One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/03/20/peak-motifs.2025-03-20.143238_2025-03-20.143238_XEBOsR/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/2025/03/20/peak-motifs.2025-03-20.143238_2025-03-20.143238_XEBOsR/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
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; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=12; shift=0; ncol=12; ccCCCCCCCycm
; Alignment reference
a 18 16 2 1 1 2 3 0 1 10 13 21
c 36 38 70 75 75 71 72 78 74 37 37 32
g 8 10 4 3 2 1 3 3 3 11 17 14
t 19 17 5 2 3 7 3 0 3 23 14 14
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| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
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; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; ccCCCCCCCycm
; cor=; Ncor=
a 18 16 2 1 1 2 3 0 1 10 13 21
c 36 38 70 75 75 71 72 78 74 37 37 32
g 8 10 4 3 2 1 3 3 3 11 17 14
t 19 17 5 2 3 7 3 0 3 23 14 14
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| oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4) |
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; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m4; m=2/2; ncol2=10; w=0; offset=1; strand=D; shift=1; score=0.783026; -hhCCCCCCcy-
; cor=; Ncor=
a 0 52 53 9 5 16 10 7 7 44 41 0
c 0 59 68 182 184 170 171 189 184 73 70 0
g 0 32 27 7 7 4 9 5 6 38 31 0
t 0 63 58 8 10 16 16 5 9 51 64 0
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
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; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=13; shift=0; ncol=13; wwwATTATTAGww
; Alignment reference
a 56 47 48 151 3 3 160 6 4 149 14 57 75
c 29 24 39 6 7 7 6 3 7 3 9 29 16
g 27 32 28 4 3 0 2 3 5 7 121 27 24
t 60 69 57 11 159 162 4 160 156 13 28 59 57
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| oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4) |
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; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m4; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; wwwATTATTAGww
; cor=; Ncor=
a 56 47 48 151 3 3 160 6 4 149 14 57 75
c 29 24 39 6 7 7 6 3 7 3 9 29 16
g 27 32 28 4 3 0 2 3 5 7 121 27 24
t 60 69 57 11 159 162 4 160 156 13 28 59 57
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| oligos_6nt_mkv2_m2_rc_shift1 (oligos_6nt_mkv2_m2_rc) |
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; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m2_rc; m=2/2; ncol2=12; w=0; offset=1; strand=R; shift=1; score=0.833221; -wwATTATTATww
; cor=; Ncor=
a 0 79 68 189 14 14 227 17 14 230 20 87 102
c 0 22 36 8 5 0 7 7 3 6 10 31 21
g 0 29 26 17 11 2 3 6 2 1 18 32 28
t 0 113 113 29 213 227 6 213 224 6 195 93 92
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=13; shift=1; ncol=14; -mwtCCACGGAawm
; Alignment reference
a 0 42 36 29 7 5 125 6 10 1 118 65 41 36
c 0 37 33 27 123 131 5 119 8 0 7 20 25 53
g 0 33 20 21 3 0 6 4 108 134 8 29 31 18
t 0 25 48 60 4 1 1 8 11 2 4 23 40 30
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| oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=1; score= 1; -mwtCCACGGAawm
; cor=; Ncor=
a 0 42 36 29 7 5 125 6 10 1 118 65 41 36
c 0 37 33 27 123 131 5 119 8 0 7 20 25 53
g 0 33 20 21 3 0 6 4 108 134 8 29 31 18
t 0 25 48 60 4 1 1 8 11 2 4 23 40 30
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| oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1) |
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; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=2/2; ncol2=14; w=-1; offset=-1; strand=D; shift=0; score=0.872783; amtTCCACGGAAwm
; cor=; Ncor=
a 32 28 11 5 0 3 66 1 5 1 85 70 26 24
c 19 26 12 7 85 88 4 73 3 0 0 8 21 33
g 20 22 8 5 2 1 19 2 82 90 5 9 17 17
t 22 17 62 76 6 1 4 17 3 2 3 6 29 19
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
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; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; wwATAATAATww
; Alignment reference
a 92 93 195 6 224 213 6 227 213 29 113 113
c 28 32 18 1 2 6 3 2 11 17 26 29
g 21 31 10 6 3 7 7 0 5 8 36 22
t 102 87 20 230 14 17 227 14 14 189 68 79
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| oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2) |
