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_6nt_mkv4_m6/peak-motifs_oligos_6nt_mkv4_m6.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_6nt_mkv4_m6/peak-motifs_oligos_6nt_mkv4_m6_vs_db_FlyFactorSurvey

One-to-n matrix alignment; reference matrix: oligos_6nt_mkv4_m6_shift1 ; 14 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_6nt_mkv4_m6_shift1 (oligos_6nt_mkv4_m6)
; oligos_6nt_mkv4_m6; m=0 (reference); ncol1=12; shift=1; ncol=13; -yyCTTATCagym ; Alignment reference a 0 258 185 81 30 34 1157 9 27 667 140 266 331 c 0 411 359 1020 64 33 44 19 1173 127 207 383 328 g 0 231 277 65 39 16 8 37 9 266 679 226 283 t 0 339 418 73 1106 1156 30 1174 30 179 213 364 297

srp_SANGER_5_FBgn0003507_shift2 (srp_SANGER_5_FBgn0003507)
; oligos_6nt_mkv4_m6 versus srp_SANGER_5_FBgn0003507; m=1/13; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.654325; --yCTTATCw--- ; cor=; Ncor= a 0 0 0 0 0 0 17 0 0 9 0 0 0 c 0 0 7 14 0 0 0 0 17 0 0 0 0 g 0 0 3 2 0 0 0 0 0 1 0 0 0 t 0 0 6 0 17 17 0 17 0 7 0 0 0

GATAd_SANGER_5_FBgn0032223_shift2 (GATAd_SANGER_5_FBgn0032223)
; oligos_6nt_mkv4_m6 versus GATAd_SANGER_5_FBgn0032223; m=2/13; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.633004; --csTTATCA--- ; cor=; Ncor= a 0 0 1 1 1 0 23 0 0 22 0 0 0 c 0 0 12 14 0 0 0 1 23 0 0 0 0 g 0 0 5 6 0 0 0 0 0 1 0 0 0 t 0 0 3 1 22 23 0 22 0 0 0 0 0

So_SOLEXA_FBgn0003460_rc_shift5 (So_SOLEXA_FBgn0003460_rc)
; oligos_6nt_mkv4_m6 versus So_SOLEXA_FBgn0003460_rc; m=3/13; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.627456; -----TATCAyww ; cor=; Ncor= a 0 0 0 0 0 0 509 0 0 467 122 165 166 c 0 0 0 0 0 0 14 0 519 4 151 117 95 g 0 0 0 0 0 0 8 0 0 58 87 92 102 t 0 0 0 0 0 531 0 531 12 2 171 157 168

Optix_SOLEXA_FBgn0025360_rc_shift5 (Optix_SOLEXA_FBgn0025360_rc)
; oligos_6nt_mkv4_m6 versus Optix_SOLEXA_FBgn0025360_rc; m=4/13; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.624418; -----TATCAcww ; cor=; Ncor= a 0 0 0 0 0 0 564 0 0 497 116 151 143 c 0 0 0 0 0 17 0 0 564 0 216 119 126 g 0 0 0 0 0 43 0 0 0 67 93 111 91 t 0 0 0 0 0 504 0 564 0 0 139 183 204

Optix_Cell_FBgn0025360_rc_shift5 (Optix_Cell_FBgn0025360_rc)
; oligos_6nt_mkv4_m6 versus Optix_Cell_FBgn0025360_rc; m=5/13; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.607714; -----TATCAcww ; cor=; Ncor= a 0 0 0 0 0 0 27 0 0 22 3 7 9 c 0 0 0 0 0 1 0 0 27 0 16 3 2 g 0 0 0 0 0 0 0 0 0 5 4 4 4 t 0 0 0 0 0 26 0 27 0 0 4 13 12

Six4_SOLEXA_FBgn0027364_rc_shift5 (Six4_SOLEXA_FBgn0027364_rc)
; oligos_6nt_mkv4_m6 versus Six4_SOLEXA_FBgn0027364_rc; m=6/13; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.579365; -----TaTCAhww ; cor=; Ncor= a 0 0 0 0 0 0 383 0 38 599 194 203 181 c 0 0 0 0 0 0 126 0 556 0 167 83 116 g 0 0 0 0 0 40 128 0 0 38 84 91 93 t 0 0 0 0 0 597 0 637 43 0 192 260 247

