One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2025/11/26/peak-motifs.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/oligos_7nt_mkv5_m1/peak-motifs_oligos_7nt_mkv5_m1.tf -format2 tf -file2 $RSAT/public_html/motif_databases/FlyFactorSurvey/PWM_FlyFactorSurvey_2016.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/2025/11/26/peak-motifs.2025-11-26.204716_2025-11-26.204716_g9CRAo/results/discovered_motifs/oligos_7nt_mkv5_m1/peak-motifs_oligos_7nt_mkv5_m1_vs_db_FlyFactorSurvey

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv5_m1_shift3 ; 16 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv5_m1_shift3 (oligos_7nt_mkv5_m1)
; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=11; shift=3; ncol=14; ---maAACACAAmm ; Alignment reference a 0 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640 c 0 0 0 544 437 1 22 1609 67 1586 57 20 518 599 g 0 0 0 384 449 28 54 61 58 114 51 39 350 326 t 0 0 0 329 421 49 57 114 35 99 92 54 457 315

CG10267_SANGER_5_FBgn0037446_shift2 (CG10267_SANGER_5_FBgn0037446)
; oligos_7nt_mkv5_m1 versus CG10267_SANGER_5_FBgn0037446; m=1/15; ncol2=10; w=-1; offset=-1; strand=D; shift=2; score=0.565316; --whyAACACTR-- ; cor=; Ncor= a 0 0 8 6 1 16 16 1 16 0 0 11 0 0 c 0 0 0 6 10 0 0 14 0 16 0 0 0 0 g 0 0 1 0 0 0 0 0 0 0 0 5 0 0 t 0 0 7 4 5 0 0 1 0 0 16 0 0 0

lola-PJ_SOLEXA_FBgn0005630_rc_shift0 (lola-PJ_SOLEXA_FBgn0005630_rc)
; oligos_7nt_mkv5_m1 versus lola-PJ_SOLEXA_FBgn0005630_rc; m=2/15; ncol2=15; w=-3; offset=-3; strand=R; shift=0; score=0.542897; mamvcArCATAAma ; cor=; Ncor= a 949 1076 776 839 556 2611 1471 0 2787 0 2752 2331 1167 928 c 872 696 1136 870 1665 49 0 2787 0 0 2 147 860 656 g 518 608 521 771 335 7 1227 0 0 2 9 254 494 560 t 446 405 352 305 229 117 87 0 0 2784 22 53 264 640

jim_F1-9_SOLEXA_2.5_FBgn0027339_shift3 (jim_F1-9_SOLEXA_2.5_FBgn0027339)
; oligos_7nt_mkv5_m1 versus jim_F1-9_SOLEXA_2.5_FBgn0027339; m=3/15; ncol2=15; w=0; offset=0; strand=D; shift=3; score=0.535592; ---rmAAaAAAAmm ; cor=; Ncor= a 0 0 0 202 124 372 414 259 411 369 349 412 159 154 c 0 0 0 60 190 26 6 104 1 52 5 0 222 122 g 0 0 0 102 43 6 0 0 4 2 64 11 40 74 t 0 0 0 25 50 19 3 60 7 0 5 0 2 73

Sox15_SANGER_5_FBgn0005613_shift6 (Sox15_SANGER_5_FBgn0005613)
; oligos_7nt_mkv5_m1 versus Sox15_SANGER_5_FBgn0005613; m=4/15; ncol2=8; w=0; offset=3; strand=D; shift=6; score= 0.532; ------aaACAATr ; cor=; Ncor= a 0 0 0 0 0 0 12 13 21 0 21 21 3 6 c 0 0 0 0 0 0 1 2 0 21 0 0 0 0 g 0 0 0 0 0 0 5 2 0 0 0 0 0 14 t 0 0 0 0 0 0 3 4 0 0 0 0 18 1

Ara_Cell_FBgn0015904_shift3 (Ara_Cell_FBgn0015904)
; oligos_7nt_mkv5_m1 versus Ara_Cell_FBgn0015904; m=5/15; ncol2=8; w=0; offset=0; strand=D; shift=3; score=0.51772; ---raAwwACA--- ; cor=; Ncor= a 0 0 0 12 16 24 14 23 34 0 34 0 0 0 c 0 0 0 5 7 1 0 0 0 34 0 0 0 0 g 0 0 0 10 6 1 5 0 0 0 0 0 0 0 t 0 0 0 7 5 8 15 11 0 0 0 0 0 0

