G05550_col_a_m1) 0.918 0.673 5.090 0.946 0.968 2 2 52 2 2 12.000 2 
; tcp4_c1_m5_assembly_5 versus Trihelix_tnt.AT5G05550_col_a_m1; m=1/8; ncol2=15; w=-3; offset=-3; strand=D; shift=4; score=     12; ----hwtytCCGGCGayr
; cor=0.918; Ncor=0.673; logoDP=5.090; NsEucl=0.946; NSW=0.968; rcor=2; rNcor=2; rlogoDP=52; rNsEucl=2; rNSW=2; rank_mean=12.000; match_rank=2
a	0	0	0	0	181	192	123	7	86	1	0	0	52	0	35	394	96	184
c	0	0	0	0	152	81	62	355	9	595	596	0	68	496	17	27	213	75
g	0	0	0	0	71	98	45	3	123	0	0	596	451	0	543	115	71	259
t	0	0	0	0	192	225	366	231	378	0	0	0	25	100	1	60	216	78
Trihelix_tnt.AT5G05550_colamp_a_m1_shift4 (Trihelix_tnt.AT5G05550_colamp_a_m1) 0.916 0.671 5.292 0.944 0.965 3 4 50 3 3 12.600 3 
; tcp4_c1_m5_assembly_5 versus Trihelix_tnt.AT5G05550_colamp_a_m1; m=2/8; ncol2=15; w=-3; offset=-3; strand=D; shift=4; score=   12.6; ----hwtyTCCGGCGayr
; cor=0.916; Ncor=0.671; logoDP=5.292; NsEucl=0.944; NSW=0.965; rcor=3; rNcor=4; rlogoDP=50; rNsEucl=3; rNSW=3; rank_mean=12.600; match_rank=3
a	0	0	0	0	176	222	137	7	59	0	0	0	29	0	45	396	116	185
c	0	0	0	0	151	56	69	363	7	589	590	0	50	480	8	23	192	50
g	0	0	0	0	71	105	47	14	103	0	0	590	501	0	537	115	94	278
t	0	0	0	0	192	207	337	206	421	1	0	0	10	110	0	56	188	77
Trihelix_tnt.AT3G58630_col_a_m1_shift3 (Trihelix_tnt.AT3G58630_col_a_m1) 0.911 0.668 5.397 0.941 0.962 4 5 49 4 4 13.200 4 
; tcp4_c1_m5_assembly_5 versus Trihelix_tnt.AT3G58630_col_a_m1; m=3/8; ncol2=15; w=-4; offset=-4; strand=D; shift=3; score=   13.2; ---ahwtCTCCGGCGAcr
; cor=0.911; Ncor=0.668; logoDP=5.397; NsEucl=0.941; NSW=0.962; rcor=4; rNcor=5; rlogoDP=49; rNsEucl=4; rNSW=4; rank_mean=13.200; match_rank=4
a	0	0	0	207	200	215	115	17	43	0	0	0	12	0	63	385	129	162
c	0	0	0	115	140	41	63	389	16	555	555	0	0	477	25	33	202	64
g	0	0	0	132	64	99	58	15	56	0	0	555	527	1	446	83	120	199
t	0	0	0	101	151	200	319	134	440	0	0	0	16	77	21	54	104	130
Trihelix_tnt.AT3G58630_colamp_a_m1_shift3 (Trihelix_tnt.AT3G58630_colamp_a_m1) 0.898 0.659 5.194 0.938 0.958 6 6 51 5 5 14.600 5 
; tcp4_c1_m5_assembly_5 versus Trihelix_tnt.AT3G58630_colamp_a_m1; m=4/8; ncol2=15; w=-4; offset=-4; strand=D; shift=3; score=   14.6; ---awwtYTCCGGCGacr
; cor=0.898; Ncor=0.659; logoDP=5.194; NsEucl=0.938; NSW=0.958; rcor=6; rNcor=6; rlogoDP=51; rNsEucl=5; rNSW=5; rank_mean=14.600; match_rank=5
a	0	0	0	189	198	192	107	16	23	1	0	0	10	1	66	358	112	144
c	0	0	0	113	123	43	58	367	9	528	532	0	6	435	20	45	216	74
g	0	0	0	116	64	79	64	8	61	0	0	532	511	6	402	77	105	198
t	0	0	0	114	147	218	303	141	439	3	0	0	5	90	44	52	99	116
Trihelix_tnt.At3g14180_col_m1_rc_shift5 (Trihelix_tnt.At3g14180_col_m1_rc) 0.906 0.627 2.378 0.927 0.953 5 8 61 6 6 17.200 6 
; tcp4_c1_m5_assembly_5 versus Trihelix_tnt.At3g14180_col_m1_rc; m=5/8; ncol2=11; w=-2; offset=-2; strand=R; shift=5; score=   17.2; -----wTyTCCGGyGA--
; cor=0.906; Ncor=0.627; logoDP=2.378; NsEucl=0.927; NSW=0.953; rcor=5; rNcor=8; rlogoDP=61; rNsEucl=6; rNSW=6; rank_mean=17.200; match_rank=6
a	0	0	0	0	0	168	101	15	25	0	0	0	30	0	62	451	0	0
c	0	0	0	0	0	37	47	273	8	598	598	0	1	404	23	34	0	0
g	0	0	0	0	0	90	32	6	32	0	0	598	556	0	490	80	0	0
t	0	0	0	0	0	303	418	304	533	0	0	0	11	194	23	33	0	0
AP2EREBP_tnt.RAP211_colamp_a_m1_rc_shift4 (AP2EREBP_tnt.RAP211_colamp_a_m1_rc) 0.791 0.580 1.829 0.916 0.922 23 11 66 10 10 24.000 8 
; tcp4_c1_m5_assembly_5 versus AP2EREBP_tnt.RAP211_colamp_a_m1_rc; m=6/8; ncol2=15; w=-3; offset=-3; strand=R; shift=4; score=     24; ----mwywGCCGGCsaar
; cor=0.791; Ncor=0.580; logoDP=1.829; NsEucl=0.916; NSW=0.922; rcor=23; rNcor=11; rlogoDP=66; rNsEucl=10; rNSW=10; rank_mean=24.000; match_rank=8
a	0	0	0	0	220	201	142	191	18	0	0	0	4	1	63	267	229	214
c	0	0	0	0	179	78	167	142	0	586	587	0	7	586	340	69	90	90
g	0	0	0	0	70	144	86	105	568	1	0	587	485	0	158	140	138	178
t	0	0	0	0	118	164	192	149	1	0	0	0	91	0	26	111	130	105
AP2EREBP_tnt.RAP211_col_a_m1_rc_shift7 (AP2EREBP_tnt.RAP211_col_a_m1_rc) 0.793 0.581 0.430 0.917 0.924 21 10 82 9 8 26.000 9 
; tcp4_c1_m5_assembly_5 versus AP2EREBP_tnt.RAP211_col_a_m1_rc; m=7/8; ncol2=15; w=0; offset=0; strand=R; shift=7; score=     26; -------mGmCGGCgrhg
; cor=0.793; Ncor=0.581; logoDP=0.430; NsEucl=0.917; NSW=0.924; rcor=21; rNcor=10; rlogoDP=82; rNsEucl=9; rNSW=8; rank_mean=26.000; match_rank=9
a	0	0	0	0	0	0	0	161	28	147	0	0	0	24	83	208	163	119
c	0	0	0	0	0	0	0	193	0	329	588	0	0	539	71	42	220	41
g	0	0	0	0	0	0	0	132	560	112	0	588	588	0	373	323	42	342
t	0	0	0	0	0	0	0	102	0	0	0	0	0	25	61	15	163	86
LOBAS2_tnt.LBD18_col_a_m1_rc_shift0 (LOBAS2_tnt.LBD18_col_a_m1_rc) 0.742 0.429 0.340 0.917 0.925 82 85 97 8 7 55.800 47 
; tcp4_c1_m5_assembly_5 versus LOBAS2_tnt.LBD18_col_a_m1_rc; m=8/8; ncol2=19; w=-7; offset=-7; strand=R; shift=0; score=   55.8; sCgGAAAwtccGsmgrar
; cor=0.742; Ncor=0.429; logoDP=0.340; NsEucl=0.917; NSW=0.925; rcor=82; rNcor=85; rlogoDP=97; rNsEucl=8; rNSW=7; rank_mean=55.800; match_rank=47
a	24	29	69	41	414	416	471	386	102	138	93	0	10	256	148	160	246	236
c	352	571	47	65	6	2	7	49	131	297	365	1	170	232	16	87	130	60
g	204	0	407	409	117	127	76	11	74	103	38	580	403	41	346	248	79	171
t	20	0	77	85	63	55	46	154	293	62	104	19	17	71	90	105	145	133

One-to-n matrix alignment; reference matrix: tcp4_c1_m16_assembly_16_shift8 ; 30 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m16_assembly_16_shift8 (assembly_16)                         
; tcp4_c1_m16_assembly_16 (assembly_16); m=0 (reference); ncol1=10; shift=8; ncol=18; --------wwCAAAAGww
; Alignment reference
a	0	0	0	0	0	0	0	0	410	391	0	1043	1043	1043	1043	0	413	397
c	0	0	0	0	0	0	0	0	170	191	1043	0	0	0	0	0	149	155
g	0	0	0	0	0	0	0	0	190	147	0	0	0	0	0	1043	176	167
t	0	0	0	0	0	0	0	0	273	314	0	0	0	0	0	0	305	324
C3H_tnt.AT3G12130_colamp_a_m1_shift6 (C3H_tnt.AT3G12130_colamp_a_m1) 0.798 0.570 8.434 0.907 0.913 18 15 26 15 13 17.400 7 
; tcp4_c1_m16_assembly_16 versus C3H_tnt.AT3G12130_colamp_a_m1; m=1/29; ncol2=14; w=-2; offset=-2; strand=D; shift=6; score=   17.4; ------aawsAAAAAGkw
; cor=0.798; Ncor=0.570; logoDP=8.434; NsEucl=0.907; NSW=0.913; rcor=18; rNcor=15; rlogoDP=26; rNsEucl=15; rNSW=13; rank_mean=17.400; match_rank=7
a	0	0	0	0	0	0	288	252	223	101	430	457	600	600	591	0	59	164
c	0	0	0	0	0	0	76	104	82	217	59	13	0	0	0	0	78	63
g	0	0	0	0	0	0	133	112	138	184	71	0	0	0	9	600	208	103
t	0	0	0	0	0	0	103	132	157	98	40	130	0	0	0	0	255	270
C2C2dof_tnt.AT1G47655_colamp_a_m1_rc_shift8 (C2C2dof_tnt.AT1G47655_colamp_a_m1_rc) 0.814 0.543 0.360 0.911 0.922 12 26 89 11 9 29.400 10 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.AT1G47655_colamp_a_m1_rc; m=2/29; ncol2=15; w=0; offset=0; strand=R; shift=8; score=   29.4; --------araaAAAGaa
; cor=0.814; Ncor=0.543; logoDP=0.360; NsEucl=0.911; NSW=0.922; rcor=12; rNcor=26; rlogoDP=89; rNsEucl=11; rNSW=9; rank_mean=29.400; match_rank=10
a	0	0	0	0	0	0	0	0	264	197	352	353	516	559	529	15	210	348
c	0	0	0	0	0	0	0	0	72	138	82	61	0	0	0	5	134	79
g	0	0	0	0	0	0	0	0	119	183	108	63	51	12	42	551	97	66
t	0	0	0	0	0	0	0	0	116	53	29	94	4	0	0	0	130	78
C2C2dof_tnt.At1g64620_100ng20cy_b_m1_shift3 (C2C2dof_tnt.At1g64620_100ng20cy_b_m1) 0.787 0.414 8.900 0.903 0.905 24 92 4 17 15 30.400 11 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.At1g64620_100ng20cy_b_m1; m=3/29; ncol2=19; w=-5; offset=-5; strand=D; shift=3; score=   30.4; ---wwaaaamAAAAAGkw
; cor=0.787; Ncor=0.414; logoDP=8.900; NsEucl=0.903; NSW=0.905; rcor=24; rNcor=92; rlogoDP=4; rNsEucl=17; rNSW=15; rank_mean=30.400; match_rank=11
a	0	0	0	303	255	282	299	288	213	177	507	513	600	600	600	0	53	233
c	0	0	0	50	64	88	67	80	111	169	27	0	0	0	0	0	61	28
g	0	0	0	80	109	109	105	113	137	128	47	0	0	0	0	600	168	106
t	0	0	0	167	172	121	129	119	139	126	19	87	0	0	0	0	318	233
C2C2dof_tnt.dof45_col_a_m1_shift9 (C2C2dof_tnt.dof45_col_a_m1) 0.795 0.477 8.177 0.896 0.903 20 50 30 34 18 30.400 12 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.dof45_col_a_m1; m=4/29; ncol2=14; w=0; offset=1; strand=D; shift=9; score=   30.4; ---------rawAAAGtw
; cor=0.795; Ncor=0.477; logoDP=8.177; NsEucl=0.896; NSW=0.903; rcor=20; rNcor=50; rlogoDP=30; rNsEucl=34; rNSW=18; rank_mean=30.400; match_rank=12
a	0	0	0	0	0	0	0	0	0	182	402	349	600	600	600	0	104	282
c	0	0	0	0	0	0	0	0	0	108	72	7	0	0	0	0	125	15
g	0	0	0	0	0	0	0	0	0	194	47	27	0	0	0	600	57	135
t	0	0	0	0	0	0	0	0	0	116	79	217	0	0	0	0	314	168
C2C2dof_tnt.DAG2_col_a_m1_shift9 (C2C2dof_tnt.DAG2_col_a_m1) 0.768 0.576 8.641 0.888 0.887 33 12 14 64 42 33.000 15 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.DAG2_col_a_m1; m=5/29; ncol2=11; w=0; offset=1; strand=D; shift=9; score=     33; ---------sAAAAAGkd
; cor=0.768; Ncor=0.576; logoDP=8.641; NsEucl=0.888; NSW=0.887; rcor=33; rNcor=12; rlogoDP=14; rNsEucl=64; rNSW=42; rank_mean=33.000; match_rank=15
a	0	0	0	0	0	0	0	0	0	123	492	471	600	600	597	0	13	206
c	0	0	0	0	0	0	0	0	0	188	31	0	0	0	0	0	37	45
g	0	0	0	0	0	0	0	0	0	175	51	0	0	0	3	600	185	152
t	0	0	0	0	0	0	0	0	0	114	26	129	0	0	0	0	365	197
C2C2dof_tnt.CDF3_col_a_m1_shift3 (C2C2dof_tnt.CDF3_col_a_m1) 0.768 0.404 8.648 0.899 0.897 31 101 13 22 25 38.400 18 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.CDF3_col_a_m1; m=6/29; ncol2=19; w=-5; offset=-5; strand=D; shift=3; score=   38.4; ---aaaaargAAAAAGtr
