One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/03/26/peak-motifs.2025-03-26.115256_2025-03-26.115256_aAKMqf/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/2025/03/26/peak-motifs.2025-03-26.115256_2025-03-26.115256_aAKMqf/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv1_m3_shift0 (oligos_7nt_mkv1_m3) |
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; oligos_7nt_mkv1_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; hwTGTGAAAdh
; Alignment reference
a 1 2 0 0 0 0 4 4 4 1 1
c 1 0 0 0 0 0 0 0 0 0 1
g 0 0 0 4 0 4 0 0 0 2 0
t 2 2 4 0 4 0 0 0 0 1 2
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| oligos_7nt_mkv1_m3_shift0 (oligos_7nt_mkv1_m3) |
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; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m3; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; hwTGTGAAAdh
; cor=; Ncor=
a 1 2 0 0 0 0 4 4 4 1 1
c 1 0 0 0 0 0 0 0 0 0 1
g 0 0 0 4 0 4 0 0 0 2 0
t 2 2 4 0 4 0 0 0 0 1 2
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m1_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv1_m1_shift1 (oligos_7nt_mkv1_m1) |
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; oligos_7nt_mkv1_m1; m=0 (reference); ncol1=14; shift=1; ncol=15; -wrTgACTATCaAgt
; Alignment reference
a 0 2 2 0 1 5 0 0 5 0 0 3 4 1 1
c 0 0 0 0 0 0 5 0 0 0 5 0 0 1 1
g 0 0 2 0 3 0 0 0 0 0 0 1 0 2 0
t 0 3 1 5 1 0 0 5 0 5 0 1 1 1 3
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| oligos_7nt_mkv1_m1_shift1 (oligos_7nt_mkv1_m1) |
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; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m1; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=1; score= 1; -wrTgACTATCaAgt
; cor=; Ncor=
a 0 2 2 0 1 5 0 0 5 0 0 3 4 1 1
c 0 0 0 0 0 0 5 0 0 0 5 0 0 1 1
g 0 0 2 0 3 0 0 0 0 0 0 1 0 2 0
t 0 3 1 5 1 0 0 5 0 5 0 1 1 1 3
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| oligos_7nt_mkv1_m4_shift0 (oligos_7nt_mkv1_m4) |
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; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m4; m=2/2; ncol2=11; w=-1; offset=-1; strand=D; shift=0; score=0.502221; tkGTGgCTAtc----
; cor=; Ncor=
a 1 1 0 0 0 1 0 0 5 1 1 0 0 0 0
c 1 0 0 0 0 1 5 0 0 0 2 0 0 0 0
g 1 2 5 0 4 3 0 0 0 1 1 0 0 0 0
t 2 2 0 5 1 0 0 5 0 3 1 0 0 0 0
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m4_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv1_m4_shift0 (oligos_7nt_mkv1_m4) |
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; oligos_7nt_mkv1_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; tkGTGgCTAtc
; Alignment reference
a 1 1 0 0 0 1 0 0 5 1 1
c 1 0 0 0 0 1 5 0 0 0 2
g 1 2 5 0 4 3 0 0 0 1 1
t 2 2 0 5 1 0 0 5 0 3 1
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| oligos_7nt_mkv1_m4_shift0 (oligos_7nt_mkv1_m4) |
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; oligos_7nt_mkv1_m4 versus oligos_7nt_mkv1_m4; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; tkGTGgCTAtc
; cor=; Ncor=
a 1 1 0 0 0 1 0 0 5 1 1
c 1 0 0 0 0 1 5 0 0 0 2
g 1 2 5 0 4 3 0 0 0 1 1
t 2 2 0 5 1 0 0 5 0 3 1
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| oligos_7nt_mkv1_m1_shift1 (oligos_7nt_mkv1_m1) |
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; oligos_7nt_mkv1_m4 versus oligos_7nt_mkv1_m1; m=2/2; ncol2=14; w=0; offset=1; strand=D; shift=1; score=0.502221; -wrTgACTATC
; cor=; Ncor=
a 0 2 2 0 1 5 0 0 5 0 0
c 0 0 0 0 0 0 5 0 0 0 5
g 0 0 2 0 3 0 0 0 0 0 0
t 0 3 1 5 1 0 0 5 0 5 0
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv1_m2_shift0 (oligos_7nt_mkv1_m2) |
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; oligos_7nt_mkv1_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; kwATTTGTGrgw
; Alignment reference
a 1 2 5 0 0 0 0 0 0 2 1 3
c 0 1 0 0 0 0 0 0 0 0 1 0
g 2 1 1 0 0 0 5 0 6 4 3 0
t 3 2 0 6 6 6 1 6 0 0 1 3
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| oligos_7nt_mkv1_m2_shift0 (oligos_7nt_mkv1_m2) |
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; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m2; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; kwATTTGTGrgw
; cor=; Ncor=
a 1 2 5 0 0 0 0 0 0 2 1 3
c 0 1 0 0 0 0 0 0 0 0 1 0
g 2 1 1 0 0 0 5 0 6 4 3 0
t 3 2 0 6 6 6 1 6 0 0 1 3
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