Mirr_SOLEXA_FBgn0014343_shift3 (Mirr_SOLEXA_FBgn0014343)
; oligos_7nt_mkv5_m1 versus Mirr_SOLEXA_FBgn0014343; m=6/15; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.498442; ---wwwACA----- ; cor=; Ncor= a 0 0 0 550 410 782 1415 0 1415 0 0 0 0 0 c 0 0 0 158 93 0 0 1415 0 0 0 0 0 0 g 0 0 0 327 282 204 0 0 0 0 0 0 0 0 t 0 0 0 380 630 429 0 0 0 0 0 0 0 0

Ara_SOLEXA_FBgn0015904_shift3 (Ara_SOLEXA_FBgn0015904)
; oligos_7nt_mkv5_m1 versus Ara_SOLEXA_FBgn0015904; m=7/15; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.49709; ---awwACA----- ; cor=; Ncor= a 0 0 0 155 97 193 313 0 313 0 0 0 0 0 c 0 0 0 36 0 0 0 313 0 0 0 0 0 0 g 0 0 0 44 45 38 0 0 0 0 0 0 0 0 t 0 0 0 78 171 82 0 0 0 0 0 0 0 0

Caup_SOLEXA_FBgn0015919_shift3 (Caup_SOLEXA_FBgn0015919)
; oligos_7nt_mkv5_m1 versus Caup_SOLEXA_FBgn0015919; m=8/15; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.485439; ---wtwACA----- ; cor=; Ncor= a 0 0 0 999 577 1415 2904 2 2904 0 0 0 0 0 c 0 0 0 460 201 0 0 2902 0 0 0 0 0 0 g 0 0 0 626 639 511 0 0 0 0 0 0 0 0 t 0 0 0 819 1487 978 0 0 0 0 0 0 0 0

foxo_SANGER_10_FBgn0038197_rc_shift2 (foxo_SANGER_10_FBgn0038197_rc)
; oligos_7nt_mkv5_m1 versus foxo_SANGER_10_FBgn0038197_rc; m=9/15; ncol2=9; w=-1; offset=-1; strand=R; shift=2; score=0.472208; --ycrwAAACA--- ; cor=; Ncor= a 0 0 0 3 8 8 16 16 20 0 20 0 0 0 c 0 0 6 12 0 0 1 4 0 18 0 0 0 0 g 0 0 3 3 11 0 0 0 0 0 0 0 0 0 t 0 0 11 2 1 12 3 0 0 2 0 0 0 0

lola-PJ_SANGER_5_FBgn0005630_shift5 (lola-PJ_SANGER_5_FBgn0005630)
; oligos_7nt_mkv5_m1 versus lola-PJ_SANGER_5_FBgn0005630; m=10/15; ncol2=7; w=0; offset=2; strand=D; shift=5; score=0.471638; -----ArCATAA-- ; cor=; Ncor= a 0 0 0 0 0 11 5 0 12 0 12 12 0 0 c 0 0 0 0 0 0 0 12 0 0 0 0 0 0 g 0 0 0 0 0 0 7 0 0 0 0 0 0 0 t 0 0 0 0 0 1 0 0 0 12 0 0 0 0

CG5953_SANGER_5_FBgn0032587_shift2 (CG5953_SANGER_5_FBgn0032587)
; oligos_7nt_mkv5_m1 versus CG5953_SANGER_5_FBgn0032587; m=11/15; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.44424; --aCAAACAy---- ; cor=; Ncor= a 0 0 10 0 16 16 16 0 16 1 0 0 0 0 c 0 0 3 16 0 0 0 16 0 5 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 3 0 0 0 0 0 0 10 0 0 0 0

