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_m4/peak-motifs_dyads_m4.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_m4/peak-motifs_dyads_m4_vs_db_FlyFactorSurvey
One-to-n matrix alignment; reference matrix: dyads_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m4_shift0 (dyads_m4) |
 |
|
|
; dyads_m4; m=0 (reference); ncol1=17; shift=0; ncol=17; GaGAGAGAGAGAGAGaG
; Alignment reference
a 1146 5072 674 6098 581 6400 516 6520 527 6554 534 6417 568 6169 757 5112 1251
c 601 904 326 610 226 569 166 521 148 520 134 571 200 633 274 1020 526
g 5388 771 6362 387 6628 275 6791 285 6812 285 6823 311 6662 380 6323 751 5329
t 505 893 278 545 205 396 167 314 153 281 149 341 210 458 286 757 534
|
| Trl_FlyReg_FBgn0013263_rc_shift6 (Trl_FlyReg_FBgn0013263_rc) |
 |
|
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; dyads_m4 versus Trl_FlyReg_FBgn0013263_rc; m=1/1; ncol2=10; w=0; offset=6; strand=R; shift=6; score=0.504203; ------raGAGAGmrr-
; cor=; Ncor=
a 0 0 0 0 0 0 19 40 5 56 0 54 4 23 31 36 0
c 0 0 0 0 0 0 10 11 7 2 0 14 3 30 11 9 0
g 0 0 0 0 0 0 33 13 54 0 70 0 64 6 23 22 0
t 0 0 0 0 0 0 9 7 5 13 1 3 0 12 6 4 0
|