; matrix-scan -v 1 -quick -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.163402_EZ15MJ.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_2026-08-17.163402_cfbcvE.fasta -seq_format fasta -n score ; Quick counting mode ; Input files ; input $RSAT/public_html/tmp/www-data/2026/08/17/tmp_sequence_2026-08-17.163402_cfbcvE.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_2026-08-17.163402_EZ15MJ.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 AT1G46696 limit START_END D -500 -1 . 0 0 0 0 OCT5 limit START_END D -500 -1 . 0 0 0 0 AT2G03820 limit START_END D -500 -1 . 0 0 0 0 AT5G24510 limit START_END D -500 -1 . 0 0 0 0 BAP1 limit START_END D -500 -1 . 0 0 0 0 CLC-G limit START_END D -500 -1 . 0 0 0 0 AT4G03135 limit START_END D -500 -1 . 0 0 0 0 AT2G35850 limit START_END D -500 -1 . 0 0 0 0 AT4G08190 limit START_END D -500 -1 . 0 0 0 0 GULLO1 limit START_END D -500 -1 . 0 0 0 0 AT3G04345 limit START_END D -500 -1 . 0 0 0 0 AT2G32750 limit START_END D -500 -1 . 0 0 0 0 AT1G79060 limit START_END D -500 -1 . 0 0 0 0 AT4G27400 limit START_END D -500 -1 . 0 0 0 0 CLSY4 limit START_END D -500 -1 . 0 0 0 0 AT5G63170 limit START_END D -500 -1 . 0 0 0 0 SMR4 limit START_END D -500 -1 . 0 0 0 0 ALDH2B4 limit START_END D -500 -1 . 0 0 0 0 AT1G36272 limit START_END D -500 -1 . 0 0 0 0 AT3G08345 limit START_END D -500 -1 . 0 0 0 0 AT5G42570 limit START_END D -500 -1 . 0 0 0 0 WDL1 limit START_END D -500 -1 . 0 0 0 0 COB limit START_END D -500 -1 . 0 0 0 0 AT4G31210 limit START_END D -500 -1 . 0 0 0 0 AT2G01580 limit START_END D -500 -1 . 0 0 0 0 AHL13 limit START_END D -500 -1 . 0 0 0 0 AT1G61065 limit START_END D -500 -1 . 0 0 0 0 CAF1 limit START_END D -500 -1 . 0 0 0 0 AT1G46696 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -498 -491 TTTCCCGC 10.2 4.7e-06 -12.268 5.328 OCT5 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -410 -403 TCTACCGC 5.6 3.5e-04 -7.958 3.456 OCT5 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -165 -158 TCTACCGC 5.6 3.5e-04 -7.958 3.456 AT2G03820 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -358 -351 ATTGCCGC 7.0 1.6e-04 -8.740 3.796 BAP1 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -399 -392 AATCTCGC 4.8 8.8e-04 -7.036 3.056 AT4G03135 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -113 -106 TCTCCCGC 8.2 1.9e-05 -10.871 4.721 AT2G35850 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -196 -189 TTCCACGC 5.1 6.7e-04 -7.308 3.174 AT4G08190 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -162 -155 TTTCCCTC 6.9 1.9e-04 -8.568 3.721 AT1G79060 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -444 -437 TTTCCCGC 10.2 4.7e-06 -12.268 5.328 AT4G27400 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -485 -478 ATCCCCGC 7.6 4.7e-05 -9.965 4.328 AT4G27400 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -428 -421 ATCCACGC 4.8 9.5e-04 -6.959 3.022 CLSY4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -321 -314 TTACCAGC 5.2 5.9e-04 -7.435 3.229 CLSY4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -152 -145 ATTCCCAC 6.5 2.7e-04 -8.217 3.569 CLSY4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -12 -5 GTTACCGC 5.8 3.1e-04 -8.079 3.509 AT5G63170 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -195 -188 TTTATCGC 4.7 9.5e-04 -6.959 3.022 SMR4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -367 -360 TTTCCCGC 10.2 4.7e-06 -12.268 5.328 SMR4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -338 -331 GTTCGCGC 6.0 3.1e-04 -8.079 3.509 SMR4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -227 -220 TCTCACGC 5.4 4.2e-04 -7.775 3.377 SMR4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -60 -53 TCTCCCTC 