One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/05/22/peak-motifs.2025-05-22.140140_2025-05-22.140140_quAEhD/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/2025/05/22/peak-motifs.2025-05-22.140140_2025-05-22.140140_quAEhD/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4) |
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; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=12; shift=0; ncol=12; rbGGAAAAATww
; Alignment reference
a 23 15 4 3 63 68 69 66 56 8 22 23
c 12 18 3 3 3 1 0 3 8 5 12 12
g 21 20 59 64 4 0 1 0 4 2 10 17
t 15 18 5 1 1 2 1 2 3 56 27 19
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| oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4) |
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; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; rbGGAAAAATww
; cor=; Ncor=
a 23 15 4 3 63 68 69 66 56 8 22 23
c 12 18 3 3 3 1 0 3 8 5 12 12
g 21 20 59 64 4 0 1 0 4 2 10 17
t 15 18 5 1 1 2 1 2 3 56 27 19
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One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m5_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5) |
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; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=14; shift=0; ncol=14; mrCATGGGAACAyw
; Alignment reference
a 9 6 4 17 0 1 2 2 20 20 3 21 5 6
c 6 4 15 1 3 3 0 1 1 0 18 0 8 5
g 2 7 1 1 1 16 18 18 1 0 0 0 2 3
t 5 5 2 3 18 2 2 1 0 2 1 1 7 8
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| oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5) |
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; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; mrCATGGGAACAyw
; cor=; Ncor=
a 9 6 4 17 0 1 2 2 20 20 3 21 5 6
c 6 4 15 1 3 3 0 1 1 0 18 0 8 5
g 2 7 1 1 1 16 18 18 1 0 0 0 2 3
t 5 5 2 3 18 2 2 1 0 2 1 1 7 8
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| oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3) |
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; oligos_7nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m3; m=2/2; ncol2=11; w=0; offset=2; strand=D; shift=2; score=0.654446; --rwTGGGAACrm-
; cor=; Ncor=
a 0 0 33 24 2 1 4 8 80 79 9 27 22 0
c 0 0 9 20 3 3 4 9 3 2 67 16 30 0
g 0 0 23 15 3 74 73 66 2 0 3 22 17 0
t 0 0 20 26 77 7 4 2 0 4 6 20 16 0
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One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
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; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; aaACGGTTAcm
; Alignment reference
a 18 23 53 2 6 3 0 2 47 14 18
c 14 11 1 54 6 1 2 2 2 17 19
g 14 12 3 1 42 51 1 0 5 14 11
t 12 12 1 1 4 3 55 54 4 13 10
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| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
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; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; aaACGGTTAcm
; cor=; Ncor=
a 18 23 53 2 6 3 0 2 47 14 18
c 14 11 1 54 6 1 2 2 2 17 19
g 14 12 3 1 42 51 1 0 5 14 11
t 12 12 1 1 4 3 55 54 4 13 10
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One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2) |
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; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=11; shift=0; ncol=11; dbtAAAGCGah
; Alignment reference
a 17 10 13 55 54 55 1 1 0 26 17
c 10 16 6 0 1 4 4 55 1 11 16
g 17 18 4 2 2 0 50 1 55 11 11
t 15 15 36 2 2 0 4 2 3 11 15
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| oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2) |
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; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; dbtAAAGCGah
; cor=; Ncor=
a 17 10 13 55 54 55 1 1 0 26 17
c 10 16 6 0 1 4 4 55 1 11 16
g 17 18 4 2 2 0 50 1 55 11 11
t 15 15 36 2 2 0 4 2 3 11 15
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| oligos_7nt_test_vs_ctrl_m3_rc_shift0 (oligos_7nt_test_vs_ctrl_m3_rc) |
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; oligos_6nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m3_rc; m=2/2; ncol2=11; w=0; offset=0; strand=R; shift=0; score=0.773038; arTAAAGCTma
; cor=; Ncor=
a 16 18 6 56 56 57 4 2 2 18 26
c 15 12 6 1 1 2 1 54 2 25 11
g 15 17 1 2 2 0 49 2 2 11 10
t 15 14 48 2 2 2 7 3 55 7 14
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One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1) |
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; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; tbtTGGCCAama
; Alignment reference
a 21 16 11 0 0 2 3 2 85 50 22 29
c 18 23 16 1 1 2 81 84 1 11 28 21
g 19 27 10 0 85 82 2 2 2 16 21 18
t 30 22 51 87 2 2 2 0 0 11 17 20
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| oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1) |
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; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; tbtTGGCCAama
; cor=; Ncor=
a 21 16 11 0 0 2 3 2 85 50 22 29
c 18 23 16 1 1 2 81 84 1 11 28 21
g 19 27 10 0 85 82 2 2 2 16 21 18
t 30 22 51 87 2 2 2 0 0 11 17 20
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One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m5_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5) |
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; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=11; shift=1; ncol=12; -wtgAGAATCgr
; Alignment reference
a 0 17 9 3 48 0 48 44 2 1 11 17
c 0 10 11 8 0 1 0 4 3 40 12 8
g 0 8 11 33 1 46 1 1 2 5 14 15
t 0 14 18 5 0 2 0 0 42 3 12 9
