One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/04/17/peak-motifs.2025-04-17.044940_2025-04-17.044940_gWHOHM/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/2025/04/17/peak-motifs.2025-04-17.044940_2025-04-17.044940_gWHOHM/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
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) |
 |
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; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; wwTGATAAgad
; Alignment reference
a 17 13 4 0 37 0 38 36 5 19 15
c 5 8 1 0 0 1 1 0 7 3 2
g 5 8 1 39 1 0 0 2 20 9 11
t 12 10 33 0 1 38 0 1 7 8 11
|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; wwTGATAAgad
; cor=; Ncor=
a 17 13 4 0 37 0 38 36 5 19 15
c 5 8 1 0 0 1 1 0 7 3 2
g 5 8 1 39 1 0 0 2 20 9 11
t 12 10 33 0 1 38 0 1 7 8 11
|
| oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=2/2; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.723434; -hwGATAACAk
; cor=; Ncor=
a 0 10 11 1 31 0 30 30 2 29 6
c 0 9 3 3 0 1 2 1 25 2 6
g 0 5 4 29 0 0 0 0 3 1 10
t 0 9 15 0 2 32 1 2 3 1 11
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
 |
|
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; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; syACTACTwy
; Alignment reference
a 4 3 17 0 0 18 0 2 6 3
c 5 6 0 18 1 0 18 0 3 5
g 6 1 1 0 0 0 0 2 3 4
t 3 8 0 0 17 0 0 14 6 6
|
| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
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; oligos_6nt_mkv2_m2 versus oligos_6nt_mkv2_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; syACTACTwy
; cor=; Ncor=
a 4 3 17 0 0 18 0 2 6 3
c 5 6 0 18 1 0 18 0 3 5
g 6 1 1 0 0 0 0 2 3 4
t 3 8 0 0 17 0 0 14 6 6
|
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) |
|
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; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=1; ncol=12; -hwGATAACAkt
; Alignment reference
a 0 10 11 1 31 0 30 30 2 29 6 8
c 0 9 3 3 0 1 2 1 25 2 6 7
g 0 5 4 29 0 0 0 0 3 1 10 5
t 0 9 15 0 2 32 1 2 3 1 11 13
|
| oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1) |
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; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -hwGATAACAkt
; cor=; Ncor=
a 0 10 11 1 31 0 30 30 2 29 6 8
c 0 9 3 3 0 1 2 1 25 2 6 7
g 0 5 4 29 0 0 0 0 3 1 10 5
t 0 9 15 0 2 32 1 2 3 1 11 13
|
| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
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; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=2/2; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.723434; wwTGATAAgad-
; cor=; Ncor=
a 17 13 4 0 37 0 38 36 5 19 15 0
c 5 8 1 0 0 1 1 0 7 3 2 0
g 5 8 1 39 1 0 0 2 20 9 11 0
t 12 10 33 0 1 38 0 1 7 8 11 0
|
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) |
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; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; awAAATCGAtA
; Alignment reference
a 15 13 25 22 27 0 4 0 27 3 20
c 2 2 0 1 0 2 23 0 0 5 0
g 6 2 2 0 0 1 0 27 0 3 1
t 4 10 0 4 0 24 0 0 0 16 6
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| oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2) |
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; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m2; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; awAAATCGAtA
; cor=; Ncor=
a 15 13 25 22 27 0 4 0 27 3 20
c 2 2 0 1 0 2 23 0 0 5 0
g 6 2 2 0 0 1 0 27 0 3 1
t 4 10 0 4 0 24 0 0 0 16 6
|