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/dyads_m3/peak-motifs_dyads_m3.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/dyads_m3/peak-motifs_dyads_m3_vs_db_FlyFactorSurvey
One-to-n matrix alignment; reference matrix: dyads_m3_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m3_shift0 (dyads_m3) |
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|
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; dyads_m3; m=0 (reference); ncol1=14; shift=0; ncol=14; acAyACACACrCac
; Alignment reference
a 1809 388 2704 111 2822 66 2823 59 2741 57 780 115 1573 395
c 450 1831 99 931 50 2764 26 2769 58 2755 122 2562 346 1815
g 397 308 87 73 56 48 79 46 91 79 1901 135 632 343
t 310 439 76 1851 38 88 38 92 76 75 163 154 415 413
|
| CG16778_SANGER_5_FBgn0003715_shift3 (CG16778_SANGER_5_FBgn0003715) |
 |
|
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; dyads_m3 versus CG16778_SANGER_5_FBgn0003715; m=1/2; ncol2=8; w=0; offset=3; strand=D; shift=3; score=0.42861; ---CACAyAYG---
; cor=; Ncor=
a 0 0 0 0 18 0 20 0 17 0 0 0 0 0
c 0 0 0 15 1 20 0 9 0 6 1 0 0 0
g 0 0 0 2 0 0 0 0 3 0 18 0 0 0
t 0 0 0 1 0 0 0 11 0 14 1 0 0 0
|
| CG5953_SANGER_5_FBgn0032587_shift0 (CG5953_SANGER_5_FBgn0032587) |
 |
|
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; dyads_m3 versus CG5953_SANGER_5_FBgn0032587; m=2/2; ncol2=8; w=0; offset=0; strand=D; shift=0; score=0.417603; aCAAACAy------
; cor=; Ncor=
a 10 0 16 16 16 0 16 1 0 0 0 0 0 0
c 3 16 0 0 0 16 0 5 0 0 0 0 0 0
g 0 0 0 0 0 0 0 0 0 0 0 0 0 0
t 3 0 0 0 0 0 0 10 0 0 0 0 0 0
|