GATAe_SANGER_5_FBgn0038391_rc_shift3 (GATAe_SANGER_5_FBgn0038391_rc)
; oligos_6nt_mkv4_m6 versus GATAe_SANGER_5_FBgn0038391_rc; m=7/13; ncol2=7; w=0; offset=2; strand=R; shift=3; score=0.572773; ---CTTATCw--- ; cor=; Ncor= a 0 0 0 0 0 0 19 0 0 9 0 0 0 c 0 0 0 15 0 0 0 0 19 0 0 0 0 g 0 0 0 4 0 0 0 0 0 2 0 0 0 t 0 0 0 0 19 19 0 19 0 8 0 0 0

pnr_SANGER_5_FBgn0003117_rc_shift4 (pnr_SANGER_5_FBgn0003117_rc)
; oligos_6nt_mkv4_m6 versus pnr_SANGER_5_FBgn0003117_rc; m=8/13; ncol2=7; w=0; offset=3; strand=R; shift=4; score=0.561174; ----TTATCwg-- ; cor=; Ncor= a 0 0 0 0 0 0 16 0 0 7 3 0 0 c 0 0 0 0 0 0 0 0 17 0 3 0 0 g 0 0 0 0 0 0 0 0 0 0 9 0 0 t 0 0 0 0 16 17 1 17 0 10 2 0 0

br_SOLEXA_10_FBgn0000210_rc_shift0 (br_SOLEXA_10_FBgn0000210_rc)
; oligos_6nt_mkv4_m6 versus br_SOLEXA_10_FBgn0000210_rc; m=9/13; ncol2=11; w=-1; offset=-1; strand=R; shift=0; score=0.541536; ytTCTAATCab-- ; cor=; Ncor= a 47 73 2 0 0 359 353 37 8 147 44 0 0 c 125 21 37 362 0 0 1 0 344 41 118 0 0 g 32 54 1 0 0 0 4 21 1 78 87 0 0 t 156 212 322 0 362 3 4 304 9 86 89 0 0

So_Cell_FBgn0003460_rc_shift5 (So_Cell_FBgn0003460_rc)
; oligos_6nt_mkv4_m6 versus So_Cell_FBgn0003460_rc; m=10/13; ncol2=7; w=0; offset=4; strand=R; shift=5; score=0.527048; -----TATCAyt- ; cor=; Ncor= a 0 0 0 0 0 0 26 0 0 26 3 6 0 c 0 0 0 0 0 0 1 0 27 1 10 5 0 g 0 0 0 0 0 0 0 0 0 0 1 4 0 t 0 0 0 0 0 27 0 27 0 0 13 12 0

exd_SOLEXA_2_FBgn0000611_rc_shift4 (exd_SOLEXA_2_FBgn0000611_rc)
; oligos_6nt_mkv4_m6 versus exd_SOLEXA_2_FBgn0000611_rc; m=11/13; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.474868; ----wyrTCAaa- ; cor=; Ncor= a 0 0 0 0 483 259 1228 0 0 2672 1314 1025 0 c 0 0 0 0 145 914 86 0 2672 0 598 458 0 g 0 0 0 0 91 14 1169 0 0 0 204 568 0 t 0 0 0 0 474 1470 189 2672 0 0 539 587 0

Six4_SOLEXA_2_FBgn0027364_rc_shift3 (Six4_SOLEXA_2_FBgn0027364_rc)
; oligos_6nt_mkv4_m6 versus Six4_SOLEXA_2_FBgn0027364_rc; m=12/13; ncol2=8; w=0; offset=2; strand=R; shift=3; score=0.474572; ---sgTaTCAy-- ; cor=; Ncor= a 0 0 0 136 239 0 1624 0 143 2272 633 0 0 c 0 0 0 210 58 0 644 0 2488 74 695 0 0 g 0 0 0 377 1021 89 257 0 0 204 413 0 0 t 0 0 0 83 209 2542 106 2631 0 52 824 0 0

