One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/04/03/peak-motifs.2025-04-03.124409_2025-04-03.124409_qIcBHR/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/2025/04/03/peak-motifs.2025-04-03.124409_2025-04-03.124409_qIcBHR/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift0 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=17; shift=0; ncol=17; rawtGCTGASTCAkCam ; Alignment reference a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24

oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m4; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; rawtGCTGASTCAkCam ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24

oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m2; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.939229; raatGmTGACTmAGCrr ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16

oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m1; m=3/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.883645; raytGMTGAsTCAGCar ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26

oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)
; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m1_rc; m=4/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.877721; -aytGMTGAsTCAGCar ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 0 6 70 38 c 0 27 34 13 1 91 1 1 0 73 0 97 0 1 115 15 28 g 0 29 22 16 116 0 0 108 0 49 0 2 1 96 0 18 32 t 0 22 36 76 2 0 121 13 0 0 122 0 0 25 1 19 24

oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m5; m=5/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.87673; rrhtGmTGAsTCAGCar ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20

oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)
; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m3_rc; m=6/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.870433; -ahTGCTGACTmAkCaa ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 5 9 57 46 c 0 23 32 12 3 86 0 1 0 92 0 60 1 2 97 17 25 g 0 25 15 11 107 1 0 102 0 24 0 6 2 77 0 24 27 t 0 18 33 80 1 1 117 14 0 0 116 0 1 33 11 19 19

oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)
; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m4_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.870176; -ahtGmTGAsTCAGCar ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20

oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)
; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m3_rc; m=8/9; ncol2=14; w=0; offset=1; strand=R; shift=1; score=0.76686; -mytGCTkACTCAky-- ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 15 7 0 0 c 0 32 26 17 0 92 0 0 0 72 0 67 1 2 59 0 0 g 0 14 11 12 91 0 0 41 2 19 0 6 2 42 1 0 0 t 0 21 42 42 0 0 93 52 0 1 93 0 1 34 26 0 0

oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)
; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m5; m=9/9; ncol2=12; w=0; offset=1; strand=D; shift=1; score=0.63377; -myTGCTkACTmA---- ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 0 0 0 0 c 0 21 23 3 0 69 0 0 0 61 0 33 2 0 0 0 0 g 0 11 6 2 68 0 0 24 2 5 3 9 7 0 0 0 0 t 0 17 28 48 1 0 69 45 2 2 66 3 3 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m5_shift0 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=19; shift=0; ncol=19; rrhtGmTGAsTCAGCarks ; Alignment reference a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 23 21 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 28 42 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 40 32 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20 35 31

oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=1/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score= 1; rrhtGmTGAsTCAGCarks ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 23 21 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 28 42 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 40 32 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20 35 31

oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m1; m=2/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.988986; raytGMTGAsTCAGCarty ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 21 22 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 27 37 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 29 26 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26 44 36

oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)
; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m4_rc; m=3/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.893787; -ahtGmTGAsTCAGCark- ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 22 0 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 25 0 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 39 0 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20 36 0

oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)
; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m1_rc; m=4/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.88465; -aytGMTGAsTCAGCart- ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 0 6 70 38 22 0 c 0 27 34 13 1 91 1 1 0 73 0 97 0 1 115 15 28 28 0 g 0 29 22 16 116 0 0 108 0 49 0 2 1 96 0 18 32 29 0 t 0 22 36 76 2 0 121 13 0 0 122 0 0 25 1 19 24 43 0

oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m4; m=5/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.87673; rawtGCTGASTCAkCam-- ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 0 0 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 0 0 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 0 0 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24 0 0

oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m2; m=6/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.870544; raatGmTGACTmAGCrr-- ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 0 0 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 0 0 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 0 0 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16 0 0

oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)
; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m3_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.867818; -ahTGCTGACTmAkCaak- ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 5 9 57 46 26 0 c 0 23 32 12 3 86 0 1 0 92 0 60 1 2 97 17 25 16 0 g 0 25 15 11 107 1 0 102 0 24 0 6 2 77 0 24 27 35 0 t 0 18 33 80 1 1 117 14 0 0 116 0 1 33 11 19 19 40 0

oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m3; m=8/9; ncol2=14; w=0; offset=4; strand=D; shift=4; score=0.674028; ----rmTGAGTmAGCark- ; cor=; Ncor= a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 0 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 0 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 0 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26 0

oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)
; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=9/9; ncol2=12; w=0; offset=1; strand=D; shift=1; score=0.537811; -myTGCTkACTmA------ ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 0 0 0 0 0 0 c 0 21 23 3 0 69 0 0 0 61 0 33 2 0 0 0 0 0 0 g 0 11 6 2 68 0 0 24 2 5 3 9 7 0 0 0 0 0 0 t 0 17 28 48 1 0 69 45 2 2 66 3 3 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift4 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=14; shift=4; ncol=18; ----rmTGAGTmAGCark ; Alignment reference a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26

oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=1/9; ncol2=14; w=0; offset=0; strand=D; shift=4; score= 1; ----rmTGAGTmAGCark ; cor=; Ncor= a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26

oligos_6nt_mkv2_m5_rc_shift6 (oligos_6nt_mkv2_m5_rc)
; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m5_rc; m=2/9; ncol2=12; w=0; offset=2; strand=R; shift=6; score=0.836484; ------TkAGTmAGCArk ; cor=; Ncor= a 0 0 0 0 0 0 3 3 66 2 2 45 69 0 1 48 28 17 c 0 0 0 0 0 0 7 9 3 5 2 24 0 0 68 2 6 11 g 0 0 0 0 0 0 2 33 0 61 0 0 0 69 0 3 23 21 t 0 0 0 0 0 0 57 24 0 1 65 0 0 0 0 16 12 20

oligos_7nt_mkv2_m4_rc_shift2 (oligos_7nt_mkv2_m4_rc)
; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m4_rc; m=3/9; ncol2=17; w=-2; offset=-2; strand=R; shift=2; score=0.76686; --ktGmTGASTCAGCawt ; cor=; Ncor= a 0 0 24 20 6 55 1 0 128 0 0 14 128 0 3 78 39 27 c 0 0 32 30 1 76 3 8 3 42 0 119 0 0 126 23 18 32 g 0 0 37 26 118 1 0 103 0 91 0 0 5 104 3 17 33 27 t 0 0 40 57 8 1 129 22 2 0 133 0 0 29 1 15 43 47

oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)
; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=4/9; ncol2=17; w=-3; offset=-3; strand=D; shift=1; score=0.759424; -mttGmTkAGTCAGCAdt ; cor=; Ncor= a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51

oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)
; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m4_rc; m=5/9; ncol2=17; w=-3; offset=-3; strand=R; shift=1; score=0.755492; -ahtGmTGAsTCAGCark ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 22 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 25 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 39 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20 36

oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)
; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m1; m=6/9; ncol2=17; w=-3; offset=-3; strand=D; shift=1; score=0.754281; -aytGCTGAsTCAKCart ; cor=; Ncor= a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44

oligos_7nt_mkv2_m2_rc_shift2 (oligos_7nt_mkv2_m2_rc)
; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m2_rc; m=7/9; ncol2=17; w=-2; offset=-2; strand=R; shift=2; score=0.688912; --yyGCTkAGTCAkCatt ; cor=; Ncor= a 0 0 16 16 2 16 0 1 92 0 0 3 94 3 1 57 17 14 c 0 0 27 24 0 77 0 2 0 20 0 90 0 0 81 12 23 14 g 0 0 11 15 88 0 1 45 1 73 0 1 0 36 3 12 23 20 t 0 0 40 39 4 1 93 46 1 1 94 0 0 55 9 13 31 46

oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc)
; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m1_rc; m=8/9; ncol2=19; w=-4; offset=-4; strand=R; shift=0; score=0.674939; raytGCTGAsTCAKCart ; cor=; Ncor= a 36 44 26 21 3 23 0 0 121 0 0 11 120 0 2 73 36 20 c 26 29 32 18 0 96 1 1 0 46 0 109 0 0 114 17 21 29 g 37 27 27 16 112 1 0 98 0 75 0 1 1 90 1 13 34 28 t 22 21 36 66 6 1 120 22 0 0 121 0 0 31 4 18 30 44

oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m5; m=9/9; ncol2=19; w=-4; offset=-4; strand=D; shift=0; score=0.674028; rrhtGmTGAsTCAGCark ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 23 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 28 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 40 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20 35