Mirr_Cell_FBgn0014343_shift1 (Mirr_Cell_FBgn0014343)
; oligos_7nt_mkv5_m1 versus Mirr_Cell_FBgn0014343; m=12/15; ncol2=8; w=-2; offset=-2; strand=D; shift=1; score=0.428582; -waawAACA----- ; cor=; Ncor= a 0 18 18 22 20 29 41 0 41 0 0 0 0 0 c 0 6 4 7 1 0 0 41 0 0 0 0 0 0 g 0 6 10 6 1 2 0 0 0 0 0 0 0 0 t 0 11 9 6 19 10 0 0 0 0 0 0 0 0

Caup_Cell_FBgn0015919_shift1 (Caup_Cell_FBgn0015919)
; oligos_7nt_mkv5_m1 versus Caup_Cell_FBgn0015919; m=13/15; ncol2=8; w=-2; offset=-2; strand=D; shift=1; score=0.422059; -cwwtAACA----- ; cor=; Ncor= a 0 4 9 8 4 14 19 0 19 0 0 0 0 0 c 0 9 0 0 1 0 0 19 0 0 0 0 0 0 g 0 2 3 4 2 2 0 0 0 0 0 0 0 0 t 0 4 7 7 12 3 0 0 0 0 0 0 0 0

slp2_SANGER_5_FBgn0004567_shift2 (slp2_SANGER_5_FBgn0004567)
; oligos_7nt_mkv5_m1 versus slp2_SANGER_5_FBgn0004567; m=14/15; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.415498; --rTAAACAa---- ; cor=; Ncor= a 0 0 6 0 18 18 18 0 18 11 0 0 0 0 c 0 0 0 1 0 0 0 18 0 3 0 0 0 0 g 0 0 12 0 0 0 0 0 0 3 0 0 0 0 t 0 0 0 17 0 0 0 0 0 1 0 0 0 0

