One-to-n alignments

Command: compare-matrices  -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/05/16/peak-motifs.2025-05-16.175517_2025-05-16.175517_w6aMRg/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/2025/05/16/peak-motifs.2025-05-16.175517_2025-05-16.175517_w6aMRg/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m2_shift2 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv1_m2_shift2 (oligos_7nt_mkv1_m2)
; oligos_7nt_mkv1_m2; m=0 (reference); ncol1=24; shift=2; ncol=26; --atCACATGACATCACCCATCACAT ; Alignment reference a 0 0 37 8 3 44 0 49 3 3 45 0 51 4 6 45 0 8 5 43 4 3 51 0 41 7 c 0 0 13 9 49 10 52 4 2 12 3 50 5 5 43 3 53 44 42 8 7 50 3 46 9 9 g 0 0 5 2 3 1 0 3 0 40 4 2 1 1 6 3 3 3 1 5 1 1 0 4 6 0 t 0 0 2 38 2 2 5 1 52 2 5 5 0 47 2 6 1 2 9 1 45 3 3 7 1 41

oligos_7nt_mkv1_m2_shift2 (oligos_7nt_mkv1_m2)
; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m2; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=2; score= 1; --atCACATGACATCACCCATCACAT ; cor=; Ncor= a 0 0 37 8 3 44 0 49 3 3 45 0 51 4 6 45 0 8 5 43 4 3 51 0 41 7 c 0 0 13 9 49 10 52 4 2 12 3 50 5 5 43 3 53 44 42 8 7 50 3 46 9 9 g 0 0 5 2 3 1 0 3 0 40 4 2 1 1 6 3 3 3 1 5 1 1 0 4 6 0 t 0 0 2 38 2 2 5 1 52 2 5 5 0 47 2 6 1 2 9 1 45 3 3 7 1 41

oligos_7nt_mkv1_m5_rc_shift1 (oligos_7nt_mkv1_m5_rc)
; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m5_rc; m=2/6; ncol2=24; w=-1; offset=-1; strand=R; shift=1; score=0.896435; -yRTCACATGACATCACCyRTCACA- ; cor=; Ncor= a 0 0 13 0 0 16 0 17 0 0 15 0 17 1 2 16 1 2 0 13 1 0 16 0 16 0 c 0 12 1 1 16 1 17 1 0 1 0 18 1 0 16 0 16 13 11 1 0 16 1 16 1 0 g 0 2 5 1 2 1 1 1 0 18 3 0 1 1 1 1 0 2 1 5 1 2 1 2 2 0 t 0 5 0 17 1 1 1 0 19 0 1 1 0 17 0 2 2 2 7 0 17 1 1 1 0 0

oligos_7nt_mkv1_m1_rc_shift0 (oligos_7nt_mkv1_m1_rc)
; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m1_rc; m=3/6; ncol2=24; w=-2; offset=-2; strand=R; shift=0; score=0.834222; CCATCACATGACATCACCCATCAC-- ; cor=; Ncor= a 2 0 23 0 0 28 0 29 0 0 26 1 29 1 1 27 0 2 0 28 1 0 29 0 0 0 c 26 23 3 2 27 0 30 0 0 0 0 28 1 0 28 0 28 24 26 1 0 27 1 27 0 0 g 1 2 4 0 1 1 0 1 0 30 3 0 0 1 1 2 1 1 1 1 0 1 0 1 0 0 t 1 5 0 28 2 1 0 0 30 0 1 1 0 28 0 1 1 3 3 0 29 2 0 2 0 0

oligos_7nt_mkv1_m3_shift2 (oligos_7nt_mkv1_m3)
; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m3; m=4/6; ncol2=22; w=0; offset=0; strand=D; shift=2; score=0.721207; --vwyAymwCmCATCACmyrwCAc-- ; cor=; Ncor= a 0 0 5 6 1 12 0 8 6 0 7 0 17 0 0 16 0 7 0 9 7 0 12 2 0 0 c 0 0 5 4 8 3 8 7 0 13 10 15 0 0 15 1 16 8 8 2 0 13 4 11 0 0 g 0 0 5 2 3 2 0 0 4 4 0 0 0 1 0 0 0 2 0 6 1 0 1 1 0 0 t 0 0 2 5 5 0 9 2 7 0 0 2 0 16 2 0 1 0 9 0 9 4 0 3 0 0

oligos_6nt_mkv1_m3_rc_shift11 (oligos_6nt_mkv1_m3_rc)
; oligos_7nt_mkv1_m2 versus oligos_6nt_mkv1_m3_rc; m=5/6; ncol2=17; w=0; offset=9; strand=R; shift=11; score=0.545735; -----------cAtCACyCATCACAT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 6 0 1 6 0 0 0 6 0 0 6 0 5 0 c 0 0 0 0 0 0 0 0 0 0 0 4 0 1 5 0 6 3 6 0 0 6 0 6 0 0 g 0 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 1 1 t 0 0 0 0 0 0 0 0 0 0 0 1 0 4 0 0 0 3 0 0 6 0 0 0 0 5

oligos_6nt_mkv1_m2_rc_shift1 (oligos_6nt_mkv1_m2_rc)
; oligos_7nt_mkv1_m2 versus oligos_6nt_mkv1_m2_rc; m=6/6; ncol2=13; w=-1; offset=-1; strand=R; shift=1; score=0.437111; -brTsAYATGaCak------------ ; cor=; Ncor= a 0 0 8 1 1 15 0 14 0 1 12 2 10 3 0 0 0 0 0 0 0 0 0 0 0 0 c 0 6 3 2 11 0 13 0 0 4 0 13 2 2 0 0 0 0 0 0 0 0 0 0 0 0 g 0 5 7 0 5 1 0 4 1 13 3 1 4 5 0 0 0 0 0 0 0 0 0 0 0 0 t 0 7 0 15 1 2 5 0 17 0 3 2 2 8 0 0 0 0 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m2_shift12 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m2_shift12 (oligos_6nt_mkv1_m2)
; oligos_6nt_mkv1_m2; m=0 (reference); ncol1=13; shift=12; ncol=25; ------------mtGtCATRTsAyv ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 c 0 0 0 0 0 0 0 0 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 g 0 0 0 0 0 0 0 0 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 t 0 0 0 0 0 0 0 0 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0

oligos_6nt_mkv1_m2_shift12 (oligos_6nt_mkv1_m2)
; oligos_6nt_mkv1_m2 versus oligos_6nt_mkv1_m2; m=1/5; ncol2=13; w=0; offset=0; strand=D; shift=12; score= 1; ------------mtGtCATRTsAyv ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 c 0 0 0 0 0 0 0 0 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 g 0 0 0 0 0 0 0 0 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 t 0 0 0 0 0 0 0 0 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0

oligos_7nt_mkv1_m5_shift1 (oligos_7nt_mkv1_m5)
; oligos_6nt_mkv1_m2 versus oligos_7nt_mkv1_m5; m=2/5; ncol2=24; w=-11; offset=-11; strand=D; shift=1; score=0.505362; -TGTGAYrGGTGATGTCATGTGAYr ; cor=; Ncor= a 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 1 0 19 0 1 1 1 17 0 5 c 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 3 18 0 1 1 1 2 1 5 2 g 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 0 1 0 1 17 1 16 1 1 12 t 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0 15 0 0 17 0 16 0 0 13 0