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift0 ; 10 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=19; shift=0; ncol=19; raytGMTGAsTCAGCarty ; Alignment reference a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 21 22 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 27 37 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 29 26 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26 44 36

oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=1/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score= 1; raytGMTGAsTCAGCarty ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 21 22 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 27 37 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 29 26 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26 44 36

oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m5; m=2/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.988986; rrhtGmTGAsTCAGCarks ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 23 21 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 28 42 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 40 32 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20 35 31

oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)
; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m1_rc; m=3/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.894351; -aytGMTGAsTCAGCart- ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 0 6 70 38 22 0 c 0 27 34 13 1 91 1 1 0 73 0 97 0 1 115 15 28 28 0 g 0 29 22 16 116 0 0 108 0 49 0 2 1 96 0 18 32 29 0 t 0 22 36 76 2 0 121 13 0 0 122 0 0 25 1 19 24 43 0

oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)
; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m4_rc; m=4/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.885697; -ahtGmTGAsTCAGCark- ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 22 0 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 25 0 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 39 0 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20 36 0

oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m4; m=5/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.883645; rawtGCTGASTCAkCam-- ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 0 0 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 0 0 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 0 0 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24 0 0

oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)
; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m3_rc; m=6/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.873048; -ahTGCTGACTmAkCaak- ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 5 9 57 46 26 0 c 0 23 32 12 3 86 0 1 0 92 0 60 1 2 97 17 25 16 0 g 0 25 15 11 107 1 0 102 0 24 0 6 2 77 0 24 27 35 0 t 0 18 33 80 1 1 117 14 0 0 116 0 1 33 11 19 19 40 0

oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m2; m=7/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.851685; raatGmTGACTmAGCrr-- ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 0 0 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 0 0 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 0 0 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16 0 0

oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)
; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m3_rc; m=8/9; ncol2=14; w=0; offset=1; strand=R; shift=1; score=0.674939; -mytGCTkACTCAky---- ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 15 7 0 0 0 0 c 0 32 26 17 0 92 0 0 0 72 0 67 1 2 59 0 0 0 0 g 0 14 11 12 91 0 0 41 2 19 0 6 2 42 1 0 0 0 0 t 0 21 42 42 0 0 93 52 0 1 93 0 1 34 26 0 0 0 0

oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)
; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m5; m=9/9; ncol2=12; w=0; offset=1; strand=D; shift=1; score= 0.5608; -myTGCTkACTmA------ ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 0 0 0 0 0 0 c 0 21 23 3 0 69 0 0 0 61 0 33 2 0 0 0 0 0 0 g 0 11 6 2 68 0 0 24 2 5 3 9 7 0 0 0 0 0 0 t 0 17 28 48 1 0 69 45 2 2 66 3 3 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift0 ; 10 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=17; shift=0; ncol=17; raatGmTGACTmAGCrr ; Alignment reference a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16

oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m2; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; raatGmTGACTmAGCrr ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16

oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m4; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.939229; rawtGCTGASTCAkCam ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24

oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m5; m=3/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.870544; rrhtGmTGAsTCAGCar ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20

oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)
; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m4_rc; m=4/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.867897; -ahtGmTGAsTCAGCar ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20

oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)
; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m3_rc; m=5/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.861852; -ahTGCTGACTmAkCaa ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 5 9 57 46 c 0 23 32 12 3 86 0 1 0 92 0 60 1 2 97 17 25 g 0 25 15 11 107 1 0 102 0 24 0 6 2 77 0 24 27 t 0 18 33 80 1 1 117 14 0 0 116 0 1 33 11 19 19

oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m1; m=6/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.851685; raytGMTGAsTCAGCar ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26

oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)
; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m1_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.845012; -aytGMTGAsTCAGCar ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 0 6 70 38 c 0 27 34 13 1 91 1 1 0 73 0 97 0 1 115 15 28 g 0 29 22 16 116 0 0 108 0 49 0 2 1 96 0 18 32 t 0 22 36 76 2 0 121 13 0 0 122 0 0 25 1 19 24

oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)
; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m3_rc; m=8/9; ncol2=14; w=0; offset=1; strand=R; shift=1; score=0.688912; -mytGCTkACTCAky-- ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 15 7 0 0 c 0 32 26 17 0 92 0 0 0 72 0 67 1 2 59 0 0 g 0 14 11 12 91 0 0 41 2 19 0 6 2 42 1 0 0 t 0 21 42 42 0 0 93 52 0 1 93 0 1 34 26 0 0

oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)
; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m5; m=9/9; ncol2=12; w=0; offset=1; strand=D; shift=1; score=0.583947; -myTGCTkACTmA---- ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 0 0 0 0 c 0 21 23 3 0 69 0 0 0 61 0 33 2 0 0 0 0 g 0 11 6 2 68 0 0 24 2 5 3 9 7 0 0 0 0 t 0 17 28 48 1 0 69 45 2 2 66 3 3 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; mrkCACGTGmyk ; Alignment reference a 19 13 4 0 40 1 0 0 3 15 5 4 c 14 8 5 38 1 40 0 0 1 18 15 4 g 4 14 17 0 0 0 40 1 37 4 8 15 t 4 6 15 3 0 0 1 40 0 4 13 18

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; mrkCACGTGmyk ; cor=; Ncor= a 19 13 4 0 40 1 0 0 3 15 5 4 c 14 8 5 38 1 40 0 0 1 18 15 4 g 4 14 17 0 0 0 40 1 37 4 8 15 t 4 6 15 3 0 0 1 40 0 4 13 18

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m4_shift1 ; 10 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=17; shift=1; ncol=18; -mytGCTGAsTCAkCadt ; Alignment reference a 0 36 20 14 1 26 0 0 121 0 0 9 121 1 4 74 31 19 c 0 39 36 27 1 95 1 2 1 40 1 112 0 1 109 17 25 29 g 0 25 21 16 119 1 0 95 0 82 0 1 1 66 3 14 32 23 t 0 22 45 65 1 0 121 25 0 0 121 0 0 54 6 17 34 51

oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)
; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m4; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -mytGCTGAsTCAkCadt ; cor=; Ncor= a 0 36 20 14 1 26 0 0 121 0 0 9 121 1 4 74 31 19 c 0 39 36 27 1 95 1 2 1 40 1 112 0 1 109 17 25 29 g 0 25 21 16 119 1 0 95 0 82 0 1 1 66 3 14 32 23 t 0 22 45 65 1 0 121 25 0 0 121 0 0 54 6 17 34 51

oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)
; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m1; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.989718; -aytGCTGAsTCAKCart ; cor=; Ncor= a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44

oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)
; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m3; m=3/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.974438; -mttGmTkAGTCAGCAdt ; cor=; Ncor= a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51

oligos_7nt_mkv2_m5_rc_shift0 (oligos_7nt_mkv2_m5_rc)
; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m5_rc; m=4/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.893787; smytGCTGAsTCAkCady ; cor=; Ncor= a 31 35 20 15 1 26 0 0 125 0 0 8 125 0 4 70 32 20 c 32 40 34 30 1 98 2 1 1 43 1 117 0 2 113 20 25 32 g 42 28 25 21 123 2 1 102 0 83 0 1 1 68 4 16 34 24 t 21 23 47 60 1 0 123 23 0 0 125 0 0 56 5 20 35 50

oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc)
; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m1_rc; m=5/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.885697; raytGCTGAsTCAKCart ; cor=; Ncor= a 36 44 26 21 3 23 0 0 121 0 0 11 120 0 2 73 36 20 c 26 29 32 18 0 96 1 1 0 46 0 109 0 0 114 17 21 29 g 37 27 27 16 112 1 0 98 0 75 0 1 1 90 1 13 34 28 t 22 21 36 66 6 1 120 22 0 0 121 0 0 31 4 18 30 44

