One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/10/30/peak-motifs.2025-10-30.045413_2025-10-30.045413_ZEQzsU/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/2025/10/30/peak-motifs.2025-10-30.045413_2025-10-30.045413_ZEQzsU/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3) |
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; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=10; shift=0; ncol=10; gyAGGTGAdg
; Alignment reference
a 6 2 25 0 0 0 0 25 7 6
c 3 11 0 0 0 0 0 0 2 1
g 10 5 0 25 25 0 25 0 7 12
t 6 7 0 0 0 25 0 0 9 6
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| oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3) |
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; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; gyAGGTGAdg
; cor=; Ncor=
a 6 2 25 0 0 0 0 25 7 6
c 3 11 0 0 0 0 0 0 2 1
g 10 5 0 25 25 0 25 0 7 12
t 6 7 0 0 0 25 0 0 9 6
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| oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc) |
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; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m3_rc; m=2/2; ncol2=11; w=0; offset=1; strand=R; shift=1; score=0.64052; -ywGGTGATG
; cor=; Ncor=
a 0 5 15 1 6 3 0 39 7 0
c 0 14 1 0 1 0 2 0 1 0
g 0 10 10 41 36 1 41 4 0 39
t 0 14 17 1 0 39 0 0 35 4
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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) |
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; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; rwCATCACCwr
; Alignment reference
a 14 14 4 35 0 0 39 0 1 17 14
c 3 9 39 0 4 41 1 36 41 10 10
g 18 7 0 1 0 2 0 1 0 1 14
t 8 13 0 7 39 0 3 6 1 15 5
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| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
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; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; rwCATCACCwr
; cor=; Ncor=
a 14 14 4 35 0 0 39 0 1 17 14
c 3 9 39 0 4 41 1 36 41 10 10
g 18 7 0 1 0 2 0 1 0 1 14
t 8 13 0 7 39 0 3 6 1 15 5
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| oligos_6nt_mkv2_m3_rc_shift2 (oligos_6nt_mkv2_m3_rc) |
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; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m3_rc; m=2/2; ncol2=10; w=0; offset=2; strand=R; shift=2; score=0.64052; --chTCACCTr
; cor=; Ncor=
a 0 0 6 9 0 0 25 0 0 0 7
c 0 0 12 7 0 25 0 25 25 0 5
g 0 0 1 2 0 0 0 0 0 0 11
t 0 0 6 7 25 0 0 0 0 25 2
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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) |
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; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; krAGACCAgc
; Alignment reference
a 3 9 28 0 30 0 1 29 6 7
c 6 6 3 0 0 31 27 1 4 12
g 10 9 0 31 0 0 3 1 18 5
t 12 7 0 0 1 0 0 0 3 7
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| oligos_6nt_mkv2_m4_shift0 (oligos_6nt_mkv2_m4) |
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; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m4; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; krAGACCAgc
; cor=; Ncor=
a 3 9 28 0 30 0 1 29 6 7
c 6 6 3 0 0 31 27 1 4 12
g 10 9 0 31 0 0 3 1 18 5
t 12 7 0 0 1 0 0 0 3 7
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| oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1) |
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; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m1; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.895654; bwAGACCAGm
; cor=; Ncor=
a 2 10 26 0 31 0 2 29 4 9
c 8 7 3 1 0 30 29 1 0 12
g 9 6 1 30 0 0 0 0 25 3
t 12 8 1 0 0 1 0 1 2 7
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift0 ; 2 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=10; shift=0; ncol=10; svAGGCTGrk
; Alignment reference
a 7 12 38 0 0 0 0 0 12 7
c 13 12 0 5 0 39 0 0 8 1
g 12 12 0 34 39 0 3 39 13 19
t 7 3 1 0 0 0 36 0 6 12
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| oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; svAGGCTGrk
; cor=; Ncor=
a 7 12 38 0 0 0 0 0 12 7
c 13 12 0 5 0 39 0 0 8 1
g 12 12 0 34 39 0 3 39 13 19
t 7 3 1 0 0 0 36 0 6 12
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1) |
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; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; bwAGACCAGmc
; Alignment reference
a 2 10 26 0 31 0 2 29 4 9 5
c 8 7 3 1 0 30 29 1 0 12 17
g 9 6 1 30 0 0 0 0 25 3 4
t 12 8 1 0 0 1 0 1 2 7 5
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| oligos_7nt_mkv2_m1_shift0 (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=0; score= 1; bwAGACCAGmc
; cor=; Ncor=
a 2 10 26 0 31 0 2 29 4 9 5
c 8 7 3 1 0 30 29 1 0 12 17
g 9 6 1 30 0 0 0 0 25 3 4
t 12 8 1 0 0 1 0 1 2 7 5
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| oligos_6nt_mkv2_m4_shift0 (oligos_6nt_mkv2_m4) |
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; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m4; m=2/2; ncol2=10; w=0; offset=0; strand=D; shift=0; score=0.895654; krAGACCAgc-
; cor=; Ncor=
a 3 9 28 0 30 0 1 29 6 7 0
c 6 6 3 0 0 31 27 1 4 12 0
g 10 9 0 31 0 0 3 1 18 5 0
t 12 7 0 0 1 0 0 0 3 7 0
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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) |
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; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; ywGCTGGGAga
; Alignment reference
a 9 22 4 0 1 1 1 0 47 10 18
c 16 5 6 49 1 2 2 3 1 9 9
g 7 10 34 0 1 47 47 44 0 19 12
t 18 13 6 1 47 0 0 3 2 12 11
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| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
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; oligos_6nt_mkv2_m2 versus oligos_6nt_mkv2_m2; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ywGCTGGGAga
; cor=; Ncor=
a 9 22 4 0 1 1 1 0 47 10 18
c 16 5 6 49 1 2 2 3 1 9 9
g 7 10 34 0 1 47 47 44 0 19 12
t 18 13 6 1 47 0 0 3 2 12 11
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| oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2) |
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; oligos_6nt_mkv2_m2 versus oligos_7nt_mkv2_m2; m=2/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.912499; ywGCTGGGAkw
; cor=; Ncor=
a 9 24 3 0 1 1 1 0 46 9 16
c 14 5 3 50 1 2 2 6 2 10 9
g 10 9 39 0 1 48 48 42 0 18 11
t 18 13 6 1 48 0 0 3 3 14 15
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift0 ; 3 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=12; shift=0; ncol=12; ywGCTGGGAkww
; Alignment reference
a 9 24 3 0 1 1 1 0 46 9 16 19
c 14 5 3 50 1 2 2 6 2 10 9 10
g 10 9 39 0 1 48 48 42 0 18 11 5
t 18 13 6 1 48 0 0 3 3 14 15 17
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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=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; ywGCTGGGAkww
; cor=; Ncor=
a 9 24 3 0 1 1 1 0 46 9 16 19
c 14 5 3 50 1 2 2 6 2 10 9 10
g 10 9 39 0 1 48 48 42 0 18 11 5
t 18 13 6 1 48 0 0 3 3 14 15 17
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| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
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; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m2; m=2/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score=0.912499; ywGCTGGGAga-
; cor=; Ncor=
a 9 22 4 0 1 1 1 0 47 10 18 0
c 16 5 6 49 1 2 2 3 1 9 9 0
g 7 10 34 0 1 47 47 44 0 19 12 0
t 18 13 6 1 47 0 0 3 2 12 11 0
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