oligos_7nt_mkv1_m1_shift2 (oligos_7nt_mkv1_m1)
; oligos_6nt_mkv1_m2 versus oligos_7nt_mkv1_m1; m=3/5; ncol2=24; w=-10; offset=-10; strand=D; shift=2; score=0.495531; --GTGATGGGTGATGTCATGTGATG ; cor=; Ncor= a 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 1 0 30 0 0 1 2 28 0 5 c 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 3 30 0 1 0 1 1 0 4 2 g 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 0 0 0 0 30 0 27 2 3 23 t 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1 26 0 0 29 0 28 0 0 23 0

oligos_7nt_mkv1_m2_rc_shift0 (oligos_7nt_mkv1_m2_rc)
; oligos_6nt_mkv1_m2 versus oligos_7nt_mkv1_m2_rc; m=4/5; ncol2=24; w=-12; offset=-12; strand=R; shift=0; score=0.437111; ATGTGATGGGTGATGTCATGTGat- ; cor=; Ncor= a 41 1 7 3 3 45 1 9 2 1 6 2 47 0 5 5 2 52 1 5 2 2 38 2 0 c 0 6 4 0 1 1 5 1 3 3 3 6 1 1 2 4 40 0 3 0 1 3 2 5 0 g 9 9 46 3 50 7 8 42 44 53 3 43 5 5 50 3 12 2 4 52 10 49 9 13 0 t 7 41 0 51 3 4 43 5 8 0 45 6 4 51 0 45 3 3 49 0 44 3 8 37 0

oligos_6nt_mkv1_m3_shift15 (oligos_6nt_mkv1_m3)
; oligos_6nt_mkv1_m2 versus oligos_6nt_mkv1_m3; m=5/5; ncol2=17; w=0; offset=3; strand=D; shift=15; score=0.432341; ---------------TCATGTGATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 6 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 6 1 1 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 6 0 0 6 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 5 0 6 0 0 6 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m5_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m5_shift0 (oligos_6nt_mkv1_m5)
; oligos_6nt_mkv1_m5; m=0 (reference); ncol1=12; shift=0; ncol=12; RYSACmvvnYvh ; Alignment reference a 3 0 0 4 0 2 2 1 1 0 1 1 c 0 1 1 0 4 2 1 2 1 1 1 2 g 1 0 3 0 0 0 1 1 1 0 2 0 t 0 3 0 0 0 0 0 0 1 3 0 1

oligos_6nt_mkv1_m5_shift0 (oligos_6nt_mkv1_m5)
; oligos_6nt_mkv1_m5 versus oligos_6nt_mkv1_m5; m=1/1; ncol2=12; w=0; offset=0; strand=D; shift=0; score= 1; RYSACmvvnYvh ; cor=; Ncor= a 3 0 0 4 0 2 2 1 1 0 1 1 c 0 1 1 0 4 2 1 2 1 1 1 2 g 1 0 3 0 0 0 1 1 1 0 2 0 t 0 3 0 0 0 0 0 0 1 3 0 1

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m3_shift2 ; 6 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv1_m3_shift2 (oligos_7nt_mkv1_m3)
; oligos_7nt_mkv1_m3; m=0 (reference); ncol1=22; shift=2; ncol=24; --vwyAymwCmCATCACmyrwCAc ; Alignment reference a 0 0 5 6 1 12 0 8 6 0 7 0 17 0 0 16 0 7 0 9 7 0 12 2 c 0 0 5 4 8 3 8 7 0 13 10 15 0 0 15 1 16 8 8 2 0 13 4 11 g 0 0 5 2 3 2 0 0 4 4 0 0 0 1 0 0 0 2 0 6 1 0 1 1 t 0 0 2 5 5 0 9 2 7 0 0 2 0 16 2 0 1 0 9 0 9 4 0 3

oligos_7nt_mkv1_m3_shift2 (oligos_7nt_mkv1_m3)
; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m3; m=1/5; ncol2=22; w=0; offset=0; strand=D; shift=2; score= 1; --vwyAymwCmCATCACmyrwCAc ; cor=; Ncor= a 0 0 5 6 1 12 0 8 6 0 7 0 17 0 0 16 0 7 0 9 7 0 12 2 c 0 0 5 4 8 3 8 7 0 13 10 15 0 0 15 1 16 8 8 2 0 13 4 11 g 0 0 5 2 3 2 0 0 4 4 0 0 0 1 0 0 0 2 0 6 1 0 1 1 t 0 0 2 5 5 0 9 2 7 0 0 2 0 16 2 0 1 0 9 0 9 4 0 3

oligos_7nt_mkv1_m2_shift2 (oligos_7nt_mkv1_m2)
; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m2; m=2/5; ncol2=24; w=0; offset=0; strand=D; shift=2; score=0.721207; --atCACATGACATCACCCATCAC ; cor=; Ncor= a 0 0 37 8 3 44 0 49 3 3 45 0 51 4 6 45 0 8 5 43 4 3 51 0 c 0 0 13 9 49 10 52 4 2 12 3 50 5 5 43 3 53 44 42 8 7 50 3 46 g 0 0 5 2 3 1 0 3 0 40 4 2 1 1 6 3 3 3 1 5 1 1 0 4 t 0 0 2 38 2 2 5 1 52 2 5 5 0 47 2 6 1 2 9 1 45 3 3 7

oligos_7nt_mkv1_m5_rc_shift1 (oligos_7nt_mkv1_m5_rc)
; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m5_rc; m=3/5; ncol2=24; w=-1; offset=-1; strand=R; shift=1; score=0.694787; -yRTCACATGACATCACCyRTCAC ; cor=; Ncor= a 0 0 13 0 0 16 0 17 0 0 15 0 17 1 2 16 1 2 0 13 1 0 16 0 c 0 12 1 1 16 1 17 1 0 1 0 18 1 0 16 0 16 13 11 1 0 16 1 16 g 0 2 5 1 2 1 1 1 0 18 3 0 1 1 1 1 0 2 1 5 1 2 1 2 t 0 5 0 17 1 1 1 0 19 0 1 1 0 17 0 2 2 2 7 0 17 1 1 1

oligos_7nt_mkv1_m1_rc_shift0 (oligos_7nt_mkv1_m1_rc)
; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m1_rc; m=4/5; ncol2=24; w=-2; offset=-2; strand=R; shift=0; score=0.683059; CCATCACATGACATCACCCATCAC ; cor=; Ncor= a 2 0 23 0 0 28 0 29 0 0 26 1 29 1 1 27 0 2 0 28 1 0 29 0 c 26 23 3 2 27 0 30 0 0 0 0 28 1 0 28 0 28 24 26 1 0 27 1 27 g 1 2 4 0 1 1 0 1 0 30 3 0 0 1 1 2 1 1 1 1 0 1 0 1 t 1 5 0 28 2 1 0 0 30 0 1 1 0 28 0 1 1 3 3 0 29 2 0 2

oligos_6nt_mkv1_m3_rc_shift4 (oligos_6nt_mkv1_m3_rc)
; oligos_7nt_mkv1_m3 versus oligos_6nt_mkv1_m3_rc; m=5/5; ncol2=17; w=0; offset=2; strand=R; shift=4; score=0.611324; ----cAtCACyCATCACATGA--- ; cor=; Ncor= a 0 0 0 0 0 6 0 1 6 0 0 0 6 0 0 6 0 5 0 0 5 0 0 0 c 0 0 0 0 4 0 1 5 0 6 3 6 0 0 6 0 6 0 0 0 0 0 0 0 g 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 1 1 6 1 0 0 0 t 0 0 0 0 1 0 4 0 0 0 3 0 0 6 0 0 0 0 5 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m4_shift0 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m4_shift0 (oligos_6nt_mkv1_m4)
; oligos_6nt_mkv1_m4; m=0 (reference); ncol1=10; shift=0; ncol=10; mtsmCmwCmC ; Alignment reference a 18 6 2 14 0 18 8 2 13 1 c 8 3 12 9 27 10 3 22 10 25 g 1 6 13 6 1 0 2 2 1 1 t 2 14 2 0 1 1 16 3 5 2

oligos_6nt_mkv1_m4_shift0 (oligos_6nt_mkv1_m4)
; oligos_6nt_mkv1_m4 versus oligos_6nt_mkv1_m4; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; mtsmCmwCmC ; cor=; Ncor= a 18 6 2 14 0 18 8 2 13 1 c 8 3 12 9 27 10 3 22 10 25 g 1 6 13 6 1 0 2 2 1 1 t 2 14 2 0 1 1 16 3 5 2