4.9 8.0e-04 -7.131 3.097 ALDH2B4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -318 -311 ACTACCGC 5.1 6.7e-04 -7.308 3.174 ALDH2B4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -12 -5 TTTCCCGA 7.1 1.4e-04 -8.874 3.854 AT4G31210 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -307 -300 TGTCTCGC 5.4 4.2e-04 -7.775 3.377 AT4G31210 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -65 -58 TTACCCGG 5.1 6.7e-04 -7.308 3.174 AT4G31210 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -30 -23 ATACCCGA 4.9 8.8e-04 -7.036 3.056 AT1G61065 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -148 -141 TATCCCGA 5.3 5.1e-04 -7.581 3.292 CAF1 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -395 -388 TTTATCGC 4.7 9.5e-04 -6.959 3.022 AT1G46696 site 5015_E2Fb_Athamap_20091028_ D -498 -491 TTTCCCGC 10.7 4.7e-06 -12.268 5.328 AT1G46696 site 5015_E2Fb_Athamap_20091028_ D -63 -56 TTTCGCGA 4.5 9.4e-04 -6.970 3.027 AT1G46696 site 5015_E2Fb_Athamap_20091028_ R -61 -54 TTTCGCGA 4.5 9.4e-04 -6.970 3.027 OCT5 site 5015_E2Fb_Athamap_20091028_ R -410 -403 TCTACCGC 5.5 3.6e-04 -7.929 3.444 OCT5 site 5015_E2Fb_Athamap_20091028_ R -165 -158 TCTACCGC 5.5 3.6e-04 -7.929 3.444 AT2G03820 site 5015_E2Fb_Athamap_20091028_ R -358 -351 ATTGCCGC 6.8 1.9e-04 -8.568 3.721 AT4G03135 site 5015_E2Fb_Athamap_20091028_ D -449 -442 TTCCCCAC 4.5 9.4e-04 -6.970 3.027 AT4G03135 site 5015_E2Fb_Athamap_20091028_ R -113 -106 TCTCCCGC 8.4 2.1e-05 -10.771 4.678 AT2G35850 site 5015_E2Fb_Athamap_20091028_ D -196 -189 TTCCACGC 5.1 6.5e-04 -7.339 3.187 AT4G08190 site 5015_E2Fb_Athamap_20091028_ R -162 -155 TTTCCCTC 7.1 1.7e-04 -8.680 3.770 AT2G32750 site 5015_E2Fb_Athamap_20091028_ D -370 -363 TTCCCCTC 4.6 8.2e-04 -7.106 3.086 AT1G79060 site 5015_E2Fb_Athamap_20091028_ D -444 -437 TTTCCCGC 10.7 4.7e-06 -12.268 5.328 AT4G27400 site 5015_E2Fb_Athamap_20091028_ R -485 -478 ATCCCCGC 7.4 9.3e-05 -9.283 4.032 CLSY4 site 5015_E2Fb_Athamap_20091028_ D -321 -314 TTACCAGC 5.1 5.8e-04 -7.452 3.237 CLSY4 site 5015_E2Fb_Athamap_20091028_ D -152 -145 ATTCCCAC 6.3 2.7e-04 -8.217 3.569 CLSY4 site 5015_E2Fb_Athamap_20091028_ D -12 -5 GTTACCGC 5.7 3.1e-04 -8.079 3.509 AT5G63170 site 5015_E2Fb_Athamap_20091028_ R -195 -188 TTTATCGC 4.6 8.2e-04 -7.106 3.086 SMR4 site 5015_E2Fb_Athamap_20091028_ D -367 -360 TTTCCCGC 10.7 4.7e-06 -12.268 5.328 SMR4 site 5015_E2Fb_Athamap_20091028_ D -338 -331 GTTCGCGC 5.8 3.1e-04 -8.079 3.509 SMR4 site 5015_E2Fb_Athamap_20091028_ R -227 -220 TCTCACGC 5.3 4.4e-04 -7.729 3.357 SMR4 site 5015_E2Fb_Athamap_20091028_ D -60 -53 TCTCCCTC 4.8 7.5e-04 -7.195 3.125 ALDH2B4 site 5015_E2Fb_Athamap_20091028_ D -318 -311 ACTACCGC 4.7 7.9e-04 -7.143 3.102 ALDH2B4 site 5015_E2Fb_Athamap_20091028_ D -12 -5 TTTCCCGA 7.3 1.3e-04 -8.948 3.886 AT4G31210 site 5015_E2Fb_Athamap_20091028_ R -307 -300 TGTCTCGC 5.3 4.4e-04 -7.729 3.357 AT4G31210 site 5015_E2Fb_Athamap_20091028_ R -65 -58 TTACCCGG 5.1 6.5e-04 -7.339 3.187 AT1G61065 site 5015_E2Fb_Athamap_20091028_ D -148 -141 TATCCCGA 5.3 4.4e-04 -7.729 3.357 CAF1 site 5015_E2Fb_Athamap_20091028_ R -395 -388 TTTATCGC 4.6 8.2e-04 -7.106 3.086 AT1G46696 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -497 -487 TTCCCGCTCAT 10.8 2.8e-06 -12.786 5.553 AT1G46696 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -300 -290 TACCGGCCTAA 5.8 3.1e-04 -8.079 3.509 AT1G46696 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -63 -53 TTTTCGCGAAA 4.5 9.1e-04 -7.002 3.041 AT1G46696 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -62 -52 TTCGCGAAAAA 4.5 9.1e-04 -7.002 3.041 OCT5 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -255 -245 ATCTCGCCGAT 5.9 2.9e-04 -8.146 3.538 AT2G03820 