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; oligos_6nt_mkv2_m2 versus oligos_6nt_mkv2_m2; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; wwATAATAATww
; cor=; Ncor=
a 92 93 195 6 224 213 6 227 213 29 113 113
c 28 32 18 1 2 6 3 2 11 17 26 29
g 21 31 10 6 3 7 7 0 5 8 36 22
t 102 87 20 230 14 17 227 14 14 189 68 79
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| oligos_7nt_mkv2_m4_rc_shift0 (oligos_7nt_mkv2_m4_rc) |
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; oligos_6nt_mkv2_m2 versus oligos_7nt_mkv2_m4_rc; m=2/2; ncol2=13; w=0; offset=0; strand=R; shift=0; score=0.833221; wwCTAATAATww
; cor=; Ncor=
a 57 59 28 13 156 160 4 162 159 11 57 69
c 24 27 121 7 5 3 2 0 3 4 28 32
g 16 29 9 3 7 3 6 7 7 6 39 24
t 75 57 14 149 4 6 160 3 3 151 48 47
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3) |
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; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=10; shift=1; ncol=11; -yyACCACCry
; Alignment reference
a 0 29 30 114 2 1 116 3 0 45 27
c 0 36 35 6 131 124 2 128 128 21 42
g 0 28 23 10 1 5 9 2 6 44 29
t 0 41 46 4 0 4 7 1 0 24 36
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| oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3) |
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; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=1; score= 1; -yyACCACCry
; cor=; Ncor=
a 0 29 30 114 2 1 116 3 0 45 27
c 0 36 35 6 131 124 2 128 128 21 42
g 0 28 23 10 1 5 9 2 6 44 29
t 0 41 46 4 0 4 7 1 0 24 36
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| oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5) |
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; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m5; m=2/2; ncol2=13; w=-1; offset=-1; strand=D; shift=0; score=0.687235; ahcACCACCAC
; cor=; Ncor=
a 73 48 24 132 9 4 134 3 10 132 11
c 29 45 96 6 139 143 6 143 136 3 123
g 27 26 13 14 7 6 12 8 6 14 18
t 33 43 29 10 7 9 10 8 10 13 10
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift0 ; 3 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=14; shift=0; ncol=14; amtTCCACGGAAwm
; Alignment reference
a 32 28 11 5 0 3 66 1 5 1 85 70 26 24
c 19 26 12 7 85 88 4 73 3 0 0 8 21 33
g 20 22 8 5 2 1 19 2 82 90 5 9 17 17
t 22 17 62 76 6 1 4 17 3 2 3 6 29 19
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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=1/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; amtTCCACGGAAwm
; cor=; Ncor=
a 32 28 11 5 0 3 66 1 5 1 85 70 26 24
c 19 26 12 7 85 88 4 73 3 0 0 8 21 33
g 20 22 8 5 2 1 19 2 82 90 5 9 17 17
t 22 17 62 76 6 1 4 17 3 2 3 6 29 19
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| oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1) |
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; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=2/2; ncol2=13; w=0; offset=1; strand=D; shift=1; score=0.872783; -mwtCCACGGAawm
; cor=; Ncor=
a 0 42 36 29 7 5 125 6 10 1 118 65 41 36
c 0 37 33 27 123 131 5 119 8 0 7 20 25 53
g 0 33 20 21 3 0 6 4 108 134 8 29 31 18
t 0 25 48 60 4 1 1 8 11 2 4 23 40 30
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m2_shift1 (oligos_7nt_mkv2_m2) |
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; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -twTCATCAAhw
; Alignment reference
a 0 30 32 7 0 96 4 2 91 117 37 37
c 0 27 17 2 120 2 2 118 2 2 35 24
g 0 21 29 1 0 13 0 0 16 0 13 24
t 0 43 43 111 1 10 115 1 12 2 36 36
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| oligos_7nt_mkv2_m2_shift1 (oligos_7nt_mkv2_m2) |
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; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m2; m=1/2; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -twTCATCAAhw
; cor=; Ncor=
a 0 30 32 7 0 96 4 2 91 117 37 37
c 0 27 17 2 120 2 2 118 2 2 35 24
g 0 21 29 1 0 13 0 0 16 0 13 24
t 0 43 43 111 1 10 115 1 12 2 36 36
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| oligos_6nt_mkv2_m5_shift0 (oligos_6nt_mkv2_m5) |
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; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m5; m=2/2; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.87526; wwGTCATCAAww
; cor=; Ncor=
a 46 38 15 4 2 105 2 3 100 100 32 38