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m4_shift0 ; 3 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv1_m4_shift0 (oligos_7nt_mkv1_m4)
; oligos_7nt_mkv1_m4; m=0 (reference); ncol1=24; shift=0; ncol=24; AyswmmyrkkwsATGwCAksmsss ; Alignment reference a 2 0 0 1 1 1 0 1 0 0 1 0 2 0 0 1 0 2 0 0 1 0 0 0 c 0 1 1 0 1 1 1 0 0 0 0 1 0 0 0 0 2 0 0 1 1 1 1 1 g 0 0 1 0 0 0 0 1 1 1 0 1 0 0 2 0 0 0 1 1 0 1 1 1 t 0 1 0 1 0 0 1 0 1 1 1 0 0 2 0 1 0 0 1 0 0 0 0 0

oligos_7nt_mkv1_m4_shift0 (oligos_7nt_mkv1_m4)
; oligos_7nt_mkv1_m4 versus oligos_7nt_mkv1_m4; m=1/2; ncol2=24; w=0; offset=0; strand=D; shift=0; score= 1; AyswmmyrkkwsATGwCAksmsss ; cor=; Ncor= a 2 0 0 1 1 1 0 1 0 0 1 0 2 0 0 1 0 2 0 0 1 0 0 0 c 0 1 1 0 1 1 1 0 0 0 0 1 0 0 0 0 2 0 0 1 1 1 1 1 g 0 0 1 0 0 0 0 1 1 1 0 1 0 0 2 0 0 0 1 1 0 1 1 1 t 0 1 0 1 0 0 1 0 1 1 1 0 0 2 0 1 0 0 1 0 0 0 0 0

oligos_7nt_mkv1_m5_rc_shift6 (oligos_7nt_mkv1_m5_rc)
; oligos_7nt_mkv1_m4 versus oligos_7nt_mkv1_m5_rc; m=2/2; ncol2=24; w=0; offset=6; strand=R; shift=6; score=0.423633; ------yRTCACATGACATCACCy ; cor=; Ncor= a 0 0 0 0 0 0 0 13 0 0 16 0 17 0 0 15 0 17 1 2 16 1 2 0 c 0 0 0 0 0 0 12 1 1 16 1 17 1 0 1 0 18 1 0 16 0 16 13 11 g 0 0 0 0 0 0 2 5 1 2 1 1 1 0 18 3 0 1 1 1 1 0 2 1 t 0 0 0 0 0 0 5 0 17 1 1 1 0 19 0 1 1 0 17 0 2 2 2 7

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m1_shift4 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv1_m1_shift4 (oligos_7nt_mkv1_m1)
; oligos_7nt_mkv1_m1; m=0 (reference); ncol1=24; shift=4; ncol=28; ----GTGATGGGTGATGTCATGTGATGG ; Alignment reference a 0 0 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 1 0 30 0 0 1 2 28 0 5 1 c 0 0 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 3 30 0 1 0 1 1 0 4 2 1 g 0 0 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 0 0 0 0 30 0 27 2 3 23 26 t 0 0 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1 26 0 0 29 0 28 0 0 23 0 2

oligos_7nt_mkv1_m1_shift4 (oligos_7nt_mkv1_m1)
; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m1; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=4; score= 1; ----GTGATGGGTGATGTCATGTGATGG ; cor=; Ncor= a 0 0 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 1 0 30 0 0 1 2 28 0 5 1 c 0 0 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 3 30 0 1 0 1 1 0 4 2 1 g 0 0 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 0 0 0 0 30 0 27 2 3 23 26 t 0 0 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1 26 0 0 29 0 28 0 0 23 0 2

oligos_7nt_mkv1_m5_shift3 (oligos_7nt_mkv1_m5)
; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m5; m=2/6; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.907436; ---TGTGAYrGGTGATGTCATGTGAYr- ; cor=; Ncor= a 0 0 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 1 0 19 0 1 1 1 17 0 5 0 c 0 0 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 3 18 0 1 1 1 2 1 5 2 0 g 0 0 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 0 1 0 1 17 1 16 1 1 12 0 t 0 0 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0 15 0 0 17 0 16 0 0 13 0 0

oligos_7nt_mkv1_m2_rc_shift2 (oligos_7nt_mkv1_m2_rc)
; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m2_rc; m=3/6; ncol2=24; w=-2; offset=-2; strand=R; shift=2; score=0.834222; --ATGTGATGGGTGATGTCATGTGat-- ; cor=; Ncor= a 0 0 41 1 7 3 3 45 1 9 2 1 6 2 47 0 5 5 2 52 1 5 2 2 38 2 0 0 c 0 0 0 6 4 0 1 1 5 1 3 3 3 6 1 1 2 4 40 0 3 0 1 3 2 5 0 0 g 0 0 9 9 46 3 50 7 8 42 44 53 3 43 5 5 50 3 12 2 4 52 10 49 9 13 0 0 t 0 0 7 41 0 51 3 4 43 5 8 0 45 6 4 51 0 45 3 3 49 0 44 3 8 37 0 0

oligos_7nt_mkv1_m3_rc_shift4 (oligos_7nt_mkv1_m3_rc)
; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m3_rc; m=4/6; ncol2=22; w=0; offset=0; strand=R; shift=4; score=0.683059; ----gTGwyrkGTGATGkGwkrTrwb-- ; cor=; Ncor= a 0 0 0 0 3 0 4 9 0 9 0 1 0 2 16 0 2 0 0 7 2 9 0 5 5 2 0 0 c 0 0 0 0 1 1 0 1 6 0 2 0 0 0 1 0 0 0 4 4 0 0 2 3 2 5 0 0 g 0 0 0 0 11 4 13 0 2 8 8 16 1 15 0 0 15 10 13 0 7 8 3 8 4 5 0 0 t 0 0 0 0 2 12 0 7 9 0 7 0 16 0 0 17 0 7 0 6 8 0 12 1 6 5 0 0

oligos_6nt_mkv1_m2_shift14 (oligos_6nt_mkv1_m2)
; oligos_7nt_mkv1_m1 versus oligos_6nt_mkv1_m2; m=5/6; ncol2=13; w=0; offset=10; strand=D; shift=14; score=0.495531; --------------mtGtCATRTsAyv- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0 0

oligos_6nt_mkv1_m3_shift0 (oligos_6nt_mkv1_m3)
; oligos_7nt_mkv1_m1 versus oligos_6nt_mkv1_m3; m=6/6; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=0.446182; TCATGTGATGrGTGaTg----------- ; cor=; Ncor= a 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 0 0 0 0 0 0 0 0 0 0 0 c 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 0 0 0 0 0 0 0 0 0 0 0 t 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0 0 0 0 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv1_m3_shift3 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv1_m3_shift3 (oligos_6nt_mkv1_m3)
; oligos_6nt_mkv1_m3; m=0 (reference); ncol1=17; shift=3; ncol=20; ---TCATGTGATGrGTGaTg ; Alignment reference a 0 0 0 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 c 0 0 0 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 g 0 0 0 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 t 0 0 0 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0

