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_m9/peak-motifs_oligos_7nt_mkv5_m9.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_m9/peak-motifs_oligos_7nt_mkv5_m9_vs_db_FlyFactorSurvey
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m9_shift2 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv5_m9_shift2 (oligos_7nt_mkv5_m9) |
 |
|
|
; oligos_7nt_mkv5_m9; m=0 (reference); ncol1=13; shift=2; ncol=15; --caCAsACACAAam
; Alignment reference
a 0 0 440 976 136 1526 103 1791 52 1809 40 1764 1473 795 494
c 0 0 845 301 1425 176 472 44 1715 23 1761 36 298 432 796
g 0 0 315 389 183 111 1213 34 68 39 57 49 71 334 324
t 0 0 284 218 140 71 96 15 49 13 26 35 42 323 270
|
| CG13897_SANGER_5_FBgn0035160_shift0 (CG13897_SANGER_5_FBgn0035160) |
 |
|
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; oligos_7nt_mkv5_m9 versus CG13897_SANGER_5_FBgn0035160; m=1/2; ncol2=11; w=-2; offset=-2; strand=D; shift=0; score=0.527934; wsrrCAGACAs----
; cor=; Ncor=
a 5 2 8 9 0 17 0 17 0 17 4 0 0 0 0
c 4 8 0 0 13 0 0 0 17 0 8 0 0 0 0
g 0 7 8 7 4 0 17 0 0 0 5 0 0 0 0
t 8 0 1 1 0 0 0 0 0 0 0 0 0 0 0
|
| CG5953_SANGER_5_FBgn0032587_shift3 (CG5953_SANGER_5_FBgn0032587) |
 |
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; oligos_7nt_mkv5_m9 versus CG5953_SANGER_5_FBgn0032587; m=2/2; ncol2=8; w=0; offset=1; strand=D; shift=3; score=0.452834; ---aCAAACAy----
; cor=; Ncor=
a 0 0 0 10 0 16 16 16 0 16 1 0 0 0 0
c 0 0 0 3 16 0 0 0 16 0 5 0 0 0 0
g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0
t 0 0 0 3 0 0 0 0 0 0 10 0 0 0 0
|