; cor=0.768; Ncor=0.404; logoDP=8.648; NsEucl=0.899; NSW=0.897; rcor=31; rNcor=101; rlogoDP=13; rNsEucl=22; rNSW=25; rank_mean=38.400; match_rank=18
a	0	0	0	353	339	333	301	272	195	142	455	512	600	600	584	0	29	165
c	0	0	0	53	27	47	36	73	93	144	31	0	0	0	0	0	56	20
g	0	0	0	71	117	113	149	137	178	175	79	3	0	0	16	600	131	328
t	0	0	0	123	117	107	114	118	134	139	35	85	0	0	0	0	384	87
C2C2dof_tnt.dof45_colamp_a_m1_shift9 (C2C2dof_tnt.dof45_colamp_a_m1) 0.787 0.443 7.671 0.894 0.899 25 73 36 41 23 39.600 20 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.dof45_colamp_a_m1; m=7/29; ncol2=15; w=0; offset=1; strand=D; shift=9; score=   39.6; ---------aawAAAGtr
; cor=0.787; Ncor=0.443; logoDP=7.671; NsEucl=0.894; NSW=0.899; rcor=25; rNcor=73; rlogoDP=36; rNsEucl=41; rNSW=23; rank_mean=39.600; match_rank=20
a	0	0	0	0	0	0	0	0	0	174	281	271	512	516	519	0	87	354
c	0	0	0	0	0	0	0	0	0	94	80	10	2	0	0	0	81	3
g	0	0	0	0	0	0	0	0	0	128	57	44	7	3	3	522	27	132
t	0	0	0	0	0	0	0	0	0	126	104	197	1	3	0	0	327	33
C3H_tnt.AT5G63260_col_a_m1_shift9 (C3H_tnt.AT5G63260_col_a_m1) 0.760 0.570 8.516 0.886 0.884 50 16 21 72 49 41.600 22 
; tcp4_c1_m16_assembly_16 versus C3H_tnt.AT5G63260_col_a_m1; m=8/29; ncol2=11; w=0; offset=1; strand=D; shift=9; score=   41.6; ---------sAWAAAGKd
; cor=0.760; Ncor=0.570; logoDP=8.516; NsEucl=0.886; NSW=0.884; rcor=50; rNcor=16; rlogoDP=21; rNsEucl=72; rNSW=49; rank_mean=41.600; match_rank=22
a	0	0	0	0	0	0	0	0	0	109	453	433	600	600	599	0	0	191
c	0	0	0	0	0	0	0	0	0	163	28	0	0	0	0	0	25	41
g	0	0	0	0	0	0	0	0	0	197	70	0	0	0	1	600	164	154
t	0	0	0	0	0	0	0	0	0	131	49	167	0	0	0	0	411	214
C2C2dof_tnt.AT1G47655_col_a_m1_shift8 (C2C2dof_tnt.AT1G47655_col_a_m1) 0.739 0.672 7.694 0.894 0.887 87 3 35 43 41 41.800 24 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.AT1G47655_col_a_m1; m=9/29; ncol2=11; w=0; offset=0; strand=D; shift=8; score=   41.8; --------rsawAAAGTr
; cor=0.739; Ncor=0.672; logoDP=7.694; NsEucl=0.894; NSW=0.887; rcor=87; rNcor=3; rlogoDP=35; rNsEucl=43; rNSW=41; rank_mean=41.800; match_rank=24
a	0	0	0	0	0	0	0	0	158	132	343	332	600	600	544	0	0	342
c	0	0	0	0	0	0	0	0	144	158	84	2	0	0	0	0	86	1
g	0	0	0	0	0	0	0	0	154	204	88	3	0	0	56	600	23	227
t	0	0	0	0	0	0	0	0	144	106	85	263	0	0	0	0	491	30
C2C2dof_tnt.CDF3_colamp_a_m1_rc_shift2 (C2C2dof_tnt.CDF3_colamp_a_m1_rc) 0.813 0.452 0.234 0.910 0.919 13 66 108 14 12 42.600 25 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.CDF3_colamp_a_m1_rc; m=10/29; ncol2=18; w=-6; offset=-6; strand=R; shift=2; score=   42.6; --aAAAardraAAAAGtr
; cor=0.813; Ncor=0.452; logoDP=0.234; NsEucl=0.910; NSW=0.919; rcor=13; rNcor=66; rlogoDP=108; rNsEucl=14; rNSW=12; rank_mean=42.600; match_rank=25
a	0	0	340	409	432	439	352	247	203	161	343	491	600	600	567	0	78	229
c	0	0	78	38	23	26	46	73	81	121	70	13	0	0	0	0	89	11
g	0	0	76	80	97	89	132	202	156	203	110	20	0	0	33	600	57	278
t	0	0	106	73	48	46	70	78	160	115	77	76	0	0	0	0	376	82
C2C2dof_tnt.OBP4_colamp_a_m1_shift3 (C2C2dof_tnt.OBP4_colamp_a_m1) 0.765 0.403 8.479 0.898 0.896 39 106 24 25 28 44.400 28 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.OBP4_colamp_a_m1; m=11/29; ncol2=19; w=-5; offset=-5; strand=D; shift=3; score=   44.4; ---waaaaacAAAAAGtw
; cor=0.765; Ncor=0.403; logoDP=8.479; NsEucl=0.898; NSW=0.896; rcor=39; rNcor=106; rlogoDP=24; rNsEucl=25; rNSW=28; rank_mean=44.400; match_rank=28
a	0	0	0	283	256	298	328	243	221	145	527	483	600	600	583	0	54	263
c	0	0	0	64	79	70	75	88	119	203	6	0	0	0	0	0	84	37
g	0	0	0	81	127	94	111	146	137	143	31	0	0	0	17	600	135	88
t	0	0	0	172	138	138	86	123	123	109	36	117	0	0	0	0	327	212
C2C2dof_tnt.dof43_colamp_a_m1_rc_shift10 (C2C2dof_tnt.dof43_colamp_a_m1_rc) 0.816 0.408 5.771 0.890 0.904 11 98 43 56 17 45.000 29 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.dof43_colamp_a_m1_rc; m=12/29; ncol2=14; w=0; offset=2; strand=R; shift=10; score=     45; ----------awAAAGwr
; cor=0.816; Ncor=0.408; logoDP=5.771; NsEucl=0.890; NSW=0.904; rcor=11; rNcor=98; rlogoDP=43; rNsEucl=56; rNSW=17; rank_mean=45.000; match_rank=29
a	0	0	0	0	0	0	0	0	0	0	228	252	580	580	580	0	175	335
c	0	0	0	0	0	0	0	0	0	0	118	37	0	0	0	0	103	1
g	0	0	0	0	0	0	0	0	0	0	108	67	0	0	0	580	53	200
t	0	0	0	0	0	0	0	0	0	0	126	224	0	0	0	0	249	44
C2C2dof_tnt.At1g64620_colamp_a_m1_shift9 (C2C2dof_tnt.At1g64620_colamp_a_m1) 0.756 0.567 8.721 0.884 0.878 56 18 11 84 59 45.600 31 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.At1g64620_colamp_a_m1; m=13/29; ncol2=11; w=0; offset=1; strand=D; shift=9; score=   45.6; ---------sAAAAAGkw
; cor=0.756; Ncor=0.567; logoDP=8.721; NsEucl=0.884; NSW=0.878; rcor=56; rNcor=18; rlogoDP=11; rNsEucl=84; rNSW=59; rank_mean=45.600; match_rank=31
a	0	0	0	0	0	0	0	0	0	146	560	490	600	600	599	0	33	260
c	0	0	0	0	0	0	0	0	0	163	5	0	0	0	0	0	57	30
g	0	0	0	0	0	0	0	0	0	161	12	0	0	0	1	600	183	94
t	0	0	0	0	0	0	0	0	0	130	23	110	0	0	0	0	327	216
C2C2dof_tnt.dof42_col_a_m1_shift5 (C2C2dof_tnt.dof42_col_a_m1) 0.762 0.401 9.448 0.895 0.890 45 111 1 39 38 46.800 34 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.dof42_col_a_m1; m=14/29; ncol2=19; w=-3; offset=-3; strand=D; shift=5; score=   46.8; -----aaaarAAAAAGGy
; cor=0.762; Ncor=0.401; logoDP=9.448; NsEucl=0.895; NSW=0.890; rcor=45; rNcor=111; rlogoDP=1; rNsEucl=39; rNSW=38; rank_mean=46.800; match_rank=34
a	0	0	0	0	0	288	281	303	236	214	477	580	598	598	598	0	112	89
c	0	0	0	0	0	70	98	73	75	110	38	0	0	0	0	0	0	253
g	0	0	0	0	0	106	96	108	145	166	48	0	0	0	0	598	463	28
t	0	0	0	0	0	134	123	114	142	108	35	18	0	0	0	0	23	228
C2C2dof_tnt.AT2G28810_colamp_a_m1_rc_shift5 (C2C2dof_tnt.AT2G28810_colamp_a_m1_rc) 0.755 0.503 0.444 0.897 0.894 58 35 81 31 32 47.400 36 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.AT2G28810_colamp_a_m1_rc; m=15/29; ncol2=15; w=-3; offset=-3; strand=R; shift=5; score=   47.4; -----aaarsAWAAAGtr
; cor=0.755; Ncor=0.503; logoDP=0.444; NsEucl=0.897; NSW=0.894; rcor=58; rNcor=35; rlogoDP=81; rNsEucl=31; rNSW=32; rank_mean=47.400; match_rank=36
a	0	0	0	0	0	336	305	256	213	118	513	449	600	600	562	0	76	273
c	0	0	0	0	0	45	60	106	94	195	1	0	0	0	0	0	110	57
g	0	0	0	0	0	87	140	143	167	185	78	0	0	0	38	600	137	154
t	0	0	0	0	0	132	95	95	126	102	8	151	0	0	0	0	277	116
C2C2dof_tnt.AT5G02460_colamp_a_m1_rc_shift3 (C2C2dof_tnt.AT5G02460_colamp_a_m1_rc) 0.776 0.409 0.356 0.901 0.901 26 97 91 19 20 50.600 39 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.AT5G02460_colamp_a_m1_rc; m=16/29; ncol2=19; w=-5; offset=-5; strand=R; shift=3; score=   50.6; ---wwaaaamAWAAAGtw
; cor=0.776; Ncor=0.409; logoDP=0.356; NsEucl=0.901; NSW=0.901; rcor=26; rNcor=97; rlogoDP=91; rNsEucl=19; rNSW=20; rank_mean=50.600; match_rank=39
a	0	0	0	265	257	277	279	244	239	206	472	432	600	600	598	0	21	288
c	0	0	0	77	66	82	96	72	131	168	41	12	0	0	0	0	98	28
g	0	0	0	80	114	111	100	146	106	126	52	1	0	0	2	600	84	105
t	0	0	0	178	163	130	125	138	124	100	35	155	0	0	0	0	397	179
C2C2dof_tnt.dof24_colamp_a_m1_shift4 (C2C2dof_tnt.dof24_colamp_a_m1) 0.730 0.487 8.276 0.890 0.879 98 40 29 57 55 55.800 48 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.dof24_colamp_a_m1; m=17/29; ncol2=15; w=-4; offset=-4; strand=D; shift=4; score=   55.8; ----wwaaacAWAAAGTd
; cor=0.730; Ncor=0.487; logoDP=8.276; NsEucl=0.890; NSW=0.879; rcor=98; rNcor=40; rlogoDP=29; rNsEucl=57; rNSW=55; rank_mean=55.800; match_rank=48
a	0	0	0	0	261	265	287	237	233	122	551	433	597	597	580	0	10	215
c	0	0	0	0	80	63	76	93	122	202	0	0	0	0	0	0	55	32
g	0	0	0	0	102	107	95	134	126	137	29	0	0	0	17	597	120	173
t	0	0	0	0	154	162	139	133	116	136	17	164	0	0	0	0	412	177
C2C2dof_tnt.OBP4_col_a_m1_shift9 (C2C2dof_tnt.OBP4_col_a_m1) 0.752 0.451 8.570 0.884 0.878 62 67 17 85 60 58.200 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.OBP4_col_a_m1; m=18/29; ncol2=14; w=0; offset=1; strand=D; shift=9; score=   58.2; ---------sAAAAAGkw
; cor=0.752; Ncor=0.451; logoDP=8.570; NsEucl=0.884; NSW=0.878; rcor=62; rNcor=67; rlogoDP=17; rNsEucl=85; rNSW=60; rank_mean=58.200; match_rank=
a	0	0	0	0	0	0	0	0	0	142	529	456	599	600	600	0	22	193
c	0	0	0	0	0	0	0	0	0	194	17	0	0	0	0	0	37	23
g	0	0	0	0	0	0	0	0	0	174	34	3	0	0	0	600	209	127
t	0	0	0	0	0	0	0	0	0	90	20	141	1	0	0	0	332	257
C2C2dof_tnt.At3g45610_col_a_m1_rc_shift1 (C2C2dof_tnt.At3g45610_col_a_m1_rc) 0.766 0.403 0.303 0.899 0.897 38 105 101 23 26 58.600 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.At3g45610_col_a_m1_rc; m=19/29; ncol2=19; w=-7; offset=-7; strand=R; shift=1; score=   58.6; -aaaaaarrsAAAAAGtw
; cor=0.766; Ncor=0.403; logoDP=0.303; NsEucl=0.899; NSW=0.897; rcor=38; rNcor=105; rlogoDP=101; rNsEucl=23; rNSW=26; rank_mean=58.600; match_rank=
a	0	274	288	327	328	397	363	267	153	120	496	465	600	599	600	0	58	285
c	0	115	88	55	48	59	56	57	107	176	10	0	0	1	0	0	85	27
g	0	134	92	92	120	55	98	189	211	175	55	0	0	0	0	600	138	111
t	0	77	132	126	104	89	83	87	129	129	39	135	0	0	0	0	319	177
C2C2dof_tnt.dof24_col_a_m1_rc_shift9 (C2C2dof_tnt.dof24_col_a_m1_rc) 0.768 0.432 0.425 0.888 0.887 34 83 83 65 43 61.600 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.dof24_col_a_m1_rc; m=20/29; ncol2=15; w=0; offset=1; strand=R; shift=9; score=   61.6; ---------mAAAAAGtw