oligos_6nt_mkv1_m3_shift3 (oligos_6nt_mkv1_m3)
; oligos_6nt_mkv1_m3 versus oligos_6nt_mkv1_m3; m=1/6; ncol2=17; w=0; offset=0; strand=D; shift=3; score= 1; ---TCATGTGATGrGTGaTg ; cor=; Ncor= a 0 0 0 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 c 0 0 0 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 g 0 0 0 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 t 0 0 0 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0

oligos_7nt_mkv1_m3_rc_shift0 (oligos_7nt_mkv1_m3_rc)
; oligos_6nt_mkv1_m3 versus oligos_7nt_mkv1_m3_rc; m=2/6; ncol2=22; w=-3; offset=-3; strand=R; shift=0; score=0.611324; gTGwyrkGTGATGkGwkrTr ; cor=; Ncor= a 3 0 4 9 0 9 0 1 0 2 16 0 2 0 0 7 2 9 0 5 c 1 1 0 1 6 0 2 0 0 0 1 0 0 0 4 4 0 0 2 3 g 11 4 13 0 2 8 8 16 1 15 0 0 15 10 13 0 7 8 3 8 t 2 12 0 7 9 0 7 0 16 0 0 17 0 7 0 6 8 0 12 1

oligos_7nt_mkv1_m2_rc_shift5 (oligos_7nt_mkv1_m2_rc)
; oligos_6nt_mkv1_m3 versus oligos_7nt_mkv1_m2_rc; m=3/6; ncol2=24; w=0; offset=2; strand=R; shift=5; score=0.545735; -----ATGTGATGGGTGATG ; cor=; Ncor= a 0 0 0 0 0 41 1 7 3 3 45 1 9 2 1 6 2 47 0 5 c 0 0 0 0 0 0 6 4 0 1 1 5 1 3 3 3 6 1 1 2 g 0 0 0 0 0 9 9 46 3 50 7 8 42 44 53 3 43 5 5 50 t 0 0 0 0 0 7 41 0 51 3 4 43 5 8 0 45 6 4 51 0

oligos_7nt_mkv1_m5_shift6 (oligos_7nt_mkv1_m5)
; oligos_6nt_mkv1_m3 versus oligos_7nt_mkv1_m5; m=4/6; ncol2=24; w=0; offset=3; strand=D; shift=6; score=0.482998; ------TGTGAYrGGTGATG ; cor=; Ncor= a 0 0 0 0 0 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 c 0 0 0 0 0 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 g 0 0 0 0 0 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 t 0 0 0 0 0 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0

oligos_7nt_mkv1_m1_shift7 (oligos_7nt_mkv1_m1)
; oligos_6nt_mkv1_m3 versus oligos_7nt_mkv1_m1; m=5/6; ncol2=24; w=0; offset=4; strand=D; shift=7; score=0.446182; -------GTGATGGGTGATG ; cor=; Ncor= a 0 0 0 0 0 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 c 0 0 0 0 0 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 g 0 0 0 0 0 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 t 0 0 0 0 0 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1

oligos_6nt_mkv1_m2_shift0 (oligos_6nt_mkv1_m2)
; oligos_6nt_mkv1_m3 versus oligos_6nt_mkv1_m2; m=6/6; ncol2=13; w=-3; offset=-3; strand=D; shift=0; score=0.432341; mtGtCATRTsAyv------- ; cor=; Ncor= a 8 2 2 3 0 17 0 5 2 1 15 0 7 0 0 0 0 0 0 0 c 5 4 1 3 13 1 4 0 1 5 0 7 5 0 0 0 0 0 0 0 g 2 2 13 0 4 0 0 13 0 11 2 3 6 0 0 0 0 0 0 0 t 3 10 2 12 1 0 14 0 15 1 1 8 0 0 0 0 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv1_m5_shift3 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv1_m5_shift3 (oligos_7nt_mkv1_m5)
; oligos_7nt_mkv1_m5; m=0 (reference); ncol1=24; shift=3; ncol=27; ---TGTGAYrGGTGATGTCATGTGAYr ; Alignment reference a 0 0 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 1 0 19 0 1 1 1 17 0 5 c 0 0 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 3 18 0 1 1 1 2 1 5 2 g 0 0 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 0 1 0 1 17 1 16 1 1 12 t 0 0 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0 15 0 0 17 0 16 0 0 13 0

oligos_7nt_mkv1_m5_shift3 (oligos_7nt_mkv1_m5)
; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m5; m=1/7; ncol2=24; w=0; offset=0; strand=D; shift=3; score= 1; ---TGTGAYrGGTGATGTCATGTGAYr ; cor=; Ncor= a 0 0 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 1 0 19 0 1 1 1 17 0 5 c 0 0 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 3 18 0 1 1 1 2 1 5 2 g 0 0 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 0 1 0 1 17 1 16 1 1 12 t 0 0 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0 15 0 0 17 0 16 0 0 13 0

oligos_7nt_mkv1_m1_shift4 (oligos_7nt_mkv1_m1)
; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m1; m=2/7; ncol2=24; w=0; offset=1; strand=D; shift=4; score=0.907436; ----GTGATGGGTGATGTCATGTGATG ; cor=; Ncor= a 0 0 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 1 0 30 0 0 1 2 28 0 5 c 0 0 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 3 30 0 1 0 1 1 0 4 2 g 0 0 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 0 0 0 0 30 0 27 2 3 23 t 0 0 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1 26 0 0 29 0 28 0 0 23 0

oligos_7nt_mkv1_m2_rc_shift2 (oligos_7nt_mkv1_m2_rc)
; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m2_rc; m=3/7; ncol2=24; w=-1; offset=-1; strand=R; shift=2; score=0.896435; --ATGTGATGGGTGATGTCATGTGat- ; cor=; Ncor= a 0 0 41 1 7 3 3 45 1 9 2 1 6 2 47 0 5 5 2 52 1 5 2 2 38 2 0 c 0 0 0 6 4 0 1 1 5 1 3 3 3 6 1 1 2 4 40 0 3 0 1 3 2 5 0 g 0 0 9 9 46 3 50 7 8 42 44 53 3 43 5 5 50 3 12 2 4 52 10 49 9 13 0 t 0 0 7 41 0 51 3 4 43 5 8 0 45 6 4 51 0 45 3 3 49 0 44 3 8 37 0

oligos_7nt_mkv1_m3_rc_shift4 (oligos_7nt_mkv1_m3_rc)
; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m3_rc; m=4/7; ncol2=22; w=0; offset=1; strand=R; shift=4; score=0.694787; ----gTGwyrkGTGATGkGwkrTrwb- ; cor=; Ncor= a 0 0 0 0 3 0 4 9 0 9 0 1 0 2 16 0 2 0 0 7 2 9 0 5 5 2 0 c 0 0 0 0 1 1 0 1 6 0 2 0 0 0 1 0 0 0 4 4 0 0 2 3 2 5 0 g 0 0 0 0 11 4 13 0 2 8 8 16 1 15 0 0 15 10 13 0 7 8 3 8 4 5 0 t 0 0 0 0 2 12 0 7 9 0 7 0 16 0 0 17 0 7 0 6 8 0 12 1 6 5 0

