One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.171454_2025-04-13.171454_sCyCBp/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/2025/04/13/peak-motifs.2025-04-13.171454_2025-04-13.171454_sCyCBp/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift3 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m5_shift3 (oligos_6nt_mkv2_m5)
; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=10; shift=3; ncol=13; ---cyCACCCCss ; Alignment reference a 0 0 0 18 11 0 90 0 0 0 0 16 20 c 0 0 0 36 35 90 0 90 90 90 90 27 29 g 0 0 0 19 20 0 0 0 0 0 0 36 23 t 0 0 0 17 24 0 0 0 0 0 0 11 18

oligos_6nt_mkv2_m5_shift3 (oligos_6nt_mkv2_m5)
; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=1/2; ncol2=10; w=0; offset=0; strand=D; shift=3; score= 1; ---cyCACCCCss ; cor=; Ncor= a 0 0 0 18 11 0 90 0 0 0 0 16 20 c 0 0 0 36 35 90 0 90 90 90 90 27 29 g 0 0 0 19 20 0 0 0 0 0 0 36 23 t 0 0 0 17 24 0 0 0 0 0 0 11 18

oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)
; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=2/2; ncol2=11; w=-3; offset=-3; strand=D; shift=0; score=0.444841; bcCGCCACCvs-- ; cor=; Ncor= a 15 17 3 2 1 1 92 0 5 24 22 0 0 c 29 34 81 8 85 86 0 92 83 24 30 0 0 g 25 21 5 80 5 0 0 0 0 26 26 0 0 t 23 20 3 2 1 5 0 0 4 18 14 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m5_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m5_shift1 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=11; shift=1; ncol=12; -bcCGCCACCvs ; Alignment reference a 0 15 17 3 2 1 1 92 0 5 24 22 c 0 29 34 81 8 85 86 0 92 83 24 30 g 0 25 21 5 80 5 0 0 0 0 26 26 t 0 23 20 3 2 1 5 0 0 4 18 14

oligos_7nt_mkv2_m5_shift1 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -bcCGCCACCvs ; cor=; Ncor= a 0 15 17 3 2 1 1 92 0 5 24 22 c 0 29 34 81 8 85 86 0 92 83 24 30 g 0 25 21 5 80 5 0 0 0 0 26 26 t 0 23 20 3 2 1 5 0 0 4 18 14

oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)
; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m4; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.78053; -scCGCCGCCss ; cor=; Ncor= a 0 16 15 5 0 0 0 0 0 0 20 18 c 0 31 40 93 0 105 105 0 105 105 32 39 g 0 45 25 3 105 0 0 105 0 0 40 28 t 0 13 25 4 0 0 0 0 0 0 13 20

oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m1; m=3/4; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.722929; ssCCGCCGCCss ; cor=; Ncor= a 31 34 14 5 19 0 5 14 0 6 41 27 c 77 59 139 178 5 192 178 3 192 186 56 74 g 55 83 23 3 171 5 6 178 5 3 67 62 t 34 21 21 11 2 0 8 2 0 2 33 34

oligos_6nt_mkv2_m5_shift4 (oligos_6nt_mkv2_m5)
; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=4/4; ncol2=10; w=0; offset=3; strand=D; shift=4; score=0.444841; ----cyCACCCC ; cor=; Ncor= a 0 0 0 0 18 11 0 90 0 0 0 0 c 0 0 0 0 36 35 90 0 90 90 90 90 g 0 0 0 0 19 20 0 0 0 0 0 0 t 0 0 0 0 17 24 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m2_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2)
; oligos_6nt_mkv2_m2; m=0 (reference); ncol1=12; shift=0; ncol=12; sggCAGCAGCms ; Alignment reference a 30 35 14 10 135 3 2 133 3 9 39 23 c 53 36 24 135 7 4 142 6 6 106 43 39 g 48 46 101 6 11 142 4 10 141 20 35 65 t 22 36 14 2 0 4 5 4 3 18 36 26

oligos_6nt_mkv2_m2_shift0 (oligos_6nt_mkv2_m2)
; oligos_6nt_mkv2_m2 versus oligos_6nt_mkv2_m2; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; sggCAGCAGCms ; cor=; Ncor= a 30 35 14 10 135 3 2 133 3 9 39 23 c 53 36 24 135 7 4 142 6 6 106 43 39 g 48 46 101 6 11 142 4 10 141 20 35 65 t 22 36 14 2 0 4 5 4 3 18 36 26

