One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2026/01/05/peak-motifs.2026-01-05.150947_2026-01-05.150947_WkkC55/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/2026/01/05/peak-motifs.2026-01-05.150947_2026-01-05.150947_WkkC55/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
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 |
|---|
| oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3) |
 |
|
|
; oligos_6nt_test_vs_ctrl_m3; m=0 (reference); ncol1=10; shift=2; ncol=12; --tcCTGGTAww
; Alignment reference
a 0 0 6 7 2 0 2 0 1 28 9 9
c 0 0 4 11 27 4 1 0 0 2 5 4
g 0 0 5 7 1 4 27 30 0 0 6 6
t 0 0 15 5 0 22 0 0 29 0 10 11
|
| oligos_6nt_test_vs_ctrl_m3_shift2 (oligos_6nt_test_vs_ctrl_m3) |
|
|
|
; oligos_6nt_test_vs_ctrl_m3 versus oligos_6nt_test_vs_ctrl_m3; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=2; score= 1; --tcCTGGTAww
; cor=; Ncor=
a 0 0 6 7 2 0 2 0 1 28 9 9
c 0 0 4 11 27 4 1 0 0 2 5 4
g 0 0 5 7 1 4 27 30 0 0 6 6
t 0 0 15 5 0 22 0 0 29 0 10 11
|
| oligos_7nt_test_vs_ctrl_m4_rc_shift0 (oligos_7nt_test_vs_ctrl_m4_rc) |
 |
|
|
; oligos_6nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m4_rc; m=2/2; ncol2=11; w=-2; offset=-2; strand=R; shift=0; score=0.62941; ksTCCTGGTkw-
; cor=; Ncor=
a 5 10 1 4 1 1 3 1 4 13 21 0
c 11 16 2 43 52 4 0 0 2 10 7 0
g 19 15 1 2 1 3 47 51 0 17 8 0
t 19 13 50 5 0 46 4 2 48 14 18 0
|
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) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m5; m=0 (reference); ncol1=13; shift=0; ncol=13; wwCTTAAAATAyr
; Alignment reference
a 8 13 4 3 6 27 26 29 28 2 29 3 10
c 1 4 22 0 1 0 2 0 0 2 0 10 6
g 6 5 2 6 2 0 1 0 0 1 1 2 9
t 15 8 2 21 21 3 1 1 2 25 0 15 5
|
| oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5) |
|
|
|
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m5; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; wwCTTAAAATAyr
; cor=; Ncor=
a 8 13 4 3 6 27 26 29 28 2 29 3 10
c 1 4 22 0 1 0 2 0 0 2 0 10 6
g 6 5 2 6 2 0 1 0 0 1 1 2 9
t 15 8 2 21 21 3 1 1 2 25 0 15 5
|
| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m5 versus oligos_7nt_test_vs_ctrl_m1; m=2/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score=0.715855; wyCTTAAAAArt-
; cor=; Ncor=
a 20 11 6 4 2 49 54 53 53 49 22 13 0
c 8 15 40 0 3 0 0 3 1 1 8 12 0
g 10 12 2 1 5 1 2 0 1 2 14 13 0
t 18 18 8 51 46 6 0 0 1 4 12 18 0
|
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) |
 |
|
|
; oligos_6nt_test_vs_ctrl_m1; m=0 (reference); ncol1=14; shift=0; ncol=14; kdtargTAAGGAwa
; Alignment reference
a 7 13 7 21 22 8 0 34 38 1 2 38 14 17
c 6 2 7 8 2 2 1 4 0 0 4 1 8 9
g 10 13 9 6 10 24 1 2 1 37 33 0 8 7
t 17 12 17 5 6 6 38 0 1 2 1 1 10 7
|
| oligos_6nt_test_vs_ctrl_m1_shift0 (oligos_6nt_test_vs_ctrl_m1) |
|
|
|
; oligos_6nt_test_vs_ctrl_m1 versus oligos_6nt_test_vs_ctrl_m1; m=1/1; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; kdtargTAAGGAwa
; cor=; Ncor=