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -362 -352 TTGCCGCCGAT 6.5 1.8e-04 -8.623 3.745 BAP1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -403 -393 ATCTCGCGAAT 7.2 1.1e-04 -9.115 3.959 BAP1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -402 -392 TTCGCGAGATT 6.3 2.1e-04 -8.468 3.678 AT4G03135 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -117 -107 CTCCCGCCAAT 9.4 8.7e-06 -11.652 5.060 AT2G35850 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -195 -185 TCCACGCCATT 5.8 3.1e-04 -8.079 3.509 GULLO1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -439 -429 TATGCGCCTTA 4.5 9.1e-04 -7.002 3.041 AT2G32750 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -447 -437 TTACCGTCCAT 5.6 3.6e-04 -7.929 3.444 AT2G32750 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -369 -359 TCCCCTCTAAA 4.4 9.8e-04 -6.928 3.009 AT2G32750 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -41 -31 AAAGCGCCATT 4.6 8.3e-04 -7.094 3.081 AT1G79060 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -443 -433 TTCCCGCTTAT 8.3 3.1e-05 -10.382 4.509 AT4G27400 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -489 -479 TCCCCGCGATG 6.4 1.9e-04 -8.568 3.721 AT4G27400 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -313 -303 TACGCGTCAAA 6.9 1.3e-04 -8.948 3.886 CLSY4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -151 -141 TTCCCACCAAT 8.0 4.8e-05 -9.944 4.319 CLSY4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -11 -1 TTACCGCCAAA 8.8 1.7e-05 -10.982 4.770 AT5G63170 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -199 -189 TTATCGCTCAT 4.5 9.1e-04 -7.002 3.041 SMR4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -366 -356 TTCCCGCCCAA 12.3 8.8e-08 -16.246 7.056 SMR4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -349 -339 TTGCTGCGCAA 4.8 7.2e-04 -7.236 3.143 SMR4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -337 -327 TTCGCGCCGTC 6.8 1.4e-04 -8.874 3.854 SMR4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -59 -49 CTCCCTCCCAA 6.2 2.5e-04 -8.294 3.602 ALDH2B4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -298 -288 TTCACACCATA 5.2 5.0e-04 -7.601 3.301 AT3G08345 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -317 -307 TTCCCAACAAA 4.6 8.3e-04 -7.094 3.081 AT3G08345 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -283 -273 AACGAGCCAAA 5.1 5.4e-04 -7.524 3.268 AT3G08345 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -216 -206 GACCGGCCAAA 4.9 6.5e-04 -7.339 3.187 WDL1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -87 -77 AAAGCGCCAAT 4.9 6.5e-04 -7.339 3.187 AT4G31210 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -69 -59 TACCCGGTCAA 6.4 1.9e-04 -8.568 3.721 AT4G31210 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -57 -47 GATCCGCCAAA 5.0 6.0e-04 -7.419 3.222 AT2G01580 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -226 -216 TTTCCGTCAAA 5.0 6.5e-04 -7.339 3.187 AT1G61065 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -147 -137 ATCCCGATATT 5.7 3.3e-04 -8.016 3.481 CAF1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -282 -272 TACGAGCCCAA 7.0 1.2e-04 -9.028 3.921 CAF1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -138 -128 TTCCTCCGCTA 4.7 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 28 ; Sum of sequence lengths 14000 ; N residues 0 ; Matches per matrix ; matrix name matches scored ; 1 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ 26 0 ; 2 5015_E2Fb_Athamap_20091028_ 27 0 ; 3 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ 35 0 ; TOTAL 88 0 ; Host name rsat ; Job started 2026-08-17.163402 ; Job done 2026-08-17.163403 ; Seconds 0.47 ; user 0.47 ; system 0.02 ; cuser 0.72 ; csystem 0.12