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCGAGATCsg ; Alignment reference a 15 29 8 7 114 1 103 2 4 27 25 c 34 38 99 7 2 11 5 2 107 35 28 g 50 37 8 101 0 98 8 5 3 33 46 t 18 13 2 2 1 7 1 108 3 22 18

oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCGAGATCsg ; cor=; Ncor= a 15 29 8 7 114 1 103 2 4 27 25 c 34 38 99 7 2 11 5 2 107 35 28 g 50 37 8 101 0 98 8 5 3 33 46 t 18 13 2 2 1 7 1 108 3 22 18

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m4_shift1 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)
; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -scCGCCGCCss ; Alignment reference a 0 16 15 5 0 0 0 0 0 0 20 18 c 0 31 40 93 0 105 105 0 105 105 32 39 g 0 45 25 3 105 0 0 105 0 0 40 28 t 0 13 25 4 0 0 0 0 0 0 13 20

oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)
; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m4; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -scCGCCGCCss ; cor=; Ncor= a 0 16 15 5 0 0 0 0 0 0 20 18 c 0 31 40 93 0 105 105 0 105 105 32 39 g 0 45 25 3 105 0 0 105 0 0 40 28 t 0 13 25 4 0 0 0 0 0 0 13 20

oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m1; m=2/3; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.898019; ssCCGCCGCCss ; cor=; Ncor= a 31 34 14 5 19 0 5 14 0 6 41 27 c 77 59 139 178 5 192 178 3 192 186 56 74 g 55 83 23 3 171 5 6 178 5 3 67 62 t 34 21 21 11 2 0 8 2 0 2 33 34

oligos_7nt_mkv2_m5_shift1 (oligos_7nt_mkv2_m5)
; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m5; m=3/3; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.78053; -bcCGCCACCvs ; cor=; Ncor= a 0 15 17 3 2 1 1 92 0 5 24 22 c 0 29 34 81 8 85 86 0 92 83 24 30 g 0 25 21 5 80 5 0 0 0 0 26 26 t 0 23 20 3 2 1 5 0 0 4 18 14

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1)
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=14; shift=0; ncol=14; ssrgGAATTCcyss ; Alignment reference a 38 43 91 14 3 201 205 4 4 5 31 20 15 38 c 85 75 53 31 9 7 6 4 7 202 142 55 87 59 g 58 86 55 143 203 7 4 6 7 9 32 52 74 84 t 38 15 20 31 4 4 4 205 201 3 14 92 43 38

oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1)
; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; ssrgGAATTCcyss ; cor=; Ncor= a 38 43 91 14 3 201 205 4 4 5 31 20 15 38 c 85 75 53 31 9 7 6 4 7 202 142 55 87 59 g 58 86 55 143 203 7 4 6 7 9 32 52 74 84 t 38 15 20 31 4 4 4 205 201 3 14 92 43 38

oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m2; m=2/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score=0.978101; ssaGGAATTCCtss ; cor=; Ncor= a 22 26 93 6 5 129 126 6 2 3 16 6 5 23 c 52 55 24 13 6 6 8 4 7 130 109 21 58 47 g 47 58 21 109 130 7 4 8 6 6 13 24 55 52 t 23 5 6 16 3 2 6 126 129 5 6 93 26 22

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=14; shift=0; ncol=14; ssaGGAATTCCtss ; Alignment reference a 22 26 93 6 5 129 126 6 2 3 16 6 5 23 c 52 55 24 13 6 6 8 4 7 130 109 21 58 47 g 47 58 21 109 130 7 4 8 6 6 13 24 55 52 t 23 5 6 16 3 2 6 126 129 5 6 93 26 22

oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m2; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score= 1; ssaGGAATTCCtss ; cor=; Ncor= a 22 26 93 6 5 129 126 6 2 3 16 6 5 23 c 52 55 24 13 6 6 8 4 7 130 109 21 58 47 g 47 58 21 109 130 7 4 8 6 6 13 24 55 52 t 23 5 6 16 3 2 6 126 129 5 6 93 26 22

oligos_6nt_mkv2_m1_shift0 (oligos_6nt_mkv2_m1)
; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m1; m=2/2; ncol2=14; w=0; offset=0; strand=D; shift=0; score=0.978101; ssrgGAATTCcyss ; cor=; Ncor= a 38 43 91 14 3 201 205 4 4 5 31 20 15 38 c 85 75 53 31 9 7 6 4 7 202 142 55 87 59 g 58 86 55 143 203 7 4 6 7 9 32 52 74 84 t 38 15 20 31 4 4 4 205 201 3 14 92 43 38

