One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $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 -distinct -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_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m5_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m5_shift0 (oligos_6-8nt_m5) |
 |
|
|
; oligos_6-8nt_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; scATGCAGsy
; Alignment reference
a 8 8 42 0 0 0 42 0 3 9
c 13 20 0 0 0 42 0 0 19 11
g 14 7 0 0 42 0 0 42 12 10
t 7 7 0 42 0 0 0 0 8 12
|
| oligos_6-8nt_m5_shift0 (oligos_6-8nt_m5) |
|
|
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; oligos_6-8nt_m5 versus oligos_6-8nt_m5; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; scATGCAGsy
; cor=; Ncor=
a 8 8 42 0 0 0 42 0 3 9
c 13 20 0 0 0 42 0 0 19 11
g 14 7 0 0 42 0 0 42 12 10
t 7 7 0 42 0 0 0 0 8 12
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m2_shift0 (oligos_6-8nt_m2) |
 |
|
|
; oligos_6-8nt_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; gkAGTACGyv
; Alignment reference
a 6 6 29 0 0 31 0 1 5 8
c 6 5 3 3 0 0 32 3 9 8
g 16 8 0 28 0 0 0 26 6 12
t 4 13 0 1 32 1 0 2 12 4
|
| oligos_6-8nt_m2_shift0 (oligos_6-8nt_m2) |
|
|
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; oligos_6-8nt_m2 versus oligos_6-8nt_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; gkAGTACGyv
; cor=; Ncor=
a 6 6 29 0 0 31 0 1 5 8
c 6 5 3 3 0 0 32 3 9 8
g 16 8 0 28 0 0 0 26 6 12
t 4 13 0 1 32 1 0 2 12 4
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m4_shift0 (oligos_6-8nt_m4) |
 |
|
|
; oligos_6-8nt_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; scCCCGCCsc
; Alignment reference
a 9 9 0 0 0 0 0 0 11 9
c 18 19 47 47 47 0 47 47 12 18
g 15 8 0 0 0 47 0 0 14 11
t 5 11 0 0 0 0 0 0 10 9
|
| oligos_6-8nt_m4_shift0 (oligos_6-8nt_m4) |
|
|
|
; oligos_6-8nt_m4 versus oligos_6-8nt_m4; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; scCCCGCCsc
; cor=; Ncor=
a 9 9 0 0 0 0 0 0 11 9
c 18 19 47 47 47 0 47 47 12 18
g 15 8 0 0 0 47 0 0 14 11
t 5 11 0 0 0 0 0 0 10 9
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m1_shift0 (oligos_6-8nt_m1) |
 |
|
|
; oligos_6-8nt_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; wsGAAGGAACks
; Alignment reference
a 9 4 0 22 23 1 1 20 21 2 5 5
c 4 8 0 1 0 0 1 2 2 19 5 8
g 4 7 24 1 0 23 22 2 1 2 7 6
t 7 5 0 0 1 0 0 0 0 1 7 5
|
| oligos_6-8nt_m1_shift0 (oligos_6-8nt_m1) |
|
|
|
; oligos_6-8nt_m1 versus oligos_6-8nt_m1; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; wsGAAGGAACks
; cor=; Ncor=
a 9 4 0 22 23 1 1 20 21 2 5 5
c 4 8 0 1 0 0 1 2 2 19 5 8
g 4 7 24 1 0 23 22 2 1 2 7 6
t 7 5 0 0 1 0 0 0 0 1 7 5
|
One-to-n matrix alignment; reference matrix: oligos_6-8nt_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6-8nt_m3_shift0 (oligos_6-8nt_m3) |
 |
|
|
; oligos_6-8nt_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; ssACCGACCsc
; Alignment reference
a 12 13 43 0 1 1 57 1 8 9 13
c 16 22 6 61 54 3 1 57 47 24 21
g 26 19 9 1 5 58 1 4 3 18 15
t 8 8 4 0 2 0 3 0 4 11 13
|
| oligos_6-8nt_m3_shift0 (oligos_6-8nt_m3) |
|
|
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; oligos_6-8nt_m3 versus oligos_6-8nt_m3; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssACCGACCsc
; cor=; Ncor=
a 12 13 43 0 1 1 57 1 8 9 13
c 16 22 6 61 54 3 1 57 47 24 21
g 26 19 9 1 5 58 1 4 3 18 15
t 8 8 4 0 2 0 3 0 4 11 13
|