One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $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 -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.motif.tf -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_vs_db/peak-motifs_motifs_vs_db_footprintDB.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift8 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift8 (oligos_6nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=10; shift=8; ncol=18; --------daAAAGAArw
; Alignment reference
a 0 0 0 0 0 0 0 0 11 15 36 36 36 0 36 36 15 14
c 0 0 0 0 0 0 0 0 4 7 0 0 0 0 0 0 5 6
g 0 0 0 0 0 0 0 0 10 7 0 0 0 36 0 0 9 5
t 0 0 0 0 0 0 0 0 11 7 0 0 0 0 0 0 7 11
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift5 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m1_shift5 (oligos_7nt_mkv2_m1) |
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; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=5; ncol=16; -----kyCGGCAACbt
; Alignment reference
a 0 0 0 0 0 3 8 0 4 3 0 39 39 3 5 8
c 0 0 0 0 0 3 11 41 6 3 39 0 0 39 11 9
g 0 0 0 0 0 11 9 0 29 36 3 0 2 0 12 9
t 0 0 0 0 0 25 14 1 3 0 0 3 1 0 14 16
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One-to-n matrix alignment; reference matrix: dyads_m1_shift5 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m1_shift5 (dyads_m1) |
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; dyads_m1; m=0 (reference); ncol1=13; shift=5; ncol=18; -----mrGCArvwGGAyw
; Alignment reference
a 0 0 0 0 0 8 16 1 0 25 17 10 10 0 3 28 5 11
c 0 0 0 0 0 12 2 1 27 0 2 8 2 1 0 0 13 6
g 0 0 0 0 0 3 7 26 1 0 8 8 4 27 24 0 3 3
t 0 0 0 0 0 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_m2_shift5 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m2_shift5 (dyads_m2) |
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; dyads_m2; m=0 (reference); ncol1=20; shift=5; ncol=25; -----mmGGAmdywabrwymCGAmr
; Alignment reference
a 0 0 0 0 0 13 15 0 1 26 9 9 4 10 15 4 13 9 5 13 0 0 29 11 10
c 0 0 0 0 0 11 9 3 0 5 11 4 16 6 4 9 4 7 10 8 31 0 1 8 6
g 0 0 0 0 0 6 5 24 30 0 4 8 2 6 5 10 10 3 7 7 0 31 1 5 11
t 0 0 0 0 0 1 2 4 0 0 7 10 9 9 7 8 4 12 9 3 0 0 0 7 4
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One-to-n matrix alignment; reference matrix: dyads_m3_shift2 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m3_shift2 (dyads_m3) |
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; dyads_m3; m=0 (reference); ncol1=30; shift=2; ncol=32; --thACCttsctyysmbwyrycrtrkyCAGtr
; Alignment reference
a 0 0 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 0 0 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 0 0 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 0 0 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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