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3)
; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=15; shift=0; ncol=15; asGTCGTCGAGGAss ; Alignment reference a 34 9 5 6 2 0 7 2 1 72 5 2 65 16 15 c 18 34 8 6 81 6 12 81 4 7 6 8 11 33 30 g 20 31 71 11 3 77 7 4 82 3 70 76 7 28 34 t 16 14 4 65 2 5 62 1 1 6 7 2 5 11 9

oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3)
; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=1/2; ncol2=15; w=0; offset=0; strand=D; shift=0; score= 1; asGTCGTCGAGGAss ; cor=; Ncor= a 34 9 5 6 2 0 7 2 1 72 5 2 65 16 15 c 18 34 8 6 81 6 12 81 4 7 6 8 11 33 30 g 20 31 71 11 3 77 7 4 82 3 70 76 7 28 34 t 16 14 4 65 2 5 62 1 1 6 7 2 5 11 9

oligos_7nt_mkv2_m4_shift2 (oligos_7nt_mkv2_m4)
; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m4; m=2/2; ncol2=14; w=0; offset=2; strand=D; shift=2; score=0.73099; --sbCGTCGAGgAGs ; cor=; Ncor= a 0 0 17 21 2 11 1 1 3 116 4 8 93 9 14 c 0 0 37 34 102 10 7 108 13 0 8 29 13 18 45 g 0 0 47 34 12 90 8 6 102 3 98 79 6 87 44 t 0 0 18 30 3 8 103 4 1 0 9 3 7 5 16

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift2 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m4_shift2 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=14; shift=2; ncol=16; --sbCGTCGAGgAGsk ; Alignment reference a 0 0 17 21 2 11 1 1 3 116 4 8 93 9 14 25 c 0 0 37 34 102 10 7 108 13 0 8 29 13 18 45 26 g 0 0 47 34 12 90 8 6 102 3 98 79 6 87 44 32 t 0 0 18 30 3 8 103 4 1 0 9 3 7 5 16 36

oligos_7nt_mkv2_m4_shift2 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m4; m=1/2; ncol2=14; w=0; offset=0; strand=D; shift=2; score= 1; --sbCGTCGAGgAGsk ; cor=; Ncor= a 0 0 17 21 2 11 1 1 3 116 4 8 93 9 14 25 c 0 0 37 34 102 10 7 108 13 0 8 29 13 18 45 26 g 0 0 47 34 12 90 8 6 102 3 98 79 6 87 44 32 t 0 0 18 30 3 8 103 4 1 0 9 3 7 5 16 36

oligos_6nt_mkv2_m3_shift0 (oligos_6nt_mkv2_m3)
; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m3; m=2/2; ncol2=15; w=-2; offset=-2; strand=D; shift=0; score=0.73099; asGTCGTCGAGGAss- ; cor=; Ncor= a 34 9 5 6 2 0 7 2 1 72 5 2 65 16 15 0 c 18 34 8 6 81 6 12 81 4 7 6 8 11 33 30 0 g 20 31 71 11 3 77 7 4 82 3 70 76 7 28 34 0 t 16 14 4 65 2 5 62 1 1 6 7 2 5 11 9 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift0 ; 4 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; ssCCGCCGCCss ; Alignment reference a 31 34 14 5 19 0 5 14 0 6 41 27 c 77 59 139 178 5 192 178 3 192 186 56 74 g 55 83 23 3 171 5 6 178 5 3 67 62 t 34 21 21 11 2 0 8 2 0 2 33 34

oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=1/3; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; ssCCGCCGCCss ; cor=; Ncor= a 31 34 14 5 19 0 5 14 0 6 41 27 c 77 59 139 178 5 192 178 3 192 186 56 74 g 55 83 23 3 171 5 6 178 5 3 67 62 t 34 21 21 11 2 0 8 2 0 2 33 34

oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)
; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m4; m=2/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.898019; -scCGCCGCCss ; cor=; Ncor= a 0 16 15 5 0 0 0 0 0 0 20 18 c 0 31 40 93 0 105 105 0 105 105 32 39 g 0 45 25 3 105 0 0 105 0 0 40 28 t 0 13 25 4 0 0 0 0 0 0 13 20

oligos_7nt_mkv2_m5_shift1 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m5; m=3/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.722929; -bcCGCCACCvs ; cor=; Ncor= a 0 15 17 3 2 1 1 92 0 5 24 22 c 0 29 34 81 8 85 86 0 92 83 24 30 g 0 25 21 5 80 5 0 0 0 0 26 26 t 0 23 20 3 2 1 5 0 0 4 18 14