; cor=0.768; Ncor=0.432; logoDP=0.425; NsEucl=0.888; NSW=0.887; rcor=34; rNcor=83; rlogoDP=83; rNsEucl=65; rNSW=43; rank_mean=61.600; match_rank=
a	0	0	0	0	0	0	0	0	0	156	503	460	600	600	594	0	24	262
c	0	0	0	0	0	0	0	0	0	173	26	0	0	0	0	0	82	20
g	0	0	0	0	0	0	0	0	0	148	44	0	0	0	6	600	119	135
t	0	0	0	0	0	0	0	0	0	123	27	140	0	0	0	0	375	183
C2C2dof_tnt.At4g38000_colamp_a_m1_shift9 (C2C2dof_tnt.At4g38000_colamp_a_m1) 0.740 0.555 8.516 0.880 0.871 85 25 22 94 84 62.000 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.At4g38000_colamp_a_m1; m=21/29; ncol2=11; w=0; offset=1; strand=D; shift=9; score=     62; ---------sAWAAAGTw
; cor=0.740; Ncor=0.555; logoDP=8.516; NsEucl=0.880; NSW=0.871; rcor=85; rNcor=25; rlogoDP=22; rNsEucl=94; rNSW=84; rank_mean=62.000; match_rank=
a	0	0	0	0	0	0	0	0	0	131	524	423	599	599	599	0	20	231
c	0	0	0	0	0	0	0	0	0	181	23	0	0	0	0	0	46	35
g	0	0	0	0	0	0	0	0	0	213	24	0	0	0	0	599	110	74
t	0	0	0	0	0	0	0	0	0	74	28	176	0	0	0	0	423	259
C3H_tnt.AT5G63260_colamp_a_m1_shift9 (C3H_tnt.AT5G63260_colamp_a_m1) 0.741 0.556 8.552 0.880 0.871 83 24 20 96 87 62.000 
; tcp4_c1_m16_assembly_16 versus C3H_tnt.AT5G63260_colamp_a_m1; m=22/29; ncol2=11; w=0; offset=1; strand=D; shift=9; score=     62; ---------sAAAAAGTd
; cor=0.741; Ncor=0.556; logoDP=8.552; NsEucl=0.880; NSW=0.871; rcor=83; rNcor=24; rlogoDP=20; rNsEucl=96; rNSW=87; rank_mean=62.000; match_rank=
a	0	0	0	0	0	0	0	0	0	101	547	502	594	600	591	0	5	205
c	0	0	0	0	0	0	0	0	0	199	0	1	6	0	0	0	45	31
g	0	0	0	0	0	0	0	0	0	173	29	0	0	0	9	600	135	165
t	0	0	0	0	0	0	0	0	0	127	24	97	0	0	0	0	415	199
C2C2dof_tnt.At3g45610_colamp_a_m1_rc_shift9 (C2C2dof_tnt.At3g45610_colamp_a_m1_rc) 0.771 0.434 0.275 0.889 0.889 30 80 106 62 39 63.400 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.At3g45610_colamp_a_m1_rc; m=23/29; ncol2=15; w=0; offset=1; strand=R; shift=9; score=   63.4; ---------sAAAAAGkw
; cor=0.771; Ncor=0.434; logoDP=0.275; NsEucl=0.889; NSW=0.889; rcor=30; rNcor=80; rlogoDP=106; rNsEucl=62; rNSW=39; rank_mean=63.400; match_rank=
a	0	0	0	0	0	0	0	0	0	115	498	460	600	600	599	0	59	223
c	0	0	0	0	0	0	0	0	0	222	28	2	0	0	0	0	83	70
g	0	0	0	0	0	0	0	0	0	196	61	0	0	0	1	600	198	101
t	0	0	0	0	0	0	0	0	0	67	13	138	0	0	0	0	260	206
C2C2dof_tnt.DAG2_colamp_a_m1_shift9 (C2C2dof_tnt.DAG2_colamp_a_m1) 0.741 0.477 8.558 0.881 0.873 84 51 19 92 77 64.600 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.DAG2_colamp_a_m1; m=24/29; ncol2=13; w=0; offset=1; strand=D; shift=9; score=   64.6; ---------cAAAAAGkk
; cor=0.741; Ncor=0.477; logoDP=8.558; NsEucl=0.881; NSW=0.873; rcor=84; rNcor=51; rlogoDP=19; rNsEucl=92; rNSW=77; rank_mean=64.600; match_rank=
a	0	0	0	0	0	0	0	0	0	140	529	457	598	598	596	0	1	142
c	0	0	0	0	0	0	0	0	0	191	2	0	0	0	0	0	21	70
g	0	0	0	0	0	0	0	0	0	143	42	0	0	0	2	598	214	159
t	0	0	0	0	0	0	0	0	0	124	25	141	0	0	0	0	362	227
C2C2dof_tnt.AT3G52440_col_a_m1_shift9 (C2C2dof_tnt.AT3G52440_col_a_m1) 0.717 0.538 8.280 0.877 0.864 107 29 28 102 103 73.800 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.AT3G52440_col_a_m1; m=25/29; ncol2=11; w=0; offset=1; strand=D; shift=9; score=   73.8; ---------sAwAAAGkd
; cor=0.717; Ncor=0.538; logoDP=8.280; NsEucl=0.877; NSW=0.864; rcor=107; rNcor=29; rlogoDP=28; rNsEucl=102; rNSW=103; rank_mean=73.800; match_rank=
a	0	0	0	0	0	0	0	0	0	107	467	348	599	599	599	0	2	169
c	0	0	0	0	0	0	0	0	0	206	4	0	0	0	0	0	6	31
g	0	0	0	0	0	0	0	0	0	187	103	0	0	0	0	599	219	198
t	0	0	0	0	0	0	0	0	0	99	25	251	0	0	0	0	372	201
C2H2_tnt.IDD7_col_a_m1_shift0 (C2H2_tnt.IDD7_col_a_m1) 0.720 0.400 7.481 0.885 0.868 106 112 39 80 97 86.800 
; tcp4_c1_m16_assembly_16 versus C2H2_tnt.IDD7_col_a_m1; m=26/29; ncol2=18; w=-8; offset=-8; strand=D; shift=0; score=   86.8; mrsAAAAcGACAAAAawa
; cor=0.720; Ncor=0.400; logoDP=7.481; NsEucl=0.885; NSW=0.868; rcor=106; rNcor=112; rlogoDP=39; rNsEucl=80; rNSW=97; rank_mean=86.800; match_rank=
a	190	394	95	400	489	424	528	136	2	575	0	574	576	540	441	293	267	244
c	232	20	224	3	1	49	31	375	0	9	585	0	2	11	25	89	77	95
g	44	153	197	36	0	88	23	57	583	0	0	11	6	29	39	66	62	108
t	119	18	69	146	95	24	3	17	0	1	0	0	1	5	80	137	179	138
C2H2_tnt.IDD2_colamp_a_m1_rc_shift0 (C2H2_tnt.IDD2_colamp_a_m1_rc) 0.723 0.402 0.562 0.887 0.872 104 108 77 70 83 88.400 
; tcp4_c1_m16_assembly_16 versus C2H2_tnt.IDD2_colamp_a_m1_rc; m=27/29; ncol2=18; w=-8; offset=-8; strand=R; shift=0; score=   88.4; masaAaAmGACAAAAwwa
; cor=0.723; Ncor=0.402; logoDP=0.562; NsEucl=0.887; NSW=0.872; rcor=104; rNcor=108; rlogoDP=77; rNsEucl=70; rNSW=83; rank_mean=88.400; match_rank=
a	188	288	142	386	452	339	507	165	11	572	0	578	569	519	407	239	242	208
c	183	84	157	12	5	49	30	345	0	6	578	0	8	13	31	109	95	92
g	71	144	205	61	0	97	36	53	567	0	0	0	0	40	59	78	76	134
t	136	62	74	119	121	93	5	15	0	0	0	0	1	6	81	152	165	144
C2C2dof_tnt.COG1_colamp_a_m1_rc_shift9 (C2C2dof_tnt.COG1_colamp_a_m1_rc) 0.737 0.414 0.473 0.879 0.868 91 93 79 100 95 91.600 
; tcp4_c1_m16_assembly_16 versus C2C2dof_tnt.COG1_colamp_a_m1_rc; m=28/29; ncol2=15; w=0; offset=1; strand=R; shift=9; score=   91.6; ---------vAAAAAGTr
; cor=0.737; Ncor=0.414; logoDP=0.473; NsEucl=0.879; NSW=0.868; rcor=91; rNcor=93; rlogoDP=79; rNsEucl=100; rNSW=95; rank_mean=91.600; match_rank=
a	0	0	0	0	0	0	0	0	0	171	496	454	595	595	595	0	25	190
c	0	0	0	0	0	0	0	0	0	155	21	0	0	0	0	0	46	1
g	0	0	0	0	0	0	0	0	0	156	35	0	0	0	0	595	82	347
t	0	0	0	0	0	0	0	0	0	113	43	141	0	0	0	0	442	57
C2H2_tnt.MGP_colamp_a_m1_rc_shift0 (C2H2_tnt.MGP_colamp_a_m1_rc) 0.724 0.402 0.573 0.885 0.868 103 107 76 79 96 92.200 
; tcp4_c1_m16_assembly_16 versus C2H2_tnt.MGP_colamp_a_m1_rc; m=29/29; ncol2=18; w=-8; offset=-8; strand=R; shift=0; score=   92.2; maswAaACGACAAAAaww
; cor=0.724; Ncor=0.402; logoDP=0.573; NsEucl=0.885; NSW=0.868; rcor=103; rNcor=107; rlogoDP=76; rNsEucl=79; rNSW=96; rank_mean=92.200; match_rank=
a	176	360	130	379	512	389	549	124	2	592	0	592	587	558	452	283	266	237
c	234	63	195	12	0	35	22	410	0	0	592	0	3	5	28	99	78	82
g	49	136	198	52	0	77	19	46	590	0	0	0	2	24	36	68	76	119
t	133	33	69	149	80	91	2	12	0	0	0	0	0	5	76	142	172	154

One-to-n matrix alignment; reference matrix: tcp4_c1_m14_assembly_14_shift7 ; 25 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m14_assembly_14_shift7 (assembly_14)                         
; tcp4_c1_m14_assembly_14 (assembly_14); m=0 (reference); ncol1=10; shift=7; ncol=17; -------waAGAAAGww
; Alignment reference
a	0	0	0	0	0	0	0	381	440	951	0	951	951	951	0	461	373
c	0	0	0	0	0	0	0	146	100	0	0	0	0	0	0	123	114
g	0	0	0	0	0	0	0	178	231	0	951	0	0	0	951	123	210
t	0	0	0	0	0	0	0	246	180	0	0	0	0	0	0	244	254
C2C2dof_tnt.dof45_col_a_m1_shift8 (C2C2dof_tnt.dof45_col_a_m1) 0.796 0.478 8.103 0.896 0.902 19 48 31 36 19 30.600 13 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.dof45_col_a_m1; m=1/24; ncol2=14; w=0; offset=1; strand=D; shift=8; score=   30.6; --------rawAAAGtw
; cor=0.796; Ncor=0.478; logoDP=8.103; NsEucl=0.896; NSW=0.902; rcor=19; rNcor=48; rlogoDP=31; rNsEucl=36; rNSW=19; rank_mean=30.600; match_rank=13
a	0	0	0	0	0	0	0	0	182	402	349	600	600	600	0	104	282
c	0	0	0	0	0	0	0	0	108	72	7	0	0	0	0	125	15
g	0	0	0	0	0	0	0	0	194	47	27	0	0	0	600	57	135
t	0	0	0	0	0	0	0	0	116	79	217	0	0	0	0	314	168
C2C2dof_tnt.dof24_colamp_a_m1_shift3 (C2C2dof_tnt.dof24_colamp_a_m1) 0.760 0.507 8.843 0.896 0.892 48 34 5 35 36 31.600 14 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.dof24_colamp_a_m1; m=2/24; ncol2=15; w=-4; offset=-4; strand=D; shift=3; score=   31.6; ---wwaaacAWAAAGTd
; cor=0.760; Ncor=0.507; logoDP=8.843; NsEucl=0.896; NSW=0.892; rcor=48; rNcor=34; rlogoDP=5; rNsEucl=35; rNSW=36; rank_mean=31.600; match_rank=14
a	0	0	0	261	265	287	237	233	122	551	433	597	597	580	0	10	215
c	0	0	0	80	63	76	93	122	202	0	0	0	0	0	0	55	32
g	0	0	0	102	107	95	134	126	137	29	0	0	0	17	597	120	173
t	0	0	0	154	162	139	133	116	136	17	164	0	0	0	0	412	177
C2C2dof_tnt.AT1G47655_colamp_a_m1_rc_shift7 (C2C2dof_tnt.AT1G47655_colamp_a_m1_rc) 0.813 0.542 0.278 0.910 0.920 14 27 104 13 11 33.800 16 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.AT1G47655_colamp_a_m1_rc; m=3/24; ncol2=15; w=0; offset=0; strand=R; shift=7; score=   33.8; -------araaAAAGaa
; cor=0.813; Ncor=0.542; logoDP=0.278; NsEucl=0.910; NSW=0.920; rcor=14; rNcor=27; rlogoDP=104; rNsEucl=13; rNSW=11; rank_mean=33.800; match_rank=16
a	0	0	0	0	0	0	0	264	197	352	353	516	559	529	15	210	348
c	0	0	0	0	0	0	0	72	138	82	61	0	0	0	5	134	79
g	0	0	0	0	0	0	0	119	183	108	63	51	12	42	551	97	66
t	0	0	0	0	0	0	0	116	53	29	94	4	0	0	0	130	78
C2C2dof_tnt.At1g64620_colamp_a_m1_shift8 (C2C2dof_tnt.At1g64620_colamp_a_m1) 0.767 0.575 9.079 0.886 0.883 35 14 2 74 52 35.400 17 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.At1g64620_colamp_a_m1; m=4/24; ncol2=11; w=0; offset=1; strand=D; shift=8; score=   35.4; --------sAAAAAGkw
; cor=0.767; Ncor=0.575; logoDP=9.079; NsEucl=0.886; NSW=0.883; rcor=35; rNcor=14; rlogoDP=2; rNsEucl=74; rNSW=52; rank_mean=35.400; match_rank=17
a	0	0	0	0	0	0	0	0	146	560	490	600	600	599	0	33	260
c	0	0	0	0	0	0	0	0	163	5	0	0	0	0	0	57	30
g	0	0	0	0	0	0	0	0	161	12	0	0	0	1	600	183	94