oligos_7nt_mkv2_m4_rc_shift2 (oligos_7nt_mkv2_m4_rc)
; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m4_rc; m=6/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.870176; --ktGmTGASTCAGCawt ; cor=; Ncor= a 0 0 24 20 6 55 1 0 128 0 0 14 128 0 3 78 39 27 c 0 0 32 30 1 76 3 8 3 42 0 119 0 0 126 23 18 32 g 0 0 37 26 118 1 0 103 0 91 0 0 5 104 3 17 33 27 t 0 0 40 57 8 1 129 22 2 0 133 0 0 29 1 15 43 47

oligos_7nt_mkv2_m2_rc_shift2 (oligos_7nt_mkv2_m2_rc)
; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m2_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.867897; --yyGCTkAGTCAkCatt ; cor=; Ncor= a 0 0 16 16 2 16 0 1 92 0 0 3 94 3 1 57 17 14 c 0 0 27 24 0 77 0 2 0 20 0 90 0 0 81 12 23 14 g 0 0 11 15 88 0 1 45 1 73 0 1 0 36 3 12 23 20 t 0 0 40 39 4 1 93 46 1 1 94 0 0 55 9 13 31 46

oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)
; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m3_rc; m=8/9; ncol2=14; w=0; offset=0; strand=R; shift=1; score=0.755492; -mytGCTkACTCAky--- ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 15 7 0 0 0 c 0 32 26 17 0 92 0 0 0 72 0 67 1 2 59 0 0 0 g 0 14 11 12 91 0 0 41 2 19 0 6 2 42 1 0 0 0 t 0 21 42 42 0 0 93 52 0 1 93 0 1 34 26 0 0 0

oligos_6nt_mkv2_m5_rc_shift6 (oligos_6nt_mkv2_m5_rc)
; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m5_rc; m=9/9; ncol2=12; w=0; offset=5; strand=R; shift=6; score=0.606002; ------TkAGTmAGCArk ; cor=; Ncor= a 0 0 0 0 0 0 3 3 66 2 2 45 69 0 1 48 28 17 c 0 0 0 0 0 0 7 9 3 5 2 24 0 0 68 2 6 11 g 0 0 0 0 0 0 2 33 0 61 0 0 0 69 0 3 23 21 t 0 0 0 0 0 0 57 24 0 1 65 0 0 0 0 16 12 20

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m5_shift1 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)
; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=12; shift=1; ncol=13; -myTGCTkACTmA ; Alignment reference a 0 20 12 16 0 0 0 0 65 1 0 24 57 c 0 21 23 3 0 69 0 0 0 61 0 33 2 g 0 11 6 2 68 0 0 24 2 5 3 9 7 t 0 17 28 48 1 0 69 45 2 2 66 3 3

oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)
; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=1/9; ncol2=12; w=0; offset=0; strand=D; shift=1; score= 1; -myTGCTkACTmA ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 c 0 21 23 3 0 69 0 0 0 61 0 33 2 g 0 11 6 2 68 0 0 24 2 5 3 9 7 t 0 17 28 48 1 0 69 45 2 2 66 3 3

oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)
; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m3_rc; m=2/9; ncol2=14; w=0; offset=0; strand=R; shift=1; score=0.836484; -mytGCTkACTCA ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 c 0 32 26 17 0 92 0 0 0 72 0 67 1 g 0 14 11 12 91 0 0 41 2 19 0 6 2 t 0 21 42 42 0 0 93 52 0 1 93 0 1

oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)
; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m3_rc; m=3/9; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.646961; -ahTGCTGACTmA ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 c 0 23 32 12 3 86 0 1 0 92 0 60 1 g 0 25 15 11 107 1 0 102 0 24 0 6 2 t 0 18 33 80 1 1 117 14 0 0 116 0 1

oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)
; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m4; m=4/9; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.63377; rawtGCTGASTCA ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 c 32 27 33 17 3 104 5 0 0 91 0 103 0 g 39 32 18 23 126 0 0 119 0 42 3 8 3 t 17 27 39 78 3 0 128 14 0 0 128 0 1

oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)
; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m1_rc; m=5/9; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.628515; -aytGMTGAsTCA ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 c 0 27 34 13 1 91 1 1 0 73 0 97 0 g 0 29 22 16 116 0 0 108 0 49 0 2 1 t 0 22 36 76 2 0 121 13 0 0 122 0 0

oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)
; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m4_rc; m=6/9; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.606002; -ahtGmTGAsTCA ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 c 0 23 32 14 3 66 1 1 0 82 0 95 0 g 0 29 25 17 109 1 0 112 1 40 1 2 1 t 0 19 31 74 4 1 121 9 0 0 121 0 0

oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)
; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m2; m=7/9; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.583947; raatGmTGACTmA ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 c 20 20 23 12 3 36 0 1 0 73 1 45 1 g 26 14 23 12 81 0 0 90 0 20 0 2 0 t 14 14 17 57 1 3 94 3 0 0 92 1 0

oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)
; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m1; m=8/9; ncol2=19; w=-1; offset=-1; strand=D; shift=0; score= 0.5608; raytGMTGAsTCA ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 c 26 28 34 13 1 90 1 1 0 75 0 98 0 g 36 29 21 17 114 0 0 109 0 46 0 1 1 t 19 20 36 73 2 0 120 11 0 0 121 0 0

oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)
; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=9/9; ncol2=19; w=-1; offset=-1; strand=D; shift=0; score=0.537811; rrhtGmTGAsTCA ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 c 29 24 34 16 4 68 1 1 0 83 0 102 1 g 38 32 25 20 113 2 0 117 1 43 1 1 2 t 18 20 32 70 4 0 125 8 0 0 125 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m3_shift1 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)
; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=17; shift=1; ncol=18; -mttGmTkAGTCAGCAdt ; Alignment reference a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51

oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)
; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -mttGmTkAGTCAGCAdt ; cor=; Ncor= a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51

oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)
; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m1; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.975634; -aytGCTGAsTCAKCart ; cor=; Ncor= a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44

oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)
; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m4; m=3/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.974438; -mytGCTGAsTCAkCadt ; cor=; Ncor= a 0 36 20 14 1 26 0 0 121 0 0 9 121 1 4 74 31 19 c 0 39 36 27 1 95 1 2 1 40 1 112 0 1 109 17 25 29 g 0 25 21 16 119 1 0 95 0 82 0 1 1 66 3 14 32 23 t 0 22 45 65 1 0 121 25 0 0 121 0 0 54 6 17 34 51

oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc)
; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m1_rc; m=4/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.873048; raytGCTGAsTCAKCart ; cor=; Ncor= a 36 44 26 21 3 23 0 0 121 0 0 11 120 0 2 73 36 20 c 26 29 32 18 0 96 1 1 0 46 0 109 0 0 114 17 21 29 g 37 27 27 16 112 1 0 98 0 75 0 1 1 90 1 13 34 28 t 22 21 36 66 6 1 120 22 0 0 121 0 0 31 4 18 30 44

oligos_7nt_mkv2_m4_rc_shift2 (oligos_7nt_mkv2_m4_rc)
; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m4_rc; m=5/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.870433; --ktGmTGASTCAGCawt ; cor=; Ncor= a 0 0 24 20 6 55 1 0 128 0 0 14 128 0 3 78 39 27 c 0 0 32 30 1 76 3 8 3 42 0 119 0 0 126 23 18 32 g 0 0 37 26 118 1 0 103 0 91 0 0 5 104 3 17 33 27 t 0 0 40 57 8 1 129 22 2 0 133 0 0 29 1 15 43 47

oligos_7nt_mkv2_m5_rc_shift0 (oligos_7nt_mkv2_m5_rc)
; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m5_rc; m=6/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.867818; smytGCTGAsTCAkCady ; cor=; Ncor= a 31 35 20 15 1 26 0 0 125 0 0 8 125 0 4 70 32 20 c 32 40 34 30 1 98 2 1 1 43 1 117 0 2 113 20 25 32 g 42 28 25 21 123 2 1 102 0 83 0 1 1 68 4 16 34 24 t 21 23 47 60 1 0 123 23 0 0 125 0 0 56 5 20 35 50