bin_SANGER_5_FBgn0045759_shift2 (bin_SANGER_5_FBgn0045759)
; oligos_7nt_mkv5_m1 versus bin_SANGER_5_FBgn0045759; m=15/15; ncol2=7; w=-1; offset=-1; strand=D; shift=2; score=0.400116; --rTAAACA----- ; cor=; Ncor= a 0 0 9 0 20 20 20 0 19 0 0 0 0 0 c 0 0 0 0 0 0 0 20 0 0 0 0 0 0 g 0 0 10 0 0 0 0 0 0 0 0 0 0 0 t 0 0 1 20 0 0 0 0 1 0 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv5_m1_shift3 (oligos_7nt_mkv5_m1)				; oligos_7nt_mkv5_m1; m=0 (reference); ncol1=11; shift=3; ncol=14; ---maAACACAAmm ; Alignment reference a 0 0 0 623 573 1802 1747 96 1720 81 1680 1767 555 640 c 0 0 0 544 437 1 22 1609 67 1586 57 20 518 599 g 0 0 0 384 449 28 54 61 58 114 51 39 350 326 t 0 0 0 329 421 49 57 114 35 99 92 54 457 315
CG10267_SANGER_5_FBgn0037446_shift2 (CG10267_SANGER_5_FBgn0037446)				; oligos_7nt_mkv5_m1 versus CG10267_SANGER_5_FBgn0037446; m=1/15; ncol2=10; w=-1; offset=-1; strand=D; shift=2; score=0.565316; --whyAACACTR-- ; cor=; Ncor= a 0 0 8 6 1 16 16 1 16 0 0 11 0 0 c 0 0 0 6 10 0 0 14 0 16 0 0 0 0 g 0 0 1 0 0 0 0 0 0 0 0 5 0 0 t 0 0 7 4 5 0 0 1 0 0 16 0 0 0
lola-PJ_SOLEXA_FBgn0005630_rc_shift0 (lola-PJ_SOLEXA_FBgn0005630_rc)				; oligos_7nt_mkv5_m1 versus lola-PJ_SOLEXA_FBgn0005630_rc; m=2/15; ncol2=15; w=-3; offset=-3; strand=R; shift=0; score=0.542897; mamvcArCATAAma ; cor=; Ncor= a 949 1076 776 839 556 2611 1471 0 2787 0 2752 2331 1167 928 c 872 696 1136 870 1665 49 0 2787 0 0 2 147 860 656 g 518 608 521 771 335 7 1227 0 0 2 9 254 494 560 t 446 405 352 305 229 117 87 0 0 2784 22 53 264 640
jim_F1-9_SOLEXA_2.5_FBgn0027339_shift3 (jim_F1-9_SOLEXA_2.5_FBgn0027339)				; oligos_7nt_mkv5_m1 versus jim_F1-9_SOLEXA_2.5_FBgn0027339; m=3/15; ncol2=15; w=0; offset=0; strand=D; shift=3; score=0.535592; ---rmAAaAAAAmm ; cor=; Ncor= a 0 0 0 202 124 372 414 259 411 369 349 412 159 154 c 0 0 0 60 190 26 6 104 1 52 5 0 222 122 g 0 0 0 102 43 6 0 0 4 2 64 11 40 74 t 0 0 0 25 50 19 3 60 7 0 5 0 2 73
Sox15_SANGER_5_FBgn0005613_shift6 (Sox15_SANGER_5_FBgn0005613)				; oligos_7nt_mkv5_m1 versus Sox15_SANGER_5_FBgn0005613; m=4/15; ncol2=8; w=0; offset=3; strand=D; shift=6; score= 0.532; ------aaACAATr ; cor=; Ncor= a 0 0 0 0 0 0 12 13 21 0 21 21 3 6 c 0 0 0 0 0 0 1 2 0 21 0 0 0 0 g 0 0 0 0 0 0 5 2 0 0 0 0 0 14 t 0 0 0 0 0 0 3 4 0 0 0 0 18 1
Ara_Cell_FBgn0015904_shift3 (Ara_Cell_FBgn0015904)				; oligos_7nt_mkv5_m1 versus Ara_Cell_FBgn0015904; m=5/15; ncol2=8; w=0; offset=0; strand=D; shift=3; score=0.51772; ---raAwwACA--- ; cor=; Ncor= a 0 0 0 12 16 24 14 23 34 0 34 0 0 0 c 0 0 0 5 7 1 0 0 0 34 0 0 0 0 g 0 0 0 10 6 1 5 0 0 0 0 0 0 0 t 0 0 0 7 5 8 15 11 0 0 0 0 0 0
Mirr_SOLEXA_FBgn0014343_shift3 (Mirr_SOLEXA_FBgn0014343)				; oligos_7nt_mkv5_m1 versus Mirr_SOLEXA_FBgn0014343; m=6/15; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.498442; ---wwwACA----- ; cor=; Ncor= a 0 0 0 550 410 782 1415 0 1415 0 0 0 0 0 c 0 0 0 158 93 0 0 1415 0 0 0 0 0 0 g 0 0 0 327 282 204 0 0 0 0 0 0 0 0 t 0 0 0 380 630 429 0 0 0 0 0 0 0 0
