One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.184343_2025-05-16.184343_1fYTf9/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/2025/05/16/peak-motifs.2025-05-16.184343_2025-05-16.184343_1fYTf9/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 2 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=14; shift=0; ncol=14; aaAGAAAGAAAAar
; Alignment reference
a 31 37 65 8 73 76 72 6 73 67 70 55 36 33
c 14 8 1 3 0 0 1 2 3 2 3 4 8 15
g 18 14 6 61 3 1 3 69 2 6 2 13 19 20
t 15 19 6 6 2 1 2 1 0 3 3 6 15 10
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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=1/1; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; aaAGAAAGAAAAar
; cor=; Ncor=
a 31 37 65 8 73 76 72 6 73 67 70 55 36 33
c 14 8 1 3 0 0 1 2 3 2 3 4 8 15
g 18 14 6 61 3 1 3 69 2 6 2 13 19 20
t 15 19 6 6 2 1 2 1 0 3 3 6 15 10
|
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=12; shift=0; ncol=12; yaCACACACAca
; Alignment reference
a 23 109 6 182 3 175 5 173 6 170 28 98
c 86 22 169 3 173 5 172 5 174 6 91 31
g 25 45 6 3 9 4 1 5 2 4 30 42
t 56 14 9 2 5 6 12 7 8 10 41 19
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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=12; w=0; offset=0; strand=D; shift=0; score= 1; yaCACACACAca
; cor=; Ncor=
a 23 109 6 182 3 175 5 173 6 170 28 98
c 86 22 169 3 173 5 172 5 174 6 91 31
g 25 45 6 3 9 4 1 5 2 4 30 42
t 56 14 9 2 5 6 12 7 8 10 41 19
|
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; ssGCGCGCss
; Alignment reference
a 20 22 3 7 3 5 4 4 18 17
c 38 49 9 107 8 109 7 110 36 49
g 50 38 109 7 109 8 107 8 49 38
t 17 16 4 4 5 3 7 3 22 21
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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=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ssGCGCGCss
; cor=; Ncor=
a 20 22 3 7 3 5 4 4 18 17
c 38 49 9 107 8 109 7 110 36 49
g 50 38 109 7 109 8 107 8 49 38
t 17 16 4 4 5 3 7 3 22 21
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift0 ; 2 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=11; shift=0; ncol=11; rgcCCCAGCys
; Alignment reference
a 36 34 16 3 3 5 123 8 1 32 26
c 34 33 86 131 124 124 6 2 133 44 51
g 46 41 16 3 9 4 8 124 1 21 35
t 21 29 19 0 1 4 0 3 2 40 25
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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=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; rgcCCCAGCys
; cor=; Ncor=
a 36 34 16 3 3 5 123 8 1 32 26
c 34 33 86 131 124 124 6 2 133 44 51
g 46 41 16 3 9 4 8 124 1 21 35
t 21 29 19 0 1 4 0 3 2 40 25
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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=14; shift=0; ncol=14; ssGCCCGGCgsssg
; Alignment reference
a 18 20 7 3 5 5 5 2 2 7 11 9 7 13
c 31 24 3 75 71 66 7 9 76 15 22 22 30 21
g 25 26 73 7 7 12 72 73 3 55 40 46 33 33
t 12 16 3 1 3 3 2 2 5 9 13 9 16 19
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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=14; w=0; offset=0; strand=D; shift=0; score= 1; ssGCCCGGCgsssg
; cor=; Ncor=
a 18 20 7 3 5 5 5 2 2 7 11 9 7 13
c 31 24 3 75 71 66 7 9 76 15 22 22 30 21
g 25 26 73 7 7 12 72 73 3 55 40 46 33 33
t 12 16 3 1 3 3 2 2 5 9 13 9 16 19
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| 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=13; w=0; offset=0; strand=D; shift=0; score=0.916387; svgCCCGGCggss-
; cor=; Ncor=
a 16 27 13 3 5 5 3 3 2 7 14 10 9 0
c 39 27 11 87 83 87 9 11 91 21 24 34 37 0
g 31 29 67 9 9 8 87 85 3 60 49 41 38 0
t 15 18 10 2 4 1 2 2 5 13 14 16 17 0
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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=13; shift=0; ncol=13; svgCCCGGCggss
; Alignment reference
a 16 27 13 3 5 5 3 3 2 7 14 10 9
c 39 27 11 87 83 87 9 11 91 21 24 34 37
g 31 29 67 9 9 8 87 85 3 60 49 41 38
t 15 18 10 2 4 1 2 2 5 13 14 16 17
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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=1/2; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; svgCCCGGCggss
; cor=; Ncor=
a 16 27 13 3 5 5 3 3 2 7 14 10 9
c 39 27 11 87 83 87 9 11 91 21 24 34 37
g 31 29 67 9 9 8 87 85 3 60 49 41 38
t 15 18 10 2 4 1 2 2 5 13 14 16 17