oligos_7nt_mkv2_m2_rc_shift2 (oligos_7nt_mkv2_m2_rc)
; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m2_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.861852; --yyGCTkAGTCAkCatt ; cor=; Ncor= a 0 0 16 16 2 16 0 1 92 0 0 3 94 3 1 57 17 14 c 0 0 27 24 0 77 0 2 0 20 0 90 0 0 81 12 23 14 g 0 0 11 15 88 0 1 45 1 73 0 1 0 36 3 12 23 20 t 0 0 40 39 4 1 93 46 1 1 94 0 0 55 9 13 31 46

oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)
; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=8/9; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.759424; ----rmTGAGTmAGCark ; cor=; Ncor= a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26

oligos_6nt_mkv2_m5_rc_shift6 (oligos_6nt_mkv2_m5_rc)
; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m5_rc; m=9/9; ncol2=12; w=0; offset=5; strand=R; shift=6; score=0.646961; ------TkAGTmAGCArk ; cor=; Ncor= a 0 0 0 0 0 0 3 3 66 2 2 45 69 0 1 48 28 17 c 0 0 0 0 0 0 7 9 3 5 2 24 0 0 68 2 6 11 g 0 0 0 0 0 0 2 33 0 61 0 0 0 69 0 3 23 21 t 0 0 0 0 0 0 57 24 0 1 65 0 0 0 0 16 12 20

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv2_m1_shift1 ; 10 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)
; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=17; shift=1; ncol=18; -aytGCTGAsTCAKCart ; Alignment reference a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44

oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)
; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -aytGCTGAsTCAKCart ; cor=; Ncor= a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44

oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)
; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m4; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.989718; -mytGCTGAsTCAkCadt ; cor=; Ncor= a 0 36 20 14 1 26 0 0 121 0 0 9 121 1 4 74 31 19 c 0 39 36 27 1 95 1 2 1 40 1 112 0 1 109 17 25 29 g 0 25 21 16 119 1 0 95 0 82 0 1 1 66 3 14 32 23 t 0 22 45 65 1 0 121 25 0 0 121 0 0 54 6 17 34 51

oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)
; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m3; m=3/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.975634; -mttGmTkAGTCAGCAdt ; cor=; Ncor= a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51

oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc)
; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m1_rc; m=4/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.894351; raytGCTGAsTCAKCart ; cor=; Ncor= a 36 44 26 21 3 23 0 0 121 0 0 11 120 0 2 73 36 20 c 26 29 32 18 0 96 1 1 0 46 0 109 0 0 114 17 21 29 g 37 27 27 16 112 1 0 98 0 75 0 1 1 90 1 13 34 28 t 22 21 36 66 6 1 120 22 0 0 121 0 0 31 4 18 30 44

oligos_7nt_mkv2_m5_rc_shift0 (oligos_7nt_mkv2_m5_rc)
; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m5_rc; m=5/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.88465; smytGCTGAsTCAkCady ; cor=; Ncor= a 31 35 20 15 1 26 0 0 125 0 0 8 125 0 4 70 32 20 c 32 40 34 30 1 98 2 1 1 43 1 117 0 2 113 20 25 32 g 42 28 25 21 123 2 1 102 0 83 0 1 1 68 4 16 34 24 t 21 23 47 60 1 0 123 23 0 0 125 0 0 56 5 20 35 50

oligos_7nt_mkv2_m4_rc_shift2 (oligos_7nt_mkv2_m4_rc)
; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m4_rc; m=6/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.877721; --ktGmTGASTCAGCawt ; cor=; Ncor= a 0 0 24 20 6 55 1 0 128 0 0 14 128 0 3 78 39 27 c 0 0 32 30 1 76 3 8 3 42 0 119 0 0 126 23 18 32 g 0 0 37 26 118 1 0 103 0 91 0 0 5 104 3 17 33 27 t 0 0 40 57 8 1 129 22 2 0 133 0 0 29 1 15 43 47

oligos_7nt_mkv2_m2_rc_shift2 (oligos_7nt_mkv2_m2_rc)
; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m2_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.845012; --yyGCTkAGTCAkCatt ; cor=; Ncor= a 0 0 16 16 2 16 0 1 92 0 0 3 94 3 1 57 17 14 c 0 0 27 24 0 77 0 2 0 20 0 90 0 0 81 12 23 14 g 0 0 11 15 88 0 1 45 1 73 0 1 0 36 3 12 23 20 t 0 0 40 39 4 1 93 46 1 1 94 0 0 55 9 13 31 46

oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)
; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m3; m=8/9; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.754281; ----rmTGAGTmAGCark ; cor=; Ncor= a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26

oligos_6nt_mkv2_m5_rc_shift6 (oligos_6nt_mkv2_m5_rc)
; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m5_rc; m=9/9; ncol2=12; w=0; offset=5; strand=R; shift=6; score=0.628515; ------TkAGTmAGCArk ; cor=; Ncor= a 0 0 0 0 0 0 3 3 66 2 2 45 69 0 1 48 28 17 c 0 0 0 0 0 0 7 9 3 5 2 24 0 0 68 2 6 11 g 0 0 0 0 0 0 2 33 0 61 0 0 0 69 0 3 23 21 t 0 0 0 0 0 0 57 24 0 1 65 0 0 0 0 16 12 20