a 7 13 7 21 22 8 0 34 38 1 2 38 14 17
c 6 2 7 8 2 2 1 4 0 0 4 1 8 9
g 10 13 9 6 10 24 1 2 1 37 33 0 8 7
t 17 12 17 5 6 6 38 0 1 2 1 1 10 7
|
One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m4_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m4_shift1 (oligos_7nt_test_vs_ctrl_m4) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -wmACCAGGAsm
; Alignment reference
a 0 18 14 48 2 4 46 0 5 50 13 19
c 0 8 17 0 51 47 3 1 2 1 15 19
g 0 7 10 2 0 0 4 52 43 2 16 11
t 0 21 13 4 1 3 1 1 4 1 10 5
|
| oligos_7nt_test_vs_ctrl_m4_shift1 (oligos_7nt_test_vs_ctrl_m4) |
|
|
|
; oligos_7nt_test_vs_ctrl_m4 versus oligos_7nt_test_vs_ctrl_m4; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -wmACCAGGAsm
; cor=; Ncor=
a 0 18 14 48 2 4 46 0 5 50 13 19
c 0 8 17 0 51 47 3 1 2 1 15 19
g 0 7 10 2 0 0 4 52 43 2 16 11
t 0 21 13 4 1 3 1 1 4 1 10 5
|
| oligos_6nt_test_vs_ctrl_m3_rc_shift0 (oligos_6nt_test_vs_ctrl_m3_rc) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m3_rc; m=2/2; ncol2=10; w=-1; offset=-1; strand=R; shift=0; score=0.62941; wwTACCAGga--
; cor=; Ncor=
a 11 10 0 29 0 0 22 0 5 15 0 0
c 6 6 0 0 30 27 4 1 7 5 0 0
g 4 5 2 0 0 1 4 27 11 4 0 0
t 9 9 28 1 0 2 0 2 7 6 0 0
|
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) |
 |
|
|
; oligos_6nt_test_vs_ctrl_m4; m=0 (reference); ncol1=14; shift=0; ncol=14; waAtAGCCTAgayk
; Alignment reference
a 10 13 20 3 25 3 0 1 1 26 5 18 6 7
c 5 4 1 3 0 0 28 25 3 0 3 2 9 3
g 4 5 2 6 2 24 1 1 1 1 19 5 6 8
t 10 7 6 17 2 2 0 2 24 2 2 4 8 11
|
| oligos_6nt_test_vs_ctrl_m4_shift0 (oligos_6nt_test_vs_ctrl_m4) |
|
|
|
; oligos_6nt_test_vs_ctrl_m4 versus oligos_6nt_test_vs_ctrl_m4; m=1/1; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; waAtAGCCTAgayk
; cor=; Ncor=
a 10 13 20 3 25 3 0 1 1 26 5 18 6 7
c 5 4 1 3 0 0 28 25 3 0 3 2 9 3
g 4 5 2 6 2 24 1 1 1 1 19 5 6 8
t 10 7 6 17 2 2 0 2 24 2 2 4 8 11
|
One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m5_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5) |
 |
|
|
; oligos_6nt_test_vs_ctrl_m5; m=0 (reference); ncol1=11; shift=0; ncol=11; AATCAACCCra
; Alignment reference
a 63 55 2 2 74 78 1 1 0 21 53
c 7 10 4 76 5 1 79 78 79 6 9
g 7 2 17 1 0 1 0 0 1 48 14
t 3 13 57 1 1 0 0 1 0 5 4
|
| oligos_6nt_test_vs_ctrl_m5_shift0 (oligos_6nt_test_vs_ctrl_m5) |
|
|
|
; oligos_6nt_test_vs_ctrl_m5 versus oligos_6nt_test_vs_ctrl_m5; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; AATCAACCCra
; cor=; Ncor=
a 63 55 2 2 74 78 1 1 0 21 53
c 7 10 4 76 5 1 79 78 79 6 9
g 7 2 17 1 0 1 0 0 1 48 14
t 3 13 57 1 1 0 0 1 0 5 4
|
One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m1_shift0 ; 3 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) |
|
|
|
; oligos_7nt_test_vs_ctrl_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; wyCTTAAAAArt
; Alignment reference
a 20 11 6 4 2 49 54 53 53 49 22 13
c 8 15 40 0 3 0 0 3 1 1 8 12
g 10 12 2 1 5 1 2 0 1 2 14 13
t 18 18 8 51 46 6 0 0 1 4 12 18
