One-to-n alignments

Command: compare-matrices  -v 1 -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2019/07/04/compare-matrices_2019-07-04.155658_9QwxgV/compare-matrices_query_matrices.transfac -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.tf -format2 tf -strand DR -lth cor 0.7 -lth Ncor 0.4 -uth match_rank 50 -return cor,Ncor,logoDP,NsEucl,NSW,match_rank,matrix_id,matrix_name,width,strand,offset,consensus,alignments_1ton -o $RSAT/public_html/tmp/www-data/2019/07/04/compare-matrices_2019-07-04.155658_9QwxgV/compare-matrices.tab

One-to-n matrix alignment; reference matrix: oligos_5-8nt_m2_shift4 ; 14 matrices ; sort_field=rank_mean

Matrix nameAligned logoscor Ncor logoDP NsEucl NSW rcor rNcor rlogoDP rNsEucl rNSW rank_mean match_rank Aligned matrices
oligos_5-8nt_m2_shift4 (oligos_5-8nt_m2)                         
; oligos_5-8nt_m2; m=0 (reference); ncol1=14; shift=4; ncol=21; ----wwwgACGCGgTkdk---
; Alignment reference
a	0	0	0	0	46	47	40	22	133	7	10	10	4	14	25	26	39	31	0	0	0
c	0	0	0	0	32	37	30	23	5	137	2	127	5	19	11	10	20	37	0	0	0
g	0	0	0	0	34	21	33	86	7	6	140	1	140	93	11	68	45	42	0	0	0
t	0	0	0	0	40	47	49	21	7	2	0	14	3	26	105	48	48	42	0	0	0
CMTA3_MA0970.1_JASPAR_rc_shift5 (CMTA3:MA0970.1:JASPAR_rc) 0.948 0.609 0.254 0.955 0.982 1 3 11 1 1 3.400 1 
; oligos_5-8nt_m2 versus CMTA3_MA0970.1_JASPAR_rc (CMTA3:MA0970.1:JASPAR_rc); m=1/13; ncol2=9; w=9; offset=1; strand=R; shift=5; score=    3.4; -----vyrACrCGg-------
; cor=0.948; Ncor=0.609; logoDP=0.254; NsEucl=0.955; NSW=0.982; rcor=1; rNcor=3; rlogoDP=11; rNsEucl=1; rNSW=1; rank_mean=3.400; match_rank=1
a	0	0	0	0	0	251	213	285	998	0	267	6	8	43	0	0	0	0	0	0	0
c	0	0	0	0	0	251	250	211	0	963	1	962	5	184	0	0	0	0	0	0	0
g	0	0	0	0	0	258	247	274	1	0	664	0	974	540	0	0	0	0	0	0	0
t	0	0	0	0	0	241	290	231	1	37	68	32	14	233	0	0	0	0	0	0	0
CAMTA1_MA1197.1_JASPAR_rc_shift5 (CAMTA1:MA1197.1:JASPAR_rc) 0.859 0.736 4.915 0.935 0.949 5 1 1 5 6 3.600 2 
; oligos_5-8nt_m2 versus CAMTA1_MA1197.1_JASPAR_rc (CAMTA1:MA1197.1:JASPAR_rc); m=2/13; ncol2=12; w=12; offset=1; strand=R; shift=5; score=    3.6; -----yhmACGCGytTt----
; cor=0.859; Ncor=0.736; logoDP=4.915; NsEucl=0.935; NSW=0.949; rcor=5; rNcor=1; rlogoDP=1; rNsEucl=5; rNSW=6; rank_mean=3.600; match_rank=2
a	0	0	0	0	0	133	174	151	595	0	20	0	0	1	55	77	124	0	0	0	0
c	0	0	0	0	0	170	156	326	3	598	0	598	0	285	132	45	117	0	0	0	0
g	0	0	0	0	0	58	33	58	0	0	578	0	598	140	6	46	56	0	0	0	0
t	0	0	0	0	0	237	235	63	0	0	0	0	0	172	405	430	301	0	0	0	0
CAMTA3_M0581_1.02_CISBP_rc_shift5 (CAMTA3:M0581_1.02:CISBP_rc) 0.947 0.609 0.253 0.954 0.981 2 4 12 2 2 4.400 3 
; oligos_5-8nt_m2 versus CAMTA3_M0581_1.02_CISBP_rc (CAMTA3:M0581_1.02:CISBP_rc); m=3/13; ncol2=9; w=9; offset=1; strand=R; shift=5; score=    4.4; -----vbrACrCGg-------
; cor=0.947; Ncor=0.609; logoDP=0.253; NsEucl=0.954; NSW=0.981; rcor=2; rNcor=4; rlogoDP=12; rNsEucl=2; rNSW=2; rank_mean=4.400; match_rank=3
a	0	0	0	0	0	25	21	28	100	0	27	1	1	4	0	0	0	0	0	0	0
c	0	0	0	0	0	25	25	21	0	96	0	96	0	18	0	0	0	0	0	0	0
g	0	0	0	0	0	26	25	27	0	0	66	0	97	54	0	0	0	0	0	0	0
t	0	0	0	0	0	24	29	24	0	4	7	3	2	24	0	0	0	0	0	0	0
FHY3_MA0557.1_JASPAR_shift5 (FHY3:MA0557.1:JASPAR) 0.756 0.648 4.886 0.915 0.914 9 2 2 9 9 6.200 6 
; oligos_5-8nt_m2 versus FHY3_MA0557.1_JASPAR (FHY3:MA0557.1:JASPAR); m=6/13; ncol2=12; w=12; offset=1; strand=D; shift=5; score=    6.2; -----ywCACGCGCThw----
; cor=0.756; Ncor=0.648; logoDP=4.886; NsEucl=0.915; NSW=0.914; rcor=9; rNcor=2; rlogoDP=2; rNsEucl=9; rNSW=9; rank_mean=6.200; match_rank=6
a	0	0	0	0	0	46	75	9	226	2	3	0	4	18	16	63	82	0	0	0	0
c	0	0	0	0	0	81	58	210	3	230	16	220	0	208	40	68	44	0	0	0	0
g	0	0	0	0	0	40	25	9	2	1	213	0	228	6	17	40	50	0	0	0	0
t	0	0	0	0	0	68	77	7	4	2	3	15	3	3	162	64	59	0	0	0	0