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| oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=2/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score=0.916387; ssGCCCGGCgsss
; cor=; Ncor=
a 18 20 7 3 5 5 5 2 2 7 11 9 7
c 31 24 3 75 71 66 7 9 76 15 22 22 30
g 25 26 73 7 7 12 72 73 3 55 40 46 33
t 12 16 3 1 3 3 2 2 5 9 13 9 16
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m4_shift0 ; 2 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; ysCCTCCCws
; Alignment reference
a 24 15 1 0 5 4 2 0 32 30
c 37 50 123 123 0 120 119 124 28 43
g 29 41 3 2 7 1 6 3 27 32
t 37 21 0 2 115 2 0 0 40 22
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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=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ysCCTCCCws
; cor=; Ncor=
a 24 15 1 0 5 4 2 0 32 30
c 37 50 123 123 0 120 119 124 28 43
g 29 41 3 2 7 1 6 3 27 32
t 37 21 0 2 115 2 0 0 40 22
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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) |
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; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=12; shift=0; ncol=12; amAAAACAAAam
; Alignment reference
a 40 42 100 106 102 100 0 104 103 99 51 37
c 26 31 4 4 4 6 103 7 5 6 25 35
g 27 23 5 4 3 7 1 1 2 4 20 19
t 21 18 5 0 5 1 10 2 4 5 18 23
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| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
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; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m4; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; amAAAACAAAam
; cor=; Ncor=
a 40 42 100 106 102 100 0 104 103 99 51 37
c 26 31 4 4 4 6 103 7 5 6 25 35
g 27 23 5 4 3 7 1 1 2 4 20 19
t 21 18 5 0 5 1 10 2 4 5 18 23
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| oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5) |
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; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m5; m=2/2; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.881005; -awAAACAAAam
; cor=; Ncor=
a 0 40 50 101 111 109 0 106 112 93 45 35
c 0 29 25 6 2 5 116 9 3 6 25 42
g 0 24 13 4 0 3 0 0 0 9 25 16
t 0 26 31 8 6 2 3 4 4 11 24 26
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5) |
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; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=11; shift=1; ncol=12; -awAAACAAAam
; Alignment reference
a 0 40 50 101 111 109 0 106 112 93 45 35
c 0 29 25 6 2 5 116 9 3 6 25 42
g 0 24 13 4 0 3 0 0 0 9 25 16
t 0 26 31 8 6 2 3 4 4 11 24 26
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| oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5) |
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; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -awAAACAAAam
; cor=; Ncor=
a 0 40 50 101 111 109 0 106 112 93 45 35
c 0 29 25 6 2 5 116 9 3 6 25 42
g 0 24 13 4 0 3 0 0 0 9 25 16
t 0 26 31 8 6 2 3 4 4 11 24 26
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| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
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; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m4; m=2/2; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.881005; amAAAACAAAam
; cor=; Ncor=
a 40 42 100 106 102 100 0 104 103 99 51 37
c 26 31 4 4 4 6 103 7 5 6 25 35
g 27 23 5 4 3 7 1 1 2 4 20 19
t 21 18 5 0 5 1 10 2 4 5 18 23
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m5_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5) |
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; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=12; shift=0; ncol=12; kmAGCCAAGAws
; Alignment reference
a 18 27 58 4 6 2 71 77 5 72 22 18
c 15 25 6 3 69 73 3 1 2 3 13 24
g 24 15 7 68 4 2 5 0 70 4 17 21
t 23 13 9 5 1 3 1 2 3 1 28 17
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| oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5) |
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; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; kmAGCCAAGAws
; cor=; Ncor=
a 18 27 58 4 6 2 71 77 5 72 22 18
c 15 25 6 3 69 73 3 1 2 3 13 24
g 24 15 7 68 4 2 5 0 70 4 17 21
t 23 13 9 5 1 3 1 2 3 1 28 17
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