; matrix-scan -v 1 -quick -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.115328_rPOCP9.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_2026-08-17.115328_cZ6sfa.fasta -seq_format fasta -n score ; Quick counting mode ; Input files ; bg $RSAT/public_html/data/genomes/Arabidopsis_thaliana.TAIR10.60/oligo-frequencies/2nt_upstream-noorf_Arabidopsis_thaliana.TAIR10.60-ovlp-1str.freq ; input $RSAT/public_html/tmp/www-data/2026/08/17/tmp_sequence_2026-08-17.115328_cZ6sfa.fasta ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.115328_rPOCP9.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 AT3G01645 limit START_END D -500 -1 . 0 0 0 0 VPS35A limit START_END D -500 -1 . 0 0 0 0 AT4G05090 limit START_END D -500 -1 . 0 0 0 0 BGLU4 limit START_END D -500 -1 . 0 0 0 0 AT3G26720 limit START_END D -500 -1 . 0 0 0 0 AT4G06795 limit START_END D -500 -1 . 0 0 0 0 AT1G07417 limit START_END D -500 -1 . 0 0 0 0 PDX11 limit START_END D -500 -1 . 0 0 0 0 AT5G61510 limit START_END D -500 -1 . 0 0 0 0 ABCA12 limit START_END D -500 -1 . 0 0 0 0 AT4G28775 limit START_END D -500 -1 . 0 0 0 0 AT5G14260 limit START_END D -500 -1 . 0 0 0 0 AT3G11760 limit START_END D -500 -1 . 0 0 0 0 EMB2752 limit START_END D -500 -1 . 0 0 0 0 AT5G00850 limit START_END D -500 -1 . 0 0 0 0 AT5G35732 limit START_END D -500 -1 . 0 0 0 0 AT2G12290 limit START_END D -500 -1 . 0 0 0 0 TBL14 limit START_END D -500 -1 . 0 0 0 0 AT2G15420 limit START_END D -500 -1 . 0 0 0 0 AT1G30020 limit START_END D -500 -1 . 0 0 0 0 AT1G57020 limit START_END D -500 -1 . 0 0 0 0 AT5G38378 limit START_END D -500 -1 . 0 0 0 0 AT1G77810 limit START_END D -500 -1 . 0 0 0 0 NERD limit START_END D -500 -1 . 0 0 0 0 VPS35A site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -107 -100 TTAACCGC 5.3 5.1e-04 -7.581 3.292 VPS35A site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -17 -10 TTCCTCGC 5.2 5.9e-04 -7.435 3.229 BGLU4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -239 -232 ATAGCCGC 5.2 5.9e-04 -7.435 3.229 BGLU4 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -52 -45 GTACCCGC 6.6 2.6e-04 -8.255 3.585 AT1G07417 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -313 -306 ATTCCCTC 6.6 2.6e-04 -8.255 3.585 AT1G07417 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -142 -135 AATCTCGC 4.8 8.8e-04 -7.036 3.056 AT5G61510 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -473 -466 TCTCCGGC 5.2 5.9e-04 -7.435 3.229 AT5G61510 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -392 -385 TATCACGC 5.6 3.5e-04 -7.958 3.456 ABCA12 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -376 -369 TGTTCCGC 5.1 6.7e-04 -7.308 3.174 ABCA12 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -351 -344 CTTCCCGA 5.3 5.1e-04 -7.581 3.292 ABCA12 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -316 -309 CTTGCCGC 5.6 3.5e-04 -7.958 3.456 ABCA12 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -205 -198 GTTCCCAC 5.1 6.7e-04 -7.308 3.174 ABCA12 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -145 -138 TATCCAGC 5.3 5.1e-04 -7.581 3.292 AT5G14260 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -137 -130 ATACACGC 5.2 6.7e-04 -7.308 3.174 AT5G00850 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -471 -464 TCTCCCGC 8.2 1.9e-05 -10.871 4.721 AT5G00850 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -207 -200 TTGCCAGC 5.0 8.0e-04 -7.131 3.097 AT2G12290 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -297 -290 TAACCCGC 6.1 3.0e-04 -8.112 3.523 AT2G12290 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -17 -10 CTTCCTGC 5.3 5.1e-04 -7.581 3.292 AT2G15420 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -438 -431 TTTCCCGT 7.2 1.4e-04 -8.874 3.854 AT2G15420 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -293 -286 TTACCCTC 5.1 7.4e-04 -7.209 3.131 AT2G15420 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -80 -73 TATCCCAC 5.1 6.7e-04 -7.308 3.174 AT2G15420 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -26 -19 AAACCCGC 5.2 6.7e-04 -7.308 3.174 AT1G57020 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -240 -233 TTTCCCAC 6.9 2.1e-04 -8.468 3.678 AT1G77810 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -418 -411 TGTCCCGT 5.1 6.7e-04 -7.308 3.174 NERD site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -402 -395 ATTCCCCC 6.3 2.9e-04 -8.146 3.538 NERD