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/dyads_m4/peak-motifs_dyads_m4.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/idmmpmm_PCM.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/dyads_m4/peak-motifs_dyads_m4_vs_db_IDMMPMM_drosophila
One-to-n matrix alignment; reference matrix: dyads_m4_shift3 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m4_shift3 (dyads_m4) |
 |
|
|
; dyads_m4; m=0 (reference); ncol1=13; shift=3; ncol=16; ---camACACACrCaC
; Alignment reference
a 0 0 0 692 1932 1963 3124 46 3190 60 3155 31 986 38 2067 370
c 0 0 0 1862 667 1096 52 3156 14 3160 33 3190 50 3147 251 2240
g 0 0 0 346 403 68 60 25 53 18 45 21 2134 51 608 304
t 0 0 0 369 267 142 33 42 12 31 36 27 99 33 343 355
|
| slp1_rc_shift0 (slp1_rc) |
 |
|
|
; dyads_m4 versus slp1_rc; m=1/1; ncol2=13; w=-3; offset=-3; strand=R; shift=0; score=0.481742; ATGTmAACAmacc---
; cor=; Ncor=
a 98.0004 3.80198 21.3479 26.4096 79.3423 138.449 138.733 6.4804 140.242 44.364 96.3207 23.9241 26.6933 0 0 0
c 5.11849 21.8926 7.865 8.63675 62.6136 3.5069 2.65571 126.827 0.28373 79.7509 8.81833 84.8921 76.8114 0 0 0
g 23.141 13.4715 110.938 0.28373 0.760397 0.760397 1.04413 0.760397 1.23706 4.64183 17.1033 21.8359 28.4865 0 0 0
t 16.7401 103.834 2.84865 107.67 0.28373 0.28373 0.56746 8.93183 1.23706 14.2433 20.7577 12.3479 11.0087 0 0 0
|