One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/01/25/peak-motifs.2026-01-25.184326_2026-01-25.184326_ptOhrJ/results/discovered_motifs/oligos_6-8nt_m7/peak-motifs_oligos_6-8nt_m7.tf -format2 tf -file2 $RSAT/public_html/motif_databases/DMMPMM_drosophila/dmmpmm_PCM.tf -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2026/01/25/peak-motifs.2026-01-25.184326_2026-01-25.184326_ptOhrJ/results/discovered_motifs/oligos_6-8nt_m7/peak-motifs_oligos_6-8nt_m7_vs_db_DMMPMM_drosophila

One-to-n matrix alignment; reference matrix: oligos_6-8nt_m7_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6-8nt_m7_shift1 (oligos_6-8nt_m7)
; oligos_6-8nt_m7; m=0 (reference); ncol1=11; shift=1; ncol=12; -rwAAACAAAha ; Alignment reference a 0 249 233 703 665 716 5 682 645 688 215 280 c 0 144 158 9 31 24 640 27 42 25 199 146 g 0 198 142 18 24 9 33 21 32 26 144 176 t 0 173 231 34 44 15 86 34 45 25 206 162

br-Z1_shift2 (br-Z1)
; oligos_6-8nt_m7 versus br-Z1; m=1/4; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.513627; --raTaCwAA-- ; cor=; Ncor= a 0 0 10.5882 11.6471 2.11765 11.6471 3.17647 9.52941 15.8824 18 0 0 c 0 0 0 0 0 3.17647 12.7059 1.05882 2.11765 0 0 0 g 0 0 7.41176 3.17647 1.05882 3.17647 2.11765 0 0 0 0 0 t 0 0 0 3.17647 14.8235 0 0 7.41176 0 0 0 0

hb_shift0 (hb)
; oligos_6-8nt_m7 versus hb; m=2/4; ncol2=9; w=-1; offset=-1; strand=D; shift=0; score=0.495667; mayAAAAAa--- ; cor=; Ncor= a 30.2913 47.4563 1.00971 96.932 101.981 104 97.9417 102.99 68.6602 0 0 0 c 49.4757 16.1553 29.2816 1.00971 1.00971 0 1.00971 1.00971 8.07767 0 0 0 g 21.2039 17.165 11.1068 4.03883 0 0 4.03883 0 12.1165 0 0 0 t 3.02913 23.2233 62.6019 2.01942 1.00971 0 1.00971 0 15.1456 0 0 0

pan_shift4 (pan)
; oligos_6-8nt_m7 versus pan; m=3/4; ncol2=6; w=0; offset=3; strand=D; shift=4; score=0.445629; ----WtCAAA-- ; cor=; Ncor= a 0 0 0 0 18.72 5.2 3.12 20.8 23.92 23.92 0 0 c 0 0 0 0 0 4.16 20.8 0 1.04 0 0 0 g 0 0 0 0 0 0 1.04 0 0 0 0 0 t 0 0 0 0 7.28 16.64 1.04 5.2 1.04 2.08 0 0

zen_shift4 (zen)
; oligos_6-8nt_m7 versus zen; m=4/4; ncol2=6; w=0; offset=3; strand=D; shift=4; score=0.433024; ----AATwAA-- ; cor=; Ncor= a 0 0 0 0 11.9167 11.9167 0 8.66667 13 13 0 0 c 0 0 0 0 0.541667 0 1.08333 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0.541667 1.08333 11.9167 4.33333 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6-8nt_m7_shift1 (oligos_6-8nt_m7)				; oligos_6-8nt_m7; m=0 (reference); ncol1=11; shift=1; ncol=12; -rwAAACAAAha ; Alignment reference a 0 249 233 703 665 716 5 682 645 688 215 280 c 0 144 158 9 31 24 640 27 42 25 199 146 g 0 198 142 18 24 9 33 21 32 26 144 176 t 0 173 231 34 44 15 86 34 45 25 206 162
br-Z1_shift2 (br-Z1)				; oligos_6-8nt_m7 versus br-Z1; m=1/4; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.513627; --raTaCwAA-- ; cor=; Ncor= a 0 0 10.5882 11.6471 2.11765 11.6471 3.17647 9.52941 15.8824 18 0 0 c 0 0 0 0 0 3.17647 12.7059 1.05882 2.11765 0 0 0 g 0 0 7.41176 3.17647 1.05882 3.17647 2.11765 0 0 0 0 0 t 0 0 0 3.17647 14.8235 0 0 7.41176 0 0 0 0
hb_shift0 (hb)				; oligos_6-8nt_m7 versus hb; m=2/4; ncol2=9; w=-1; offset=-1; strand=D; shift=0; score=0.495667; mayAAAAAa--- ; cor=; Ncor= a 30.2913 47.4563 1.00971 96.932 101.981 104 97.9417 102.99 68.6602 0 0 0 c 49.4757 16.1553 29.2816 1.00971 1.00971 0 1.00971 1.00971 8.07767 0 0 0 g 21.2039 17.165 11.1068 4.03883 0 0 4.03883 0 12.1165 0 0 0 t 3.02913 23.2233 62.6019 2.01942 1.00971 0 1.00971 0 15.1456 0 0 0
pan_shift4 (pan)				; oligos_6-8nt_m7 versus pan; m=3/4; ncol2=6; w=0; offset=3; strand=D; shift=4; score=0.445629; ----WtCAAA-- ; cor=; Ncor= a 0 0 0 0 18.72 5.2 3.12 20.8 23.92 23.92 0 0 c 0 0 0 0 0 4.16 20.8 0 1.04 0 0 0 g 0 0 0 0 0 0 1.04 0 0 0 0 0 t 0 0 0 0 7.28 16.64 1.04 5.2 1.04 2.08 0 0
zen_shift4 (zen)				; oligos_6-8nt_m7 versus zen; m=4/4; ncol2=6; w=0; offset=3; strand=D; shift=4; score=0.433024; ----AATwAA-- ; cor=; Ncor= a 0 0 0 0 11.9167 11.9167 0 8.66667 13 13 0 0 c 0 0 0 0 0.541667 0 1.08333 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 0 0 0.541667 1.08333 11.9167 4.33333 0 0 0 0