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)				; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=17; shift=0; ncol=17; rawtGCTGASTCAkCam ; Alignment reference a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)				; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m4; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; rawtGCTGASTCAkCam ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24
oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)				; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m2; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.939229; raatGmTGACTmAGCrr ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m1; m=3/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.883645; raytGMTGAsTCAGCar ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26
oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)				; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m1_rc; m=4/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.877721; -aytGMTGAsTCAGCar ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 0 6 70 38 c 0 27 34 13 1 91 1 1 0 73 0 97 0 1 115 15 28 g 0 29 22 16 116 0 0 108 0 49 0 2 1 96 0 18 32 t 0 22 36 76 2 0 121 13 0 0 122 0 0 25 1 19 24
oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m5; m=5/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.87673; rrhtGmTGAsTCAGCar ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20
oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)				; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m3_rc; m=6/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.870433; -ahTGCTGACTmAkCaa ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 5 9 57 46 c 0 23 32 12 3 86 0 1 0 92 0 60 1 2 97 17 25 g 0 25 15 11 107 1 0 102 0 24 0 6 2 77 0 24 27 t 0 18 33 80 1 1 117 14 0 0 116 0 1 33 11 19 19
oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)				; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m4_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.870176; -ahtGmTGAsTCAGCar ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20
oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)				; oligos_7nt_mkv2_m4 versus oligos_7nt_mkv2_m3_rc; m=8/9; ncol2=14; w=0; offset=1; strand=R; shift=1; score=0.76686; -mytGCTkACTCAky-- ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 15 7 0 0 c 0 32 26 17 0 92 0 0 0 72 0 67 1 2 59 0 0 g 0 14 11 12 91 0 0 41 2 19 0 6 2 42 1 0 0 t 0 21 42 42 0 0 93 52 0 1 93 0 1 34 26 0 0
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)				; oligos_7nt_mkv2_m4 versus oligos_6nt_mkv2_m5; m=9/9; ncol2=12; w=0; offset=1; strand=D; shift=1; score=0.63377; -myTGCTkACTmA---- ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 0 0 0 0 c 0 21 23 3 0 69 0 0 0 61 0 33 2 0 0 0 0 g 0 11 6 2 68 0 0 24 2 5 3 9 7 0 0 0 0 t 0 17 28 48 1 0 69 45 2 2 66 3 3 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=19; shift=0; ncol=19; rrhtGmTGAsTCAGCarks ; Alignment reference a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 23 21 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 28 42 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 40 32 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20 35 31
oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=1/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score= 1; rrhtGmTGAsTCAGCarks ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 23 21 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 28 42 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 40 32 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20 35 31
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m1; m=2/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.988986; raytGMTGAsTCAGCarty ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 21 22 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 27 37 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 29 26 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26 44 36
oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)				; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m4_rc; m=3/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.893787; -ahtGmTGAsTCAGCark- ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 22 0 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 25 0 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 39 0 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20 36 0
oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)				; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m1_rc; m=4/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.88465; -aytGMTGAsTCAGCart- ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 0 6 70 38 22 0 c 0 27 34 13 1 91 1 1 0 73 0 97 0 1 115 15 28 28 0 g 0 29 22 16 116 0 0 108 0 49 0 2 1 96 0 18 32 29 0 t 0 22 36 76 2 0 121 13 0 0 122 0 0 25 1 19 24 43 0
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)				; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m4; m=5/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.87673; rawtGCTGASTCAkCam-- ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 0 0 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 0 0 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 0 0 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24 0 0
oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)				; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m2; m=6/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.870544; raatGmTGACTmAGCrr-- ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 0 0 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 0 0 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 0 0 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16 0 0
oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)				; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m3_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.867818; -ahTGCTGACTmAkCaak- ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 5 9 57 46 26 0 c 0 23 32 12 3 86 0 1 0 92 0 60 1 2 97 17 25 16 0 g 0 25 15 11 107 1 0 102 0 24 0 6 2 77 0 24 27 35 0 t 0 18 33 80 1 1 117 14 0 0 116 0 1 33 11 19 19 40 0
oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m5 versus oligos_7nt_mkv2_m3; m=8/9; ncol2=14; w=0; offset=4; strand=D; shift=4; score=0.674028; ----rmTGAGTmAGCark- ; cor=; Ncor= a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 0 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 0 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 0 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26 0
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)				; oligos_7nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=9/9; ncol2=12; w=0; offset=1; strand=D; shift=1; score=0.537811; -myTGCTkACTmA------ ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 0 0 0 0 0 0 c 0 21 23 3 0 69 0 0 0 61 0 33 2 0 0 0 0 0 0 g 0 11 6 2 68 0 0 24 2 5 3 9 7 0 0 0 0 0 0 t 0 17 28 48 1 0 69 45 2 2 66 3 3 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=14; shift=4; ncol=18; ----rmTGAGTmAGCark ; Alignment reference a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26
oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=1/9; ncol2=14; w=0; offset=0; strand=D; shift=4; score= 1; ----rmTGAGTmAGCark ; cor=; Ncor= a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26
oligos_6nt_mkv2_m5_rc_shift6 (oligos_6nt_mkv2_m5_rc)				; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m5_rc; m=2/9; ncol2=12; w=0; offset=2; strand=R; shift=6; score=0.836484; ------TkAGTmAGCArk ; cor=; Ncor= a 0 0 0 0 0 0 3 3 66 2 2 45 69 0 1 48 28 17 c 0 0 0 0 0 0 7 9 3 5 2 24 0 0 68 2 6 11 g 0 0 0 0 0 0 2 33 0 61 0 0 0 69 0 3 23 21 t 0 0 0 0 0 0 57 24 0 1 65 0 0 0 0 16 12 20
oligos_7nt_mkv2_m4_rc_shift2 (oligos_7nt_mkv2_m4_rc)				; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m4_rc; m=3/9; ncol2=17; w=-2; offset=-2; strand=R; shift=2; score=0.76686; --ktGmTGASTCAGCawt ; cor=; Ncor= a 0 0 24 20 6 55 1 0 128 0 0 14 128 0 3 78 39 27 c 0 0 32 30 1 76 3 8 3 42 0 119 0 0 126 23 18 32 g 0 0 37 26 118 1 0 103 0 91 0 0 5 104 3 17 33 27 t 0 0 40 57 8 1 129 22 2 0 133 0 0 29 1 15 43 47
oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)				; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=4/9; ncol2=17; w=-3; offset=-3; strand=D; shift=1; score=0.759424; -mttGmTkAGTCAGCAdt ; cor=; Ncor= a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51
oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)				; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m4_rc; m=5/9; ncol2=17; w=-3; offset=-3; strand=R; shift=1; score=0.755492; -ahtGmTGAsTCAGCark ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 22 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 25 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 39 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20 36
oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)				; oligos_7nt_mkv2_m3 versus oligos_6nt_mkv2_m1; m=6/9; ncol2=17; w=-3; offset=-3; strand=D; shift=1; score=0.754281; -aytGCTGAsTCAKCart ; cor=; Ncor= a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44
oligos_7nt_mkv2_m2_rc_shift2 (oligos_7nt_mkv2_m2_rc)				; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m2_rc; m=7/9; ncol2=17; w=-2; offset=-2; strand=R; shift=2; score=0.688912; --yyGCTkAGTCAkCatt ; cor=; Ncor= a 0 0 16 16 2 16 0 1 92 0 0 3 94 3 1 57 17 14 c 0 0 27 24 0 77 0 2 0 20 0 90 0 0 81 12 23 14 g 0 0 11 15 88 0 1 45 1 73 0 1 0 36 3 12 23 20 t 0 0 40 39 4 1 93 46 1 1 94 0 0 55 9 13 31 46
oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc)				; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m1_rc; m=8/9; ncol2=19; w=-4; offset=-4; strand=R; shift=0; score=0.674939; raytGCTGAsTCAKCart ; cor=; Ncor= a 36 44 26 21 3 23 0 0 121 0 0 11 120 0 2 73 36 20 c 26 29 32 18 0 96 1 1 0 46 0 109 0 0 114 17 21 29 g 37 27 27 16 112 1 0 98 0 75 0 1 1 90 1 13 34 28 t 22 21 36 66 6 1 120 22 0 0 121 0 0 31 4 18 30 44
oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m3 versus oligos_7nt_mkv2_m5; m=9/9; ncol2=19; w=-4; offset=-4; strand=D; shift=0; score=0.674028; rrhtGmTGAsTCAGCark ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 23 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 28 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 40 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20 35

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=19; shift=0; ncol=19; raytGMTGAsTCAGCarty ; Alignment reference a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 21 22 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 27 37 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 29 26 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26 44 36
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m1; m=1/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score= 1; raytGMTGAsTCAGCarty ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 21 22 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 27 37 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 29 26 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26 44 36
oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m5; m=2/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.988986; rrhtGmTGAsTCAGCarks ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 23 21 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 28 42 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 40 32 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20 35 31
oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)				; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m1_rc; m=3/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.894351; -aytGMTGAsTCAGCart- ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 0 6 70 38 22 0 c 0 27 34 13 1 91 1 1 0 73 0 97 0 1 115 15 28 28 0 g 0 29 22 16 116 0 0 108 0 49 0 2 1 96 0 18 32 29 0 t 0 22 36 76 2 0 121 13 0 0 122 0 0 25 1 19 24 43 0
oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)				; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m4_rc; m=4/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.885697; -ahtGmTGAsTCAGCark- ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 22 0 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 25 0 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 39 0 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20 36 0
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)				; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m4; m=5/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.883645; rawtGCTGASTCAkCam-- ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 0 0 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 0 0 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 0 0 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24 0 0
oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)				; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m3_rc; m=6/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.873048; -ahTGCTGACTmAkCaak- ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 5 9 57 46 26 0 c 0 23 32 12 3 86 0 1 0 92 0 60 1 2 97 17 25 16 0 g 0 25 15 11 107 1 0 102 0 24 0 6 2 77 0 24 27 35 0 t 0 18 33 80 1 1 117 14 0 0 116 0 1 33 11 19 19 40 0
oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)				; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m2; m=7/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.851685; raatGmTGACTmAGCrr-- ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 0 0 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 0 0 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 0 0 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16 0 0
oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)				; oligos_7nt_mkv2_m1 versus oligos_7nt_mkv2_m3_rc; m=8/9; ncol2=14; w=0; offset=1; strand=R; shift=1; score=0.674939; -mytGCTkACTCAky---- ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 15 7 0 0 0 0 c 0 32 26 17 0 92 0 0 0 72 0 67 1 2 59 0 0 0 0 g 0 14 11 12 91 0 0 41 2 19 0 6 2 42 1 0 0 0 0 t 0 21 42 42 0 0 93 52 0 1 93 0 1 34 26 0 0 0 0
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)				; oligos_7nt_mkv2_m1 versus oligos_6nt_mkv2_m5; m=9/9; ncol2=12; w=0; offset=1; strand=D; shift=1; score= 0.5608; -myTGCTkACTmA------ ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 0 0 0 0 0 0 c 0 21 23 3 0 69 0 0 0 61 0 33 2 0 0 0 0 0 0 g 0 11 6 2 68 0 0 24 2 5 3 9 7 0 0 0 0 0 0 t 0 17 28 48 1 0 69 45 2 2 66 3 3 0 0 0 0 0 0