oligos_6nt_mkv1_m2_shift14 (oligos_6nt_mkv1_m2)
; oligos_7nt_mkv1_m5 versus oligos_6nt_mkv1_m2; m=5/7; ncol2=13; w=0; offset=11; strand=D; shift=14; score=0.505362; --------------mtGtCATRTsAyv ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0

oligos_6nt_mkv1_m3_shift0 (oligos_6nt_mkv1_m3)
; oligos_7nt_mkv1_m5 versus oligos_6nt_mkv1_m3; m=6/7; ncol2=17; w=-3; offset=-3; strand=D; shift=0; score=0.482998; TCATGTGATGrGTGaTg---------- ; cor=; Ncor= a 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 0 0 0 0 0 0 0 0 0 0 c 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 0 0 0 0 0 0 0 0 0 0 t 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0 0 0 0 0 0 0 0 0 0 0

oligos_7nt_mkv1_m4_rc_shift9 (oligos_7nt_mkv1_m4_rc)
; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m4_rc; m=7/7; ncol2=24; w=0; offset=6; strand=R; shift=9; score=0.423633; ---------sssksmTGwCATswmmyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 1 0 2 0 0 1 1 1 0 1 c 0 0 0 0 0 0 0 0 0 1 1 1 0 1 1 0 0 0 2 0 0 1 0 1 1 1 0 g 0 0 0 0 0 0 0 0 0 1 1 1 1 1 0 0 2 0 0 0 0 1 0 0 0 0 1 t 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 2 0 1 0 0 2 0 1 0 0 1 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv1_m2_shift2 (oligos_7nt_mkv1_m2)				; oligos_7nt_mkv1_m2; m=0 (reference); ncol1=24; shift=2; ncol=26; --atCACATGACATCACCCATCACAT ; Alignment reference a 0 0 37 8 3 44 0 49 3 3 45 0 51 4 6 45 0 8 5 43 4 3 51 0 41 7 c 0 0 13 9 49 10 52 4 2 12 3 50 5 5 43 3 53 44 42 8 7 50 3 46 9 9 g 0 0 5 2 3 1 0 3 0 40 4 2 1 1 6 3 3 3 1 5 1 1 0 4 6 0 t 0 0 2 38 2 2 5 1 52 2 5 5 0 47 2 6 1 2 9 1 45 3 3 7 1 41
oligos_7nt_mkv1_m2_shift2 (oligos_7nt_mkv1_m2)				; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m2; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=2; score= 1; --atCACATGACATCACCCATCACAT ; cor=; Ncor= a 0 0 37 8 3 44 0 49 3 3 45 0 51 4 6 45 0 8 5 43 4 3 51 0 41 7 c 0 0 13 9 49 10 52 4 2 12 3 50 5 5 43 3 53 44 42 8 7 50 3 46 9 9 g 0 0 5 2 3 1 0 3 0 40 4 2 1 1 6 3 3 3 1 5 1 1 0 4 6 0 t 0 0 2 38 2 2 5 1 52 2 5 5 0 47 2 6 1 2 9 1 45 3 3 7 1 41
oligos_7nt_mkv1_m5_rc_shift1 (oligos_7nt_mkv1_m5_rc)				; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m5_rc; m=2/6; ncol2=24; w=-1; offset=-1; strand=R; shift=1; score=0.896435; -yRTCACATGACATCACCyRTCACA- ; cor=; Ncor= a 0 0 13 0 0 16 0 17 0 0 15 0 17 1 2 16 1 2 0 13 1 0 16 0 16 0 c 0 12 1 1 16 1 17 1 0 1 0 18 1 0 16 0 16 13 11 1 0 16 1 16 1 0 g 0 2 5 1 2 1 1 1 0 18 3 0 1 1 1 1 0 2 1 5 1 2 1 2 2 0 t 0 5 0 17 1 1 1 0 19 0 1 1 0 17 0 2 2 2 7 0 17 1 1 1 0 0
oligos_7nt_mkv1_m1_rc_shift0 (oligos_7nt_mkv1_m1_rc)				; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m1_rc; m=3/6; ncol2=24; w=-2; offset=-2; strand=R; shift=0; score=0.834222; CCATCACATGACATCACCCATCAC-- ; cor=; Ncor= a 2 0 23 0 0 28 0 29 0 0 26 1 29 1 1 27 0 2 0 28 1 0 29 0 0 0 c 26 23 3 2 27 0 30 0 0 0 0 28 1 0 28 0 28 24 26 1 0 27 1 27 0 0 g 1 2 4 0 1 1 0 1 0 30 3 0 0 1 1 2 1 1 1 1 0 1 0 1 0 0 t 1 5 0 28 2 1 0 0 30 0 1 1 0 28 0 1 1 3 3 0 29 2 0 2 0 0
oligos_7nt_mkv1_m3_shift2 (oligos_7nt_mkv1_m3)				; oligos_7nt_mkv1_m2 versus oligos_7nt_mkv1_m3; m=4/6; ncol2=22; w=0; offset=0; strand=D; shift=2; score=0.721207; --vwyAymwCmCATCACmyrwCAc-- ; cor=; Ncor= a 0 0 5 6 1 12 0 8 6 0 7 0 17 0 0 16 0 7 0 9 7 0 12 2 0 0 c 0 0 5 4 8 3 8 7 0 13 10 15 0 0 15 1 16 8 8 2 0 13 4 11 0 0 g 0 0 5 2 3 2 0 0 4 4 0 0 0 1 0 0 0 2 0 6 1 0 1 1 0 0 t 0 0 2 5 5 0 9 2 7 0 0 2 0 16 2 0 1 0 9 0 9 4 0 3 0 0
oligos_6nt_mkv1_m3_rc_shift11 (oligos_6nt_mkv1_m3_rc)				; oligos_7nt_mkv1_m2 versus oligos_6nt_mkv1_m3_rc; m=5/6; ncol2=17; w=0; offset=9; strand=R; shift=11; score=0.545735; -----------cAtCACyCATCACAT ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 6 0 1 6 0 0 0 6 0 0 6 0 5 0 c 0 0 0 0 0 0 0 0 0 0 0 4 0 1 5 0 6 3 6 0 0 6 0 6 0 0 g 0 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 1 1 t 0 0 0 0 0 0 0 0 0 0 0 1 0 4 0 0 0 3 0 0 6 0 0 0 0 5
oligos_6nt_mkv1_m2_rc_shift1 (oligos_6nt_mkv1_m2_rc)				; oligos_7nt_mkv1_m2 versus oligos_6nt_mkv1_m2_rc; m=6/6; ncol2=13; w=-1; offset=-1; strand=R; shift=1; score=0.437111; -brTsAYATGaCak------------ ; cor=; Ncor= a 0 0 8 1 1 15 0 14 0 1 12 2 10 3 0 0 0 0 0 0 0 0 0 0 0 0 c 0 6 3 2 11 0 13 0 0 4 0 13 2 2 0 0 0 0 0 0 0 0 0 0 0 0 g 0 5 7 0 5 1 0 4 1 13 3 1 4 5 0 0 0 0 0 0 0 0 0 0 0 0 t 0 7 0 15 1 2 5 0 17 0 3 2 2 8 0 0 0 0 0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv1_m2_shift12 (oligos_6nt_mkv1_m2)				; oligos_6nt_mkv1_m2; m=0 (reference); ncol1=13; shift=12; ncol=25; ------------mtGtCATRTsAyv ; Alignment reference a 0 0 0 0 0 0 0 0 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 c 0 0 0 0 0 0 0 0 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 g 0 0 0 0 0 0 0 0 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 t 0 0 0 0 0 0 0 0 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0