t	0	0	0	0	0	0	0	0	130	23	110	0	0	0	0	327	216
C2C2dof_tnt.AT2G28810_colamp_a_m1_rc_shift4 (C2C2dof_tnt.AT2G28810_colamp_a_m1_rc) 0.772 0.515 0.346 0.900 0.900 29 31 95 20 22 39.400 19 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.AT2G28810_colamp_a_m1_rc; m=5/24; ncol2=15; w=-3; offset=-3; strand=R; shift=4; score=   39.4; ----aaarsAWAAAGtr
; cor=0.772; Ncor=0.515; logoDP=0.346; NsEucl=0.900; NSW=0.900; rcor=29; rNcor=31; rlogoDP=95; rNsEucl=20; rNSW=22; rank_mean=39.400; match_rank=19
a	0	0	0	0	336	305	256	213	118	513	449	600	600	562	0	76	273
c	0	0	0	0	45	60	106	94	195	1	0	0	0	0	0	110	57
g	0	0	0	0	87	140	143	167	185	78	0	0	0	38	600	137	154
t	0	0	0	0	132	95	95	126	102	8	151	0	0	0	0	277	116
C3H_tnt.AT3G12130_colamp_a_m1_shift5 (C3H_tnt.AT3G12130_colamp_a_m1) 0.751 0.536 8.047 0.896 0.891 66 30 33 37 37 40.600 21 
; tcp4_c1_m14_assembly_14 versus C3H_tnt.AT3G12130_colamp_a_m1; m=6/24; ncol2=14; w=-2; offset=-2; strand=D; shift=5; score=   40.6; -----aawsAAAAAGkw
; cor=0.751; Ncor=0.536; logoDP=8.047; NsEucl=0.896; NSW=0.891; rcor=66; rNcor=30; rlogoDP=33; rNsEucl=37; rNSW=37; rank_mean=40.600; match_rank=21
a	0	0	0	0	0	288	252	223	101	430	457	600	600	591	0	59	164
c	0	0	0	0	0	76	104	82	217	59	13	0	0	0	0	78	63
g	0	0	0	0	0	133	112	138	184	71	0	0	0	9	600	208	103
t	0	0	0	0	0	103	132	157	98	40	130	0	0	0	0	255	270
C2C2dof_tnt.OBP4_colamp_a_m1_shift2 (C2C2dof_tnt.OBP4_colamp_a_m1) 0.767 0.404 8.575 0.898 0.896 36 102 16 26 29 41.800 23 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.OBP4_colamp_a_m1; m=7/24; ncol2=19; w=-5; offset=-5; strand=D; shift=2; score=   41.8; --waaaaacAAAAAGtw
; cor=0.767; Ncor=0.404; logoDP=8.575; NsEucl=0.898; NSW=0.896; rcor=36; rNcor=102; rlogoDP=16; rNsEucl=26; rNSW=29; rank_mean=41.800; match_rank=23
a	0	0	283	256	298	328	243	221	145	527	483	600	600	583	0	54	263
c	0	0	64	79	70	75	88	119	203	6	0	0	0	0	0	84	37
g	0	0	81	127	94	111	146	137	143	31	0	0	0	17	600	135	88
t	0	0	172	138	138	86	123	123	109	36	117	0	0	0	0	327	212
C2C2dof_tnt.At4g38000_colamp_a_m1_shift8 (C2C2dof_tnt.At4g38000_colamp_a_m1) 0.759 0.569 8.771 0.884 0.879 52 17 10 83 56 43.600 26 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.At4g38000_colamp_a_m1; m=8/24; ncol2=11; w=0; offset=1; strand=D; shift=8; score=   43.6; --------sAWAAAGTw
; cor=0.759; Ncor=0.569; logoDP=8.771; NsEucl=0.884; NSW=0.879; rcor=52; rNcor=17; rlogoDP=10; rNsEucl=83; rNSW=56; rank_mean=43.600; match_rank=26
a	0	0	0	0	0	0	0	0	131	524	423	599	599	599	0	20	231
c	0	0	0	0	0	0	0	0	181	23	0	0	0	0	0	46	35
g	0	0	0	0	0	0	0	0	213	24	0	0	0	0	599	110	74
t	0	0	0	0	0	0	0	0	74	28	176	0	0	0	0	423	259
C2C2dof_tnt.dof45_colamp_a_m1_shift8 (C2C2dof_tnt.dof45_colamp_a_m1) 0.773 0.435 7.550 0.890 0.892 28 79 38 54 35 46.800 33 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.dof45_colamp_a_m1; m=9/24; ncol2=15; w=0; offset=1; strand=D; shift=8; score=   46.8; --------aawAAAGtr
; cor=0.773; Ncor=0.435; logoDP=7.550; NsEucl=0.890; NSW=0.892; rcor=28; rNcor=79; rlogoDP=38; rNsEucl=54; rNSW=35; rank_mean=46.800; match_rank=33
a	0	0	0	0	0	0	0	0	174	281	271	512	516	519	0	87	354
c	0	0	0	0	0	0	0	0	94	80	10	2	0	0	0	81	3
g	0	0	0	0	0	0	0	0	128	57	44	7	3	3	522	27	132
t	0	0	0	0	0	0	0	0	126	104	197	1	3	0	0	327	33
C2C2dof_tnt.At1g64620_100ng20cy_b_m1_shift2 (C2C2dof_tnt.At1g64620_100ng20cy_b_m1) 0.763 0.402 8.634 0.897 0.894 44 110 15 32 33 46.800 35 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.At1g64620_100ng20cy_b_m1; m=10/24; ncol2=19; w=-5; offset=-5; strand=D; shift=2; score=   46.8; --wwaaaamAAAAAGkw
; cor=0.763; Ncor=0.402; logoDP=8.634; NsEucl=0.897; NSW=0.894; rcor=44; rNcor=110; rlogoDP=15; rNsEucl=32; rNSW=33; rank_mean=46.800; match_rank=35
a	0	0	303	255	282	299	288	213	177	507	513	600	600	600	0	53	233
c	0	0	50	64	88	67	80	111	169	27	0	0	0	0	0	61	28
g	0	0	80	109	109	105	113	137	128	47	0	0	0	0	600	168	106
t	0	0	167	172	121	129	119	139	126	19	87	0	0	0	0	318	233
C2C2dof_tnt.OBP4_col_a_m1_shift8 (C2C2dof_tnt.OBP4_col_a_m1) 0.762 0.457 8.790 0.886 0.882 46 63 8 76 53 49.200 38 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.OBP4_col_a_m1; m=11/24; ncol2=14; w=0; offset=1; strand=D; shift=8; score=   49.2; --------sAAAAAGkw
; cor=0.762; Ncor=0.457; logoDP=8.790; NsEucl=0.886; NSW=0.882; rcor=46; rNcor=63; rlogoDP=8; rNsEucl=76; rNSW=53; rank_mean=49.200; match_rank=38
a	0	0	0	0	0	0	0	0	142	529	456	599	600	600	0	22	193
c	0	0	0	0	0	0	0	0	194	17	0	0	0	0	0	37	23
g	0	0	0	0	0	0	0	0	174	34	3	0	0	0	600	209	127
t	0	0	0	0	0	0	0	0	90	20	141	1	0	0	0	332	257
C2C2dof_tnt.DAG2_col_a_m1_shift8 (C2C2dof_tnt.DAG2_col_a_m1) 0.751 0.564 8.477 0.883 0.878 64 19 25 86 63 51.400 40 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.DAG2_col_a_m1; m=12/24; ncol2=11; w=0; offset=1; strand=D; shift=8; score=   51.4; --------sAAAAAGkd
; cor=0.751; Ncor=0.564; logoDP=8.477; NsEucl=0.883; NSW=0.878; rcor=64; rNcor=19; rlogoDP=25; rNsEucl=86; rNSW=63; rank_mean=51.400; match_rank=40
a	0	0	0	0	0	0	0	0	123	492	471	600	600	597	0	13	206
c	0	0	0	0	0	0	0	0	188	31	0	0	0	0	0	37	45
g	0	0	0	0	0	0	0	0	175	51	0	0	0	3	600	185	152
t	0	0	0	0	0	0	0	0	114	26	129	0	0	0	0	365	197
C2C2dof_tnt.AT3G52440_col_a_m1_shift8 (C2C2dof_tnt.AT3G52440_col_a_m1) 0.749 0.562 8.496 0.883 0.878 69 20 23 87 64 52.600 42 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.AT3G52440_col_a_m1; m=13/24; ncol2=11; w=0; offset=1; strand=D; shift=8; score=   52.6; --------sAwAAAGkd
; cor=0.749; Ncor=0.562; logoDP=8.496; NsEucl=0.883; NSW=0.878; rcor=69; rNcor=20; rlogoDP=23; rNsEucl=87; rNSW=64; rank_mean=52.600; match_rank=42
a	0	0	0	0	0	0	0	0	107	467	348	599	599	599	0	2	169
c	0	0	0	0	0	0	0	0	206	4	0	0	0	0	0	6	31
g	0	0	0	0	0	0	0	0	187	103	0	0	0	0	599	219	198
t	0	0	0	0	0	0	0	0	99	25	251	0	0	0	0	372	201
C2C2dof_tnt.DAG2_colamp_a_m1_shift8 (C2C2dof_tnt.DAG2_colamp_a_m1) 0.753 0.484 8.823 0.883 0.877 61 43 6 89 65 52.800 43 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.DAG2_colamp_a_m1; m=14/24; ncol2=13; w=0; offset=1; strand=D; shift=8; score=   52.8; --------cAAAAAGkk
; cor=0.753; Ncor=0.484; logoDP=8.823; NsEucl=0.883; NSW=0.877; rcor=61; rNcor=43; rlogoDP=6; rNsEucl=89; rNSW=65; rank_mean=52.800; match_rank=43
a	0	0	0	0	0	0	0	0	140	529	457	598	598	596	0	1	142
c	0	0	0	0	0	0	0	0	191	2	0	0	0	0	0	21	70
g	0	0	0	0	0	0	0	0	143	42	0	0	0	2	598	214	159
t	0	0	0	0	0	0	0	0	124	25	141	0	0	0	0	362	227
C2C2dof_tnt.AT5G02460_colamp_a_m1_rc_shift2 (C2C2dof_tnt.AT5G02460_colamp_a_m1_rc) 0.766 0.403 0.353 0.898 0.896 37 103 92 24 27 56.600 51 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.AT5G02460_colamp_a_m1_rc; m=15/24; ncol2=19; w=-5; offset=-5; strand=R; shift=2; score=   56.6; --wwaaaamAWAAAGtw
; cor=0.766; Ncor=0.403; logoDP=0.353; NsEucl=0.898; NSW=0.896; rcor=37; rNcor=103; rlogoDP=92; rNsEucl=24; rNSW=27; rank_mean=56.600; match_rank=51
a	0	0	265	257	277	279	244	239	206	472	432	600	600	598	0	21	288
c	0	0	77	66	82	96	72	131	168	41	12	0	0	0	0	98	28
g	0	0	80	114	111	100	146	106	126	52	1	0	0	2	600	84	105
t	0	0	178	163	130	125	138	124	100	35	155	0	0	0	0	397	179
C3H_tnt.AT5G63260_colamp_a_m1_shift8 (C3H_tnt.AT5G63260_colamp_a_m1) 0.744 0.558 8.777 0.880 0.871 76 22 9 95 85 57.400 
; tcp4_c1_m14_assembly_14 versus C3H_tnt.AT5G63260_colamp_a_m1; m=16/24; ncol2=11; w=0; offset=1; strand=D; shift=8; score=   57.4; --------sAAAAAGTd
; cor=0.744; Ncor=0.558; logoDP=8.777; NsEucl=0.880; NSW=0.871; rcor=76; rNcor=22; rlogoDP=9; rNsEucl=95; rNSW=85; rank_mean=57.400; match_rank=
a	0	0	0	0	0	0	0	0	101	547	502	594	600	591	0	5	205
c	0	0	0	0	0	0	0	0	199	0	1	6	0	0	0	45	31
g	0	0	0	0	0	0	0	0	173	29	0	0	0	9	600	135	165
t	0	0	0	0	0	0	0	0	127	24	97	0	0	0	0	415	199
C3H_tnt.AT5G63260_col_a_m1_shift8 (C3H_tnt.AT5G63260_col_a_m1) 0.743 0.558 8.295 0.882 0.874 78 23 27 91 71 58.000 
; tcp4_c1_m14_assembly_14 versus C3H_tnt.AT5G63260_col_a_m1; m=17/24; ncol2=11; w=0; offset=1; strand=D; shift=8; score=     58; --------sAWAAAGKd
; cor=0.743; Ncor=0.558; logoDP=8.295; NsEucl=0.882; NSW=0.874; rcor=78; rNcor=23; rlogoDP=27; rNsEucl=91; rNSW=71; rank_mean=58.000; match_rank=
a	0	0	0	0	0	0	0	0	109	453	433	600	600	599	0	0	191
c	0	0	0	0	0	0	0	0	163	28	0	0	0	0	0	25	41
g	0	0	0	0	0	0	0	0	197	70	0	0	0	1	600	164	154
t	0	0	0	0	0	0	0	0	131	49	167	0	0	0	0	411	214
C2C2dof_tnt.AT1G47655_col_a_m1_shift7 (C2C2dof_tnt.AT1G47655_col_a_m1) 0.707 0.643 7.352 0.887 0.872 112 7 40 66 79 60.800 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.AT1G47655_col_a_m1; m=18/24; ncol2=11; w=0; offset=0; strand=D; shift=7; score=   60.8; -------rsawAAAGTr
; cor=0.707; Ncor=0.643; logoDP=7.352; NsEucl=0.887; NSW=0.872; rcor=112; rNcor=7; rlogoDP=40; rNsEucl=66; rNSW=79; rank_mean=60.800; match_rank=
a	0	0	0	0	0	0	0	158	132	343	332	600	600	544	0	0	342
c	0	0	0	0	0	0	0	144	158	84	2	0	0	0	0	86	1
g	0	0	0	0	0	0	0	154	204	88	3	0	0	56	600	23	227
t	0	0	0	0	0	0	0	144	106	85	263	0	0	0	0	491	30
C2C2dof_tnt.At3g45610_col_a_m1_rc_shift0 (C2C2dof_tnt.At3g45610_col_a_m1_rc) 0.763 0.402 0.292 0.897 0.895 42 109 102 28 30 62.200 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.At3g45610_col_a_m1_rc; m=19/24; ncol2=19; w=-7; offset=-7; strand=R; shift=0; score=   62.2; aaaaaarrsAAAAAGtw
