; matrix-scan -v 1 -quick -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.111328_qJfLc3.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_2026-08-17.111328_Zgia6q.fasta -seq_format fasta -n score ; Quick counting mode ; Input files ; input $RSAT/public_html/tmp/www-data/2026/08/17/tmp_sequence_2026-08-17.111328_Zgia6q.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_2026-08-17.111328_qJfLc3.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 AT2G47730|GSTF8 limit START_END D -500 -1 . 0 0 0 0 AT1G08645|AT1G08645 limit START_END D -500 -1 . 0 0 0 0 AT5G60170|AT5G60170 limit START_END D -500 -1 . 0 0 0 0 AT5G53870|ENODL1 limit START_END D -500 -1 . 0 0 0 0 AT5G48280|AT5G48280 limit START_END D -500 -1 . 0 0 0 0 AT3G44665|AT3G44665 limit START_END D -500 -1 . 0 0 0 0 AT3G53120|VPS37-1 limit START_END D -500 -1 . 0 0 0 0 AT4G21980|APG8A limit START_END D -500 -1 . 0 0 0 0 AT3G06205|AT3G06205 limit START_END D -500 -1 . 0 0 0 0 AT2G31215|BHLH138 limit START_END D -500 -1 . 0 0 0 0 AT4G00720|ASK8 limit START_END D -500 -1 . 0 0 0 0 AT1G80555|AT1G80555 limit START_END D -500 -1 . 0 0 0 0 AT1G50390|AT1G50390 limit START_END D -500 -1 . 0 0 0 0 AT1G09463|AT1G09463 limit START_END D -500 -1 . 0 0 0 0 AT3G14250|AT3G14250 limit START_END D -500 -1 . 0 0 0 0 AT2G46760|GULLO6 limit START_END D -500 -1 . 0 0 0 0 AT5G59770|AT5G59770 limit START_END D -500 -1 . 0 0 0 0 AT4G04035|AT4G04035 limit START_END D -500 -1 . 0 0 0 0 AT5G54370|AT5G54370 limit START_END D -500 -1 . 0 0 0 0 AT2G38780|AT2G38780 limit START_END D -500 -1 . 0 0 0 0 AT1G63150|AT1G63150 limit START_END D -500 -1 . 0 0 0 0 AT1G24480|AT1G24480 limit START_END D -500 -1 . 0 0 0 0 AT5G06965|AT5G06965 limit START_END D -500 -1 . 0 0 0 0 AT2G47730|GSTF8 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -349 -342 CTTCACGC 5.6 3.5e-04 -7.958 3.456 AT2G47730|GSTF8 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -132 -125 TTACCCAC 5.0 7.4e-04 -7.209 3.131 AT1G08645|AT1G08645 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -293 -286 AGTACCGC 5.1 6.7e-04 -7.308 3.174 AT1G08645|AT1G08645 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -267 -260 TGTCTCGC 5.4 4.2e-04 -7.775 3.377 AT1G08645|AT1G08645 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -245 -238 GTTCCAGC 5.3 5.1e-04 -7.581 3.292 AT1G08645|AT1G08645 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -239 -232 ATGCTCGC 5.0 8.0e-04 -7.131 3.097 AT1G08645|AT1G08645 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -119 -112 TCTCCCTC 4.9 8.0e-04 -7.131 3.097 AT3G44665|AT3G44665 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -280 -273 TCTCCCGT 5.2 6.7e-04 -7.308 3.174 AT3G53120|VPS37-1 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -167 -160 ATCCACGC 4.8 9.5e-04 -6.959 3.022 AT2G31215|BHLH138 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -75 -68 TCTCCCTC 4.9 8.0e-04 -7.131 3.097 AT4G00720|ASK8 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -104 -97 CTTCCCTC 5.2 5.9e-04 -7.435 3.229 AT4G00720|ASK8 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -65 -58 GTGCCCGC 6.3 2.9e-04 -8.146 3.538 AT4G00720|ASK8 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -56 -49 TATTCCGC 5.4 4.2e-04 -7.775 3.377 AT1G80555|AT1G80555 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -133 -126 AAGCCCGC 5.4 4.2e-04 -7.775 3.377 AT1G50390|AT1G50390 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -259 -252 TTACCCTC 5.1 7.4e-04 -7.209 3.131 AT4G04035|AT4G04035 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -260 -253 ACTTCCGC 4.7 9.5e-04 -6.959 3.022 AT1G24480|AT1G24480 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -263 -256 CTTCCCAC 5.1 6.7e-04 -7.308 3.174 AT1G24480|AT1G24480 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -167 -160 TTACACGC 5.5 3.9e-04 -7.849 3.409 AT5G06965|AT5G06965 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -362 -355 TATCCCTC 5.2 5.9e-04 -7.435 3.229 AT5G06965|AT5G06965 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -135 -128 TTCCCTGC 4.8 8.8e-04 -7.036 3.056 AT2G47730|GSTF8 site 5015_E2Fb_Athamap_20091028_ R -349 -342 CTTCACGC 5.5 3.6e-04 -7.929 3.444 AT2G47730|GSTF8 site 5015_E2Fb_Athamap_20091028_ D -132 -125 TTACCCAC 4.9 6.9e-04 -7.279 3.161 AT1G08645|AT1G08645 site 5015_E2Fb_Athamap_20091028_ D -293 -286 AGTACCGC 4.7 7.9e-04 -7.143 3.102 AT1G08645|AT1G08645 site 