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.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/oligos_6nt_mkv4_m10/peak-motifs_oligos_6nt_mkv4_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.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/oligos_6nt_mkv4_m10/peak-motifs_oligos_6nt_mkv4_m10_vs_db_FlyFactorSurvey
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m10_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m10_shift0 (oligos_6nt_mkv4_m10) |
 |
|
|
; oligos_6nt_mkv4_m10; m=0 (reference); ncol1=12; shift=0; ncol=12; rrAAGCAAcgvr
; Alignment reference
a 589 587 1758 1825 53 108 1816 1760 386 322 537 607
c 425 404 74 41 44 1659 28 38 1074 268 486 435
g 571 645 48 40 1811 132 55 87 288 1155 600 504
t 354 303 59 33 31 40 40 54 191 194 316 393
|
| CG3838_SANGER_5_FBgn0032130_shift2 (CG3838_SANGER_5_FBgn0032130) |
 |
|
|
; oligos_6nt_mkv4_m10 versus CG3838_SANGER_5_FBgn0032130; m=1/2; ncol2=9; w=0; offset=2; strand=D; shift=2; score=0.529153; --AwrCRACAW-
; cor=; Ncor=
a 0 0 18 8 5 3 15 20 0 19 5 0
c 0 0 0 4 2 17 0 0 20 0 1 0
g 0 0 2 1 13 0 5 0 0 0 0 0
t 0 0 0 7 0 0 0 0 0 1 14 0
|
| onecut_Cell_FBgn0028996_rc_shift1 (onecut_Cell_FBgn0028996_rc) |
 |
|
|
; oligos_6nt_mkv4_m10 versus onecut_Cell_FBgn0028996_rc; m=2/2; ncol2=7; w=0; offset=1; strand=R; shift=1; score=0.430483; -hAATCAA----
; cor=; Ncor=
a 0 6 15 15 0 0 15 12 0 0 0 0
c 0 4 0 0 0 15 0 0 0 0 0 0
g 0 0 0 0 0 0 0 2 0 0 0 0
t 0 5 0 0 15 0 0 1 0 0 0 0
|