; cor=0.763; Ncor=0.402; logoDP=0.292; NsEucl=0.897; NSW=0.895; rcor=42; rNcor=109; rlogoDP=102; rNsEucl=28; rNSW=30; rank_mean=62.200; match_rank=
a	274	288	327	328	397	363	267	153	120	496	465	600	599	600	0	58	285
c	115	88	55	48	59	56	57	107	176	10	0	0	1	0	0	85	27
g	134	92	92	120	55	98	189	211	175	55	0	0	0	0	600	138	111
t	77	132	126	104	89	83	87	129	129	39	135	0	0	0	0	319	177
C2C2dof_tnt.dof24_col_a_m1_rc_shift8 (C2C2dof_tnt.dof24_col_a_m1_rc) 0.763 0.429 0.381 0.886 0.883 43 86 84 73 51 67.400 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.dof24_col_a_m1_rc; m=20/24; ncol2=15; w=0; offset=1; strand=R; shift=8; score=   67.4; --------mAAAAAGtw
; cor=0.763; Ncor=0.429; logoDP=0.381; NsEucl=0.886; NSW=0.883; rcor=43; rNcor=86; rlogoDP=84; rNsEucl=73; rNSW=51; rank_mean=67.400; match_rank=
a	0	0	0	0	0	0	0	0	156	503	460	600	600	594	0	24	262
c	0	0	0	0	0	0	0	0	173	26	0	0	0	0	0	82	20
g	0	0	0	0	0	0	0	0	148	44	0	0	0	6	600	119	135
t	0	0	0	0	0	0	0	0	123	27	140	0	0	0	0	375	183
C2C2dof_tnt.At3g45610_colamp_a_m1_rc_shift8 (C2C2dof_tnt.At3g45610_colamp_a_m1_rc) 0.765 0.430 0.278 0.887 0.885 40 84 105 67 46 68.400 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.At3g45610_colamp_a_m1_rc; m=21/24; ncol2=15; w=0; offset=1; strand=R; shift=8; score=   68.4; --------sAAAAAGkw
; cor=0.765; Ncor=0.430; logoDP=0.278; NsEucl=0.887; NSW=0.885; rcor=40; rNcor=84; rlogoDP=105; rNsEucl=67; rNSW=46; rank_mean=68.400; match_rank=
a	0	0	0	0	0	0	0	0	115	498	460	600	600	599	0	59	223
c	0	0	0	0	0	0	0	0	222	28	2	0	0	0	0	83	70
g	0	0	0	0	0	0	0	0	196	61	0	0	0	1	600	198	101
t	0	0	0	0	0	0	0	0	67	13	138	0	0	0	0	260	206
C2C2dof_tnt.CDF3_colamp_a_m1_rc_shift1 (C2C2dof_tnt.CDF3_colamp_a_m1_rc) 0.736 0.409 0.344 0.893 0.885 92 96 96 46 45 75.000 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.CDF3_colamp_a_m1_rc; m=22/24; ncol2=18; w=-6; offset=-6; strand=R; shift=1; score=     75; -aAAAardraAAAAGtr
; cor=0.736; Ncor=0.409; logoDP=0.344; NsEucl=0.893; NSW=0.885; rcor=92; rNcor=96; rlogoDP=96; rNsEucl=46; rNSW=45; rank_mean=75.000; match_rank=
a	0	340	409	432	439	352	247	203	161	343	491	600	600	567	0	78	229
c	0	78	38	23	26	46	73	81	121	70	13	0	0	0	0	89	11
g	0	76	80	97	89	132	202	156	203	110	20	0	0	33	600	57	278
t	0	106	73	48	46	70	78	160	115	77	76	0	0	0	0	376	82
BBRBPC_tnt.BPC1_colamp_a_m1_rc_shift2 (BBRBPC_tnt.BPC1_colamp_a_m1_rc) 0.743 0.496 0.150 0.886 0.870 79 36 111 75 89 78.000 
; tcp4_c1_m14_assembly_14 versus BBRBPC_tnt.BPC1_colamp_a_m1_rc; m=23/24; ncol2=15; w=-5; offset=-5; strand=R; shift=2; score=     78; --rAGAGAGAGArAGAg
; cor=0.743; Ncor=0.496; logoDP=0.150; NsEucl=0.886; NSW=0.870; rcor=79; rNcor=36; rlogoDP=111; rNsEucl=75; rNSW=89; rank_mean=78.000; match_rank=
a	0	0	160	550	36	587	68	598	9	592	16	586	190	534	75	469	109
c	0	0	7	1	10	0	5	0	3	0	1	0	12	0	25	24	14
g	0	0	337	46	550	6	523	0	576	3	572	12	380	44	468	53	398
t	0	0	94	1	2	5	2	0	10	3	9	0	16	20	30	52	77
C2C2dof_tnt.COG1_colamp_a_m1_rc_shift8 (C2C2dof_tnt.COG1_colamp_a_m1_rc) 0.742 0.417 0.457 0.880 0.870 81 90 80 97 90 87.600 
; tcp4_c1_m14_assembly_14 versus C2C2dof_tnt.COG1_colamp_a_m1_rc; m=24/24; ncol2=15; w=0; offset=1; strand=R; shift=8; score=   87.6; --------vAAAAAGTr
; cor=0.742; Ncor=0.417; logoDP=0.457; NsEucl=0.880; NSW=0.870; rcor=81; rNcor=90; rlogoDP=80; rNsEucl=97; rNSW=90; rank_mean=87.600; match_rank=
a	0	0	0	0	0	0	0	0	171	496	454	595	595	595	0	25	190
c	0	0	0	0	0	0	0	0	155	21	0	0	0	0	0	46	1
g	0	0	0	0	0	0	0	0	156	35	0	0	0	0	595	82	347
t	0	0	0	0	0	0	0	0	113	43	141	0	0	0	0	442	57

One-to-n matrix alignment; reference matrix: tcp4_c1_m18_assembly_18_shift5 ; 6 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m18_assembly_18_shift5 (assembly_18)                         
; tcp4_c1_m18_assembly_18 (assembly_18); m=0 (reference); ncol1=11; shift=5; ncol=16; -----wwTCTGAGAww
; Alignment reference
a	0	0	0	0	0	699	670	77	173	132	144	2027	206	2017	713	753
c	0	0	0	0	0	339	383	51	1588	39	96	35	71	41	343	341
g	0	0	0	0	0	359	357	50	139	60	1775	26	1734	34	399	390
t	0	0	0	0	0	762	749	1981	259	1928	144	71	148	67	704	675
GRF_tnt.GRF9_col_a_m1_rc_shift0 (GRF_tnt.GRF9_col_a_m1_rc) 0.768 0.480 0.202 0.902 0.904 32 46 109 18 16 44.200 27 
; tcp4_c1_m18_assembly_18 versus GRF_tnt.GRF9_col_a_m1_rc; m=1/5; ncol2=15; w=-5; offset=-5; strand=R; shift=0; score=   44.2; tgwrwytTCTGACAa-
; cor=0.768; Ncor=0.480; logoDP=0.202; NsEucl=0.902; NSW=0.904; rcor=32; rNcor=46; rlogoDP=109; rNsEucl=18; rNSW=16; rank_mean=44.200; match_rank=27
a	17	10	31	35	24	21	14	10	0	0	9	92	0	75	48	0
c	11	22	12	22	11	28	19	9	92	0	0	0	92	4	17	0
g	20	38	15	23	15	12	15	3	0	3	83	0	0	10	12	0
t	44	22	34	12	42	31	44	70	0	89	0	0	0	3	15	0
GRF_tnt.GRF9_colamp_a_m1_rc_shift6 (GRF_tnt.GRF9_colamp_a_m1_rc) 0.791 0.576 0.364 0.881 0.886 22 13 87 93 44 51.800 41 
; tcp4_c1_m18_assembly_18 versus GRF_tnt.GRF9_colamp_a_m1_rc; m=2/5; ncol2=8; w=0; offset=1; strand=R; shift=6; score=   51.8; ------tTCTGACA--
; cor=0.791; Ncor=0.576; logoDP=0.364; NsEucl=0.881; NSW=0.886; rcor=22; rNcor=13; rlogoDP=87; rNsEucl=93; rNSW=44; rank_mean=51.800; match_rank=41
a	0	0	0	0	0	0	132	72	4	0	1	598	0	577	0	0
c	0	0	0	0	0	0	124	66	594	0	0	0	598	4	0	0
g	0	0	0	0	0	0	75	20	0	0	597	0	0	9	0	0
t	0	0	0	0	0	0	267	440	0	598	0	0	0	8	0	0
GRF_tnt.AtGRF6_col_a_m1_rc_shift7 (GRF_tnt.AtGRF6_col_a_m1_rc) 0.775 0.436 0.106 0.891 0.894 27 77 112 50 31 59.400 
; tcp4_c1_m18_assembly_18 versus GRF_tnt.AtGRF6_col_a_m1_rc; m=3/5; ncol2=14; w=0; offset=2; strand=R; shift=7; score=   59.4; -------TCTGACAmw
; cor=0.775; Ncor=0.436; logoDP=0.106; NsEucl=0.891; NSW=0.894; rcor=27; rNcor=77; rlogoDP=112; rNsEucl=50; rNSW=31; rank_mean=59.400; match_rank=
a	0	0	0	0	0	0	0	68	1	1	0	592	0	482	164	255
c	0	0	0	0	0	0	0	48	595	0	0	2	593	0	251	74
g	0	0	0	0	0	0	0	1	0	0	595	0	1	111	75	117
t	0	0	0	0	0	0	0	479	0	595	1	2	2	3	106	150
CCAATHAP3_tnt.NFYB4_col_a_m1_shift9 (CCAATHAP3_tnt.NFYB4_col_a_m1) 0.716 0.456 4.924 0.850 0.842 108 64 54 111 112 89.800 
; tcp4_c1_m18_assembly_18 versus CCAATHAP3_tnt.NFYB4_col_a_m1; m=4/5; ncol2=7; w=0; offset=4; strand=D; shift=9; score=   89.8; ---------TGAAAAs
; cor=0.716; Ncor=0.456; logoDP=4.924; NsEucl=0.850; NSW=0.842; rcor=108; rNcor=64; rlogoDP=54; rNsEucl=111; rNSW=112; rank_mean=89.800; match_rank=
a	0	0	0	0	0	0	0	0	0	0	0	95	95	95	95	22
c	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	30
g	0	0	0	0	0	0	0	0	0	0	95	0	0	0	0	24
t	0	0	0	0	0	0	0	0	0	95	0	0	0	0	0	19
LIM_tnt.WLIM2A_col_a_m1_rc_shift5 (LIM_tnt.WLIM2A_col_a_m1_rc) 0.725 0.461 0.278 0.856 0.855 102 60 103 105 107 95.400 
; tcp4_c1_m18_assembly_18 versus LIM_tnt.WLIM2A_col_a_m1_rc; m=5/5; ncol2=7; w=0; offset=0; strand=R; shift=5; score=   95.4; -----sATTTGA----
; cor=0.725; Ncor=0.461; logoDP=0.278; NsEucl=0.856; NSW=0.855; rcor=102; rNcor=60; rlogoDP=103; rNsEucl=105; rNSW=107; rank_mean=95.400; match_rank=
a	0	0	0	0	0	30	167	0	10	0	0	167	0	0	0	0
c	0	0	0	0	0	46	0	15	0	0	0	0	0	0	0	0
g	0	0	0	0	0	56	0	0	0	0	167	0	0	0	0	0
t	0	0	0	0	0	35	0	152	157	167	0	0	0	0	0	0

One-to-n matrix alignment; reference matrix: tcp4_c1_m3_assembly_3_shift0 ; 2 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m3_assembly_3_shift0 (assembly_3)                         
; tcp4_c1_m3_assembly_3 (assembly_3); m=0 (reference); ncol1=17; shift=0; ncol=17; dwtGAAGAAGArGArra
; Alignment reference
a	181	223	130	57	477	467	52	490	477	63	489	154	92	467	137	202	220
c	72	58	22	29	15	11	18	20	7	16	15	31	28	13	31	77	74
g	147	112	40	427	28	28	452	14	32	438	19	298	389	27	315	146	120
t	144	151	352	31	24	38	22	20	28	27	21	61	35	37	61	119	130
C2H2_tnt.TF3A_col_a_m1_rc_shift3 (C2H2_tnt.TF3A_col_a_m1_rc) 0.746 0.475 0.525 0.918 0.906 73 54 78 7 14 45.200 30 
; tcp4_c1_m3_assembly_3 versus C2H2_tnt.TF3A_col_a_m1_rc; m=1/1; ncol2=19; w=0; offset=3; strand=R; shift=3; score=   45.2; ---GAGGAGGAgGAgGA
; cor=0.746; Ncor=0.475; logoDP=0.525; NsEucl=0.918; NSW=0.906; rcor=73; rNcor=54; rlogoDP=78; rNsEucl=7; rNSW=14; rank_mean=45.200; match_rank=30
a	0	0	0	49	430	82	71	478	95	40	490	107	62	465	100	86	465
c	0	0	0	12	34	15	8	40	9	3	9	19	11	32	5	9	17
g	0	0	0	515	29	420	496	32	418	531	28	378	495	39	403	494	65
t	0	0	0	24	107	83	25	50	78	26	73	96	32	64	92	11	53

One-to-n matrix alignment; reference matrix: tcp4_c1_m7_assembly_7_shift6 ; 3 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m7_assembly_7_shift6 (assembly_7)                         
; tcp4_c1_m7_assembly_7 (assembly_7); m=0 (reference); ncol1=13; shift=6; ncol=19; ------wwTGAGCTTCCww
; Alignment reference
a	0	0	0	0	0	0	28	30	6	5	99	2	6	1	2	1	4	33	38
c	0	0	0	0	0	0	20	18	3	6	1	1	91	1	1	97	84	20	18
g	0	0	0	0	0	0	25	16	4	86	2	97	2	0	7	1	1	14	13
t	0	0	0	0	0	0	32	41	92	8	3	5	6	103	95	6	16	38	36
RWPRK_tnt.RKD2_col_a_m1_shift0 (RWPRK_tnt.RKD2_col_a_m1) 0.723 0.495 4.883 0.911 0.898 105 37 55 12 24 46.600 32 
; tcp4_c1_m7_assembly_7 versus RWPRK_tnt.RKD2_col_a_m1; m=1/2; ncol2=19; w=-6; offset=-6; strand=D; shift=0; score=   46.6; gyGaCkyTTCrtCTTCCyy
; cor=0.723; Ncor=0.495; logoDP=4.883; NsEucl=0.911; NSW=0.898; rcor=105; rNcor=37; rlogoDP=55; rNsEucl=12; rNSW=24; rank_mean=46.600; match_rank=32