|
| oligos_7nt_test_vs_ctrl_m1_shift0 (oligos_7nt_test_vs_ctrl_m1) |
|
|
|
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m1; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; wyCTTAAAAArt
; cor=; Ncor=
a 20 11 6 4 2 49 54 53 53 49 22 13
c 8 15 40 0 3 0 0 3 1 1 8 12
g 10 12 2 1 5 1 2 0 1 2 14 13
t 18 18 8 51 46 6 0 0 1 4 12 18
|
| oligos_7nt_test_vs_ctrl_m5_shift0 (oligos_7nt_test_vs_ctrl_m5) |
|
|
|
; oligos_7nt_test_vs_ctrl_m1 versus oligos_7nt_test_vs_ctrl_m5; m=2/2; ncol2=13; w=0; offset=0; strand=D; shift=0; score=0.715855; wwCTTAAAATAy
; cor=; Ncor=
a 8 13 4 3 6 27 26 29 28 2 29 3
c 1 4 22 0 1 0 2 0 0 2 0 10
g 6 5 2 6 2 0 1 0 0 1 1 2
t 15 8 2 21 21 3 1 1 2 25 0 15
|
One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m3_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m3; m=0 (reference); ncol1=13; shift=0; ncol=13; rraAGCAGCAtkt
; Alignment reference
a 11 7 13 18 0 0 22 2 0 20 4 5 4
c 2 4 2 1 0 23 0 1 22 1 4 2 5
g 7 8 4 3 23 0 0 18 1 2 2 6 5
t 3 4 4 1 0 0 1 2 0 0 13 10 9
|
| oligos_7nt_test_vs_ctrl_m3_shift0 (oligos_7nt_test_vs_ctrl_m3) |
|
|
|
; oligos_7nt_test_vs_ctrl_m3 versus oligos_7nt_test_vs_ctrl_m3; m=1/1; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; rraAGCAGCAtkt
; cor=; Ncor=
a 11 7 13 18 0 0 22 2 0 20 4 5 4
c 2 4 2 1 0 23 0 1 22 1 4 2 5
g 7 8 4 3 23 0 0 18 1 2 2 6 5
t 3 4 4 1 0 0 1 2 0 0 13 10 9
|
One-to-n matrix alignment; reference matrix: oligos_6nt_test_vs_ctrl_m2_shift0 ; 2 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) |
 |
|
|
; oligos_6nt_test_vs_ctrl_m2; m=0 (reference); ncol1=18; shift=0; ncol=18; ymCTaATwAAAATwAkrw
; Alignment reference
a 2 5 2 0 6 8 1 3 9 8 11 9 0 3 9 2 4 3
c 4 4 8 0 2 1 2 0 0 2 0 0 1 0 1 0 2 1
g 1 0 1 0 2 2 0 1 1 1 0 0 0 2 0 6 3 2
t 4 2 0 11 1 0 8 7 1 0 0 2 10 6 1 3 2 5
|
| oligos_6nt_test_vs_ctrl_m2_shift0 (oligos_6nt_test_vs_ctrl_m2) |
|
|
|
; oligos_6nt_test_vs_ctrl_m2 versus oligos_6nt_test_vs_ctrl_m2; m=1/1; ncol2=18; w=0; offset=0; strand=D; shift=0; score= 1; ymCTaATwAAAATwAkrw
; cor=; Ncor=
a 2 5 2 0 6 8 1 3 9 8 11 9 0 3 9 2 4 3
c 4 4 8 0 2 1 2 0 0 2 0 0 1 0 1 0 2 1
g 1 0 1 0 2 2 0 1 1 1 0 0 0 2 0 6 3 2
t 4 2 0 11 1 0 8 7 1 0 0 2 10 6 1 3 2 5
|
One-to-n matrix alignment; reference matrix: oligos_7nt_test_vs_ctrl_m2_shift0 ; 2 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) |
 |
|
|
; oligos_7nt_test_vs_ctrl_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; hdGATTAAAThh
; Alignment reference
a 13 15 5 46 3 2 37 48 50 4 14 14
c 13 4 6 2 0 0 5 0 0 2 16 16
g 9 13 37 1 1 1 7 1 0 3 6 6
t 15 18 2 1 46 47 1 1 0 41 14 14
|
| oligos_7nt_test_vs_ctrl_m2_shift0 (oligos_7nt_test_vs_ctrl_m2) |
|
|
|
; oligos_7nt_test_vs_ctrl_m2 versus oligos_7nt_test_vs_ctrl_m2; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; hdGATTAAAThh
; cor=; Ncor=
a 13 15 5 46 3 2 37 48 50 4 14 14
c 13 4 6 2 0 0 5 0 0 2 16 16
g 9 13 37 1 1 1 7 1 0 3 6 6
t 15 18 2 1 46 47 1 1 0 41 14 14
|