br_SANGER_10_FBgn0000210_rc_shift2 (br_SANGER_10_FBgn0000210_rc)
; oligos_6nt_mkv4_m6 versus br_SANGER_10_FBgn0000210_rc; m=13/13; ncol2=7; w=0; offset=1; strand=R; shift=2; score=0.420056; --TCTAATC---- ; cor=; Ncor= a 0 0 0 0 0 12 12 0 0 0 0 0 0 c 0 0 0 11 0 0 0 0 11 0 0 0 0 g 0 0 0 1 0 0 0 0 0 0 0 0 0 t 0 0 12 0 12 0 0 12 1 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_6nt_mkv4_m6_shift1 (oligos_6nt_mkv4_m6)				; oligos_6nt_mkv4_m6; m=0 (reference); ncol1=12; shift=1; ncol=13; -yyCTTATCagym ; Alignment reference a 0 258 185 81 30 34 1157 9 27 667 140 266 331 c 0 411 359 1020 64 33 44 19 1173 127 207 383 328 g 0 231 277 65 39 16 8 37 9 266 679 226 283 t 0 339 418 73 1106 1156 30 1174 30 179 213 364 297
srp_SANGER_5_FBgn0003507_shift2 (srp_SANGER_5_FBgn0003507)				; oligos_6nt_mkv4_m6 versus srp_SANGER_5_FBgn0003507; m=1/13; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.654325; --yCTTATCw--- ; cor=; Ncor= a 0 0 0 0 0 0 17 0 0 9 0 0 0 c 0 0 7 14 0 0 0 0 17 0 0 0 0 g 0 0 3 2 0 0 0 0 0 1 0 0 0 t 0 0 6 0 17 17 0 17 0 7 0 0 0
GATAd_SANGER_5_FBgn0032223_shift2 (GATAd_SANGER_5_FBgn0032223)				; oligos_6nt_mkv4_m6 versus GATAd_SANGER_5_FBgn0032223; m=2/13; ncol2=8; w=0; offset=1; strand=D; shift=2; score=0.633004; --csTTATCA--- ; cor=; Ncor= a 0 0 1 1 1 0 23 0 0 22 0 0 0 c 0 0 12 14 0 0 0 1 23 0 0 0 0 g 0 0 5 6 0 0 0 0 0 1 0 0 0 t 0 0 3 1 22 23 0 22 0 0 0 0 0
So_SOLEXA_FBgn0003460_rc_shift5 (So_SOLEXA_FBgn0003460_rc)				; oligos_6nt_mkv4_m6 versus So_SOLEXA_FBgn0003460_rc; m=3/13; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.627456; -----TATCAyww ; cor=; Ncor= a 0 0 0 0 0 0 509 0 0 467 122 165 166 c 0 0 0 0 0 0 14 0 519 4 151 117 95 g 0 0 0 0 0 0 8 0 0 58 87 92 102 t 0 0 0 0 0 531 0 531 12 2 171 157 168
Optix_SOLEXA_FBgn0025360_rc_shift5 (Optix_SOLEXA_FBgn0025360_rc)				; oligos_6nt_mkv4_m6 versus Optix_SOLEXA_FBgn0025360_rc; m=4/13; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.624418; -----TATCAcww ; cor=; Ncor= a 0 0 0 0 0 0 564 0 0 497 116 151 143 c 0 0 0 0 0 17 0 0 564 0 216 119 126 g 0 0 0 0 0 43 0 0 0 67 93 111 91 t 0 0 0 0 0 504 0 564 0 0 139 183 204
Optix_Cell_FBgn0025360_rc_shift5 (Optix_Cell_FBgn0025360_rc)				; oligos_6nt_mkv4_m6 versus Optix_Cell_FBgn0025360_rc; m=5/13; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.607714; -----TATCAcww ; cor=; Ncor= a 0 0 0 0 0 0 27 0 0 22 3 7 9 c 0 0 0 0 0 1 0 0 27 0 16 3 2 g 0 0 0 0 0 0 0 0 0 5 4 4 4 t 0 0 0 0 0 26 0 27 0 0 4 13 12
Six4_SOLEXA_FBgn0027364_rc_shift5 (Six4_SOLEXA_FBgn0027364_rc)				; oligos_6nt_mkv4_m6 versus Six4_SOLEXA_FBgn0027364_rc; m=6/13; ncol2=8; w=0; offset=4; strand=R; shift=5; score=0.579365; -----TaTCAhww ; cor=; Ncor= a 0 0 0 0 0 0 383 0 38 599 194 203 181 c 0 0 0 0 0 0 126 0 556 0 167 83 116 g 0 0 0 0 0 40 128 0 0 38 84 91 93 t 0 0 0 0 0 597 0 637 43 0 192 260 247