site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -162 -155 TGTCCCGG 4.9 8.0e-04 -7.131 3.097 VPS35A site 5015_E2Fb_Athamap_20091028_ R -107 -100 TTAACCGC 5.3 5.1e-04 -7.581 3.292 VPS35A site 5015_E2Fb_Athamap_20091028_ R -17 -10 TTCCTCGC 5.1 5.8e-04 -7.452 3.237 BGLU4 site 5015_E2Fb_Athamap_20091028_ D -239 -232 ATAGCCGC 4.8 7.9e-04 -7.143 3.102 BGLU4 site 5015_E2Fb_Athamap_20091028_ R -52 -45 GTACCCGC 6.4 2.6e-04 -8.255 3.585 AT1G07417 site 5015_E2Fb_Athamap_20091028_ D -313 -306 ATTCCCTC 6.4 2.6e-04 -8.255 3.585 AT5G61510 site 5015_E2Fb_Athamap_20091028_ R -473 -466 TCTCCGGC 5.1 5.8e-04 -7.452 3.237 AT5G61510 site 5015_E2Fb_Athamap_20091028_ R -392 -385 TATCACGC 5.6 3.3e-04 -8.016 3.481 ABCA12 site 5015_E2Fb_Athamap_20091028_ D -376 -369 TGTTCCGC 5.1 6.5e-04 -7.339 3.187 ABCA12 site 5015_E2Fb_Athamap_20091028_ D -351 -344 CTTCCCGA 5.2 5.1e-04 -7.581 3.292 ABCA12 site 5015_E2Fb_Athamap_20091028_ R -316 -309 CTTGCCGC 5.4 3.9e-04 -7.849 3.409 ABCA12 site 5015_E2Fb_Athamap_20091028_ D -205 -198 GTTCCCAC 5.0 6.9e-04 -7.279 3.161 ABCA12 site 5015_E2Fb_Athamap_20091028_ D -145 -138 TATCCAGC 5.3 4.4e-04 -7.729 3.357 AT5G14260 site 5015_E2Fb_Athamap_20091028_ R -137 -130 ATACACGC 4.7 7.9e-04 -7.143 3.102 AT5G00850 site 5015_E2Fb_Athamap_20091028_ D -471 -464 TCTCCCGC 8.4 2.1e-05 -10.771 4.678 AT5G00850 site 5015_E2Fb_Athamap_20091028_ D -207 -200 TTGCCAGC 4.9 6.9e-04 -7.279 3.161 AT2G12290 site 5015_E2Fb_Athamap_20091028_ R -297 -290 TAACCCGC 6.0 2.9e-04 -8.146 3.538 AT2G12290 site 5015_E2Fb_Athamap_20091028_ R -17 -10 CTTCCTGC 5.2 5.1e-04 -7.581 3.292 AT2G15420 site 5015_E2Fb_Athamap_20091028_ R -438 -431 TTTCCCGT 7.4 1.3e-04 -8.948 3.886 AT2G15420 site 5015_E2Fb_Athamap_20091028_ D -293 -286 TTACCCTC 5.0 6.5e-04 -7.339 3.187 AT2G15420 site 5015_E2Fb_Athamap_20091028_ D -80 -73 TATCCCAC 5.1 6.5e-04 -7.339 3.187 AT2G15420 site 5015_E2Fb_Athamap_20091028_ R -26 -19 AAACCCGC 4.8 7.9e-04 -7.143 3.102 AT1G57020 site 5015_E2Fb_Athamap_20091028_ R -240 -233 TTTCCCAC 7.1 1.7e-04 -8.680 3.770 AT1G77810 site 5015_E2Fb_Athamap_20091028_ R -418 -411 TGTCCCGT 5.0 6.5e-04 -7.339 3.187 NERD site 5015_E2Fb_Athamap_20091028_ R -402 -395 ATTCCCCC 6.2 2.9e-04 -8.146 3.538 NERD site 5015_E2Fb_Athamap_20091028_ R -162 -155 TGTCCCGG 4.9 7.5e-04 -7.195 3.125 AT3G01645 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -486 -476 TTCAAGCCAAT 4.9 6.5e-04 -7.339 3.187 AT3G01645 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -41 -31 TTCCCAACATA 4.8 7.7e-04 -7.169 3.114 VPS35A site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -19 -9 TTTCCTCGCTA 4.6 8.3e-04 -7.094 3.081 BGLU4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -173 -163 ATCCAGCGTAA 4.9 7.2e-04 -7.236 3.143 BGLU4 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -56 -46 TACCCGCTAGA 8.0 4.3e-05 -10.054 4.367 ABCA12 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -350 -340 TTCCCGAACAA 5.8 3.1e-04 -8.079 3.509 AT5G14260 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -413 -403 TTCCCTTCCTA 5.1 5.4e-04 -7.524 3.268 AT5G14260 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -141 -131 TACACGCGCAA 7.9 4.8e-05 -9.944 4.319 AT5G00850 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -470 -460 CTCCCGCTAAT 8.2 3.4e-05 -10.289 4.469 AT2G12290 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -301 -291 AACCCGCTCCT 6.2 2.5e-04 -8.294 3.602 AT2G12290 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -21 -11 TTCCTGCTTTA 4.5 9.1e-04 -7.002 3.041 AT2G15420 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -292 -282 TACCCTCTCAA 6.3 2.1e-04 -8.468 3.678 AT2G15420 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -280 -270 AGCCCGACAAA 5.1 6.0e-04 -7.419 3.222 AT2G15420 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -67 -57 GTCCCCCCCTA 6.0 2.7e-04 -8.217 3.569 AT2G15420 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -30 -20 AACCCGCCGAC 5.7 3.6e-04 -7.929 3.444 AT1G57020 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -244 -234 TTCCCACTCAT 6.9 1.3e-04 -8.948 3.886 ; ; 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_ 26 0 ; 2 5015_E2Fb_Athamap_20091028_ 25 0 ; 3 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ 16 0 ; TOTAL 67 0 ; Host name rsat ; Job started 2026-08-17.115329 ; Job done 2026-08-17.115330 ; Seconds 0.45 ; user 0.45 ; system 0.03 ; cuser 0.76 ; csystem 0.09