a	145	121	108	358	0	2	76	9	9	13	310	141	106	0	41	11	12	92	133
c	123	168	1	79	584	114	155	10	30	448	40	65	403	0	97	559	426	217	210
g	206	73	468	38	0	266	118	0	0	87	233	143	18	9	9	5	4	53	91
t	113	225	10	112	3	205	238	568	548	39	4	238	60	578	440	12	145	225	153
RWPRK_tnt.RKD2_colamp_a_m1_rc_shift2 (RWPRK_tnt.RKD2_colamp_a_m1_rc) 0.743 0.481 2.307 0.900 0.889 77 45 62 21 40 49.000 37 
; tcp4_c1_m7_assembly_7 versus RWPRK_tnt.RKD2_colamp_a_m1_rc; m=2/2; ncol2=15; w=-4; offset=-4; strand=R; shift=2; score=     49; --GaCkyTTCrwcTTCC--
; cor=0.743; Ncor=0.481; logoDP=2.307; NsEucl=0.900; NSW=0.889; rcor=77; rNcor=45; rlogoDP=62; rNsEucl=21; rNSW=40; rank_mean=49.000; match_rank=37
a	0	0	82	376	0	1	74	4	11	13	339	155	109	6	34	11	9	0	0
c	0	0	0	63	599	104	170	8	28	446	38	56	400	0	83	575	454	0	0
g	0	0	518	31	0	269	105	0	0	101	223	149	17	4	9	1	1	0	0
t	0	0	0	130	1	226	251	588	561	40	0	240	74	590	474	13	136	0	0

One-to-n matrix alignment; reference matrix: tcp4_c1_m20_assembly_20_shift1 ; 5 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m20_assembly_20_shift1 (assembly_20)                         
; tcp4_c1_m20_assembly_20 (assembly_20); m=0 (reference); ncol1=11; shift=1; ncol=12; -wwTCAAGACww
; Alignment reference
a	0	758	749	125	138	2180	2134	334	2112	294	855	857
c	0	410	372	63	1933	28	44	114	43	1706	429	419
g	0	397	370	52	90	32	27	1742	45	114	335	325
t	0	728	802	2053	132	53	88	103	93	179	674	692
ND_tnt.AT1G63040_col_a_m1_rc_shift1 (ND_tnt.AT1G63040_col_a_m1_rc) 0.857 0.467 3.021 0.867 0.894 8 58 60 104 34 52.800 44 
; tcp4_c1_m20_assembly_20 versus ND_tnt.AT1G63040_col_a_m1_rc; m=1/4; ncol2=6; w=0; offset=0; strand=R; shift=1; score=   52.8; -TTTCAA-----
; cor=0.857; Ncor=0.467; logoDP=3.021; NsEucl=0.867; NSW=0.894; rcor=8; rNcor=58; rlogoDP=60; rNsEucl=104; rNSW=34; rank_mean=52.800; match_rank=44
a	0	0	0	0	0	71	71	0	0	0	0	0
c	0	0	0	0	71	0	0	0	0	0	0	0
g	0	0	0	0	0	0	0	0	0	0	0	0
t	0	71	71	71	0	0	0	0	0	0	0	0
C2H2_tnt.At2g41835_col_b_m1_rc_shift0 (C2H2_tnt.At2g41835_col_b_m1_rc) 0.865 0.432 3.033 0.872 0.901 7 82 59 103 21 54.400 45 
; tcp4_c1_m20_assembly_20 versus C2H2_tnt.At2g41835_col_b_m1_rc; m=2/4; ncol2=7; w=-1; offset=-1; strand=R; shift=0; score=   54.4; TTTTCAA-----
; cor=0.865; Ncor=0.432; logoDP=3.033; NsEucl=0.872; NSW=0.901; rcor=7; rNcor=82; rlogoDP=59; rNsEucl=103; rNSW=21; rank_mean=54.400; match_rank=45
a	0	0	0	0	0	192	192	0	0	0	0	0
c	0	0	12	0	192	0	0	0	0	0	0	0
g	0	0	0	0	0	0	0	0	0	0	0	0
t	192	192	180	192	0	0	0	0	0	0	0	0
C3H_tnt.TZF9_col_a_m1_shift3 (C3H_tnt.TZF9_col_a_m1) 0.808 0.441 6.316 0.852 0.869 16 75 42 110 91 66.800 
; tcp4_c1_m20_assembly_20 versus C3H_tnt.TZF9_col_a_m1; m=3/4; ncol2=6; w=0; offset=2; strand=D; shift=3; score=   66.8; ---TCAACA---
; cor=0.808; Ncor=0.441; logoDP=6.316; NsEucl=0.852; NSW=0.869; rcor=16; rNcor=75; rlogoDP=42; rNsEucl=110; rNSW=91; rank_mean=66.800; match_rank=
a	0	0	0	0	0	127	127	0	127	0	0	0
c	0	0	0	0	127	0	0	127	0	0	0	0
g	0	0	0	0	0	0	0	0	0	0	0	0
t	0	0	0	127	0	0	0	0	0	0	0	0
C3H_tnt.U2AF35B_col_a_m1_rc_shift3 (C3H_tnt.U2AF35B_col_a_m1_rc) 0.753 0.479 0.365 0.855 0.853 60 47 86 107 110 82.000 
; tcp4_c1_m20_assembly_20 versus C3H_tnt.U2AF35B_col_a_m1_rc; m=4/4; ncol2=7; w=0; offset=2; strand=R; shift=3; score=     82; ---TCAACAa--
; cor=0.753; Ncor=0.479; logoDP=0.365; NsEucl=0.855; NSW=0.853; rcor=60; rNcor=47; rlogoDP=86; rNsEucl=107; rNSW=110; rank_mean=82.000; match_rank=
a	0	0	0	0	0	85	85	0	85	42	0	0
c	0	0	0	0	85	0	0	85	0	14	0	0
g	0	0	0	0	0	0	0	0	0	14	0	0
t	0	0	0	85	0	0	0	0	0	15	0	0

One-to-n matrix alignment; reference matrix: tcp4_c1_m17_assembly_17_shift4 ; 17 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m17_assembly_17_shift4 (assembly_17)                         
; tcp4_c1_m17_assembly_17 (assembly_17); m=0 (reference); ncol1=10; shift=4; ncol=14; ----waAGGACAwd
; Alignment reference
a	0	0	0	0	95	115	263	0	0	263	0	263	105	94
c	0	0	0	0	43	28	0	0	0	0	263	0	47	32
g	0	0	0	0	46	61	0	263	263	0	0	0	38	70
t	0	0	0	0	79	59	0	0	0	0	0	0	73	67
C2H2_tnt.At1g14580_colamp_a_m1_shift0 (C2H2_tnt.At1g14580_colamp_a_m1) 0.760 0.447 8.075 0.890 0.878 49 69 32 61 62 54.600 46 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.At1g14580_colamp_a_m1; m=1/16; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=   54.6; mrsWAAAmGACAAA
; cor=0.760; Ncor=0.447; logoDP=8.075; NsEucl=0.890; NSW=0.878; rcor=49; rNcor=69; rlogoDP=32; rNsEucl=61; rNSW=62; rank_mean=54.600; match_rank=46
a	178	383	59	421	466	414	505	173	8	544	0	581	566	522
c	255	10	248	0	0	41	55	315	0	40	584	0	13	14
g	41	180	238	11	0	119	20	61	563	0	0	3	4	37
t	110	11	39	152	118	10	4	35	13	0	0	0	1	11
C2H2_tnt.IDD4_col_a_m1_shift0 (C2H2_tnt.IDD4_col_a_m1) 0.760 0.447 8.563 0.887 0.872 47 68 18 68 81 56.400 50 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.IDD4_col_a_m1; m=2/16; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=   56.4; mAsAAAAmGACAAA
; cor=0.760; Ncor=0.447; logoDP=8.563; NsEucl=0.887; NSW=0.872; rcor=47; rNcor=68; rlogoDP=18; rNsEucl=68; rNSW=81; rank_mean=56.400; match_rank=50
a	213	429	57	430	510	470	529	186	16	580	0	585	581	547
c	233	5	250	0	0	29	42	301	0	10	591	0	3	15
g	42	140	242	14	0	78	16	78	575	0	0	6	7	23
t	103	17	42	147	81	14	4	26	0	1	0	0	0	6
SBP_tnt.SPL11_col100_a_m1_shift2 (SBP_tnt.SPL11_col100_a_m1) 0.746 0.559 7.639 0.882 0.875 72 21 37 90 69 57.800 
; tcp4_c1_m17_assembly_17 versus SBP_tnt.SPL11_col100_a_m1; m=3/16; ncol2=11; w=-2; offset=-2; strand=D; shift=2; score=   57.8; --adwmAGTACAa-
; cor=0.746; Ncor=0.559; logoDP=7.639; NsEucl=0.882; NSW=0.875; rcor=72; rNcor=21; rlogoDP=37; rNsEucl=90; rNSW=69; rank_mean=57.800; match_rank=
a	0	0	199	162	188	212	353	0	0	442	0	373	261	0
c	0	0	52	52	97	117	84	0	0	0	442	12	50	0
g	0	0	84	112	41	12	5	442	0	0	0	29	68	0
t	0	0	107	116	116	101	0	0	442	0	0	28	63	0
C2H2_tnt.At5g66730_col_m1_shift0 (C2H2_tnt.At5g66730_col_m1) 0.757 0.445 8.985 0.885 0.869 54 72 3 77 93 59.800 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.At5g66730_col_m1; m=4/16; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=   59.8; hasAAAAmGACAAA
; cor=0.757; Ncor=0.445; logoDP=8.985; NsEucl=0.885; NSW=0.869; rcor=54; rNcor=72; rlogoDP=3; rNsEucl=77; rNSW=93; rank_mean=59.800; match_rank=
a	188	351	133	405	502	403	541	163	4	586	0	578	581	559
c	186	57	165	10	0	25	23	348	0	0	586	0	0	8
g	62	121	209	43	0	75	17	59	582	0	0	8	5	17
t	150	57	79	128	84	83	5	16	0	0	0	0	0	2
C2H2_tnt.IDD2_colamp_a_m1_rc_shift0 (C2H2_tnt.IDD2_colamp_a_m1_rc) 0.764 0.424 2.072 0.890 0.879 41 87 63 59 58 61.600 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.IDD2_colamp_a_m1_rc; m=5/16; ncol2=18; w=-4; offset=-4; strand=R; shift=0; score=   61.6; masaAaAmGACAAA
; cor=0.764; Ncor=0.424; logoDP=2.072; NsEucl=0.890; NSW=0.879; rcor=41; rNcor=87; rlogoDP=63; rNsEucl=59; rNSW=58; rank_mean=61.600; match_rank=
a	188	288	142	386	452	339	507	165	11	572	0	578	569	519
c	183	84	157	12	5	49	30	345	0	6	578	0	8	13
g	71	144	205	61	0	97	36	53	567	0	0	0	0	40
t	136	62	74	119	121	93	5	15	0	0	0	0	1	6
Trihelix_tnt.AT2G33550_colamp_a_m1_rc_shift3 (Trihelix_tnt.AT2G33550_colamp_a_m1_rc) 0.714 0.510 1.552 0.891 0.881 111 33 68 52 54 63.600 
; tcp4_c1_m17_assembly_17 versus Trihelix_tnt.AT2G33550_colamp_a_m1_rc; m=6/16; ncol2=14; w=-1; offset=-1; strand=R; shift=3; score=   63.6; ---ttwAGGGyAhw
; cor=0.714; Ncor=0.510; logoDP=1.552; NsEucl=0.891; NSW=0.881; rcor=111; rNcor=33; rlogoDP=68; rNsEucl=52; rNSW=54; rank_mean=63.600; match_rank=
a	0	0	0	131	92	298	522	63	0	78	0	428	150	171
c	0	0	0	47	19	0	6	0	0	0	347	61	171	95
g	0	0	0	47	99	17	62	536	599	485	0	0	72	50
t	0	0	0	374	389	284	9	0	0	36	252	110	206	283
C2H2_tnt.IDD7_col_a_m1_shift0 (C2H2_tnt.IDD7_col_a_m1) 0.754 0.419 8.719 0.885 0.869 59 89 12 78 94 66.400 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.IDD7_col_a_m1; m=7/16; ncol2=18; w=-4; offset=-4; strand=D; shift=0; score=   66.4; mrsAAAAcGACAAA
; cor=0.754; Ncor=0.419; logoDP=8.719; NsEucl=0.885; NSW=0.869; rcor=59; rNcor=89; rlogoDP=12; rNsEucl=78; rNSW=94; rank_mean=66.400; match_rank=
a	190	394	95	400	489	424	528	136	2	575	0	574	576	540
c	232	20	224	3	1	49	31	375	0	9	585	0	2	11
g	44	153	197	36	0	88	23	57	583	0	0	11	6	29
t	119	18	69	146	95	24	3	17	0	1	0	0	1	5
C2H2_tnt.IDD2_col_a_m1_shift0 (C2H2_tnt.IDD2_col_a_m1) 0.733 0.488 8.807 0.879 0.854 96 39 7 99 109 70.000 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.IDD2_col_a_m1; m=8/16; ncol2=15; w=-4; offset=-4; strand=D; shift=0; score=     70; hRswAAAMGACAAA
; cor=0.733; Ncor=0.488; logoDP=8.807; NsEucl=0.879; NSW=0.854; rcor=96; rNcor=39; rlogoDP=7; rNsEucl=99; rNSW=109; rank_mean=70.000; match_rank=
a	28	64	8	57	87	68	91	24	2	94	5	93	83	91
c	37	4	34	1	0	6	2	67	0	0	89	0	11	0
g	2	25	33	2	0	17	1	3	92	0	0	1	0	3
t	27	1	19	34	7	3	0	0	0	0	0	0	0	0
C2H2_tnt.AtIDD11_colamp_a_m1_rc_shift0 (C2H2_tnt.AtIDD11_colamp_a_m1_rc) 0.757 0.421 2.069 0.887 0.872 53 88 64 69 82 71.200 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.AtIDD11_colamp_a_m1_rc; m=9/16; ncol2=18; w=-4; offset=-4; strand=R; shift=0; score=   71.2; masAAaACGACAAA
