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.2026-01-25.180941_2026-01-25.180941_K9UVGH/results/discovered_motifs/oligos_6-8nt_m7/peak-motifs_oligos_6-8nt_m7.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.2026-01-25.180941_2026-01-25.180941_K9UVGH/results/discovered_motifs/oligos_6-8nt_m7/peak-motifs_oligos_6-8nt_m7_vs_db_DMMPMM_drosophila
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m7_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m7_shift0 (oligos_6-8nt_m7) |
 |
|
|
; oligos_6-8nt_m7; m=0 (reference); ncol1=16; shift=0; ncol=16; gaGAGAGAGmGAGaga
; Alignment reference
a 221 629 103 976 66 983 52 998 58 517 58 956 71 823 166 594
c 166 228 76 97 43 124 27 83 26 508 58 103 53 199 164 248
g 738 225 1005 83 1096 54 1123 65 1119 117 1086 119 1072 115 776 261
t 112 155 53 81 32 76 35 91 34 95 35 59 41 100 131 134
|
| Trl_rc_shift1 (Trl_rc) |
 |
|
|
; oligos_6-8nt_m7 versus Trl_rc; m=1/1; ncol2=13; w=0; offset=1; strand=R; shift=1; score=0.67147; -agaGaGAGmrmaA--
; cor=; Ncor=
a 0 42 17 46 7 50 11 62 0 40 26 30 41 57 0 0
c 0 14 9 6 1 9 8 11 5 27 10 24 13 0 0 0
g 0 3 47 16 56 12 56 0 72 3 41 19 8 10 0 0
t 0 18 4 9 13 6 2 4 0 7 0 4 15 10 0 0
|