5015_E2Fb_Athamap_20091028_ D -267 -260 TGTCTCGC 5.3 4.4e-04 -7.729 3.357 AT1G08645|AT1G08645 site 5015_E2Fb_Athamap_20091028_ R -261 -254 TTTACGGC 4.5 9.4e-04 -6.970 3.027 AT1G08645|AT1G08645 site 5015_E2Fb_Athamap_20091028_ D -245 -238 GTTCCAGC 5.2 5.8e-04 -7.452 3.237 AT1G08645|AT1G08645 site 5015_E2Fb_Athamap_20091028_ R -239 -232 ATGCTCGC 4.5 9.4e-04 -6.970 3.027 AT1G08645|AT1G08645 site 5015_E2Fb_Athamap_20091028_ D -119 -112 TCTCCCTC 4.8 7.5e-04 -7.195 3.125 AT3G44665|AT3G44665 site 5015_E2Fb_Athamap_20091028_ R -280 -273 TCTCCCGT 5.1 5.8e-04 -7.452 3.237 AT2G31215|BHLH138 site 5015_E2Fb_Athamap_20091028_ R -75 -68 TCTCCCTC 4.8 7.5e-04 -7.195 3.125 AT4G00720|ASK8 site 5015_E2Fb_Athamap_20091028_ R -104 -97 CTTCCCTC 5.0 6.5e-04 -7.339 3.187 AT4G00720|ASK8 site 5015_E2Fb_Athamap_20091028_ D -65 -58 GTGCCCGC 6.2 2.8e-04 -8.181 3.553 AT4G00720|ASK8 site 5015_E2Fb_Athamap_20091028_ D -56 -49 TATTCCGC 5.4 3.9e-04 -7.849 3.409 AT1G80555|AT1G80555 site 5015_E2Fb_Athamap_20091028_ D -243 -236 TTCCCCTC 4.6 8.2e-04 -7.106 3.086 AT1G80555|AT1G80555 site 5015_E2Fb_Athamap_20091028_ D -133 -126 AAGCCCGC 5.0 6.5e-04 -7.339 3.187 AT1G50390|AT1G50390 site 5015_E2Fb_Athamap_20091028_ D -259 -252 TTACCCTC 5.0 6.5e-04 -7.339 3.187 AT2G46760|GULLO6 site 5015_E2Fb_Athamap_20091028_ D -62 -55 TTTTACGC 4.5 9.4e-04 -6.970 3.027 AT1G24480|AT1G24480 site 5015_E2Fb_Athamap_20091028_ D -263 -256 CTTCCCAC 5.0 6.9e-04 -7.279 3.161 AT1G24480|AT1G24480 site 5015_E2Fb_Athamap_20091028_ D -167 -160 TTACACGC 5.5 3.9e-04 -7.849 3.409 AT5G06965|AT5G06965 site 5015_E2Fb_Athamap_20091028_ R -362 -355 TATCCCTC 5.1 5.8e-04 -7.452 3.237 AT5G06965|AT5G06965 site 5015_E2Fb_Athamap_20091028_ R -135 -128 TTCCCTGC 4.7 7.9e-04 -7.143 3.102 AT2G47730|GSTF8 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -482 -472 TACGCTCCCAA 7.0 1.2e-04 -9.028 3.921 AT2G47730|GSTF8 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -473 -463 TTCGCTCCTTA 5.2 5.0e-04 -7.601 3.301 AT2G47730|GSTF8 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -339 -329 AACGCGCTCTT 7.3 9.0e-05 -9.316 4.046 AT1G08645|AT1G08645 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -266 -256 GTCTCGCCGTA 4.7 7.7e-04 -7.169 3.114 AT5G53870|ENODL1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -237 -227 AACCAGCCCAT 6.3 2.3e-04 -8.377 3.638 AT4G21980|APG8A site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -270 -260 TTCGTGCCAAA 7.3 9.0e-05 -9.316 4.046 AT4G21980|APG8A site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -256 -246 TTCGTGCGGAA 4.5 9.8e-04 -6.928 3.009 AT4G21980|APG8A site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -208 -198 AACGAGCCAAT 5.0 6.0e-04 -7.419 3.222 AT4G00720|ASK8 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -64 -54 TGCCCGCATAT 4.6 8.3e-04 -7.094 3.081 AT1G09463|AT1G09463 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -448 -438 TTCTCTCCATT 4.6 8.3e-04 -7.094 3.081 AT1G09463|AT1G09463 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -387 -377 TACGAGCCATA 6.8 1.4e-04 -8.874 3.854 AT1G09463|AT1G09463 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -325 -315 TTTCCACCAAA 4.6 8.3e-04 -7.094 3.081 AT5G59770|AT5G59770 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -387 -377 TTACTGCCAAT 5.1 6.0e-04 -7.419 3.222 AT4G04035|AT4G04035 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -259 -249 CTTCCGCCATA 6.2 2.3e-04 -8.377 3.638 AT4G04035|AT4G04035 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -40 -30 TACCCTCTCTA 6.5 1.9e-04 -8.568 3.721 AT2G38780|AT2G38780 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -413 -403 TAACCGCCTTT 4.8 7.2e-04 -7.236 3.143 AT2G38780|AT2G38780 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -353 -343 TATCGGCCCAA 4.6 8.3e-04 -7.094 3.081 AT2G38780|AT2G38780 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -342 -332 TTCTAGCCCAA 5.9 3.1e-04 -8.079 3.509 AT1G24480|AT1G24480 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -166 -156 TACACGCACTT 5.1 6.0e-04 -7.419 3.222 ; ; 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 23 ; Sum of sequence lengths 11500 ; 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_ 21 0 ; 3 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ 19 0 ; TOTAL 60 0 ; Host name rsat ; Job started 2026-08-17.111328 ; Job done 2026-08-17.111329 ; Seconds 0.48 ; user 0.48 ; system 0.05 ; cuser 0.76 ; csystem 0.1