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.2025-06-19.093456_2025-06-19.093456_nFlB6k/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.2025-06-19.093456_2025-06-19.093456_nFlB6k/results/discovered_vs_db/peak-motifs_motifs_vs_db_footprintDB-plants.tab
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m3_shift9 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m3_shift9 (oligos_6-8nt_m3) |
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; oligos_6-8nt_m3; m=0 (reference); ncol1=11; shift=9; ncol=20; ---------ssACCGACCsc
; Alignment reference
a 0 0 0 0 0 0 0 0 0 12 13 43 0 1 1 57 1 8 9 13
c 0 0 0 0 0 0 0 0 0 16 22 6 61 54 3 1 57 47 24 21
g 0 0 0 0 0 0 0 0 0 26 19 9 1 5 58 1 4 3 18 15
t 0 0 0 0 0 0 0 0 0 8 8 4 0 2 0 3 0 4 11 13
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m2_shift3 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m2_shift3 (oligos_6-8nt_m2) |
 |
|
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; oligos_6-8nt_m2; m=0 (reference); ncol1=10; shift=3; ncol=13; ---gkAGTACGyv
; Alignment reference
a 0 0 0 6 6 29 0 0 31 0 1 5 8
c 0 0 0 6 5 3 3 0 0 32 3 9 8
g 0 0 0 16 8 0 28 0 0 0 26 6 12
t 0 0 0 4 13 0 1 32 1 0 2 12 4
|
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) |
 |
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; oligos_6-8nt_m4; m=0 (reference); ncol1=10; shift=8; ncol=18; --------scCCCGCCsc
; Alignment reference
a 0 0 0 0 0 0 0 0 9 9 0 0 0 0 0 0 11 9
c 0 0 0 0 0 0 0 0 18 19 47 47 47 0 47 47 12 18
g 0 0 0 0 0 0 0 0 15 8 0 0 0 47 0 0 14 11
t 0 0 0 0 0 0 0 0 5 11 0 0 0 0 0 0 10 9
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m1_shift12 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m1_shift12 (oligos_6-8nt_m1) |
 |
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; oligos_6-8nt_m1; m=0 (reference); ncol1=12; shift=12; ncol=24; ------------wsGAAGGAACks
; Alignment reference
a 0 0 0 0 0 0 0 0 0 0 0 0 9 4 0 22 23 1 1 20 21 2 5 5
c 0 0 0 0 0 0 0 0 0 0 0 0 4 8 0 1 0 0 1 2 2 19 5 8
g 0 0 0 0 0 0 0 0 0 0 0 0 4 7 24 1 0 23 22 2 1 2 7 6
t 0 0 0 0 0 0 0 0 0 0 0 0 7 5 0 0 1 0 0 0 0 1 7 5
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m5_shift4 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m5_shift4 (oligos_6-8nt_m5) |
 |
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; oligos_6-8nt_m5; m=0 (reference); ncol1=10; shift=4; ncol=14; ----scATGCAGsy
; Alignment reference
a 0 0 0 0 8 8 42 0 0 0 42 0 3 9
c 0 0 0 0 13 20 0 0 0 42 0 0 19 11
g 0 0 0 0 14 7 0 0 42 0 0 42 12 10
t 0 0 0 0 7 7 0 42 0 0 0 0 8 12
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