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=17; shift=0; ncol=17; raatGmTGACTmAGCrr ; Alignment reference a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16
oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)				; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m2; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score= 1; raatGmTGACTmAGCrr ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 1 4 39 40 c 20 20 23 12 3 36 0 1 0 73 1 45 1 0 88 15 11 g 26 14 23 12 81 0 0 90 0 20 0 2 0 77 0 24 27 t 14 14 17 57 1 3 94 3 0 0 92 1 0 16 2 16 16
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)				; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m4; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=0; score=0.939229; rawtGCTGASTCAkCam ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 1 8 57 40 c 32 27 33 17 3 104 5 0 0 91 0 103 0 1 118 26 37 g 39 32 18 23 126 0 0 119 0 42 3 8 3 76 1 30 32 t 17 27 39 78 3 0 128 14 0 0 128 0 1 55 6 20 24
oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m5; m=3/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.870544; rrhtGmTGAsTCAGCar ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 0 1 60 47 c 29 24 34 16 4 68 1 1 0 83 0 102 1 2 123 21 25 g 38 32 25 20 113 2 0 117 1 43 1 1 2 98 1 30 34 t 18 20 32 70 4 0 125 8 0 0 125 0 0 26 1 15 20
oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)				; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m4_rc; m=4/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.867897; -ahtGmTGAsTCAGCar ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 0 1 65 45 c 0 23 32 14 3 66 1 1 0 82 0 95 0 1 119 16 21 g 0 29 25 17 109 1 0 112 1 40 1 2 1 95 1 27 36 t 0 19 31 74 4 1 121 9 0 0 121 0 0 26 1 14 20
oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)				; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m3_rc; m=5/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.861852; -ahTGCTGACTmAkCaa ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 5 9 57 46 c 0 23 32 12 3 86 0 1 0 92 0 60 1 2 97 17 25 g 0 25 15 11 107 1 0 102 0 24 0 6 2 77 0 24 27 t 0 18 33 80 1 1 117 14 0 0 116 0 1 33 11 19 19
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m1; m=6/9; ncol2=19; w=0; offset=0; strand=D; shift=0; score=0.851685; raytGMTGAsTCAGCar ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 1 6 66 36 c 26 28 34 13 1 90 1 1 0 75 0 98 0 1 112 16 27 g 36 29 21 17 114 0 0 109 0 46 0 1 1 96 0 18 32 t 19 20 36 73 2 0 120 11 0 0 121 0 0 23 3 21 26
oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)				; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m1_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=1; score=0.845012; -aytGMTGAsTCAGCar ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 0 6 70 38 c 0 27 34 13 1 91 1 1 0 73 0 97 0 1 115 15 28 g 0 29 22 16 116 0 0 108 0 49 0 2 1 96 0 18 32 t 0 22 36 76 2 0 121 13 0 0 122 0 0 25 1 19 24
oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)				; oligos_7nt_mkv2_m2 versus oligos_7nt_mkv2_m3_rc; m=8/9; ncol2=14; w=0; offset=1; strand=R; shift=1; score=0.688912; -mytGCTkACTCAky-- ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 15 7 0 0 c 0 32 26 17 0 92 0 0 0 72 0 67 1 2 59 0 0 g 0 14 11 12 91 0 0 41 2 19 0 6 2 42 1 0 0 t 0 21 42 42 0 0 93 52 0 1 93 0 1 34 26 0 0
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)				; oligos_7nt_mkv2_m2 versus oligos_6nt_mkv2_m5; m=9/9; ncol2=12; w=0; offset=1; strand=D; shift=1; score=0.583947; -myTGCTkACTmA---- ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 0 0 0 0 c 0 21 23 3 0 69 0 0 0 61 0 33 2 0 0 0 0 g 0 11 6 2 68 0 0 24 2 5 3 9 7 0 0 0 0 t 0 17 28 48 1 0 69 45 2 2 66 3 3 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=17; shift=1; ncol=18; -mytGCTGAsTCAkCadt ; Alignment reference a 0 36 20 14 1 26 0 0 121 0 0 9 121 1 4 74 31 19 c 0 39 36 27 1 95 1 2 1 40 1 112 0 1 109 17 25 29 g 0 25 21 16 119 1 0 95 0 82 0 1 1 66 3 14 32 23 t 0 22 45 65 1 0 121 25 0 0 121 0 0 54 6 17 34 51
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)				; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m4; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -mytGCTGAsTCAkCadt ; cor=; Ncor= a 0 36 20 14 1 26 0 0 121 0 0 9 121 1 4 74 31 19 c 0 39 36 27 1 95 1 2 1 40 1 112 0 1 109 17 25 29 g 0 25 21 16 119 1 0 95 0 82 0 1 1 66 3 14 32 23 t 0 22 45 65 1 0 121 25 0 0 121 0 0 54 6 17 34 51
oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)				; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m1; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.989718; -aytGCTGAsTCAKCart ; cor=; Ncor= a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44
oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)				; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m3; m=3/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.974438; -mttGmTkAGTCAGCAdt ; cor=; Ncor= a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51
oligos_7nt_mkv2_m5_rc_shift0 (oligos_7nt_mkv2_m5_rc)				; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m5_rc; m=4/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.893787; smytGCTGAsTCAkCady ; cor=; Ncor= a 31 35 20 15 1 26 0 0 125 0 0 8 125 0 4 70 32 20 c 32 40 34 30 1 98 2 1 1 43 1 117 0 2 113 20 25 32 g 42 28 25 21 123 2 1 102 0 83 0 1 1 68 4 16 34 24 t 21 23 47 60 1 0 123 23 0 0 125 0 0 56 5 20 35 50
oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc)				; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m1_rc; m=5/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.885697; raytGCTGAsTCAKCart ; cor=; Ncor= a 36 44 26 21 3 23 0 0 121 0 0 11 120 0 2 73 36 20 c 26 29 32 18 0 96 1 1 0 46 0 109 0 0 114 17 21 29 g 37 27 27 16 112 1 0 98 0 75 0 1 1 90 1 13 34 28 t 22 21 36 66 6 1 120 22 0 0 121 0 0 31 4 18 30 44
oligos_7nt_mkv2_m4_rc_shift2 (oligos_7nt_mkv2_m4_rc)				; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m4_rc; m=6/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.870176; --ktGmTGASTCAGCawt ; cor=; Ncor= a 0 0 24 20 6 55 1 0 128 0 0 14 128 0 3 78 39 27 c 0 0 32 30 1 76 3 8 3 42 0 119 0 0 126 23 18 32 g 0 0 37 26 118 1 0 103 0 91 0 0 5 104 3 17 33 27 t 0 0 40 57 8 1 129 22 2 0 133 0 0 29 1 15 43 47
oligos_7nt_mkv2_m2_rc_shift2 (oligos_7nt_mkv2_m2_rc)				; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m2_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.867897; --yyGCTkAGTCAkCatt ; cor=; Ncor= a 0 0 16 16 2 16 0 1 92 0 0 3 94 3 1 57 17 14 c 0 0 27 24 0 77 0 2 0 20 0 90 0 0 81 12 23 14 g 0 0 11 15 88 0 1 45 1 73 0 1 0 36 3 12 23 20 t 0 0 40 39 4 1 93 46 1 1 94 0 0 55 9 13 31 46
oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)				; oligos_6nt_mkv2_m4 versus oligos_7nt_mkv2_m3_rc; m=8/9; ncol2=14; w=0; offset=0; strand=R; shift=1; score=0.755492; -mytGCTkACTCAky--- ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 15 7 0 0 0 c 0 32 26 17 0 92 0 0 0 72 0 67 1 2 59 0 0 0 g 0 14 11 12 91 0 0 41 2 19 0 6 2 42 1 0 0 0 t 0 21 42 42 0 0 93 52 0 1 93 0 1 34 26 0 0 0
oligos_6nt_mkv2_m5_rc_shift6 (oligos_6nt_mkv2_m5_rc)				; oligos_6nt_mkv2_m4 versus oligos_6nt_mkv2_m5_rc; m=9/9; ncol2=12; w=0; offset=5; strand=R; shift=6; score=0.606002; ------TkAGTmAGCArk ; cor=; Ncor= a 0 0 0 0 0 0 3 3 66 2 2 45 69 0 1 48 28 17 c 0 0 0 0 0 0 7 9 3 5 2 24 0 0 68 2 6 11 g 0 0 0 0 0 0 2 33 0 61 0 0 0 69 0 3 23 21 t 0 0 0 0 0 0 57 24 0 1 65 0 0 0 0 16 12 20

