One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/25/peak-motifs.2026-01-25.181000_2026-01-25.181000_CpuIe4/results/discovered_motifs/dyads_m5/peak-motifs_dyads_m5.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/dmmpmm_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/2026/01/25/peak-motifs.2026-01-25.181000_2026-01-25.181000_CpuIe4/results/discovered_motifs/dyads_m5/peak-motifs_dyads_m5_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: dyads_m5_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m5_shift0 (dyads_m5) |
 |
|
|
; dyads_m5; m=0 (reference); ncol1=11; shift=0; ncol=11; ycGCCGCCGcc
; Alignment reference
a 1024 909 274 229 115 379 237 117 206 1236 982
c 1634 1767 191 4280 4573 104 4199 4626 242 1428 1816
g 1052 1179 4138 182 149 4234 287 93 4299 1198 983
t 1251 1106 358 270 124 244 238 125 214 1099 1180
|
| Med_shift2 (Med) |
 |
|
|
; dyads_m5 versus Med; m=1/2; ncol2=11; w=0; offset=2; strand=D; shift=2; score=0.487707; --sCmssCsmm
; cor=; Ncor=
a 0 0 1 0 5 0 0 0 0 3 4
c 0 0 2 8 3 3 4 7 3 5 4
g 0 0 5 0 0 4 4 1 5 0 0
t 0 0 0 0 0 1 0 0 0 0 0
|
| brk_shift2 (brk) |
 |
|
|
; dyads_m5 versus brk; m=2/2; ncol2=7; w=0; offset=2; strand=D; shift=2; score=0.465891; --rGCGCCr--
; cor=; Ncor=
a 0 0 4.4 2.2 0 0 0 0 5.5 0 0
c 0 0 0 0 9.9 0 11 11 0 0 0
g 0 0 6.6 8.8 0 9.9 0 0 5.5 0 0
t 0 0 0 0 1.1 1.1 0 0 0 0 0
|