One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/03/25/peak-motifs.2025-03-25.113723_2025-03-25.113723_a960cV/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/2025/03/25/peak-motifs.2025-03-25.113723_2025-03-25.113723_a960cV/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3) |
 |
|
|
; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=10; shift=1; ncol=11; -wwTCATCAwk
; Alignment reference
a 0 11 11 0 0 37 0 0 37 13 8
c 0 9 6 0 37 0 0 37 0 9 4
g 0 3 7 0 0 0 0 0 0 4 12
t 0 14 13 37 0 0 37 0 0 11 13
|
| oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3) |
|
|
|
; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=1; score= 1; -wwTCATCAwk
; cor=; Ncor=
a 0 11 11 0 0 37 0 0 37 13 8
c 0 9 6 0 37 0 0 37 0 9 4
g 0 3 7 0 0 0 0 0 0 4 12
t 0 14 13 37 0 0 37 0 0 11 13
|
| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
 |
|
|
; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=2/2; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.647944; ttATCATTAmw
; cor=; Ncor=
a 2 5 25 1 0 23 0 0 25 12 7
c 4 4 0 0 25 0 0 0 0 7 5
g 4 4 0 1 0 2 0 0 0 3 5
t 15 12 0 23 0 0 25 25 0 3 8
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
 |
|
|
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=14; shift=0; ncol=14; wwaTGAGCAAATwt
; Alignment reference
a 30 31 48 13 1 66 2 7 66 66 66 5 35 13
c 7 9 8 4 0 4 1 66 0 4 0 0 2 10
g 13 9 6 3 69 1 69 1 1 0 2 3 7 9
t 24 25 12 54 4 3 2 0 7 4 6 66 30 42
|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
|
|
|
; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; wwaTGAGCAAATwt
; cor=; Ncor=
a 30 31 48 13 1 66 2 7 66 66 66 5 35 13
c 7 9 8 4 0 4 1 66 0 4 0 0 2 10
g 13 9 6 3 69 1 69 1 1 0 2 3 7 9
t 24 25 12 54 4 3 2 0 7 4 6 66 30 42
|
| oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1) |
 |
|
|
; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=2/2; ncol2=13; w=0; offset=1; strand=D; shift=1; score=0.921247; -aaTGAGCAAATwt
; cor=; Ncor=
a 0 27 28 8 1 54 0 3 50 51 53 2 25 9
c 0 10 9 6 0 2 1 54 1 3 0 0 1 5
g 0 7 6 0 54 0 56 0 0 1 0 1 8 5
t 0 13 14 43 2 1 0 0 6 2 4 54 23 38
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
 |
|
|
; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; wwCTAATAwwa
; Alignment reference
a 27 20 0 0 56 49 0 56 32 19 24
c 5 10 56 0 0 4 0 0 6 10 10
g 6 7 0 4 0 0 0 0 1 5 9
t 18 19 0 52 0 3 56 0 17 22 13
|
| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
|
|
|
; oligos_6nt_mkv2_m2 versus oligos_6nt_mkv2_m2; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wwCTAATAwwa
; cor=; Ncor=
a 27 20 0 0 56 49 0 56 32 19 24
c 5 10 56 0 0 4 0 0 6 10 10
g 6 7 0 4 0 0 0 0 1 5 9
t 18 19 0 52 0 3 56 0 17 22 13
|
| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
 |
|
|
; oligos_6nt_mkv2_m2 versus oligos_7nt_mkv2_m4; m=2/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.840652; wacTAATAAAa
; cor=; Ncor=
a 39 36 18 6 88 92 2 91 84 82 42
c 13 19 65 3 4 2 2 3 4 1 9
g 12 20 7 1 4 0 1 1 0 3 22
t 32 21 6 86 0 2 91 1 8 10 23
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m5_shift0 (oligos_6nt_mkv2_m5) |
 |
|
|
; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=10; shift=0; ncol=10; twCAACTAma
; Alignment reference
a 7 14 0 30 30 0 0 30 9 16
c 1 2 30 0 0 30 0 0 11 7
g 7 3 0 0 0 0 0 0 5 2
t 15 11 0 0 0 0 30 0 5 5
|
| oligos_6nt_mkv2_m5_shift0 (oligos_6nt_mkv2_m5) |
|
|
|
; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; twCAACTAma
; cor=; Ncor=
a 7 14 0 30 30 0 0 30 9 16
c 1 2 30 0 0 30 0 0 11 7
g 7 3 0 0 0 0 0 0 5 2
t 15 11 0 0 0 0 30 0 5 5
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
|
|
|
; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=12; shift=0; ncol=12; wacTAATAAAaw
; Alignment reference
a 39 36 18 6 88 92 2 91 84 82 42 37
c 13 19 65 3 4 2 2 3 4 1 9 21
g 12 20 7 1 4 0 1 1 0 3 22 10
t 32 21 6 86 0 2 91 1 8 10 23 28
|
| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
|
|
|
; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m4; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; wacTAATAAAaw
; cor=; Ncor=
a 39 36 18 6 88 92 2 91 84 82 42 37
c 13 19 65 3 4 2 2 3 4 1 9 21
g 12 20 7 1 4 0 1 1 0 3 22 10
t 32 21 6 86 0 2 91 1 8 10 23 28
|
| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
|
|
|
; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m2; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.840652; wwCTAATAwwa-
; cor=; Ncor=
a 27 20 0 0 56 49 0 56 32 19 24 0
c 5 10 56 0 0 4 0 0 6 10 10 0
g 6 7 0 4 0 0 0 0 1 5 9 0
