; matrix-scan -v 1 -quick -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.165658_iSzrM1.matrix -pseudo 1 -decimals 1 -2str -origin end -bgfile $RSAT/public_html/data/genomes/Arabidopsis_thaliana.TAIR10.60/oligo-frequencies/2nt_upstream-noorf_Arabidopsis_thaliana.TAIR10.60-ovlp-1str.freq -bg_pseudo 0.01 -return limits -return pval -uth pval 0.001 -i $RSAT/public_html/tmp/www-data/2026/08/17/tmp_sequence_2026-08-17.165658_drxwKb.fasta -seq_format fasta -n score ; Quick counting mode ; Input files ; input $RSAT/public_html/tmp/www-data/2026/08/17/tmp_sequence_2026-08-17.165658_drxwKb.fasta ; bg $RSAT/public_html/data/genomes/Arabidopsis_thaliana.TAIR10.60/oligo-frequencies/2nt_upstream-noorf_Arabidopsis_thaliana.TAIR10.60-ovlp-1str.freq ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.165658_iSzrM1.matrix ; Sequence format fasta ; Pseudo counts 1 ; Background model ; Method file ; Markov order 1 ; Strand sensitive ; Background pseudo-frequency 0.01 ; Residue probabilities ; a 0.34589 ; c 0.15671 ; g 0.15366 ; t 0.34374 ; Thresholds lower upper ; pval NA 0.001 ; Output columns ; 1 seq_id ; 2 ft_type ; 3 ft_name ; 4 strand ; 5 start ; 6 end ; 7 sequence ; 8 weight #seq_id ft_type ft_name strand start end sequence weight Pval ln_Pval sig AT1G01830|AT1G01830 limit START_END D -500 -1 . 0 0 0 0 AT1G21420|AT1G21420 limit START_END D -500 -1 . 0 0 0 0 AT1G49820|MTK limit START_END D -500 -1 . 0 0 0 0 AT5G24050|AT5G24050 limit START_END D -500 -1 . 0 0 0 0 AT3G43280|AT3G43280 limit START_END D -500 -1 . 0 0 0 0 AT3G23000|CIPK7 limit START_END D -500 -1 . 0 0 0 0 AT5G47480|MAG5 limit START_END D -500 -1 . 0 0 0 0 AT5G64580|FTSHI4 limit START_END D -500 -1 . 0 0 0 0 AT5G46650|ATL30 limit START_END D -500 -1 . 0 0 0 0 AT2G05785|AT2G05785 limit START_END D -500 -1 . 0 0 0 0 AT2G38970|AT2G38970 limit START_END D -500 -1 . 0 0 0 0 ATMG00620|ORF139B limit START_END D -500 -1 . 0 0 0 0 AT2G47750|GH3.9 limit START_END D -500 -1 . 0 0 0 0 AT3G62790|AT3G62790 limit START_END D -500 -1 . 0 0 0 0 AT5G54865|AT5G54865 limit START_END D -500 -1 . 0 0 0 0 AT2G17110|AT2G17110 limit START_END D -500 -1 . 0 0 0 0 AT2G09740|AT2G09740 limit START_END D -500 -1 . 0 0 0 0 AT5G64670|AT5G64670 limit START_END D -500 -1 . 0 0 0 0 AT1G69310|WRKY57 limit START_END D -500 -1 . 0 0 0 0 AT5G25350|EBF2 limit START_END D -500 -1 . 0 0 0 0 AT4G33230|PME45 limit START_END D -500 -1 . 0 0 0 0 AT4G07390|AT4G07390 limit START_END D -500 -1 . 0 0 0 0 AT4G01593|AT4G01593 limit START_END D -500 -1 . 0 0 0 0 AT5G59616|AT5G59616 limit START_END D -500 -1 . 0 0 0 0 AT1G01830|AT1G01830 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -300 -293 TTACCGGC 5.3 5.1e-04 -7.581 3.292 AT1G21420|AT1G21420 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -384 -377 TTGCCCTC 4.8 8.8e-04 -7.036 3.056 AT1G49820|MTK site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -19 -12 AATCACGC 4.8 9.5e-04 -6.959 3.022 AT3G43280|AT3G43280 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -431 -424 TGGCCCGC 5.8 3.1e-04 -8.079 3.509 AT3G43280|AT3G43280 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -227 -220 TTGACCGC 5.1 6.7e-04 -7.308 3.174 ATMG00620|ORF139B site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -437 -430 CTTTCCGC 5.4 4.2e-04 -7.775 3.377 ATMG00620|ORF139B site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -293 -286 ATACCCGT 4.9 8.0e-04 -7.131 3.097 ATMG00620|ORF139B site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -176 -169 GTTCCCTC 5.2 6.7e-04 -7.308 3.174 AT3G62790|AT3G62790 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -134 -127 ATTCCTGC 6.7 2.5e-04 -8.294 3.602 AT3G62790|AT3G62790 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -113 -106 TTACCCGT 5.3 5.1e-04 -7.581 3.292 AT5G54865|AT5G54865 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -70 -63 TTTTCCGC 7.2 1.0e-04 -9.210 4.000 AT2G17110|AT2G17110 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -188 -181 TTCCCTGC 4.8 8.8e-04 -7.036 3.056 AT2G17110|AT2G17110 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -21 -14 TTCCTCGC 5.2 5.9e-04 -7.435 3.229 AT2G09740|AT2G09740 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -493 -486 TATCACGC 5.6 3.5e-04 -7.958 3.456 AT2G09740|AT2G09740 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -402 -395 CTTCCCAC 5.1 6.7e-04 -7.308 3.174 AT2G09740|AT2G09740 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -155 -148 ATGCTCGC 5.0 8.0e-04 -7.131 3.097 AT5G64670|AT5G64670 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -129 -122 TTTTCCGC 7.2 1.0e-04 -9.210 4.000 AT1G69310|WRKY57 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -356 -349 ATCCTCGC 4.8 8.8e-04 -7.036 3.056 AT4G33230|PME45 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -63 -56 TTTCACGC 7.4 6.6e-05 -9.626 4.180 AT4G01593|AT4G01593 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -498 -491 ATCGCCGC 5.1 6.7e-04 -7.308 3.174 AT1G01830|AT1G01830 site 5015_E2Fb_Athamap_20091028_ R -300 -293 TTACCGGC 5.3 5.1e-04 -7.581 3.292 AT1G21420|AT1G21420 site 5015_E2Fb_Athamap_20091028_ R -384 -377 TTGCCCTC 4.7 7.9e-04 -7.143 3.102 AT3G43280|AT3G43280 site 5015_E2Fb_Athamap_20091028_ D -431 -424 TGGCCCGC 5.8 3.1e-04 -8.079 3.509 AT3G43280|AT3G43280 site 5015_E2Fb_Athamap_20091028_ D -227 -220 TTGACCGC 5.1 6.5e-04 -7.339 3.187 ATMG00620|ORF139B site 5015_E2Fb_Athamap_20091028_ D -437 -430 CTTTCCGC 5.3 4.4e-04 -7.729 3.357 ATMG00620|ORF139B site 5015_E2Fb_Athamap_20091028_ D -293 -286 ATACCCGT 4.5 9.4e-04 -6.970 3.027 ATMG00620|ORF139B site 5015_E2Fb_Athamap_20091028_ D -176 -169 GTTCCCTC 5.0 6.5e-04 -7.339 3.187 AT3G62790|AT3G62790 site 5015_E2Fb_Athamap_20091028_ D -134 -127 ATTCCTGC 6.6 2.5e-04 -8.294 3.602 AT3G62790|AT3G62790 site 5015_E2Fb_Athamap_20091028_ R -113 -106 TTACCCGT 5.2 5.1e-04 -7.581 3.292 AT5G54865|AT5G54865 site 5015_E2Fb_Athamap_20091028_ R -70 -63 TTTTCCGC 7.4 9.3e-05 -9.283 4.032 AT2G17110|AT2G17110 site 5015_E2Fb_Athamap_20091028_ D -188 -181 TTCCCTGC 4.7 7.9e-04 -7.143 3.102 AT2G17110|AT2G17110 site 5015_E2Fb_Athamap_20091028_ D -21 -14 TTCCTCGC 5.1 5.8e-04 -7.452 3.237 AT2G09740|AT2G09740 site 5015_E2Fb_Athamap_20091028_ D -493 -486 TATCACGC 5.6 3.3e-04 -8.016 3.481 AT2G09740|AT2G09740 site 5015_E2Fb_Athamap_20091028_ D -402 -395 CTTCCCAC 5.0 6.9e-04 -7.279 3.161 AT2G09740|AT2G09740 site 5015_E2Fb_Athamap_20091028_ R -155 -148 ATGCTCGC 4.5 9.4e-04 -6.970 3.027 AT5G64670|AT5G64670 site 5015_E2Fb_Athamap_20091028_ R -129 -122 TTTTCCGC 7.4 9.3e-05 -9.283 4.032 AT4G33230|PME45 site 5015_E2Fb_Athamap_20091028_ R -63 -56 TTTCACGC 7.6 5.8e-05 -9.755 4.237 AT4G01593|AT4G01593 site 5015_E2Fb_Athamap_20091028_ D -498 -491 ATCGCCGC 4.7 8.2e-04 -7.106 3.086 AT4G01593|AT4G01593 site 5015_E2Fb_Athamap_20091028_ D -9 -2 TTTCGCGA 4.5 9.4e-04 -6.970 3.027 AT1G01830|AT1G01830 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -304 -294 TACCGGCCCAT 7.9 4.8e-05 -9.944 4.319 AT3G43280|AT3G43280 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -431 -421 TTCGCGGGCCA 4.8 7.2e-04 -7.236 3.143 AT3G43280|AT3G43280 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -430 -420 GGCCCGCGAAT 6.2 2.3e-04 -8.377 3.638 AT3G43280|AT3G43280 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -252 -242 ATCCCACCAAA 7.1 1.1e-04 -9.115 3.959 AT3G43280|AT3G43280 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -226 -216 TGACCGCCCAA 6.5 1.9e-04 -8.568 3.721 AT5G64580|FTSHI4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -71 -61 AACGCGCCGTT 6.4 1.9e-04 -8.568 3.721 AT2G05785|AT2G05785 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -124 -114 GTTGCGCCCAA 5.3 4.6e-04 -7.684 3.337 ATMG00620|ORF139B site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -347 -337 AACGCACCCTA 5.5 3.9e-04 -7.849 3.409 ATMG00620|ORF139B site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -331 -321 TTCCTGACAAA 4.9 7.2e-04 -7.236 3.143 ATMG00620|ORF139B site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -175 -165 TTCCCTCCGTA 6.3 2.1e-04 -8.468 3.678 ATMG00620|ORF139B site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -73 -63 TGCGCGCCTTT 6.0 2.9e-04 -8.146 3.538 AT3G62790|AT3G62790 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -133 -123 TTCCTGCTTAA 4.9 7.2e-04 -7.236 3.143 AT2G09740|AT2G09740 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -492 -482 ATCACGCTCTC 4.4 9.8e-04 -6.928 3.009 AT2G09740|AT2G09740 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -222 -212 ATCGCGCTCAT 9.0 1.3e-05 -11.251 4.886 AT2G09740|AT2G09740 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -159 -149 TGCTCGCTCTT 4.9 6.5e-04 -7.339 3.187 AT5G64670|AT5G64670 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -444 -434 AACGCGTCAAA 5.4 4.2e-04 -7.775 3.377 AT5G64670|AT5G64670 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -350 -340 CTCTCGCGATT 5.4 4.2e-04 -7.775 3.377 AT5G64670|AT5G64670 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -302 -292 CTCTCGCTATA 5.5 3.9e-04 -7.849 3.409 AT4G01593|AT4G01593 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -497 -487 TCGCCGCCATA 6.6 1.6e-04 -8.740 3.796 AT4G01593|AT4G01593 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -91 -81 AACCCACCATA 6.0 2.7e-04 -8.217 3.569 AT5G59616|AT5G59616 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -63 -53 TTTCCACCAAA 4.6 8.3e-04 -7.094 3.081 ; ; Matrices ; matrix name ncol nrow pseudo Wmin Wmax Wrange ; 1 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ 8 4 0 -11.100 10.500 21.600 a:0.346 c:0.157 g:0.154 t:0.344 ; 2 5015_E2Fb_Athamap_20091028_ 8 4 0 -12.900 10.900 23.800 a:0.346 c:0.157 g:0.154 t:0.344 ; 3 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ 11 4 0 -19.800 12.800 32.600 a:0.346 c:0.157 g:0.154 t:0.344 ; Number of sequences scanned 24 ; Sum of sequence lengths 12000 ; N residues 0 ; Matches per matrix ; matrix name matches scored ; 1 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ 20 0 ; 2 5015_E2Fb_Athamap_20091028_ 19 0 ; 3 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ 21 0 ; TOTAL 60 0 ; Host name rsat ; Job started 2026-08-17.165658 ; Job done 2026-08-17.165659 ; Seconds 0.48 ; user 0.48 ; system 0.05 ; cuser 0.84 ; csystem 0.09