One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/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/2025/03/02/peak-motifs.2025-03-02.091145_2025-03-02.091145_IYXNXa/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
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; daAAAGAArw
; Alignment reference
a 11 15 36 36 36 0 36 36 15 14
c 4 7 0 0 0 0 0 0 5 6
g 10 7 0 0 0 36 0 0 9 5
t 11 7 0 0 0 0 0 0 7 11
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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; daAAAGAArw
; cor=; Ncor=
a 11 15 36 36 36 0 36 36 15 14
c 4 7 0 0 0 0 0 0 5 6
g 10 7 0 0 0 36 0 0 9 5
t 11 7 0 0 0 0 0 0 7 11
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One-to-n matrix alignment; reference matrix: dyads_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m1_shift0 (dyads_m1) |
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; dyads_m1; m=0 (reference); ncol1=13; shift=0; ncol=13; mrGCArvwGGAyw
; Alignment reference
a 8 16 1 0 25 17 10 10 0 3 28 5 11
c 12 2 1 27 0 2 8 2 1 0 0 13 6
g 3 7 26 1 0 8 8 4 27 24 0 3 3
t 5 3 0 0 3 1 2 12 0 1 0 7 8
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| dyads_m1_shift0 (dyads_m1) |
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; dyads_m1 versus dyads_m1; m=1/1; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; mrGCArvwGGAyw
; cor=; Ncor=
a 8 16 1 0 25 17 10 10 0 3 28 5 11
c 12 2 1 27 0 2 8 2 1 0 0 13 6
g 3 7 26 1 0 8 8 4 27 24 0 3 3
t 5 3 0 0 3 1 2 12 0 1 0 7 8
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One-to-n matrix alignment; reference matrix: dyads_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| dyads_m3_shift0 (dyads_m3) |
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; dyads_m3; m=0 (reference); ncol1=30; shift=0; ncol=30; thACCttsctyysmbwyrycrtrkyCAGtr
; Alignment reference
a 5 12 30 0 0 9 9 5 5 8 9 8 6 15 1 13 5 17 2 6 16 6 15 7 7 0 29 1 6 12
c 7 13 6 37 35 6 7 12 18 6 11 12 13 11 11 4 15 2 14 13 6 8 5 7 12 34 0 1 5 3
g 9 1 0 0 1 7 9 13 5 4 4 4 10 6 12 9 1 12 7 9 12 9 15 13 8 0 7 35 8 14
t 16 11 1 0 1 15 12 7 9 19 13 13 8 5 13 11 16 6 14 9 3 14 2 10 10 3 1 0 18 8
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| dyads_m3_shift0 (dyads_m3) |
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; dyads_m3 versus dyads_m3; m=1/1; ncol2=30; w=0; offset=0; strand=D; shift=0; score= 1; thACCttsctyysmbwyrycrtrkyCAGtr
; cor=; Ncor=
a 5 12 30 0 0 9 9 5 5 8 9 8 6 15 1 13 5 17 2 6 16 6 15 7 7 0 29 1 6 12
c 7 13 6 37 35 6 7 12 18 6 11 12 13 11 11 4 15 2 14 13 6 8 5 7 12 34 0 1 5 3
g 9 1 0 0 1 7 9 13 5 4 4 4 10 6 12 9 1 12 7 9 12 9 15 13 8 0 7 35 8 14
t 16 11 1 0 1 15 12 7 9 19 13 13 8 5 13 11 16 6 14 9 3 14 2 10 10 3 1 0 18 8
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift0 ; 2 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; kyCGGCAACbt
; Alignment reference
a 3 8 0 4 3 0 39 39 3 5 8
c 3 11 41 6 3 39 0 0 39 11 9
g 11 9 0 29 36 3 0 2 0 12 9
t 25 14 1 3 0 0 3 1 0 14 16
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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=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; kyCGGCAACbt
; cor=; Ncor=
a 3 8 0 4 3 0 39 39 3 5 8
c 3 11 41 6 3 39 0 0 39 11 9
g 11 9 0 29 36 3 0 2 0 12 9
t 25 14 1 3 0 0 3 1 0 14 16
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One-to-n matrix alignment; reference matrix: dyads_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
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| dyads_m2_shift0 (dyads_m2) |
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; dyads_m2; m=0 (reference); ncol1=20; shift=0; ncol=20; mmGGAmdywabrwymCGAmr
; Alignment reference
a 13 15 0 1 26 9 9 4 10 15 4 13 9 5 13 0 0 29 11 10
c 11 9 3 0 5 11 4 16 6 4 9 4 7 10 8 31 0 1 8 6
g 6 5 24 30 0 4 8 2 6 5 10 10 3 7 7 0 31 1 5 11
t 1 2 4 0 0 7 10 9 9 7 8 4 12 9 3 0 0 0 7 4
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| dyads_m2_shift0 (dyads_m2) |
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; dyads_m2 versus dyads_m2; m=1/1; ncol2=20; w=0; offset=0; strand=D; shift=0; score= 1; mmGGAmdywabrwymCGAmr
; cor=; Ncor=
a 13 15 0 1 26 9 9 4 10 15 4 13 9 5 13 0 0 29 11 10
c 11 9 3 0 5 11 4 16 6 4 9 4 7 10 8 31 0 1 8 6
g 6 5 24 30 0 4 8 2 6 5 10 10 3 7 7 0 31 1 5 11
t 1 2 4 0 0 7 10 9 9 7 8 4 12 9 3 0 0 0 7 4
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