c 17 20 3 3 102 2 5 102 6 3 28 19
g 16 22 78 1 3 1 0 3 5 6 18 23
t 34 33 17 105 6 5 106 5 2 4 35 33
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m4_shift1 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4) |
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; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=10; shift=1; ncol=11; -hhCCCCCCcy
; Alignment reference
a 0 52 53 9 5 16 10 7 7 44 41
c 0 59 68 182 184 170 171 189 184 73 70
g 0 32 27 7 7 4 9 5 6 38 31
t 0 63 58 8 10 16 16 5 9 51 64
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| oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4) |
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; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m4; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=1; score= 1; -hhCCCCCCcy
; cor=; Ncor=
a 0 52 53 9 5 16 10 7 7 44 41
c 0 59 68 182 184 170 171 189 184 73 70
g 0 32 27 7 7 4 9 5 6 38 31
t 0 63 58 8 10 16 16 5 9 51 64
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| oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3) |
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; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m3; m=2/2; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.783026; ccCCCCCCCyc
; cor=; Ncor=
a 18 16 2 1 1 2 3 0 1 10 13
c 36 38 70 75 75 71 72 78 74 37 37
g 8 10 4 3 2 1 3 3 3 11 17
t 19 17 5 2 3 7 3 0 3 23 14
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One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m5_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5) |
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; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=13; shift=0; ncol=13; ahcACCACCACcd
; Alignment reference
a 73 48 24 132 9 4 134 3 10 132 11 31 52
c 29 45 96 6 139 143 6 143 136 3 123 60 18
g 27 26 13 14 7 6 12 8 6 14 18 33 47
t 33 43 29 10 7 9 10 8 10 13 10 38 45
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| oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5) |
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; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=1/2; ncol2=13; w=0; offset=0; strand=D; shift=0; score= 1; ahcACCACCACcd
; cor=; Ncor=
a 73 48 24 132 9 4 134 3 10 132 11 31 52
c 29 45 96 6 139 143 6 143 136 3 123 60 18
g 27 26 13 14 7 6 12 8 6 14 18 33 47
t 33 43 29 10 7 9 10 8 10 13 10 38 45
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| oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3) |
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; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m3; m=2/2; ncol2=10; w=0; offset=1; strand=D; shift=1; score=0.687235; -yyACCACCry--
; cor=; Ncor=
a 0 29 30 114 2 1 116 3 0 45 27 0 0
c 0 36 35 6 131 124 2 128 128 21 42 0 0
g 0 28 23 10 1 5 9 2 6 44 29 0 0
t 0 41 46 4 0 4 7 1 0 24 36 0 0
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One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift0 ; 3 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv2_m5_shift0 (oligos_6nt_mkv2_m5) |
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; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=12; shift=0; ncol=12; wwGTCATCAAww
; Alignment reference
a 46 38 15 4 2 105 2 3 100 100 32 38
c 17 20 3 3 102 2 5 102 6 3 28 19
g 16 22 78 1 3 1 0 3 5 6 18 23
t 34 33 17 105 6 5 106 5 2 4 35 33
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| oligos_6nt_mkv2_m5_shift0 (oligos_6nt_mkv2_m5) |
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; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=1/2; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; wwGTCATCAAww
; cor=; Ncor=
a 46 38 15 4 2 105 2 3 100 100 32 38
c 17 20 3 3 102 2 5 102 6 3 28 19
g 16 22 78 1 3 1 0 3 5 6 18 23
t 34 33 17 105 6 5 106 5 2 4 35 33
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| oligos_7nt_mkv2_m2_shift1 (oligos_7nt_mkv2_m2) |
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; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m2; m=2/2; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.87526; -twTCATCAAhw
; cor=; Ncor=
a 0 30 32 7 0 96 4 2 91 117 37 37
c 0 27 17 2 120 2 2 118 2 2 35 24
g 0 21 29 1 0 13 0 0 16 0 13 24
t 0 43 43 111 1 10 115 1 12 2 36 36
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