t 18 19 0 52 0 3 56 0 17 22 13 0
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m4_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m4_shift0 (oligos_6nt_mkv2_m4) |
 |
|
|
; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; wwAGAAGAAaw
; Alignment reference
a 44 33 89 1 94 91 0 88 79 33 38
c 7 17 8 0 2 1 0 0 3 25 15
g 24 25 1 101 1 3 102 3 9 25 20
t 28 28 5 1 6 8 1 12 12 20 30
|
| oligos_6nt_mkv2_m4_shift0 (oligos_6nt_mkv2_m4) |
|
|
|
; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m4; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wwAGAAGAAaw
; cor=; Ncor=
a 44 33 89 1 94 91 0 88 79 33 38
c 7 17 8 0 2 1 0 0 3 25 15
g 24 25 1 101 1 3 102 3 9 25 20
t 28 28 5 1 6 8 1 12 12 20 30
|
| oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5) |
 |
|
|
; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m5; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.999074; wdAGAAGAAaw
; cor=; Ncor=
a 50 34 97 1 101 99 0 94 90 37 44
c 8 17 8 0 2 1 0 1 3 27 16
g 25 30 2 111 4 4 112 6 8 27 24
t 30 32 6 1 6 9 1 12 12 22 29
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1) |
|
|
|
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=13; shift=1; ncol=14; -aaTGAGCAAATwt
; Alignment reference
a 0 27 28 8 1 54 0 3 50 51 53 2 25 9
c 0 10 9 6 0 2 1 54 1 3 0 0 1 5
g 0 7 6 0 54 0 56 0 0 1 0 1 8 5
t 0 13 14 43 2 1 0 0 6 2 4 54 23 38
|
| oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1) |
|
|
|
; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=1; score= 1; -aaTGAGCAAATwt
; cor=; Ncor=
a 0 27 28 8 1 54 0 3 50 51 53 2 25 9
c 0 10 9 6 0 2 1 54 1 3 0 0 1 5
g 0 7 6 0 54 0 56 0 0 1 0 1 8 5
t 0 13 14 43 2 1 0 0 6 2 4 54 23 38
|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
|
|
|
; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=2/2; ncol2=14; w=-1; offset=-1; strand=D; shift=0; score=0.921247; wwaTGAGCAAATwt
; cor=; Ncor=
a 30 31 48 13 1 66 2 7 66 66 66 5 35 13
c 7 9 8 4 0 4 1 66 0 4 0 0 2 10
g 13 9 6 3 69 1 69 1 1 0 2 3 7 9
t 24 25 12 54 4 3 2 0 7 4 6 66 30 42
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m5_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5) |
|
|
|
; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=11; shift=0; ncol=11; wdAGAAGAAaw
; Alignment reference
a 50 34 97 1 101 99 0 94 90 37 44
c 8 17 8 0 2 1 0 1 3 27 16
g 25 30 2 111 4 4 112 6 8 27 24
t 30 32 6 1 6 9 1 12 12 22 29
|
| oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5) |
|
|
|
; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wdAGAAGAAaw
; cor=; Ncor=
a 50 34 97 1 101 99 0 94 90 37 44
c 8 17 8 0 2 1 0 1 3 27 16
g 25 30 2 111 4 4 112 6 8 27 24
t 30 32 6 1 6 9 1 12 12 22 29
|
| oligos_6nt_mkv2_m4_shift0 (oligos_6nt_mkv2_m4) |
|
|
|
; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m4; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.999074; wwAGAAGAAaw
; cor=; Ncor=
a 44 33 89 1 94 91 0 88 79 33 38
c 7 17 8 0 2 1 0 0 3 25 15
g 24 25 1 101 1 3 102 3 9 25 20
t 28 28 5 1 6 8 1 12 12 20 30
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2) |
 |
|
|
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; raACAGAGAar
; Alignment reference
a 48 45 121 11 124 10 128 13 122 56 50
c 24 30 5 111 1 11 3 5 6 24 24
g 35 27 6 6 4 112 0 110 3 22 39
t 28 33 3 7 6 2 4 7 4 33 22
|
| oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2) |
|
|
|
; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m2; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; raACAGAGAar
; cor=; Ncor=
a 48 45 121 11 124 10 128 13 122 56 50
c 24 30 5 111 1 11 3 5 6 24 24
g 35 27 6 6 4 112 0 110 3 22 39
t 28 33 3 7 6 2 4 7 4 33 22
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
|
|
|
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; ttATCATTAmw
; Alignment reference
a 2 5 25 1 0 23 0 0 25 12 7
c 4 4 0 0 25 0 0 0 0 7 5
g 4 4 0 1 0 2 0 0 0 3 5
t 15 12 0 23 0 0 25 25 0 3 8
|
| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
|
|
|
; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ttATCATTAmw
; cor=; Ncor=
a 2 5 25 1 0 23 0 0 25 12 7
c 4 4 0 0 25 0 0 0 0 7 5
g 4 4 0 1 0 2 0 0 0 3 5
t 15 12 0 23 0 0 25 25 0 3 8
|
| oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3) |
|
|
|
; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=2/2; ncol2=10; w=0; offset=1; strand=D; shift=1; score=0.647944; -wwTCATCAwk
; cor=; Ncor=
a 0 11 11 0 0 37 0 0 37 13 8
c 0 9 6 0 37 0 0 37 0 9 4
g 0 3 7 0 0 0 0 0 0 4 12
t 0 14 13 37 0 0 37 0 0 11 13
|