One-to-n alignments
Command: compare-matrices -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/footprintDB/footprintDB.plants.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/2025/05/21/peak-motifs.2025-05-21.033913_2025-05-21.033913_SwV7J2/results/discovered_vs_db/peak-motifs_motifs_vs_db_footprintDB-plants.tab
One-to-n matrix alignment; reference matrix: dyads_m1_shift4 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m1_shift4 (dyads_m1) |
 |
|
|
; dyads_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----wwAATGATtrw
; Alignment reference
a 0 0 0 0 28 20 80 80 0 0 80 0 17 29 24
c 0 0 0 0 15 18 0 0 3 0 0 0 8 13 16
g 0 0 0 0 12 14 0 0 0 80 0 0 19 20 12
t 0 0 0 0 25 28 0 0 77 0 0 80 36 18 28
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift5 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m2_shift5 (oligos_7nt_mkv2_m2) |
 |
|
|
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=5; ncol=16; -----wtCCTTTTCwt
; Alignment reference
a 0 0 0 0 0 34 25 1 0 11 2 2 5 4 31 21
c 0 0 0 0 0 7 15 94 93 2 15 10 5 97 13 19
g 0 0 0 0 0 12 22 1 1 2 0 4 5 0 8 13
t 0 0 0 0 0 48 39 5 7 86 84 85 86 0 49 48
|
One-to-n matrix alignment; reference matrix: dyads_m4_shift7 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m4_shift7 (dyads_m4) |
 |
|
|
; dyads_m4; m=0 (reference); ncol1=10; shift=7; ncol=17; -------whACCAAAww
; Alignment reference
a 0 0 0 0 0 0 0 18 19 63 0 0 61 63 63 25 25
c 0 0 0 0 0 0 0 12 16 0 63 62 0 0 0 9 12
g 0 0 0 0 0 0 0 13 10 0 0 1 2 0 0 11 4
t 0 0 0 0 0 0 0 20 18 0 0 0 0 0 0 18 22
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift2 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m3_shift2 (oligos_6nt_mkv2_m3) |
 |
|
|
; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=10; shift=2; ncol=12; --wrAGATAGwd
; Alignment reference
a 0 0 16 19 48 0 52 0 46 0 21 15
c 0 0 5 3 2 0 0 0 5 0 5 7
g 0 0 12 18 2 52 0 1 0 52 10 15
t 0 0 19 12 0 0 0 51 1 0 16 15
|
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m4_shift4 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv2_m4_shift4 (oligos_8nt_mkv2_m4) |
 |
|
|
; oligos_8nt_mkv2_m4; m=0 (reference); ncol1=12; shift=4; ncol=16; ----wwGTGACAGAkw
; Alignment reference
a 0 0 0 0 18 13 3 1 1 34 4 35 3 36 9 13
c 0 0 0 0 4 3 0 2 0 0 30 1 2 1 1 5
g 0 0 0 0 5 6 35 2 37 2 3 2 34 0 15 9
t 0 0 0 0 12 17 1 34 1 3 2 1 0 2 14 12
|
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m1_shift2 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv2_m1_shift2 (oligos_8nt_mkv2_m1) |
 |
|
|
; oligos_8nt_mkv2_m1; m=0 (reference); ncol1=12; shift=2; ncol=14; --wyCTTACTACww
; Alignment reference
a 0 0 17 9 1 3 1 40 2 2 43 2 17 20
c 0 0 6 12 43 1 3 1 38 1 1 40 8 4
g 0 0 4 5 1 0 0 1 2 1 1 2 2 2
t 0 0 19 20 1 42 42 4 4 42 1 2 19 20
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift6 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m2_shift6 (oligos_6nt_mkv2_m2) |
 |
|
|
; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=10; shift=6; ncol=16; ------wdTAGTAAdw
; Alignment reference
a 0 0 0 0 0 0 22 16 0 55 0 0 55 55 17 20
c 0 0 0 0 0 0 8 8 0 0 0 0 0 0 8 4
g 0 0 0 0 0 0 9 14 0 0 55 0 0 0 16 12
t 0 0 0 0 0 0 16 17 55 0 0 55 0 0 14 19
|
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m2_shift7 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv2_m2_shift7 (oligos_8nt_mkv2_m2) |