GATAe_SANGER_5_FBgn0038391_rc_shift3 (GATAe_SANGER_5_FBgn0038391_rc)				; oligos_6nt_mkv4_m6 versus GATAe_SANGER_5_FBgn0038391_rc; m=7/13; ncol2=7; w=0; offset=2; strand=R; shift=3; score=0.572773; ---CTTATCw--- ; cor=; Ncor= a 0 0 0 0 0 0 19 0 0 9 0 0 0 c 0 0 0 15 0 0 0 0 19 0 0 0 0 g 0 0 0 4 0 0 0 0 0 2 0 0 0 t 0 0 0 0 19 19 0 19 0 8 0 0 0
pnr_SANGER_5_FBgn0003117_rc_shift4 (pnr_SANGER_5_FBgn0003117_rc)				; oligos_6nt_mkv4_m6 versus pnr_SANGER_5_FBgn0003117_rc; m=8/13; ncol2=7; w=0; offset=3; strand=R; shift=4; score=0.561174; ----TTATCwg-- ; cor=; Ncor= a 0 0 0 0 0 0 16 0 0 7 3 0 0 c 0 0 0 0 0 0 0 0 17 0 3 0 0 g 0 0 0 0 0 0 0 0 0 0 9 0 0 t 0 0 0 0 16 17 1 17 0 10 2 0 0
br_SOLEXA_10_FBgn0000210_rc_shift0 (br_SOLEXA_10_FBgn0000210_rc)				; oligos_6nt_mkv4_m6 versus br_SOLEXA_10_FBgn0000210_rc; m=9/13; ncol2=11; w=-1; offset=-1; strand=R; shift=0; score=0.541536; ytTCTAATCab-- ; cor=; Ncor= a 47 73 2 0 0 359 353 37 8 147 44 0 0 c 125 21 37 362 0 0 1 0 344 41 118 0 0 g 32 54 1 0 0 0 4 21 1 78 87 0 0 t 156 212 322 0 362 3 4 304 9 86 89 0 0
So_Cell_FBgn0003460_rc_shift5 (So_Cell_FBgn0003460_rc)				; oligos_6nt_mkv4_m6 versus So_Cell_FBgn0003460_rc; m=10/13; ncol2=7; w=0; offset=4; strand=R; shift=5; score=0.527048; -----TATCAyt- ; cor=; Ncor= a 0 0 0 0 0 0 26 0 0 26 3 6 0 c 0 0 0 0 0 0 1 0 27 1 10 5 0 g 0 0 0 0 0 0 0 0 0 0 1 4 0 t 0 0 0 0 0 27 0 27 0 0 13 12 0
exd_SOLEXA_2_FBgn0000611_rc_shift4 (exd_SOLEXA_2_FBgn0000611_rc)				; oligos_6nt_mkv4_m6 versus exd_SOLEXA_2_FBgn0000611_rc; m=11/13; ncol2=8; w=0; offset=3; strand=R; shift=4; score=0.474868; ----wyrTCAaa- ; cor=; Ncor= a 0 0 0 0 483 259 1228 0 0 2672 1314 1025 0 c 0 0 0 0 145 914 86 0 2672 0 598 458 0 g 0 0 0 0 91 14 1169 0 0 0 204 568 0 t 0 0 0 0 474 1470 189 2672 0 0 539 587 0
Six4_SOLEXA_2_FBgn0027364_rc_shift3 (Six4_SOLEXA_2_FBgn0027364_rc)				; oligos_6nt_mkv4_m6 versus Six4_SOLEXA_2_FBgn0027364_rc; m=12/13; ncol2=8; w=0; offset=2; strand=R; shift=3; score=0.474572; ---sgTaTCAy-- ; cor=; Ncor= a 0 0 0 136 239 0 1624 0 143 2272 633 0 0 c 0 0 0 210 58 0 644 0 2488 74 695 0 0 g 0 0 0 377 1021 89 257 0 0 204 413 0 0 t 0 0 0 83 209 2542 106 2631 0 52 824 0 0
br_SANGER_10_FBgn0000210_rc_shift2 (br_SANGER_10_FBgn0000210_rc)				; oligos_6nt_mkv4_m6 versus br_SANGER_10_FBgn0000210_rc; m=13/13; ncol2=7; w=0; offset=1; strand=R; shift=2; score=0.420056; --TCTAATC---- ; cor=; Ncor= a 0 0 0 0 0 12 12 0 0 0 0 0 0 c 0 0 0 11 0 0 0 0 11 0 0 0 0 g 0 0 0 1 0 0 0 0 0 0 0 0 0 t 0 0 12 0 12 0 0 12 1 0 0 0 0