; cor=0.757; Ncor=0.421; logoDP=2.069; NsEucl=0.887; NSW=0.872; rcor=53; rNcor=88; rlogoDP=64; rNsEucl=69; rNSW=82; rank_mean=71.200; match_rank=
a	167	363	123	398	495	375	535	122	4	580	0	585	561	518
c	217	51	194	7	1	41	23	399	0	5	585	0	7	18
g	66	122	189	42	1	83	24	44	579	0	0	0	14	37
t	135	49	79	138	88	86	3	20	2	0	0	0	3	12
C2H2_tnt.IDD5_colamp_a_m1_rc_shift0 (C2H2_tnt.IDD5_colamp_a_m1_rc) 0.746 0.439 0.368 0.888 0.876 71 76 85 63 67 72.400 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.IDD5_colamp_a_m1_rc; m=10/16; ncol2=17; w=-4; offset=-4; strand=R; shift=0; score=   72.4; mrsAAAAmGACAAA
; cor=0.746; Ncor=0.439; logoDP=0.368; NsEucl=0.888; NSW=0.876; rcor=71; rNcor=76; rlogoDP=85; rNsEucl=63; rNSW=67; rank_mean=72.400; match_rank=
a	174	406	64	448	483	438	492	222	53	533	0	597	588	519
c	255	14	258	4	4	39	60	274	0	66	599	0	5	18
g	60	164	238	17	0	108	43	55	527	0	0	2	6	46
t	110	15	39	130	112	14	4	48	19	0	0	0	0	16
C2H2_tnt.IDD5_col_m1_rc_shift0 (C2H2_tnt.IDD5_col_m1_rc) 0.752 0.470 0.835 0.885 0.867 63 57 73 81 99 74.600 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.IDD5_col_m1_rc; m=11/16; ncol2=16; w=-4; offset=-4; strand=R; shift=0; score=   74.6; crswAAACGACAAA
; cor=0.752; Ncor=0.470; logoDP=0.835; NsEucl=0.885; NSW=0.867; rcor=63; rNcor=57; rlogoDP=73; rNsEucl=81; rNSW=99; rank_mean=74.600; match_rank=
a	37	107	15	101	131	122	146	32	0	159	1	157	151	148
c	78	3	75	0	8	10	8	111	0	0	159	0	7	4
g	14	44	57	6	4	25	5	14	160	1	0	3	2	7
t	31	6	13	53	17	3	1	3	0	0	0	0	0	1
C2H2_tnt.At5g66730_colamp_a_m1_rc_shift0 (C2H2_tnt.At5g66730_colamp_a_m1_rc) 0.759 0.446 0.244 0.886 0.871 51 70 107 71 86 77.000 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.At5g66730_colamp_a_m1_rc; m=12/16; ncol2=17; w=-4; offset=-4; strand=R; shift=0; score=     77; mavaAaAmGACAAA
; cor=0.759; Ncor=0.446; logoDP=0.244; NsEucl=0.886; NSW=0.871; rcor=51; rNcor=70; rlogoDP=107; rNsEucl=71; rNSW=86; rank_mean=77.000; match_rank=
a	172	320	157	379	488	393	542	149	0	591	0	593	588	562
c	210	77	181	19	2	37	27	373	0	3	595	0	4	8
g	65	142	193	55	1	79	24	57	595	1	0	2	3	20
t	148	56	64	142	104	86	2	16	0	0	0	0	0	5
C2H2_tnt.SGR5_col_a_m1_shift1 (C2H2_tnt.SGR5_col_a_m1) 0.715 0.476 8.033 0.878 0.851 110 52 34 101 111 81.600 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.SGR5_col_a_m1; m=13/16; ncol2=15; w=-3; offset=-3; strand=D; shift=1; score=   81.6; -araAwAAGACAAA
; cor=0.715; Ncor=0.476; logoDP=8.033; NsEucl=0.878; NSW=0.851; rcor=110; rNcor=52; rlogoDP=34; rNsEucl=101; rNSW=111; rank_mean=81.600; match_rank=
a	0	293	343	340	433	310	486	532	33	591	0	592	598	560
c	0	126	57	48	0	16	22	4	0	6	599	1	1	10
g	0	40	160	116	44	27	92	22	566	0	1	7	0	11
t	0	141	40	96	123	247	0	42	1	3	0	0	1	19
C2H2_tnt.MGP_colamp_a_m1_rc_shift0 (C2H2_tnt.MGP_colamp_a_m1_rc) 0.750 0.416 2.060 0.883 0.863 68 91 65 88 104 83.200 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.MGP_colamp_a_m1_rc; m=14/16; ncol2=18; w=-4; offset=-4; strand=R; shift=0; score=   83.2; maswAaACGACAAA
; cor=0.750; Ncor=0.416; logoDP=2.060; NsEucl=0.883; NSW=0.863; rcor=68; rNcor=91; rlogoDP=65; rNsEucl=88; rNSW=104; rank_mean=83.200; match_rank=
a	176	360	130	379	512	389	549	124	2	592	0	592	587	558
c	234	63	195	12	0	35	22	410	0	0	592	0	3	5
g	49	136	198	52	0	77	19	46	590	0	0	0	2	24
t	133	33	69	149	80	91	2	12	0	0	0	0	0	5
C2H2_tnt.SGR5_colamp_a_m1_rc_shift0 (C2H2_tnt.SGR5_colamp_a_m1_rc) 0.728 0.485 0.309 0.884 0.866 99 41 100 82 102 84.800 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.SGR5_colamp_a_m1_rc; m=15/16; ncol2=15; w=-4; offset=-4; strand=R; shift=0; score=   84.8; aaraawrAGACAAA
; cor=0.728; Ncor=0.485; logoDP=0.309; NsEucl=0.884; NSW=0.866; rcor=99; rNcor=41; rlogoDP=100; rNsEucl=82; rNSW=102; rank_mean=84.800; match_rank=
a	201	274	297	317	405	309	406	516	30	597	0	595	582	472
c	137	119	81	69	5	44	34	0	0	1	598	0	2	21
g	112	88	161	126	45	59	158	39	568	0	0	3	14	68
t	148	117	59	86	143	186	0	43	0	0	0	0	0	37
C2H2_tnt.NUC_colamp_a_m1_rc_shift0 (C2H2_tnt.NUC_colamp_a_m1_rc) 0.737 0.433 0.169 0.880 0.855 90 81 110 98 108 97.400 
; tcp4_c1_m17_assembly_17 versus C2H2_tnt.NUC_colamp_a_m1_rc; m=16/16; ncol2=17; w=-4; offset=-4; strand=R; shift=0; score=   97.4; mrswAAACGACAAA
; cor=0.737; Ncor=0.433; logoDP=0.169; NsEucl=0.880; NSW=0.855; rcor=90; rNcor=81; rlogoDP=110; rNsEucl=98; rNSW=108; rank_mean=97.400; match_rank=
a	100	228	61	217	307	235	319	49	1	345	0	345	334	316
c	149	19	124	5	0	23	19	272	0	0	345	0	11	8
g	21	87	116	21	0	72	7	16	344	0	0	0	0	16
t	75	11	44	102	38	15	0	8	0	0	0	0	0	5

One-to-n matrix alignment; reference matrix: tcp4_c1_m8_assembly_8_shift4 ; 20 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m8_assembly_8_shift4 (assembly_8)                         
; tcp4_c1_m8_assembly_8 (assembly_8); m=0 (reference); ncol1=11; shift=4; ncol=15; ----waACCACAAww
; Alignment reference
a	0	0	0	0	1172	1341	2999	335	403	3125	537	3084	3047	1306	1281
c	0	0	0	0	663	660	89	2658	2652	72	2500	109	98	637	592
g	0	0	0	0	486	528	67	84	102	32	115	41	34	520	487
t	0	0	0	0	991	783	157	235	155	83	160	78	133	849	952
C2H2_tnt.NUC_colamp_a_m1_rc_shift0 (C2H2_tnt.NUC_colamp_a_m1_rc) 0.755 0.488 1.160 0.893 0.875 57 38 71 44 70 56.000 49 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.NUC_colamp_a_m1_rc; m=1/19; ncol2=17; w=-4; offset=-4; strand=R; shift=0; score=     56; mrswAAACGACAAAA
; cor=0.755; Ncor=0.488; logoDP=1.160; NsEucl=0.893; NSW=0.875; rcor=57; rNcor=38; rlogoDP=71; rNsEucl=44; rNSW=70; rank_mean=56.000; match_rank=49
a	100	228	61	217	307	235	319	49	1	345	0	345	334	316	254
c	149	19	124	5	0	23	19	272	0	0	345	0	11	8	23
g	21	87	116	21	0	72	7	16	344	0	0	0	0	16	21
t	75	11	44	102	38	15	0	8	0	0	0	0	0	5	47
C2H2_tnt.AtIDD11_colamp_a_m1_rc_shift0 (C2H2_tnt.AtIDD11_colamp_a_m1_rc) 0.756 0.462 0.349 0.897 0.883 55 59 94 30 50 57.600 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.AtIDD11_colamp_a_m1_rc; m=2/19; ncol2=18; w=-4; offset=-4; strand=R; shift=0; score=   57.6; masAAaACGACAAAA
; cor=0.756; Ncor=0.462; logoDP=0.349; NsEucl=0.897; NSW=0.883; rcor=55; rNcor=59; rlogoDP=94; rNsEucl=30; rNSW=50; rank_mean=57.600; match_rank=
a	167	363	123	398	495	375	535	122	4	580	0	585	561	518	399
c	217	51	194	7	1	41	23	399	0	5	585	0	7	18	41
g	66	122	189	42	1	83	24	44	579	0	0	0	14	37	45
t	135	49	79	138	88	86	3	20	2	0	0	0	3	12	100
C2H2_tnt.IDD5_col_m1_rc_shift0 (C2H2_tnt.IDD5_col_m1_rc) 0.745 0.512 1.322 0.893 0.874 74 32 69 45 72 58.400 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.IDD5_col_m1_rc; m=3/19; ncol2=16; w=-4; offset=-4; strand=R; shift=0; score=   58.4; crswAAACGACAAAA
; cor=0.745; Ncor=0.512; logoDP=1.322; NsEucl=0.893; NSW=0.874; rcor=74; rNcor=32; rlogoDP=69; rNsEucl=45; rNSW=72; rank_mean=58.400; match_rank=
a	37	107	15	101	131	122	146	32	0	159	1	157	151	148	119
c	78	3	75	0	8	10	8	111	0	0	159	0	7	4	8
g	14	44	57	6	4	25	5	14	160	1	0	3	2	7	4
t	31	6	13	53	17	3	1	3	0	0	0	0	0	1	29
C2H2_tnt.At1g14580_colamp_a_m1_shift0 (C2H2_tnt.At1g14580_colamp_a_m1) 0.734 0.475 5.085 0.895 0.879 94 53 53 38 57 59.000 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.At1g14580_colamp_a_m1; m=4/19; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=     59; mrsWAAAmGACAAAA
; cor=0.734; Ncor=0.475; logoDP=5.085; NsEucl=0.895; NSW=0.879; rcor=94; rNcor=53; rlogoDP=53; rNsEucl=38; rNSW=57; rank_mean=59.000; match_rank=
a	178	383	59	421	466	414	505	173	8	544	0	581	566	522	412
c	255	10	248	0	0	41	55	315	0	40	584	0	13	14	32
g	41	180	238	11	0	119	20	61	563	0	0	3	4	37	49
t	110	11	39	152	118	10	4	35	13	0	0	0	1	11	91
C2H2_tnt.IDD5_colamp_a_m1_rc_shift0 (C2H2_tnt.IDD5_colamp_a_m1_rc) 0.730 0.473 0.889 0.897 0.884 97 55 72 29 48 60.200 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.IDD5_colamp_a_m1_rc; m=5/19; ncol2=17; w=-4; offset=-4; strand=R; shift=0; score=   60.2; mrsAAAAmGACAAAa
; cor=0.730; Ncor=0.473; logoDP=0.889; NsEucl=0.897; NSW=0.884; rcor=97; rNcor=55; rlogoDP=72; rNsEucl=29; rNSW=48; rank_mean=60.200; match_rank=
a	174	406	64	448	483	438	492	222	53	533	0	597	588	519	399
c	255	14	258	4	4	39	60	274	0	66	599	0	5	18	42
g	60	164	238	17	0	108	43	55	527	0	0	2	6	46	61
t	110	15	39	130	112	14	4	48	19	0	0	0	0	16	97
C2H2_tnt.IDD2_colamp_a_m1_rc_shift0 (C2H2_tnt.IDD2_colamp_a_m1_rc) 0.751 0.459 0.330 0.898 0.884 67 62 99 27 47 60.400 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.IDD2_colamp_a_m1_rc; m=6/19; ncol2=18; w=-4; offset=-4; strand=R; shift=0; score=   60.4; masaAaAmGACAAAA
; cor=0.751; Ncor=0.459; logoDP=0.330; NsEucl=0.898; NSW=0.884; rcor=67; rNcor=62; rlogoDP=99; rNsEucl=27; rNSW=47; rank_mean=60.400; match_rank=
a	188	288	142	386	452	339	507	165	11	572	0	578	569	519	407
c	183	84	157	12	5	49	30	345	0	6	578	0	8	13	31
g	71	144	205	61	0	97	36	53	567	0	0	0	0	40	59
t	136	62	74	119	121	93	5	15	0	0	0	0	1	6	81
C2H2_tnt.At2g48100_col_b_m1_shift4 (C2H2_tnt.At2g48100_col_b_m1) 0.817 0.446 4.268 0.856 0.876 10 71 56 106 68 62.200 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.At2g48100_col_b_m1; m=7/19; ncol2=6; w=0; offset=0; strand=D; shift=4; score=   62.2; ----TCACCA-----
; cor=0.817; Ncor=0.446; logoDP=4.268; NsEucl=0.856; NSW=0.876; rcor=10; rNcor=71; rlogoDP=56; rNsEucl=106; rNSW=68; rank_mean=62.200; match_rank=