oligos_6nt_mkv1_m2_shift12 (oligos_6nt_mkv1_m2)				; oligos_6nt_mkv1_m2 versus oligos_6nt_mkv1_m2; m=1/5; ncol2=13; w=0; offset=0; strand=D; shift=12; score= 1; ------------mtGtCATRTsAyv ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 c 0 0 0 0 0 0 0 0 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 g 0 0 0 0 0 0 0 0 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 t 0 0 0 0 0 0 0 0 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0
oligos_7nt_mkv1_m5_shift1 (oligos_7nt_mkv1_m5)				; oligos_6nt_mkv1_m2 versus oligos_7nt_mkv1_m5; m=2/5; ncol2=24; w=-11; offset=-11; strand=D; shift=1; score=0.505362; -TGTGAYrGGTGATGTCATGTGAYr ; cor=; Ncor= a 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 1 0 19 0 1 1 1 17 0 5 c 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 3 18 0 1 1 1 2 1 5 2 g 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 0 1 0 1 17 1 16 1 1 12 t 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0 15 0 0 17 0 16 0 0 13 0
oligos_7nt_mkv1_m1_shift2 (oligos_7nt_mkv1_m1)				; oligos_6nt_mkv1_m2 versus oligos_7nt_mkv1_m1; m=3/5; ncol2=24; w=-10; offset=-10; strand=D; shift=2; score=0.495531; --GTGATGGGTGATGTCATGTGATG ; cor=; Ncor= a 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 1 0 30 0 0 1 2 28 0 5 c 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 3 30 0 1 0 1 1 0 4 2 g 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 0 0 0 0 30 0 27 2 3 23 t 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1 26 0 0 29 0 28 0 0 23 0
oligos_7nt_mkv1_m2_rc_shift0 (oligos_7nt_mkv1_m2_rc)				; oligos_6nt_mkv1_m2 versus oligos_7nt_mkv1_m2_rc; m=4/5; ncol2=24; w=-12; offset=-12; strand=R; shift=0; score=0.437111; ATGTGATGGGTGATGTCATGTGat- ; cor=; Ncor= a 41 1 7 3 3 45 1 9 2 1 6 2 47 0 5 5 2 52 1 5 2 2 38 2 0 c 0 6 4 0 1 1 5 1 3 3 3 6 1 1 2 4 40 0 3 0 1 3 2 5 0 g 9 9 46 3 50 7 8 42 44 53 3 43 5 5 50 3 12 2 4 52 10 49 9 13 0 t 7 41 0 51 3 4 43 5 8 0 45 6 4 51 0 45 3 3 49 0 44 3 8 37 0
oligos_6nt_mkv1_m3_shift15 (oligos_6nt_mkv1_m3)				; oligos_6nt_mkv1_m2 versus oligos_6nt_mkv1_m3; m=5/5; ncol2=17; w=0; offset=3; strand=D; shift=15; score=0.432341; ---------------TCATGTGATG ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 0 0 6 0 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 6 1 1 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 6 0 6 0 0 6 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 0 0 5 0 6 0 0 6 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv1_m3_shift2 (oligos_7nt_mkv1_m3)				; oligos_7nt_mkv1_m3; m=0 (reference); ncol1=22; shift=2; ncol=24; --vwyAymwCmCATCACmyrwCAc ; Alignment reference a 0 0 5 6 1 12 0 8 6 0 7 0 17 0 0 16 0 7 0 9 7 0 12 2 c 0 0 5 4 8 3 8 7 0 13 10 15 0 0 15 1 16 8 8 2 0 13 4 11 g 0 0 5 2 3 2 0 0 4 4 0 0 0 1 0 0 0 2 0 6 1 0 1 1 t 0 0 2 5 5 0 9 2 7 0 0 2 0 16 2 0 1 0 9 0 9 4 0 3
oligos_7nt_mkv1_m3_shift2 (oligos_7nt_mkv1_m3)				; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m3; m=1/5; ncol2=22; w=0; offset=0; strand=D; shift=2; score= 1; --vwyAymwCmCATCACmyrwCAc ; cor=; Ncor= a 0 0 5 6 1 12 0 8 6 0 7 0 17 0 0 16 0 7 0 9 7 0 12 2 c 0 0 5 4 8 3 8 7 0 13 10 15 0 0 15 1 16 8 8 2 0 13 4 11 g 0 0 5 2 3 2 0 0 4 4 0 0 0 1 0 0 0 2 0 6 1 0 1 1 t 0 0 2 5 5 0 9 2 7 0 0 2 0 16 2 0 1 0 9 0 9 4 0 3
oligos_7nt_mkv1_m2_shift2 (oligos_7nt_mkv1_m2)				; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m2; m=2/5; ncol2=24; w=0; offset=0; strand=D; shift=2; score=0.721207; --atCACATGACATCACCCATCAC ; cor=; Ncor= a 0 0 37 8 3 44 0 49 3 3 45 0 51 4 6 45 0 8 5 43 4 3 51 0 c 0 0 13 9 49 10 52 4 2 12 3 50 5 5 43 3 53 44 42 8 7 50 3 46 g 0 0 5 2 3 1 0 3 0 40 4 2 1 1 6 3 3 3 1 5 1 1 0 4 t 0 0 2 38 2 2 5 1 52 2 5 5 0 47 2 6 1 2 9 1 45 3 3 7
oligos_7nt_mkv1_m5_rc_shift1 (oligos_7nt_mkv1_m5_rc)				; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m5_rc; m=3/5; ncol2=24; w=-1; offset=-1; strand=R; shift=1; score=0.694787; -yRTCACATGACATCACCyRTCAC ; cor=; Ncor= a 0 0 13 0 0 16 0 17 0 0 15 0 17 1 2 16 1 2 0 13 1 0 16 0 c 0 12 1 1 16 1 17 1 0 1 0 18 1 0 16 0 16 13 11 1 0 16 1 16 g 0 2 5 1 2 1 1 1 0 18 3 0 1 1 1 1 0 2 1 5 1 2 1 2 t 0 5 0 17 1 1 1 0 19 0 1 1 0 17 0 2 2 2 7 0 17 1 1 1
oligos_7nt_mkv1_m1_rc_shift0 (oligos_7nt_mkv1_m1_rc)				; oligos_7nt_mkv1_m3 versus oligos_7nt_mkv1_m1_rc; m=4/5; ncol2=24; w=-2; offset=-2; strand=R; shift=0; score=0.683059; CCATCACATGACATCACCCATCAC ; cor=; Ncor= a 2 0 23 0 0 28 0 29 0 0 26 1 29 1 1 27 0 2 0 28 1 0 29 0 c 26 23 3 2 27 0 30 0 0 0 0 28 1 0 28 0 28 24 26 1 0 27 1 27 g 1 2 4 0 1 1 0 1 0 30 3 0 0 1 1 2 1 1 1 1 0 1 0 1 t 1 5 0 28 2 1 0 0 30 0 1 1 0 28 0 1 1 3 3 0 29 2 0 2
oligos_6nt_mkv1_m3_rc_shift4 (oligos_6nt_mkv1_m3_rc)				; oligos_7nt_mkv1_m3 versus oligos_6nt_mkv1_m3_rc; m=5/5; ncol2=17; w=0; offset=2; strand=R; shift=4; score=0.611324; ----cAtCACyCATCACATGA--- ; cor=; Ncor= a 0 0 0 0 0 6 0 1 6 0 0 0 6 0 0 6 0 5 0 0 5 0 0 0 c 0 0 0 0 4 0 1 5 0 6 3 6 0 0 6 0 6 0 0 0 0 0 0 0 g 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 1 1 6 1 0 0 0 t 0 0 0 0 1 0 4 0 0 0 3 0 0 6 0 0 0 0 5 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv1_m1_shift4 (oligos_7nt_mkv1_m1)				; oligos_7nt_mkv1_m1; m=0 (reference); ncol1=24; shift=4; ncol=28; ----GTGATGGGTGATGTCATGTGATGG ; Alignment reference a 0 0 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 1 0 30 0 0 1 2 28 0 5 1 c 0 0 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 3 30 0 1 0 1 1 0 4 2 1 g 0 0 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 0 0 0 0 30 0 27 2 3 23 26 t 0 0 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1 26 0 0 29 0 28 0 0 23 0 2