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| oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5) |
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; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -wtgAGAATCgr
; cor=; Ncor=
a 0 17 9 3 48 0 48 44 2 1 11 17
c 0 10 11 8 0 1 0 4 3 40 12 8
g 0 8 11 33 1 46 1 1 2 5 14 15
t 0 14 18 5 0 2 0 0 42 3 12 9
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| oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2) |
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; oligos_6nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m2; m=2/2; ncol2=13; w=-1; offset=-1; strand=D; shift=0; score=0.815051; rwyGAGAATCcr
; cor=; Ncor=
a 12 10 2 0 30 1 30 27 0 3 5 13
c 5 7 16 2 0 1 1 3 2 24 14 6
g 10 5 5 28 1 26 0 1 2 2 7 10
t 4 9 8 1 0 3 0 0 27 2 5 2
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One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2) |
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; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=13; shift=0; ncol=13; rwyGAGAATCcrr
; Alignment reference
a 12 10 2 0 30 1 30 27 0 3 5 13 10
c 5 7 16 2 0 1 1 3 2 24 14 6 7
g 10 5 5 28 1 26 0 1 2 2 7 10 8
t 4 9 8 1 0 3 0 0 27 2 5 2 6
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| oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2) |
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; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; rwyGAGAATCcrr
; cor=; Ncor=
a 12 10 2 0 30 1 30 27 0 3 5 13 10
c 5 7 16 2 0 1 1 3 2 24 14 6 7
g 10 5 5 28 1 26 0 1 2 2 7 10 8
t 4 9 8 1 0 3 0 0 27 2 5 2 6
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| oligos_6nt_test_vs_ctrl_m5_shift1 (oligos_6nt_test_vs_ctrl_m5) |
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; oligos_7nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m5; m=2/2; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.815051; -wtgAGAATCgr-
; cor=; Ncor=
a 0 17 9 3 48 0 48 44 2 1 11 17 0
c 0 10 11 8 0 1 0 4 3 40 12 8 0
g 0 8 11 33 1 46 1 1 2 5 14 15 0
t 0 14 18 5 0 2 0 0 42 3 12 9 0
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One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4) |
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; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=11; shift=0; ncol=11; mgCAGGACAah
; Alignment reference
a 16 9 4 51 3 1 52 5 54 18 14
c 15 12 48 1 4 10 2 45 0 11 14
g 11 25 1 0 47 41 0 1 0 13 10
t 13 9 2 3 1 3 1 4 1 13 17
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| oligos_7nt_test_vs_ctrl_m4_shift0 (oligos_7nt_test_vs_ctrl_m4) |
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; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; mgCAGGACAah
; cor=; Ncor=
a 16 9 4 51 3 1 52 5 54 18 14
c 15 12 48 1 4 10 2 45 0 11 14
g 11 25 1 0 47 41 0 1 0 13 10
t 13 9 2 3 1 3 1 4 1 13 17
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One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m3_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3) |
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; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; tkAGCTTTAyt
; Alignment reference
a 14 7 55 3 7 2 2 2 48 14 15
c 10 11 2 2 49 0 2 2 1 17 15
g 11 25 2 54 1 2 1 1 6 12 15
t 26 18 2 2 4 57 56 56 6 18 16
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| oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3) |
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; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; tkAGCTTTAyt
; cor=; Ncor=
a 14 7 55 3 7 2 2 2 48 14 15
c 10 11 2 2 49 0 2 2 1 17 15
g 11 25 2 54 1 2 1 1 6 12 15
t 26 18 2 2 4 57 56 56 6 18 16
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| oligos_6nt_test_vs_ctrl_m2_rc_shift0 (oligos_6nt_test_vs_ctrl_m2_rc) |
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; oligos_7nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m2_rc; m=2/2; ncol2=11; w=0; offset=0; strand=R; shift=0; score=0.773038; dtCGCTTTavh
; cor=; Ncor=
a 15 11 3 2 4 0 2 2 36 15 15
c 11 11 55 1 50 0 2 2 4 18 17
g 16 11 1 55 4 4 1 0 6 16 10
t 17 26 0 1 1 55 54 55 13 10 17
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One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m3_shift2 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3) |
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; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=11; shift=2; ncol=13; --rwTGGGAACrm
; Alignment reference
a 0 0 33 24 2 1 4 8 80 79 9 27 22
c 0 0 9 20 3 3 4 9 3 2 67 16 30
g 0 0 23 15 3 74 73 66 2 0 3 22 17
t 0 0 20 26 77 7 4 2 0 4 6 20 16
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| oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3) |
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; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=2; score= 1; --rwTGGGAACrm
; cor=; Ncor=
a 0 0 33 24 2 1 4 8 80 79 9 27 22
c 0 0 9 20 3 3 4 9 3 2 67 16 30
g 0 0 23 15 3 74 73 66 2 0 3 22 17
t 0 0 20 26 77 7 4 2 0 4 6 20 16
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| oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5) |
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; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m5; m=2/2; ncol2=14; w=-2; offset=-2; strand=D; shift=0; score=0.654446; mrCATGGGAACAy
; cor=; Ncor=
a 9 6 4 17 0 1 2 2 20 20 3 21 5
c 6 4 15 1 3 3 0 1 1 0 18 0 8
g 2 7 1 1 1 16 18 18 1 0 0 0 2
t 5 5 2 3 18 2 2 1 0 2 1 1 7
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