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m5_shift1 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=11; shift=1; ncol=12; -bcCGCCACCvs ; Alignment reference a 0 15 17 3 2 1 1 92 0 5 24 22 c 0 29 34 81 8 85 86 0 92 83 24 30 g 0 25 21 5 80 5 0 0 0 0 26 26 t 0 23 20 3 2 1 5 0 0 4 18 14
oligos_7nt_mkv2_m5_shift1 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=1/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -bcCGCCACCvs ; cor=; Ncor= a 0 15 17 3 2 1 1 92 0 5 24 22 c 0 29 34 81 8 85 86 0 92 83 24 30 g 0 25 21 5 80 5 0 0 0 0 26 26 t 0 23 20 3 2 1 5 0 0 4 18 14
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)				; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m4; m=2/4; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.78053; -scCGCCGCCss ; cor=; Ncor= a 0 16 15 5 0 0 0 0 0 0 20 18 c 0 31 40 93 0 105 105 0 105 105 32 39 g 0 45 25 3 105 0 0 105 0 0 40 28 t 0 13 25 4 0 0 0 0 0 0 13 20
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m1; m=3/4; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.722929; ssCCGCCGCCss ; cor=; Ncor= a 31 34 14 5 19 0 5 14 0 6 41 27 c 77 59 139 178 5 192 178 3 192 186 56 74 g 55 83 23 3 171 5 6 178 5 3 67 62 t 34 21 21 11 2 0 8 2 0 2 33 34
oligos_6nt_mkv2_m5_shift4 (oligos_6nt_mkv2_m5)				; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=4/4; ncol2=10; w=0; offset=3; strand=D; shift=4; score=0.444841; ----cyCACCCC ; cor=; Ncor= a 0 0 0 0 18 11 0 90 0 0 0 0 c 0 0 0 0 36 35 90 0 90 90 90 90 g 0 0 0 0 19 20 0 0 0 0 0 0 t 0 0 0 0 17 24 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)				; oligos_6nt_mkv2_m4; m=0 (reference); ncol1=11; shift=1; ncol=12; -scCGCCGCCss ; Alignment reference a 0 16 15 5 0 0 0 0 0 0 20 18 c 0 31 40 93 0 105 105 0 105 105 32 39 g 0 45 25 3 105 0 0 105 0 0 40 28 t 0 13 25 4 0 0 0 0 0 0 13 20
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)				; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m4; m=1/3; ncol2=11; w=0; offset=0; strand=D; shift=1; score= 1; -scCGCCGCCss ; cor=; Ncor= a 0 16 15 5 0 0 0 0 0 0 20 18 c 0 31 40 93 0 105 105 0 105 105 32 39 g 0 45 25 3 105 0 0 105 0 0 40 28 t 0 13 25 4 0 0 0 0 0 0 13 20
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m1; m=2/3; ncol2=12; w=-1; offset=-1; strand=D; shift=0; score=0.898019; ssCCGCCGCCss ; cor=; Ncor= a 31 34 14 5 19 0 5 14 0 6 41 27 c 77 59 139 178 5 192 178 3 192 186 56 74 g 55 83 23 3 171 5 6 178 5 3 67 62 t 34 21 21 11 2 0 8 2 0 2 33 34
oligos_7nt_mkv2_m5_shift1 (oligos_7nt_mkv2_m5)				; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m5; m=3/3; ncol2=11; w=0; offset=0; strand=D; shift=1; score=0.78053; -bcCGCCACCvs ; cor=; Ncor= a 0 15 17 3 2 1 1 92 0 5 24 22 c 0 29 34 81 8 85 86 0 92 83 24 30 g 0 25 21 5 80 5 0 0 0 0 26 26 t 0 23 20 3 2 1 5 0 0 4 18 14

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=12; shift=0; ncol=12; ssCCGCCGCCss ; Alignment reference a 31 34 14 5 19 0 5 14 0 6 41 27 c 77 59 139 178 5 192 178 3 192 186 56 74 g 55 83 23 3 171 5 6 178 5 3 67 62 t 34 21 21 11 2 0 8 2 0 2 33 34
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=1/3; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; ssCCGCCGCCss ; cor=; Ncor= a 31 34 14 5 19 0 5 14 0 6 41 27 c 77 59 139 178 5 192 178 3 192 186 56 74 g 55 83 23 3 171 5 6 178 5 3 67 62 t 34 21 21 11 2 0 8 2 0 2 33 34
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)				; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m4; m=2/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.898019; -scCGCCGCCss ; cor=; Ncor= a 0 16 15 5 0 0 0 0 0 0 20 18 c 0 31 40 93 0 105 105 0 105 105 32 39 g 0 45 25 3 105 0 0 105 0 0 40 28 t 0 13 25 4 0 0 0 0 0 0 13 20
oligos_7nt_mkv2_m5_shift1 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m5; m=3/3; ncol2=11; w=0; offset=1; strand=D; shift=1; score=0.722929; -bcCGCCACCvs ; cor=; Ncor= a 0 15 17 3 2 1 1 92 0 5 24 22 c 0 29 34 81 8 85 86 0 92 83 24 30 g 0 25 21 5 80 5 0 0 0 0 26 26 t 0 23 20 3 2 1 5 0 0 4 18 14