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_6nt_mkv4_m7/peak-motifs_oligos_6nt_mkv4_m7.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_6nt_mkv4_m7/peak-motifs_oligos_6nt_mkv4_m7_vs_db_FlyFactorSurvey
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m7_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv4_m7_shift0 (oligos_6nt_mkv4_m7) |
 |
|
|
; oligos_6nt_mkv4_m7; m=0 (reference); ncol1=10; shift=0; ncol=10; mmACTGCAcm
; Alignment reference
a 280 224 857 0 0 11 0 847 189 254
c 248 345 0 857 0 7 838 3 344 244
g 195 114 0 0 0 838 12 0 175 170
t 134 174 0 0 857 1 7 7 149 189
|
| lola-PW_SOLEXA_FBgn0005630_rc_shift0 (lola-PW_SOLEXA_FBgn0005630_rc) |
 |
|
|
; oligos_6nt_mkv4_m7 versus lola-PW_SOLEXA_FBgn0005630_rc; m=1/2; ncol2=10; w=0; offset=0; strand=R; shift=0; score=0.803184; yskCTGCAmr
; cor=; Ncor=
a 76 44 22 0 0 0 0 389 204 224
c 137 102 59 392 0 0 364 0 125 31
g 75 154 103 0 0 392 0 2 18 116
t 103 90 204 0 392 0 27 0 43 19
|
| lola-PW_SANGER_5_FBgn0005630_shift1 (lola-PW_SANGER_5_FBgn0005630) |
 |
|
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; oligos_6nt_mkv4_m7 versus lola-PW_SANGER_5_FBgn0005630; m=2/2; ncol2=7; w=0; offset=1; strand=D; shift=1; score=0.508896; -STCTGCA--
; cor=; Ncor=
a 0 0 0 0 0 0 0 11 0 0
c 0 3 0 10 0 0 11 0 0 0
g 0 9 2 0 0 12 0 0 0 0
t 0 0 10 2 12 0 1 1 0 0
|