One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.motif.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/2025/06/19/peak-motifs.2025-06-19.092718_2025-06-19.092718_Z1kkIg/results/discovered_vs_db/peak-motifs_motifs_vs_db_footprintDB-plants.tab
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m1_shift8 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m1_shift8 (oligos_6-8nt_m1) |
 |
|
|
; oligos_6-8nt_m1; m=0 (reference); ncol1=10; shift=8; ncol=18; --------ysCGTGCCmy
; Alignment reference
a 0 0 0 0 0 0 0 0 12 6 0 0 0 0 0 0 14 10
c 0 0 0 0 0 0 0 0 17 21 55 0 0 0 55 55 15 18
g 0 0 0 0 0 0 0 0 11 18 0 55 0 55 0 0 13 13
t 0 0 0 0 0 0 0 0 15 10 0 0 55 0 0 0 13 14
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m3_shift8 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m3_shift8 (oligos_6-8nt_m3) |
 |
|
|
; oligos_6-8nt_m3; m=0 (reference); ncol1=10; shift=8; ncol=18; --------gsCCACGGcy
; Alignment reference
a 0 0 0 0 0 0 0 0 5 5 0 0 45 0 0 0 8 10
c 0 0 0 0 0 0 0 0 11 15 45 45 0 45 0 0 19 12
g 0 0 0 0 0 0 0 0 18 16 0 0 0 0 45 45 10 10
t 0 0 0 0 0 0 0 0 11 9 0 0 0 0 0 0 8 13
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m2_shift8 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m2_shift8 (oligos_6-8nt_m2) |
 |
|
|
; oligos_6-8nt_m2; m=0 (reference); ncol1=12; shift=8; ncol=20; --------ssCCCATGCAss
; Alignment reference
a 0 0 0 0 0 0 0 0 14 17 4 3 3 62 1 1 0 62 16 12
c 0 0 0 0 0 0 0 0 28 24 57 61 64 3 1 2 68 3 18 20
g 0 0 0 0 0 0 0 0 19 20 3 3 2 1 3 65 1 3 25 28
t 0 0 0 0 0 0 0 0 9 9 6 3 1 4 65 2 1 2 11 10
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m4_shift8 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m4_shift8 (oligos_6-8nt_m4) |
 |
|
|
; oligos_6-8nt_m4; m=0 (reference); ncol1=12; shift=8; ncol=20; --------ccCCTCCCCCys
; Alignment reference
a 0 0 0 0 0 0 0 0 12 9 1 1 5 1 3 2 7 3 15 15
c 0 0 0 0 0 0 0 0 44 45 83 83 16 80 78 74 75 79 33 36
g 0 0 0 0 0 0 0 0 16 14 0 2 4 3 3 6 3 1 16 22
t 0 0 0 0 0 0 0 0 14 18 2 0 61 2 2 4 1 3 22 13
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m5_shift1 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m5_shift1 (oligos_6-8nt_m5) |
 |
|
|
; oligos_6-8nt_m5; m=0 (reference); ncol1=12; shift=1; ncol=13; -csCCCATCCCcs
; Alignment reference
a 0 14 14 2 3 1 62 5 1 0 2 16 16
c 0 28 34 70 70 73 7 6 65 67 71 29 20
g 0 16 22 2 0 0 2 7 3 6 2 15 25
t 0 17 5 1 2 1 4 57 6 2 0 15 14
|