a	0	0	0	0	4	0	38	0	0	38	0	0	0	0	0
c	0	0	0	0	0	38	0	38	38	0	0	0	0	0	0
g	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
t	0	0	0	0	34	0	0	0	0	0	0	0	0	0	0
C2H2_tnt.At5g66730_colamp_a_m1_rc_shift0 (C2H2_tnt.At5g66730_colamp_a_m1_rc) 0.744 0.482 1.233 0.893 0.874 75 44 70 49 75 62.600 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.At5g66730_colamp_a_m1_rc; m=8/19; ncol2=17; w=-4; offset=-4; strand=R; shift=0; score=   62.6; mavaAaAmGACAAAA
; cor=0.744; Ncor=0.482; logoDP=1.233; NsEucl=0.893; NSW=0.874; rcor=75; rNcor=44; rlogoDP=70; rNsEucl=49; rNSW=75; rank_mean=62.600; match_rank=
a	172	320	157	379	488	393	542	149	0	591	0	593	588	562	467
c	210	77	181	19	2	37	27	373	0	3	595	0	4	8	30
g	65	142	193	55	1	79	24	57	595	1	0	2	3	20	30
t	148	56	64	142	104	86	2	16	0	0	0	0	0	5	68
C2H2_tnt.IDD7_col_a_m1_shift0 (C2H2_tnt.IDD7_col_a_m1) 0.742 0.454 5.492 0.893 0.874 80 65 47 48 74 62.800 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.IDD7_col_a_m1; m=9/19; ncol2=18; w=-4; offset=-4; strand=D; shift=0; score=   62.8; mrsAAAAcGACAAAA
; cor=0.742; Ncor=0.454; logoDP=5.492; NsEucl=0.893; NSW=0.874; rcor=80; rNcor=65; rlogoDP=47; rNsEucl=48; rNSW=74; rank_mean=62.800; match_rank=
a	190	394	95	400	489	424	528	136	2	575	0	574	576	540	441
c	232	20	224	3	1	49	31	375	0	9	585	0	2	11	25
g	44	153	197	36	0	88	23	57	583	0	0	11	6	29	39
t	119	18	69	146	95	24	3	17	0	1	0	0	1	5	80
C2H2_tnt.At5g66730_col_m1_shift0 (C2H2_tnt.At5g66730_col_m1) 0.738 0.477 5.733 0.891 0.869 89 49 44 53 92 65.400 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.At5g66730_col_m1; m=10/19; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=   65.4; hasAAAAmGACAAAA
; cor=0.738; Ncor=0.477; logoDP=5.733; NsEucl=0.891; NSW=0.869; rcor=89; rNcor=49; rlogoDP=44; rNsEucl=53; rNSW=92; rank_mean=65.400; match_rank=
a	188	351	133	405	502	403	541	163	4	586	0	578	581	559	471
c	186	57	165	10	0	25	23	348	0	0	586	0	0	8	32
g	62	121	209	43	0	75	17	59	582	0	0	8	5	17	23
t	150	57	79	128	84	83	5	16	0	0	0	0	0	2	60
C2H2_tnt.IDD2_col_a_m1_shift0 (C2H2_tnt.IDD2_col_a_m1) 0.736 0.540 5.589 0.890 0.866 93 28 46 60 101 65.600 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.IDD2_col_a_m1; m=11/19; ncol2=15; w=-4; offset=-4; strand=D; shift=0; score=   65.6; hRswAAAMGACAAAA
; cor=0.736; Ncor=0.540; logoDP=5.589; NsEucl=0.890; NSW=0.866; rcor=93; rNcor=28; rlogoDP=46; rNsEucl=60; rNSW=101; rank_mean=65.600; match_rank=
a	28	64	8	57	87	68	91	24	2	94	5	93	83	91	75
c	37	4	34	1	0	6	2	67	0	0	89	0	11	0	7
g	2	25	33	2	0	17	1	3	92	0	0	1	0	3	0
t	27	1	19	34	7	3	0	0	0	0	0	0	0	0	12
C2H2_tnt.MGP_colamp_a_m1_rc_shift0 (C2H2_tnt.MGP_colamp_a_m1_rc) 0.751 0.459 0.363 0.893 0.874 65 61 88 47 73 66.800 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.MGP_colamp_a_m1_rc; m=12/19; ncol2=18; w=-4; offset=-4; strand=R; shift=0; score=   66.8; maswAaACGACAAAA
; cor=0.751; Ncor=0.459; logoDP=0.363; NsEucl=0.893; NSW=0.874; rcor=65; rNcor=61; rlogoDP=88; rNsEucl=47; rNSW=73; rank_mean=66.800; match_rank=
a	176	360	130	379	512	389	549	124	2	592	0	592	587	558	452
c	234	63	195	12	0	35	22	410	0	0	592	0	3	5	28
g	49	136	198	52	0	77	19	46	590	0	0	0	2	24	36
t	133	33	69	149	80	91	2	12	0	0	0	0	0	5	76
MADS_tnt.AGL55_col_a_m1_shift4 (MADS_tnt.AGL55_col_a_m1) 0.811 0.442 4.266 0.854 0.872 15 74 57 109 80 67.000 
; tcp4_c1_m8_assembly_8 versus MADS_tnt.AGL55_col_a_m1; m=13/19; ncol2=6; w=0; offset=0; strand=D; shift=4; score=     67; ----TCACCA-----
; cor=0.811; Ncor=0.442; logoDP=4.266; NsEucl=0.854; NSW=0.872; rcor=15; rNcor=74; rlogoDP=57; rNsEucl=109; rNSW=80; rank_mean=67.000; match_rank=
a	0	0	0	0	0	0	90	0	0	90	0	0	0	0	0
c	0	0	0	0	5	90	0	90	90	0	0	0	0	0	0
g	0	0	0	0	4	0	0	0	0	0	0	0	0	0	0
t	0	0	0	0	81	0	0	0	0	0	0	0	0	0	0
C2H2_tnt.NUC_col_a_m1_rc_shift0 (C2H2_tnt.NUC_col_a_m1_rc) 0.748 0.412 0.332 0.895 0.878 70 94 98 40 61 72.600 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.NUC_col_a_m1_rc; m=14/19; ncol2=20; w=-4; offset=-4; strand=R; shift=0; score=   72.6; mrswAaAcGACAAAA
; cor=0.748; Ncor=0.412; logoDP=0.332; NsEucl=0.895; NSW=0.878; rcor=70; rNcor=94; rlogoDP=98; rNsEucl=40; rNSW=61; rank_mean=72.600; match_rank=
a	158	343	129	366	493	372	515	120	0	565	0	562	557	510	411
c	227	55	202	15	3	46	33	381	0	5	570	0	8	19	42
g	54	148	183	41	0	89	19	51	570	0	0	8	5	33	47
t	131	24	56	148	74	63	3	18	0	0	0	0	0	8	70
C2H2_tnt.IDD4_col_a_m1_shift0 (C2H2_tnt.IDD4_col_a_m1) 0.726 0.470 5.434 0.890 0.867 101 56 48 58 100 72.600 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.IDD4_col_a_m1; m=15/19; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=   72.6; mAsAAAAmGACAAAA
; cor=0.726; Ncor=0.470; logoDP=5.434; NsEucl=0.890; NSW=0.867; rcor=101; rNcor=56; rlogoDP=48; rNsEucl=58; rNSW=100; rank_mean=72.600; match_rank=
a	213	429	57	430	510	470	529	186	16	580	0	585	581	547	448
c	233	5	250	0	0	29	42	301	0	10	591	0	3	15	24
g	42	140	242	14	0	78	16	78	575	0	0	6	7	23	35
t	103	17	42	147	81	14	4	26	0	1	0	0	0	6	84
MADS_tnt.FEM111_col_a_m1_rc_shift4 (MADS_tnt.FEM111_col_a_m1_rc) 0.798 0.435 1.616 0.847 0.859 17 78 67 112 106 76.000 
; tcp4_c1_m8_assembly_8 versus MADS_tnt.FEM111_col_a_m1_rc; m=16/19; ncol2=6; w=0; offset=0; strand=R; shift=4; score=     76; ----TCACCA-----
; cor=0.798; Ncor=0.435; logoDP=1.616; NsEucl=0.847; NSW=0.859; rcor=17; rNcor=78; rlogoDP=67; rNsEucl=112; rNSW=106; rank_mean=76.000; match_rank=
a	0	0	0	0	0	0	54	0	0	54	0	0	0	0	0
c	0	0	0	0	0	54	0	54	54	0	0	0	0	0	0
g	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0
t	0	0	0	0	54	0	0	0	0	0	0	0	0	0	0
C2H2_tnt.MGP_col_a_m1_shift0 (C2H2_tnt.MGP_col_a_m1) 0.739 0.406 5.697 0.890 0.868 86 99 45 55 98 76.600 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.MGP_col_a_m1; m=17/19; ncol2=20; w=-4; offset=-4; strand=D; shift=0; score=   76.6; hasaAAAmGACAAAA
; cor=0.739; Ncor=0.406; logoDP=5.697; NsEucl=0.890; NSW=0.868; rcor=86; rNcor=99; rlogoDP=45; rNsEucl=55; rNSW=98; rank_mean=76.600; match_rank=
a	187	363	143	402	512	421	552	153	0	593	0	578	587	566	484
c	203	50	183	15	0	26	21	379	0	0	594	0	3	9	28
g	50	139	185	50	2	73	20	52	594	1	0	16	4	16	19
t	154	42	83	127	80	74	1	10	0	0	0	0	0	3	63
C2H2_tnt.JKD_col_a_m1_rc_shift0 (C2H2_tnt.JKD_col_a_m1_rc) 0.738 0.406 0.350 0.894 0.876 88 100 93 42 66 77.800 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.JKD_col_a_m1_rc; m=18/19; ncol2=20; w=-4; offset=-4; strand=R; shift=0; score=   77.8; masAAAAmGACAAAA
; cor=0.738; Ncor=0.406; logoDP=0.350; NsEucl=0.894; NSW=0.876; rcor=88; rNcor=100; rlogoDP=93; rNsEucl=42; rNSW=66; rank_mean=77.800; match_rank=
a	189	375	104	427	509	406	525	172	21	583	0	586	587	553	452
c	209	39	193	8	0	34	42	331	0	13	596	0	4	13	31
g	55	135	228	27	0	99	20	62	564	0	0	10	5	24	30
t	143	47	71	134	87	57	9	31	11	0	0	0	0	6	83
C2H2_tnt.At1g14580_col_a_m1_rc_shift0 (C2H2_tnt.At1g14580_col_a_m1_rc) 0.733 0.403 0.357 0.891 0.870 95 104 90 51 88 85.600 
; tcp4_c1_m8_assembly_8 versus C2H2_tnt.At1g14580_col_a_m1_rc; m=19/19; ncol2=20; w=-4; offset=-4; strand=R; shift=0; score=   85.6; mRsWAAAcGACAAAA
; cor=0.733; Ncor=0.403; logoDP=0.357; NsEucl=0.891; NSW=0.870; rcor=95; rNcor=104; rlogoDP=90; rNsEucl=51; rNSW=88; rank_mean=85.600; match_rank=
a	72	168	24	171	201	190	217	54	3	225	1	235	240	231	191
c	117	4	108	1	6	13	14	154	0	15	240	1	0	5	11
g	15	66	89	5	0	32	9	21	237	2	1	6	2	6	15
t	38	4	21	65	35	7	2	13	2	0	0	0	0	0	25

One-to-n matrix alignment; reference matrix: tcp4_c1_m1_assembly_1_shift1 ; 3 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
tcp4_c1_m1_assembly_1_shift1 (assembly_1)                         
; tcp4_c1_m1_assembly_1 (assembly_1); m=0 (reference); ncol1=14; shift=1; ncol=15; -wdGcAGAGAGAcww
; Alignment reference
a	0	218	157	77	98	462	52	475	31	472	55	443	72	195	184
c	0	55	72	17	299	7	14	5	12	3	22	15	290	69	86
g	0	83	125	355	61	11	406	7	432	9	398	16	78	89	97
t	0	141	143	48	39	17	25	10	22	13	22	23	57	144	130
ND_tnt.FRS9_col_a_m1_rc_shift0 (ND_tnt.FRS9_col_a_m1_rc) 0.727 0.484 0.673 0.905 0.874 100 42 74 16 76 61.600 
; tcp4_c1_m1_assembly_1 versus ND_tnt.FRS9_col_a_m1_rc; m=1/2; ncol2=21; w=-1; offset=-1; strand=R; shift=0; score=   61.6; GAGAGAGAGAGAGAG
; cor=0.727; Ncor=0.484; logoDP=0.673; NsEucl=0.905; NSW=0.874; rcor=100; rNcor=42; rlogoDP=74; rNsEucl=16; rNSW=76; rank_mean=61.600; match_rank=
a	119	454	74	428	123	509	0	566	46	570	37	558	28	511	126
c	10	18	13	13	21	0	8	0	0	0	0	0	0	1	7
g	404	69	436	117	393	48	567	7	527	1	522	14	531	35	426
t	42	34	52	17	38	18	0	2	2	4	16	3	16	28	16
BBRBPC_tnt.BPC1_colamp_a_m1_rc_shift2 (BBRBPC_tnt.BPC1_colamp_a_m1_rc) 0.716 0.582 0.596 0.897 0.861 109 9 75 33 105 66.200 
; tcp4_c1_m1_assembly_1 versus BBRBPC_tnt.BPC1_colamp_a_m1_rc; m=2/2; ncol2=15; w=0; offset=1; strand=R; shift=2; score=   66.2; --rAGAGAGAGArAG
; cor=0.716; Ncor=0.582; logoDP=0.596; NsEucl=0.897; NSW=0.861; rcor=109; rNcor=9; rlogoDP=75; rNsEucl=33; rNSW=105; rank_mean=66.200; match_rank=
a	0	0	160	550	36	587	68	598	9	592	16	586	190	534	75
c	0	0	7	1	10	0	5	0	3	0	1	0	12	0	25
g	0	0	337	46	550	6	523	0	576	3	572	12	380	44	468
t	0	0	94	1	2	5	2	0	10	3	9	0	16	20	30