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)				; oligos_6nt_mkv2_m5; m=0 (reference); ncol1=12; shift=1; ncol=13; -myTGCTkACTmA ; Alignment reference a 0 20 12 16 0 0 0 0 65 1 0 24 57 c 0 21 23 3 0 69 0 0 0 61 0 33 2 g 0 11 6 2 68 0 0 24 2 5 3 9 7 t 0 17 28 48 1 0 69 45 2 2 66 3 3
oligos_6nt_mkv2_m5_shift1 (oligos_6nt_mkv2_m5)				; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m5; m=1/9; ncol2=12; w=0; offset=0; strand=D; shift=1; score= 1; -myTGCTkACTmA ; cor=; Ncor= a 0 20 12 16 0 0 0 0 65 1 0 24 57 c 0 21 23 3 0 69 0 0 0 61 0 33 2 g 0 11 6 2 68 0 0 24 2 5 3 9 7 t 0 17 28 48 1 0 69 45 2 2 66 3 3
oligos_7nt_mkv2_m3_rc_shift1 (oligos_7nt_mkv2_m3_rc)				; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m3_rc; m=2/9; ncol2=14; w=0; offset=0; strand=R; shift=1; score=0.836484; -mytGCTkACTCA ; cor=; Ncor= a 0 26 14 22 2 1 0 0 91 1 0 20 89 c 0 32 26 17 0 92 0 0 0 72 0 67 1 g 0 14 11 12 91 0 0 41 2 19 0 6 2 t 0 21 42 42 0 0 93 52 0 1 93 0 1
oligos_6nt_mkv2_m3_rc_shift1 (oligos_6nt_mkv2_m3_rc)				; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m3_rc; m=3/9; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.646961; -ahTGCTGACTmA ; cor=; Ncor= a 0 51 37 14 6 29 0 0 117 1 1 51 113 c 0 23 32 12 3 86 0 1 0 92 0 60 1 g 0 25 15 11 107 1 0 102 0 24 0 6 2 t 0 18 33 80 1 1 117 14 0 0 116 0 1
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)				; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m4; m=4/9; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.63377; rawtGCTGASTCA ; cor=; Ncor= a 45 47 43 15 1 29 0 0 133 0 2 22 129 c 32 27 33 17 3 104 5 0 0 91 0 103 0 g 39 32 18 23 126 0 0 119 0 42 3 8 3 t 17 27 39 78 3 0 128 14 0 0 128 0 1
oligos_6nt_mkv2_m1_rc_shift1 (oligos_6nt_mkv2_m1_rc)				; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m1_rc; m=5/9; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.628515; -aytGMTGAsTCA ; cor=; Ncor= a 0 44 30 17 3 31 0 0 122 0 0 23 121 c 0 27 34 13 1 91 1 1 0 73 0 97 0 g 0 29 22 16 116 0 0 108 0 49 0 2 1 t 0 22 36 76 2 0 121 13 0 0 122 0 0
oligos_6nt_mkv2_m4_rc_shift1 (oligos_6nt_mkv2_m4_rc)				; oligos_6nt_mkv2_m5 versus oligos_6nt_mkv2_m4_rc; m=6/9; ncol2=17; w=0; offset=0; strand=R; shift=1; score=0.606002; -ahtGmTGAsTCA ; cor=; Ncor= a 0 51 34 17 6 54 0 0 121 0 0 25 121 c 0 23 32 14 3 66 1 1 0 82 0 95 0 g 0 29 25 17 109 1 0 112 1 40 1 2 1 t 0 19 31 74 4 1 121 9 0 0 121 0 0
oligos_7nt_mkv2_m2_shift0 (oligos_7nt_mkv2_m2)				; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m2; m=7/9; ncol2=17; w=-1; offset=-1; strand=D; shift=0; score=0.583947; raatGmTGACTmA ; cor=; Ncor= a 34 46 31 13 9 55 0 0 94 1 1 46 93 c 20 20 23 12 3 36 0 1 0 73 1 45 1 g 26 14 23 12 81 0 0 90 0 20 0 2 0 t 14 14 17 57 1 3 94 3 0 0 92 1 0
oligos_7nt_mkv2_m1_shift0 (oligos_7nt_mkv2_m1)				; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m1; m=8/9; ncol2=19; w=-1; offset=-1; strand=D; shift=0; score= 0.5608; raytGMTGAsTCA ; cor=; Ncor= a 40 44 30 18 4 31 0 0 121 0 0 22 120 c 26 28 34 13 1 90 1 1 0 75 0 98 0 g 36 29 21 17 114 0 0 109 0 46 0 1 1 t 19 20 36 73 2 0 120 11 0 0 121 0 0
oligos_7nt_mkv2_m5_shift0 (oligos_7nt_mkv2_m5)				; oligos_6nt_mkv2_m5 versus oligos_7nt_mkv2_m5; m=9/9; ncol2=19; w=-1; offset=-1; strand=D; shift=0; score=0.537811; rrhtGmTGAsTCA ; cor=; Ncor= a 41 50 35 20 5 56 0 0 125 0 0 23 123 c 29 24 34 16 4 68 1 1 0 83 0 102 1 g 38 32 25 20 113 2 0 117 1 43 1 1 2 t 18 20 32 70 4 0 125 8 0 0 125 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)				; oligos_6nt_mkv2_m3; m=0 (reference); ncol1=17; shift=1; ncol=18; -mttGmTkAGTCAGCAdt ; Alignment reference a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51
oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)				; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m3; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -mttGmTkAGTCAGCAdt ; cor=; Ncor= a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51
oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)				; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m1; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.975634; -aytGCTGAsTCAKCart ; cor=; Ncor= a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)				; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m4; m=3/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.974438; -mytGCTGAsTCAkCadt ; cor=; Ncor= a 0 36 20 14 1 26 0 0 121 0 0 9 121 1 4 74 31 19 c 0 39 36 27 1 95 1 2 1 40 1 112 0 1 109 17 25 29 g 0 25 21 16 119 1 0 95 0 82 0 1 1 66 3 14 32 23 t 0 22 45 65 1 0 121 25 0 0 121 0 0 54 6 17 34 51
oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc)				; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m1_rc; m=4/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.873048; raytGCTGAsTCAKCart ; cor=; Ncor= a 36 44 26 21 3 23 0 0 121 0 0 11 120 0 2 73 36 20 c 26 29 32 18 0 96 1 1 0 46 0 109 0 0 114 17 21 29 g 37 27 27 16 112 1 0 98 0 75 0 1 1 90 1 13 34 28 t 22 21 36 66 6 1 120 22 0 0 121 0 0 31 4 18 30 44
oligos_7nt_mkv2_m4_rc_shift2 (oligos_7nt_mkv2_m4_rc)				; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m4_rc; m=5/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.870433; --ktGmTGASTCAGCawt ; cor=; Ncor= a 0 0 24 20 6 55 1 0 128 0 0 14 128 0 3 78 39 27 c 0 0 32 30 1 76 3 8 3 42 0 119 0 0 126 23 18 32 g 0 0 37 26 118 1 0 103 0 91 0 0 5 104 3 17 33 27 t 0 0 40 57 8 1 129 22 2 0 133 0 0 29 1 15 43 47
oligos_7nt_mkv2_m5_rc_shift0 (oligos_7nt_mkv2_m5_rc)				; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m5_rc; m=6/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.867818; smytGCTGAsTCAkCady ; cor=; Ncor= a 31 35 20 15 1 26 0 0 125 0 0 8 125 0 4 70 32 20 c 32 40 34 30 1 98 2 1 1 43 1 117 0 2 113 20 25 32 g 42 28 25 21 123 2 1 102 0 83 0 1 1 68 4 16 34 24 t 21 23 47 60 1 0 123 23 0 0 125 0 0 56 5 20 35 50
oligos_7nt_mkv2_m2_rc_shift2 (oligos_7nt_mkv2_m2_rc)				; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m2_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.861852; --yyGCTkAGTCAkCatt ; cor=; Ncor= a 0 0 16 16 2 16 0 1 92 0 0 3 94 3 1 57 17 14 c 0 0 27 24 0 77 0 2 0 20 0 90 0 0 81 12 23 14 g 0 0 11 15 88 0 1 45 1 73 0 1 0 36 3 12 23 20 t 0 0 40 39 4 1 93 46 1 1 94 0 0 55 9 13 31 46
oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)				; oligos_6nt_mkv2_m3 versus oligos_7nt_mkv2_m3; m=8/9; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.759424; ----rmTGAGTmAGCark ; cor=; Ncor= a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26
oligos_6nt_mkv2_m5_rc_shift6 (oligos_6nt_mkv2_m5_rc)				; oligos_6nt_mkv2_m3 versus oligos_6nt_mkv2_m5_rc; m=9/9; ncol2=12; w=0; offset=5; strand=R; shift=6; score=0.646961; ------TkAGTmAGCArk ; cor=; Ncor= a 0 0 0 0 0 0 3 3 66 2 2 45 69 0 1 48 28 17 c 0 0 0 0 0 0 7 9 3 5 2 24 0 0 68 2 6 11 g 0 0 0 0 0 0 2 33 0 61 0 0 0 69 0 3 23 21 t 0 0 0 0 0 0 57 24 0 1 65 0 0 0 0 16 12 20