oligos_7nt_mkv1_m1_shift4 (oligos_7nt_mkv1_m1)				; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m1; m=1/6; ncol2=24; w=0; offset=0; strand=D; shift=4; score= 1; ----GTGATGGGTGATGTCATGTGATGG ; cor=; Ncor= a 0 0 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 1 0 30 0 0 1 2 28 0 5 1 c 0 0 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 3 30 0 1 0 1 1 0 4 2 1 g 0 0 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 0 0 0 0 30 0 27 2 3 23 26 t 0 0 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1 26 0 0 29 0 28 0 0 23 0 2
oligos_7nt_mkv1_m5_shift3 (oligos_7nt_mkv1_m5)				; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m5; m=2/6; ncol2=24; w=-1; offset=-1; strand=D; shift=3; score=0.907436; ---TGTGAYrGGTGATGTCATGTGAYr- ; cor=; Ncor= a 0 0 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 1 0 19 0 1 1 1 17 0 5 0 c 0 0 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 3 18 0 1 1 1 2 1 5 2 0 g 0 0 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 0 1 0 1 17 1 16 1 1 12 0 t 0 0 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0 15 0 0 17 0 16 0 0 13 0 0
oligos_7nt_mkv1_m2_rc_shift2 (oligos_7nt_mkv1_m2_rc)				; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m2_rc; m=3/6; ncol2=24; w=-2; offset=-2; strand=R; shift=2; score=0.834222; --ATGTGATGGGTGATGTCATGTGat-- ; cor=; Ncor= a 0 0 41 1 7 3 3 45 1 9 2 1 6 2 47 0 5 5 2 52 1 5 2 2 38 2 0 0 c 0 0 0 6 4 0 1 1 5 1 3 3 3 6 1 1 2 4 40 0 3 0 1 3 2 5 0 0 g 0 0 9 9 46 3 50 7 8 42 44 53 3 43 5 5 50 3 12 2 4 52 10 49 9 13 0 0 t 0 0 7 41 0 51 3 4 43 5 8 0 45 6 4 51 0 45 3 3 49 0 44 3 8 37 0 0
oligos_7nt_mkv1_m3_rc_shift4 (oligos_7nt_mkv1_m3_rc)				; oligos_7nt_mkv1_m1 versus oligos_7nt_mkv1_m3_rc; m=4/6; ncol2=22; w=0; offset=0; strand=R; shift=4; score=0.683059; ----gTGwyrkGTGATGkGwkrTrwb-- ; cor=; Ncor= a 0 0 0 0 3 0 4 9 0 9 0 1 0 2 16 0 2 0 0 7 2 9 0 5 5 2 0 0 c 0 0 0 0 1 1 0 1 6 0 2 0 0 0 1 0 0 0 4 4 0 0 2 3 2 5 0 0 g 0 0 0 0 11 4 13 0 2 8 8 16 1 15 0 0 15 10 13 0 7 8 3 8 4 5 0 0 t 0 0 0 0 2 12 0 7 9 0 7 0 16 0 0 17 0 7 0 6 8 0 12 1 6 5 0 0
oligos_6nt_mkv1_m2_shift14 (oligos_6nt_mkv1_m2)				; oligos_7nt_mkv1_m1 versus oligos_6nt_mkv1_m2; m=5/6; ncol2=13; w=0; offset=10; strand=D; shift=14; score=0.495531; --------------mtGtCATRTsAyv- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 0 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 0 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0 0
oligos_6nt_mkv1_m3_shift0 (oligos_6nt_mkv1_m3)				; oligos_7nt_mkv1_m1 versus oligos_6nt_mkv1_m3; m=6/6; ncol2=17; w=-4; offset=-4; strand=D; shift=0; score=0.446182; TCATGTGATGrGTGaTg----------- ; cor=; Ncor= a 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 0 0 0 0 0 0 0 0 0 0 0 c 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 0 0 0 0 0 0 0 0 0 0 0 t 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0 0 0 0 0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv1_m3_shift3 (oligos_6nt_mkv1_m3)				; oligos_6nt_mkv1_m3; m=0 (reference); ncol1=17; shift=3; ncol=20; ---TCATGTGATGrGTGaTg ; Alignment reference a 0 0 0 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 c 0 0 0 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 g 0 0 0 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 t 0 0 0 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0
oligos_6nt_mkv1_m3_shift3 (oligos_6nt_mkv1_m3)				; oligos_6nt_mkv1_m3 versus oligos_6nt_mkv1_m3; m=1/6; ncol2=17; w=0; offset=0; strand=D; shift=3; score= 1; ---TCATGTGATGrGTGaTg ; cor=; Ncor= a 0 0 0 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 c 0 0 0 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 g 0 0 0 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 t 0 0 0 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0
oligos_7nt_mkv1_m3_rc_shift0 (oligos_7nt_mkv1_m3_rc)				; oligos_6nt_mkv1_m3 versus oligos_7nt_mkv1_m3_rc; m=2/6; ncol2=22; w=-3; offset=-3; strand=R; shift=0; score=0.611324; gTGwyrkGTGATGkGwkrTr ; cor=; Ncor= a 3 0 4 9 0 9 0 1 0 2 16 0 2 0 0 7 2 9 0 5 c 1 1 0 1 6 0 2 0 0 0 1 0 0 0 4 4 0 0 2 3 g 11 4 13 0 2 8 8 16 1 15 0 0 15 10 13 0 7 8 3 8 t 2 12 0 7 9 0 7 0 16 0 0 17 0 7 0 6 8 0 12 1
oligos_7nt_mkv1_m2_rc_shift5 (oligos_7nt_mkv1_m2_rc)				; oligos_6nt_mkv1_m3 versus oligos_7nt_mkv1_m2_rc; m=3/6; ncol2=24; w=0; offset=2; strand=R; shift=5; score=0.545735; -----ATGTGATGGGTGATG ; cor=; Ncor= a 0 0 0 0 0 41 1 7 3 3 45 1 9 2 1 6 2 47 0 5 c 0 0 0 0 0 0 6 4 0 1 1 5 1 3 3 3 6 1 1 2 g 0 0 0 0 0 9 9 46 3 50 7 8 42 44 53 3 43 5 5 50 t 0 0 0 0 0 7 41 0 51 3 4 43 5 8 0 45 6 4 51 0
