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.2026-01-25.181000_2026-01-25.181000_CpuIe4/results/discovered_motifs/dyads_m10/peak-motifs_dyads_m10.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.2026-01-25.181000_2026-01-25.181000_CpuIe4/results/discovered_motifs/dyads_m10/peak-motifs_dyads_m10_vs_db_DMMPMM_drosophila

One-to-n matrix alignment; reference matrix: dyads_m10_shift0 ; 7 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
dyads_m10_shift0 (dyads_m10)
; dyads_m10; m=0 (reference); ncol1=12; shift=0; ncol=12; wwATAAATAAww ; Alignment reference a 747 726 1680 198 1754 1628 1767 109 1714 1534 805 669 c 344 353 47 86 47 52 40 116 50 93 295 349 g 319 252 81 53 34 45 25 54 56 60 284 257 t 486 565 88 1559 61 171 64 1617 76 209 512 621

hb_shift1 (hb)
; dyads_m10 versus hb; m=1/6; ncol2=9; w=0; offset=1; strand=D; shift=1; score=0.559162; -mayAAAAAa-- ; cor=; Ncor= a 0 30.2913 47.4563 1.00971 96.932 101.981 104 97.9417 102.99 68.6602 0 0 c 0 49.4757 16.1553 29.2816 1.00971 1.00971 0 1.00971 1.00971 8.07767 0 0 g 0 21.2039 17.165 11.1068 4.03883 0 0 4.03883 0 12.1165 0 0 t 0 3.02913 23.2233 62.6019 2.01942 1.00971 0 1.00971 0 15.1456 0 0

br-Z4_rc_shift3 (br-Z4_rc)
; dyads_m10 versus br-Z4_rc; m=2/6; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.518922; ---TAAhYAdT- ; cor=; Ncor= a 0 0 0 1 7 8 2 0 8 3 1 0 c 0 0 0 0 0 0 3 2 0 0 0 0 g 0 0 0 0 0 0 0 0 0 2 0 0 t 0 0 0 7 1 0 3 6 0 3 7 0

Antp_shift5 (Antp)
; dyads_m10 versus Antp; m=3/6; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.469787; -----mATAAw- ; cor=; Ncor= a 0 0 0 0 0 10.5 18 0 16.5 18 7.5 0 c 0 0 0 0 0 4.5 0 0 0 0 0 0 g 0 0 0 0 0 3 0 0 1.5 0 0 0 t 0 0 0 0 0 0 0 18 0 0 10.5 0

zen_shift1 (zen)
; dyads_m10 versus zen; m=4/6; ncol2=6; w=0; offset=1; strand=D; shift=1; score=0.455986; -AATwAA----- ; cor=; Ncor= a 0 11.9167 11.9167 0 8.66667 13 13 0 0 0 0 0 c 0 0.541667 0 1.08333 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0.541667 1.08333 11.9167 4.33333 0 0 0 0 0 0 0

ap_shift5 (ap)
; dyads_m10 versus ap; m=5/6; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.437673; -----AAThAt- ; cor=; Ncor= a 0 0 0 0 0 14 14 0 5 13 2 0 c 0 0 0 0 0 0 0 1 4 0 1 0 g 0 0 0 0 0 0 0 1 1 1 3 0 t 0 0 0 0 0 0 0 12 4 0 8 0

abd-A_shift6 (abd-A)
; dyads_m10 versus abd-A; m=6/6; ncol2=6; w=0; offset=6; strand=D; shift=6; score=0.42487; ------aTAAWT ; cor=; Ncor= a 0 0 0 0 0 0 27.439 0 40.6098 40.6098 14.2683 0 c 0 0 0 0 0 0 5.4878 3.29268 1.09756 0 0 3.29268 g 0 0 0 0 0 0 4.39024 1.09756 3.29268 0 0 6.58537 t 0 0 0 0 0 0 7.68293 40.6098 0 4.39024 30.7317 35.122

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
dyads_m10_shift0 (dyads_m10)				; dyads_m10; m=0 (reference); ncol1=12; shift=0; ncol=12; wwATAAATAAww ; Alignment reference a 747 726 1680 198 1754 1628 1767 109 1714 1534 805 669 c 344 353 47 86 47 52 40 116 50 93 295 349 g 319 252 81 53 34 45 25 54 56 60 284 257 t 486 565 88 1559 61 171 64 1617 76 209 512 621
hb_shift1 (hb)				; dyads_m10 versus hb; m=1/6; ncol2=9; w=0; offset=1; strand=D; shift=1; score=0.559162; -mayAAAAAa-- ; cor=; Ncor= a 0 30.2913 47.4563 1.00971 96.932 101.981 104 97.9417 102.99 68.6602 0 0 c 0 49.4757 16.1553 29.2816 1.00971 1.00971 0 1.00971 1.00971 8.07767 0 0 g 0 21.2039 17.165 11.1068 4.03883 0 0 4.03883 0 12.1165 0 0 t 0 3.02913 23.2233 62.6019 2.01942 1.00971 0 1.00971 0 15.1456 0 0
br-Z4_rc_shift3 (br-Z4_rc)				; dyads_m10 versus br-Z4_rc; m=2/6; ncol2=8; w=0; offset=3; strand=R; shift=3; score=0.518922; ---TAAhYAdT- ; cor=; Ncor= a 0 0 0 1 7 8 2 0 8 3 1 0 c 0 0 0 0 0 0 3 2 0 0 0 0 g 0 0 0 0 0 0 0 0 0 2 0 0 t 0 0 0 7 1 0 3 6 0 3 7 0
Antp_shift5 (Antp)				; dyads_m10 versus Antp; m=3/6; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.469787; -----mATAAw- ; cor=; Ncor= a 0 0 0 0 0 10.5 18 0 16.5 18 7.5 0 c 0 0 0 0 0 4.5 0 0 0 0 0 0 g 0 0 0 0 0 3 0 0 1.5 0 0 0 t 0 0 0 0 0 0 0 18 0 0 10.5 0
zen_shift1 (zen)				; dyads_m10 versus zen; m=4/6; ncol2=6; w=0; offset=1; strand=D; shift=1; score=0.455986; -AATwAA----- ; cor=; Ncor= a 0 11.9167 11.9167 0 8.66667 13 13 0 0 0 0 0 c 0 0.541667 0 1.08333 0 0 0 0 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0.541667 1.08333 11.9167 4.33333 0 0 0 0 0 0 0
ap_shift5 (ap)				; dyads_m10 versus ap; m=5/6; ncol2=6; w=0; offset=5; strand=D; shift=5; score=0.437673; -----AAThAt- ; cor=; Ncor= a 0 0 0 0 0 14 14 0 5 13 2 0 c 0 0 0 0 0 0 0 1 4 0 1 0 g 0 0 0 0 0 0 0 1 1 1 3 0 t 0 0 0 0 0 0 0 12 4 0 8 0
abd-A_shift6 (abd-A)				; dyads_m10 versus abd-A; m=6/6; ncol2=6; w=0; offset=6; strand=D; shift=6; score=0.42487; ------aTAAWT ; cor=; Ncor= a 0 0 0 0 0 0 27.439 0 40.6098 40.6098 14.2683 0 c 0 0 0 0 0 0 5.4878 3.29268 1.09756 0 0 3.29268 g 0 0 0 0 0 0 4.39024 1.09756 3.29268 0 0 6.58537 t 0 0 0 0 0 0 7.68293 40.6098 0 4.39024 30.7317 35.122