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)				; oligos_6nt_mkv2_m1; m=0 (reference); ncol1=17; shift=1; ncol=18; -aytGCTGAsTCAKCart ; Alignment reference a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44
oligos_6nt_mkv2_m1_shift1 (oligos_6nt_mkv2_m1)				; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m1; m=1/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score= 1; -aytGCTGAsTCAKCart ; cor=; Ncor= a 0 43 24 19 1 25 0 0 122 0 0 13 121 0 2 76 36 22 c 0 29 32 18 0 96 1 2 0 49 0 108 0 0 116 16 22 29 g 0 28 28 15 115 1 0 97 0 73 0 1 1 91 1 13 34 27 t 0 22 38 70 6 0 121 23 0 0 122 0 0 31 3 17 30 44
oligos_6nt_mkv2_m4_shift1 (oligos_6nt_mkv2_m4)				; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m4; m=2/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.989718; -mytGCTGAsTCAkCadt ; cor=; Ncor= a 0 36 20 14 1 26 0 0 121 0 0 9 121 1 4 74 31 19 c 0 39 36 27 1 95 1 2 1 40 1 112 0 1 109 17 25 29 g 0 25 21 16 119 1 0 95 0 82 0 1 1 66 3 14 32 23 t 0 22 45 65 1 0 121 25 0 0 121 0 0 54 6 17 34 51
oligos_6nt_mkv2_m3_shift1 (oligos_6nt_mkv2_m3)				; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m3; m=3/9; ncol2=17; w=0; offset=0; strand=D; shift=1; score=0.975634; -mttGmTkAGTCAGCAdt ; cor=; Ncor= a 0 40 19 19 11 33 1 0 116 0 0 14 117 1 1 80 33 18 c 0 35 27 24 0 77 2 6 0 24 0 102 0 1 107 11 15 25 g 0 16 25 17 97 2 1 60 0 92 0 1 0 86 3 12 32 23 t 0 26 46 57 9 5 113 51 1 1 117 0 0 29 6 14 37 51
oligos_7nt_mkv2_m1_rc_shift0 (oligos_7nt_mkv2_m1_rc)				; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m1_rc; m=4/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.894351; raytGCTGAsTCAKCart ; cor=; Ncor= a 36 44 26 21 3 23 0 0 121 0 0 11 120 0 2 73 36 20 c 26 29 32 18 0 96 1 1 0 46 0 109 0 0 114 17 21 29 g 37 27 27 16 112 1 0 98 0 75 0 1 1 90 1 13 34 28 t 22 21 36 66 6 1 120 22 0 0 121 0 0 31 4 18 30 44
oligos_7nt_mkv2_m5_rc_shift0 (oligos_7nt_mkv2_m5_rc)				; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m5_rc; m=5/9; ncol2=19; w=-1; offset=-1; strand=R; shift=0; score=0.88465; smytGCTGAsTCAkCady ; cor=; Ncor= a 31 35 20 15 1 26 0 0 125 0 0 8 125 0 4 70 32 20 c 32 40 34 30 1 98 2 1 1 43 1 117 0 2 113 20 25 32 g 42 28 25 21 123 2 1 102 0 83 0 1 1 68 4 16 34 24 t 21 23 47 60 1 0 123 23 0 0 125 0 0 56 5 20 35 50
oligos_7nt_mkv2_m4_rc_shift2 (oligos_7nt_mkv2_m4_rc)				; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m4_rc; m=6/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.877721; --ktGmTGASTCAGCawt ; cor=; Ncor= a 0 0 24 20 6 55 1 0 128 0 0 14 128 0 3 78 39 27 c 0 0 32 30 1 76 3 8 3 42 0 119 0 0 126 23 18 32 g 0 0 37 26 118 1 0 103 0 91 0 0 5 104 3 17 33 27 t 0 0 40 57 8 1 129 22 2 0 133 0 0 29 1 15 43 47
oligos_7nt_mkv2_m2_rc_shift2 (oligos_7nt_mkv2_m2_rc)				; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m2_rc; m=7/9; ncol2=17; w=0; offset=1; strand=R; shift=2; score=0.845012; --yyGCTkAGTCAkCatt ; cor=; Ncor= a 0 0 16 16 2 16 0 1 92 0 0 3 94 3 1 57 17 14 c 0 0 27 24 0 77 0 2 0 20 0 90 0 0 81 12 23 14 g 0 0 11 15 88 0 1 45 1 73 0 1 0 36 3 12 23 20 t 0 0 40 39 4 1 93 46 1 1 94 0 0 55 9 13 31 46
oligos_7nt_mkv2_m3_shift4 (oligos_7nt_mkv2_m3)				; oligos_6nt_mkv2_m1 versus oligos_7nt_mkv2_m3; m=8/9; ncol2=14; w=0; offset=3; strand=D; shift=4; score=0.754281; ----rmTGAGTmAGCark ; cor=; Ncor= a 0 0 0 0 26 34 1 0 93 1 0 52 93 0 0 42 42 21 c 0 0 0 0 1 42 2 6 0 19 2 41 0 0 91 12 11 14 g 0 0 0 0 59 2 1 67 0 72 0 0 0 92 0 17 26 32 t 0 0 0 0 7 15 89 20 0 1 91 0 0 1 2 22 14 26
oligos_6nt_mkv2_m5_rc_shift6 (oligos_6nt_mkv2_m5_rc)				; oligos_6nt_mkv2_m1 versus oligos_6nt_mkv2_m5_rc; m=9/9; ncol2=12; w=0; offset=5; strand=R; shift=6; score=0.628515; ------TkAGTmAGCArk ; cor=; Ncor= a 0 0 0 0 0 0 3 3 66 2 2 45 69 0 1 48 28 17 c 0 0 0 0 0 0 7 9 3 5 2 24 0 0 68 2 6 11 g 0 0 0 0 0 0 2 33 0 61 0 0 0 69 0 3 23 21 t 0 0 0 0 0 0 57 24 0 1 65 0 0 0 0 16 12 20