oligos_7nt_mkv1_m5_shift6 (oligos_7nt_mkv1_m5)				; oligos_6nt_mkv1_m3 versus oligos_7nt_mkv1_m5; m=4/6; ncol2=24; w=0; offset=3; strand=D; shift=6; score=0.482998; ------TGTGAYrGGTGATG ; cor=; Ncor= a 0 0 0 0 0 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 c 0 0 0 0 0 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 g 0 0 0 0 0 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 t 0 0 0 0 0 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0
oligos_7nt_mkv1_m1_shift7 (oligos_7nt_mkv1_m1)				; oligos_6nt_mkv1_m3 versus oligos_7nt_mkv1_m1; m=5/6; ncol2=24; w=0; offset=4; strand=D; shift=7; score=0.446182; -------GTGATGGGTGATG ; cor=; Ncor= a 0 0 0 0 0 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 c 0 0 0 0 0 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 g 0 0 0 0 0 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 t 0 0 0 0 0 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1
oligos_6nt_mkv1_m2_shift0 (oligos_6nt_mkv1_m2)				; oligos_6nt_mkv1_m3 versus oligos_6nt_mkv1_m2; m=6/6; ncol2=13; w=-3; offset=-3; strand=D; shift=0; score=0.432341; mtGtCATRTsAyv------- ; cor=; Ncor= a 8 2 2 3 0 17 0 5 2 1 15 0 7 0 0 0 0 0 0 0 c 5 4 1 3 13 1 4 0 1 5 0 7 5 0 0 0 0 0 0 0 g 2 2 13 0 4 0 0 13 0 11 2 3 6 0 0 0 0 0 0 0 t 3 10 2 12 1 0 14 0 15 1 1 8 0 0 0 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv1_m5_shift3 (oligos_7nt_mkv1_m5)				; oligos_7nt_mkv1_m5; m=0 (reference); ncol1=24; shift=3; ncol=27; ---TGTGAYrGGTGATGTCATGTGAYr ; Alignment reference a 0 0 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 1 0 19 0 1 1 1 17 0 5 c 0 0 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 3 18 0 1 1 1 2 1 5 2 g 0 0 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 0 1 0 1 17 1 16 1 1 12 t 0 0 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0 15 0 0 17 0 16 0 0 13 0
oligos_7nt_mkv1_m5_shift3 (oligos_7nt_mkv1_m5)				; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m5; m=1/7; ncol2=24; w=0; offset=0; strand=D; shift=3; score= 1; ---TGTGAYrGGTGATGTCATGTGAYr ; cor=; Ncor= a 0 0 0 0 1 1 1 17 0 7 2 2 2 0 17 0 1 1 0 19 0 1 1 1 17 0 5 c 0 0 0 2 2 1 2 1 5 1 2 0 1 1 1 1 0 3 18 0 1 1 1 2 1 5 2 g 0 0 0 1 16 1 16 0 1 11 13 16 0 16 0 1 18 0 1 0 1 17 1 16 1 1 12 t 0 0 0 16 0 16 0 1 13 0 2 1 16 2 1 17 0 15 0 0 17 0 16 0 0 13 0
oligos_7nt_mkv1_m1_shift4 (oligos_7nt_mkv1_m1)				; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m1; m=2/7; ncol2=24; w=0; offset=1; strand=D; shift=4; score=0.907436; ----GTGATGGGTGATGTCATGTGATG ; cor=; Ncor= a 0 0 0 0 2 0 2 29 0 3 3 1 1 0 28 0 1 1 0 30 0 0 1 2 28 0 5 c 0 0 0 0 1 0 1 0 1 1 1 1 2 1 1 0 0 3 30 0 1 0 1 1 0 4 2 g 0 0 0 0 27 1 27 0 1 26 24 28 0 28 0 1 28 0 0 0 0 30 0 27 2 3 23 t 0 0 0 0 0 29 0 1 28 0 2 0 27 1 1 29 1 26 0 0 29 0 28 0 0 23 0
oligos_7nt_mkv1_m2_rc_shift2 (oligos_7nt_mkv1_m2_rc)				; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m2_rc; m=3/7; ncol2=24; w=-1; offset=-1; strand=R; shift=2; score=0.896435; --ATGTGATGGGTGATGTCATGTGat- ; cor=; Ncor= a 0 0 41 1 7 3 3 45 1 9 2 1 6 2 47 0 5 5 2 52 1 5 2 2 38 2 0 c 0 0 0 6 4 0 1 1 5 1 3 3 3 6 1 1 2 4 40 0 3 0 1 3 2 5 0 g 0 0 9 9 46 3 50 7 8 42 44 53 3 43 5 5 50 3 12 2 4 52 10 49 9 13 0 t 0 0 7 41 0 51 3 4 43 5 8 0 45 6 4 51 0 45 3 3 49 0 44 3 8 37 0
oligos_7nt_mkv1_m3_rc_shift4 (oligos_7nt_mkv1_m3_rc)				; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m3_rc; m=4/7; ncol2=22; w=0; offset=1; strand=R; shift=4; score=0.694787; ----gTGwyrkGTGATGkGwkrTrwb- ; cor=; Ncor= a 0 0 0 0 3 0 4 9 0 9 0 1 0 2 16 0 2 0 0 7 2 9 0 5 5 2 0 c 0 0 0 0 1 1 0 1 6 0 2 0 0 0 1 0 0 0 4 4 0 0 2 3 2 5 0 g 0 0 0 0 11 4 13 0 2 8 8 16 1 15 0 0 15 10 13 0 7 8 3 8 4 5 0 t 0 0 0 0 2 12 0 7 9 0 7 0 16 0 0 17 0 7 0 6 8 0 12 1 6 5 0
oligos_6nt_mkv1_m2_shift14 (oligos_6nt_mkv1_m2)				; oligos_7nt_mkv1_m5 versus oligos_6nt_mkv1_m2; m=5/7; ncol2=13; w=0; offset=11; strand=D; shift=14; score=0.505362; --------------mtGtCATRTsAyv ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 8 2 2 3 0 17 0 5 2 1 15 0 7 c 0 0 0 0 0 0 0 0 0 0 0 0 0 0 5 4 1 3 13 1 4 0 1 5 0 7 5 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 2 2 13 0 4 0 0 13 0 11 2 3 6 t 0 0 0 0 0 0 0 0 0 0 0 0 0 0 3 10 2 12 1 0 14 0 15 1 1 8 0
oligos_6nt_mkv1_m3_shift0 (oligos_6nt_mkv1_m3)				; oligos_7nt_mkv1_m5 versus oligos_6nt_mkv1_m3; m=6/7; ncol2=17; w=-3; offset=-3; strand=D; shift=0; score=0.482998; TCATGTGATGrGTGaTg---------- ; cor=; Ncor= a 0 0 5 0 0 0 0 6 0 0 3 0 0 0 4 0 1 0 0 0 0 0 0 0 0 0 0 c 1 6 1 1 0 0 0 0 0 0 0 0 0 0 1 0 1 0 0 0 0 0 0 0 0 0 0 g 0 0 0 0 6 0 6 0 0 6 3 6 0 5 1 0 4 0 0 0 0 0 0 0 0 0 0 t 5 0 0 5 0 6 0 0 6 0 0 0 6 1 0 6 0 0 0 0 0 0 0 0 0 0 0
oligos_7nt_mkv1_m4_rc_shift9 (oligos_7nt_mkv1_m4_rc)				; oligos_7nt_mkv1_m5 versus oligos_7nt_mkv1_m4_rc; m=7/7; ncol2=24; w=0; offset=6; strand=R; shift=9; score=0.423633; ---------sssksmTGwCATswmmyr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 1 0 2 0 0 1 1 1 0 1 c 0 0 0 0 0 0 0 0 0 1 1 1 0 1 1 0 0 0 2 0 0 1 0 1 1 1 0 g 0 0 0 0 0 0 0 0 0 1 1 1 1 1 0 0 2 0 0 0 0 1 0 0 0 0 1 t 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 2 0 1 0 0 2 0 1 0 0 1 0