Ara_SOLEXA_FBgn0015904_shift3 (Ara_SOLEXA_FBgn0015904)				; oligos_7nt_mkv5_m1 versus Ara_SOLEXA_FBgn0015904; m=7/15; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.49709; ---awwACA----- ; cor=; Ncor= a 0 0 0 155 97 193 313 0 313 0 0 0 0 0 c 0 0 0 36 0 0 0 313 0 0 0 0 0 0 g 0 0 0 44 45 38 0 0 0 0 0 0 0 0 t 0 0 0 78 171 82 0 0 0 0 0 0 0 0
Caup_SOLEXA_FBgn0015919_shift3 (Caup_SOLEXA_FBgn0015919)				; oligos_7nt_mkv5_m1 versus Caup_SOLEXA_FBgn0015919; m=8/15; ncol2=6; w=0; offset=0; strand=D; shift=3; score=0.485439; ---wtwACA----- ; cor=; Ncor= a 0 0 0 999 577 1415 2904 2 2904 0 0 0 0 0 c 0 0 0 460 201 0 0 2902 0 0 0 0 0 0 g 0 0 0 626 639 511 0 0 0 0 0 0 0 0 t 0 0 0 819 1487 978 0 0 0 0 0 0 0 0
foxo_SANGER_10_FBgn0038197_rc_shift2 (foxo_SANGER_10_FBgn0038197_rc)				; oligos_7nt_mkv5_m1 versus foxo_SANGER_10_FBgn0038197_rc; m=9/15; ncol2=9; w=-1; offset=-1; strand=R; shift=2; score=0.472208; --ycrwAAACA--- ; cor=; Ncor= a 0 0 0 3 8 8 16 16 20 0 20 0 0 0 c 0 0 6 12 0 0 1 4 0 18 0 0 0 0 g 0 0 3 3 11 0 0 0 0 0 0 0 0 0 t 0 0 11 2 1 12 3 0 0 2 0 0 0 0
lola-PJ_SANGER_5_FBgn0005630_shift5 (lola-PJ_SANGER_5_FBgn0005630)				; oligos_7nt_mkv5_m1 versus lola-PJ_SANGER_5_FBgn0005630; m=10/15; ncol2=7; w=0; offset=2; strand=D; shift=5; score=0.471638; -----ArCATAA-- ; cor=; Ncor= a 0 0 0 0 0 11 5 0 12 0 12 12 0 0 c 0 0 0 0 0 0 0 12 0 0 0 0 0 0 g 0 0 0 0 0 0 7 0 0 0 0 0 0 0 t 0 0 0 0 0 1 0 0 0 12 0 0 0 0
CG5953_SANGER_5_FBgn0032587_shift2 (CG5953_SANGER_5_FBgn0032587)				; oligos_7nt_mkv5_m1 versus CG5953_SANGER_5_FBgn0032587; m=11/15; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.44424; --aCAAACAy---- ; cor=; Ncor= a 0 0 10 0 16 16 16 0 16 1 0 0 0 0 c 0 0 3 16 0 0 0 16 0 5 0 0 0 0 g 0 0 0 0 0 0 0 0 0 0 0 0 0 0 t 0 0 3 0 0 0 0 0 0 10 0 0 0 0
Mirr_Cell_FBgn0014343_shift1 (Mirr_Cell_FBgn0014343)				; oligos_7nt_mkv5_m1 versus Mirr_Cell_FBgn0014343; m=12/15; ncol2=8; w=-2; offset=-2; strand=D; shift=1; score=0.428582; -waawAACA----- ; cor=; Ncor= a 0 18 18 22 20 29 41 0 41 0 0 0 0 0 c 0 6 4 7 1 0 0 41 0 0 0 0 0 0 g 0 6 10 6 1 2 0 0 0 0 0 0 0 0 t 0 11 9 6 19 10 0 0 0 0 0 0 0 0
Caup_Cell_FBgn0015919_shift1 (Caup_Cell_FBgn0015919)				; oligos_7nt_mkv5_m1 versus Caup_Cell_FBgn0015919; m=13/15; ncol2=8; w=-2; offset=-2; strand=D; shift=1; score=0.422059; -cwwtAACA----- ; cor=; Ncor= a 0 4 9 8 4 14 19 0 19 0 0 0 0 0 c 0 9 0 0 1 0 0 19 0 0 0 0 0 0 g 0 2 3 4 2 2 0 0 0 0 0 0 0 0 t 0 4 7 7 12 3 0 0 0 0 0 0 0 0
slp2_SANGER_5_FBgn0004567_shift2 (slp2_SANGER_5_FBgn0004567)				; oligos_7nt_mkv5_m1 versus slp2_SANGER_5_FBgn0004567; m=14/15; ncol2=8; w=-1; offset=-1; strand=D; shift=2; score=0.415498; --rTAAACAa---- ; cor=; Ncor= a 0 0 6 0 18 18 18 0 18 11 0 0 0 0 c 0 0 0 1 0 0 0 18 0 3 0 0 0 0 g 0 0 12 0 0 0 0 0 0 3 0 0 0 0 t 0 0 0 17 0 0 0 0 0 1 0 0 0 0
bin_SANGER_5_FBgn0045759_shift2 (bin_SANGER_5_FBgn0045759)				; oligos_7nt_mkv5_m1 versus bin_SANGER_5_FBgn0045759; m=15/15; ncol2=7; w=-1; offset=-1; strand=D; shift=2; score=0.400116; --rTAAACA----- ; cor=; Ncor= a 0 0 9 0 20 20 20 0 19 0 0 0 0 0 c 0 0 0 0 0 0 0 20 0 0 0 0 0 0 g 0 0 10 0 0 0 0 0 0 0 0 0 0 0 t 0 0 1 20 0 0 0 0 1 0 0 0 0 0