One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_7nt_mkv5_m10/peak-motifs_oligos_7nt_mkv5_m10.tf -format2 tf -file2 $RSAT/public_html/motif_databases/FlyFactorSurvey/PWM_FlyFactorSurvey_2016.tf -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.205219_2025-11-26.205219_vuDZlG/results/discovered_motifs/oligos_7nt_mkv5_m10/peak-motifs_oligos_7nt_mkv5_m10_vs_db_FlyFactorSurvey

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m10_shift4 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m10_shift4 (oligos_7nt_mkv5_m10)
; oligos_7nt_mkv5_m10; m=0 (reference); ncol1=11; shift=4; ncol=15; ----rrCAGAGACrg ; Alignment reference a 0 0 0 0 510 713 119 1668 35 1626 74 1599 123 732 432 c 0 0 0 0 439 367 1422 60 33 93 37 80 1348 348 434 g 0 0 0 0 525 496 207 55 1666 59 1613 85 267 487 665 t 0 0 0 0 329 227 55 20 69 25 79 39 65 236 272

Adf1_SANGER_5_FBgn0000054_shift0 (Adf1_SANGER_5_FBgn0000054)
; oligos_7nt_mkv5_m10 versus Adf1_SANGER_5_FBgn0000054; m=1/3; ncol2=15; w=-4; offset=-4; strand=D; shift=0; score=0.582795; ymcmRGCAGAGmhrm ; cor=; Ncor= a 1 7 2 4 3 0 0 11 0 8 0 7 4 5 7 c 5 3 6 7 0 0 11 0 1 1 0 3 4 2 4 g 0 1 2 0 8 10 0 0 10 2 11 1 0 3 0 t 5 0 1 0 0 1 0 0 0 0 0 0 3 1 0

CG13897_SANGER_5_FBgn0035160_shift2 (CG13897_SANGER_5_FBgn0035160)
; oligos_7nt_mkv5_m10 versus CG13897_SANGER_5_FBgn0035160; m=2/3; ncol2=11; w=-2; offset=-2; strand=D; shift=2; score=0.514126; --wsrrCAGACAs-- ; cor=; Ncor= a 0 0 5 2 8 9 0 17 0 17 0 17 4 0 0 c 0 0 4 8 0 0 13 0 0 0 17 0 8 0 0 g 0 0 0 7 8 7 4 0 17 0 0 0 5 0 0 t 0 0 8 0 1 1 0 0 0 0 0 0 0 0 0

bin_FlyReg_FBgn0045759_shift2 (bin_FlyReg_FBgn0045759)
; oligos_7nt_mkv5_m10 versus bin_FlyReg_FBgn0045759; m=3/3; ncol2=10; w=-2; offset=-2; strand=D; shift=2; score=0.463785; --TAAACArmGA--- ; cor=; Ncor= a 0 0 0 4 4 4 0 5 3 2 0 4 0 0 0 c 0 0 0 0 0 1 5 0 0 2 0 0 0 0 0 g 0 0 0 0 0 0 0 0 2 1 5 1 0 0 0 t 0 0 5 1 1 0 0 0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m10_shift4 (oligos_7nt_mkv5_m10)				; oligos_7nt_mkv5_m10; m=0 (reference); ncol1=11; shift=4; ncol=15; ----rrCAGAGACrg ; Alignment reference a 0 0 0 0 510 713 119 1668 35 1626 74 1599 123 732 432 c 0 0 0 0 439 367 1422 60 33 93 37 80 1348 348 434 g 0 0 0 0 525 496 207 55 1666 59 1613 85 267 487 665 t 0 0 0 0 329 227 55 20 69 25 79 39 65 236 272
Adf1_SANGER_5_FBgn0000054_shift0 (Adf1_SANGER_5_FBgn0000054)				; oligos_7nt_mkv5_m10 versus Adf1_SANGER_5_FBgn0000054; m=1/3; ncol2=15; w=-4; offset=-4; strand=D; shift=0; score=0.582795; ymcmRGCAGAGmhrm ; cor=; Ncor= a 1 7 2 4 3 0 0 11 0 8 0 7 4 5 7 c 5 3 6 7 0 0 11 0 1 1 0 3 4 2 4 g 0 1 2 0 8 10 0 0 10 2 11 1 0 3 0 t 5 0 1 0 0 1 0 0 0 0 0 0 3 1 0
CG13897_SANGER_5_FBgn0035160_shift2 (CG13897_SANGER_5_FBgn0035160)				; oligos_7nt_mkv5_m10 versus CG13897_SANGER_5_FBgn0035160; m=2/3; ncol2=11; w=-2; offset=-2; strand=D; shift=2; score=0.514126; --wsrrCAGACAs-- ; cor=; Ncor= a 0 0 5 2 8 9 0 17 0 17 0 17 4 0 0 c 0 0 4 8 0 0 13 0 0 0 17 0 8 0 0 g 0 0 0 7 8 7 4 0 17 0 0 0 5 0 0 t 0 0 8 0 1 1 0 0 0 0 0 0 0 0 0
bin_FlyReg_FBgn0045759_shift2 (bin_FlyReg_FBgn0045759)				; oligos_7nt_mkv5_m10 versus bin_FlyReg_FBgn0045759; m=3/3; ncol2=10; w=-2; offset=-2; strand=D; shift=2; score=0.463785; --TAAACArmGA--- ; cor=; Ncor= a 0 0 0 4 4 4 0 5 3 2 0 4 0 0 0 c 0 0 0 0 0 1 5 0 0 2 0 0 0 0 0 g 0 0 0 0 0 0 0 0 2 1 5 1 0 0 0 t 0 0 5 1 1 0 0 0 0 0 0 0 0 0 0