 |
|
|
; oligos_8nt_mkv2_m2; m=0 (reference); ncol1=12; shift=7; ncol=19; -------awGAAAAGGCww
; Alignment reference
a 0 0 0 0 0 0 0 20 14 2 46 44 45 44 4 1 5 26 22
c 0 0 0 0 0 0 0 9 5 1 0 3 0 0 1 1 38 5 6
g 0 0 0 0 0 0 0 9 9 43 1 2 2 0 43 45 3 3 5
t 0 0 0 0 0 0 0 11 21 3 2 0 2 5 1 2 3 15 16
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift4 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift4 (oligos_6nt_mkv2_m1) |
 |
|
|
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=12; shift=4; ncol=16; ----wdGGGACAgaaw
; Alignment reference
a 0 0 0 0 21 21 3 3 1 54 4 50 10 32 24 22
c 0 0 0 0 7 4 2 2 0 1 53 1 9 7 10 10
g 0 0 0 0 9 15 52 49 57 2 1 7 34 6 11 9
t 0 0 0 0 22 19 2 5 1 2 1 1 6 14 14 18
|
One-to-n matrix alignment; reference matrix: dyads_m3_shift7 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m3_shift7 (dyads_m3) |
 |
|
|
; dyads_m3; m=0 (reference); ncol1=18; shift=7; ncol=25; -------mmCTThtwthhwwTTCwt
; Alignment reference
a 0 0 0 0 0 0 0 24 23 1 0 1 21 13 22 16 18 21 25 20 1 3 0 25 14
c 0 0 0 0 0 0 0 17 18 64 1 1 19 16 11 15 17 20 14 14 0 0 66 15 13
g 0 0 0 0 0 0 0 10 9 0 2 0 7 10 6 9 7 8 9 8 0 1 0 5 11
t 0 0 0 0 0 0 0 15 16 1 63 64 19 27 27 26 24 17 18 24 65 62 0 21 28
|
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m3_shift4 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv2_m3_shift4 (oligos_8nt_mkv2_m3) |
 |
|
|
; oligos_8nt_mkv2_m3; m=0 (reference); ncol1=12; shift=4; ncol=16; ----rwGGAGGAGAwr
; Alignment reference
a 0 0 0 0 12 16 3 3 36 0 5 35 3 35 16 18
c 0 0 0 0 1 4 0 0 4 0 2 2 1 0 4 2
g 0 0 0 0 21 6 36 38 0 41 35 3 36 6 10 13
t 0 0 0 0 8 16 3 1 2 1 0 2 2 1 12 9
|
One-to-n matrix alignment; reference matrix: dyads_m2_shift1 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m2_shift1 (dyads_m2) |
 |
|
|
; dyads_m2; m=0 (reference); ncol1=14; shift=1; ncol=15; -adGGAGAGAAGGrd
; Alignment reference
a 0 24 19 10 10 46 4 48 3 49 51 2 9 25 17
c 0 5 5 2 5 1 3 1 3 1 0 1 3 7 6
g 0 14 15 41 39 5 44 4 49 6 5 48 43 15 15
t 0 14 18 4 3 5 6 4 2 1 1 6 2 10 19
|
One-to-n matrix alignment; reference matrix: dyads_m5_shift2 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| dyads_m5_shift2 (dyads_m5) |
 |
|
|
; dyads_m5; m=0 (reference); ncol1=12; shift=2; ncol=14; --wwCGAwyACAha
; Alignment reference
a 0 0 21 18 1 0 52 24 12 48 4 54 19 22
c 0 0 10 13 58 0 3 13 15 3 49 2 15 14
g 0 0 13 11 1 57 2 8 12 1 2 2 8 10
t 0 0 16 18 0 3 3 15 21 8 5 2 18 14
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift4 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m1_shift4 (oligos_7nt_mkv2_m1) |
 |
|
|
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=4; ncol=15; ----wtCCTCTTCww
; Alignment reference
a 0 0 0 0 32 29 6 14 6 2 8 0 7 46 36
c 0 0 0 0 27 28 107 101 8 105 10 1 113 26 27
g 0 0 0 0 12 16 1 1 0 0 3 0 1 7 15
t 0 0 0 0 54 52 11 9 111 18 104 124 4 46 47
|
One-to-n matrix alignment; reference matrix: oligos_8nt_mkv2_m5_shift5 ; 1 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_8nt_mkv2_m5_shift5 (oligos_8nt_mkv2_m5) |
 |
|
|
; oligos_8nt_mkv2_m5; m=0 (reference); ncol1=12; shift=5; ncol=17; -----wrGTGGAGGArr
; Alignment reference
a 0 0 0 0 0 15 15 1 9 0 3 35 8 2 40 15 21
c 0 0 0 0 0 2 8 0 1 3 0 1 0 0 1 3 4
g 0 0 0 0 0 8 15 42 1 37 39 1 34 40 0 16 12
t 0 0 0 0 0 18 5 0 32 3 1 6 1 1 2 9 6
|