; matrix-scan -v 1 -quick -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.111819_9hqLHQ.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_2026-08-17.111819_TLSFWm.fasta -seq_format fasta -n score ; Quick counting mode ; Input files ; input $RSAT/public_html/tmp/www-data/2026/08/17/tmp_sequence_2026-08-17.111819_TLSFWm.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_2026-08-17.111819_9hqLHQ.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 AT5G47230|ERF5 limit START_END D -500 -1 . 0 0 0 0 AT5G25400|AT5G25400 limit START_END D -500 -1 . 0 0 0 0 AT1G79150|AT1G79150 limit START_END D -500 -1 . 0 0 0 0 AT2G16505|ESFL9 limit START_END D -500 -1 . 0 0 0 0 AT4G05632|AT4G05632 limit START_END D -500 -1 . 0 0 0 0 AT1G64960|AT1G64960 limit START_END D -500 -1 . 0 0 0 0 AT5G23220|NIC3 limit START_END D -500 -1 . 0 0 0 0 AT4G14140|MET2 limit START_END D -500 -1 . 0 0 0 0 AT5G43250|NF-YC13 limit START_END D -500 -1 . 0 0 0 0 AT2G42450|AT2G42450 limit START_END D -500 -1 . 0 0 0 0 AT5G09285|AT5G09285 limit START_END D -500 -1 . 0 0 0 0 AT3G45100|PIGA limit START_END D -500 -1 . 0 0 0 0 AT1G68790|CRWN3 limit START_END D -500 -1 . 0 0 0 0 AT5G11640|AT5G11640 limit START_END D -500 -1 . 0 0 0 0 AT2G46550|AT2G46550 limit START_END D -500 -1 . 0 0 0 0 AT2G35155|AT2G35155 limit START_END D -500 -1 . 0 0 0 0 AT2G45060|AT2G45060 limit START_END D -500 -1 . 0 0 0 0 AT1G29355|AT1G29355 limit START_END D -500 -1 . 0 0 0 0 AT3G01010|AT3G01010 limit START_END D -500 -1 . 0 0 0 0 AT2G40210|AGL48 limit START_END D -500 -1 . 0 0 0 0 AT4G16095|AT4G16095 limit START_END D -500 -1 . 0 0 0 0 AT5G43403|AT5G43403 limit START_END D -500 -1 . 0 0 0 0 AT5G55565|AT5G55565 limit START_END D -500 -1 . 0 0 0 0 AT5G25400|AT5G25400 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -433 -426 TTACCGGC 5.3 5.1e-04 -7.581 3.292 AT1G79150|AT1G79150 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -56 -49 TATACCGC 5.9 3.1e-04 -8.079 3.509 AT4G05632|AT4G05632 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -414 -407 TATCCGGC 5.5 4.2e-04 -7.775 3.377 AT4G05632|AT4G05632 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -392 -385 TTTCCCGG 7.0 1.6e-04 -8.740 3.796 AT4G05632|AT4G05632 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -163 -156 TTTCCCCC 6.7 2.5e-04 -8.294 3.602 AT1G64960|AT1G64960 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -44 -37 TTCCCCGT 4.9 8.0e-04 -7.131 3.097 AT5G23220|NIC3 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -225 -218 TATCCCAC 5.1 6.7e-04 -7.308 3.174 AT5G09285|AT5G09285 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -456 -449 ATTCCTGC 6.7 2.5e-04 -8.294 3.602 AT5G09285|AT5G09285 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -333 -326 CTTCCCGA 5.3 5.1e-04 -7.581 3.292 AT5G09285|AT5G09285 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -149 -142 TTTCTCGC 7.4 6.6e-05 -9.626 4.180 AT3G45100|PIGA site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -282 -275 CTTCCAGC 5.3 5.1e-04 -7.581 3.292 AT5G11640|AT5G11640 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -299 -292 TGTCTCGC 5.4 4.2e-04 -7.775 3.377 AT5G11640|AT5G11640 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -220 -213 TTCTCCGC 5.2 5.9e-04 -7.435 3.229 AT5G11640|AT5G11640 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -138 -131 GTTACCGC 5.8 3.1e-04 -8.079 3.509 AT2G46550|AT2G46550 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -186 -179 TTACGCGC 5.8 3.1e-04 -8.079 3.509 AT1G29355|AT1G29355 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -432 -425 TTATCCGC 5.4 4.2e-04 -7.775 3.377 AT3G01010|AT3G01010 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -247 -240 TCTCCCTC 4.9 8.0e-04 -7.131 3.097 AT3G01010|AT3G01010 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -238 -231 ATTCCCTC 6.6 2.6e-04 -8.255 3.585 AT3G01010|AT3G01010 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -107 -100 ATTCCAGC 6.7 2.5e-04 -8.294 3.602 AT2G40210|AGL48 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -79 -72 ATTCCCGC 9.8 8.5e-06 -11.675 5.071 AT4G16095|AT4G16095 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -308 -301 TCTCCCTC 4.9 8.0e-04 -7.131 3.097 AT4G16095|AT4G16095 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -166 -159 TTGGCCGC 5.1 7.4e-04 -7.209 3.131 AT5G43403|AT5G43403 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -76 -69 TTTCCTGC 7.1 1.4e-04 -8.874 3.854 AT5G55565|AT5G55565 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -377 -370 TGTACCGC 5.5 3.9e-04 -7.849 3.409 AT5G25400|AT5G25400 site 5015_E2Fb_Athamap_20091028_ D -433 -426 TTACCGGC 5.3 5.1e-04 -7.581 3.292 AT1G79150|AT1G79150 site 5015_E2Fb_Athamap_20091028_ R -56 -49 TATACCGC 5.8 3.1e-04 -8.079 3.509 AT4G05632|AT4G05632 site 5015_E2Fb_Athamap_20091028_ D -414 -407 TATCCGGC 5.4 3.9e-04 -7.849 3.409 AT4G05632|AT4G05632 site 5015_E2Fb_Athamap_20091028_ R -392 -385 TTTCCCGG 7.2 1.4e-04 -8.874 3.854 AT4G05632|AT4G05632 site 5015_E2Fb_Athamap_20091028_ D -163 -156 TTTCCCCC 6.9 1.9e-04 -8.568 3.721 AT1G64960|AT1G64960 site 5015_E2Fb_Athamap_20091028_ D -44 -37 TTCCCCGT 4.8 7.5e-04 -7.195 3.125 AT5G23220|NIC3 site 5015_E2Fb_Athamap_20091028_ D -225 -218 TATCCCAC 5.1 6.5e-04 -7.339 3.187 AT5G09285|AT5G09285 site 5015_E2Fb_Athamap_20091028_ R -456 -449 ATTCCTGC 6.6 2.5e-04 -8.294 3.602 AT5G09285|AT5G09285 site 5015_E2Fb_Athamap_20091028_ R -333 -326 CTTCCCGA 5.2 5.1e-04 -7.581 3.292 AT5G09285|AT5G09285 site 5015_E2Fb_Athamap_20091028_ D -149 -142 TTTCTCGC 7.6 5.8e-05 -9.755 4.237 AT3G45100|PIGA site 5015_E2Fb_Athamap_20091028_ R -282 -275 CTTCCAGC 5.2 5.1e-04 -7.581 3.292 AT5G11640|AT5G11640 site 5015_E2Fb_Athamap_20091028_ D -299 -292 TGTCTCGC 5.3 4.4e-04 -7.729 3.357 AT5G11640|AT5G11640 site 5015_E2Fb_Athamap_20091028_ D -220 -213 TTCTCCGC 5.1 5.8e-04 -7.452 3.237 AT5G11640|AT5G11640 site 5015_E2Fb_Athamap_20091028_ D -138 -131 GTTACCGC 5.7 3.1e-04 -8.079 3.509 AT2G46550|AT2G46550 site 5015_E2Fb_Athamap_20091028_ R -186 -179 TTACGCGC 5.8 3.1e-04 -8.079 3.509 AT2G45060|AT2G45060 site 5015_E2Fb_Athamap_20091028_ D -426 -419 TCTCCCCC 4.6 8.2e-04 -7.106 3.086 AT1G29355|AT1G29355 site 5015_E2Fb_Athamap_20091028_ D -432 -425 TTATCCGC 5.4 3.9e-04 -7.849 3.409 AT3G01010|AT3G01010 site 5015_E2Fb_Athamap_20091028_ R -247 -240 TCTCCCTC 4.8 7.5e-04 -7.195 3.125 AT3G01010|AT3G01010 site 5015_E2Fb_Athamap_20091028_ R -238 -231 ATTCCCTC 6.4 2.6e-04 -8.255 3.585 AT3G01010|AT3G01010 site 5015_E2Fb_Athamap_20091028_ R -107 -100 ATTCCAGC 6.6 2.4e-04 -8.335 3.620 AT2G40210|AGL48 site 5015_E2Fb_Athamap_20091028_ D -79 -72 ATTCCCGC 10.0 8.5e-06 -11.675 5.071 AT4G16095|AT4G16095 site 5015_E2Fb_Athamap_20091028_ D -308 -301 TCTCCCTC 4.8 7.5e-04 -7.195 3.125 AT4G16095|AT4G16095 site 5015_E2Fb_Athamap_20091028_ D -166 -159 TTGGCCGC 5.0 6.5e-04 -7.339 3.187 AT5G43403|AT5G43403 site 5015_E2Fb_Athamap_20091028_ D -76 -69 TTTCCTGC 7.3 1.3e-04 -8.948 3.886 AT5G55565|AT5G55565 site 5015_E2Fb_Athamap_20091028_ R -377 -370 TGTACCGC 5.5 3.9e-04 -7.849 3.409 AT5G47230|ERF5 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -362 -352 TAGCAGCCATA 4.4 9.8e-04 -6.928 3.009 AT5G25400|AT5G25400 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -433 -423 TTACCGGCAAT 5.2 5.0e-04 -7.601 3.301 AT5G25400|AT5G25400 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -432 -422 TACCGGCAATA 4.8 7.2e-04 -7.236 3.143 AT5G25400|AT5G25400 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -178 -168 AACCAGCCAAT 5.9 2.9e-04 -8.146 3.538 AT2G16505|ESFL9 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -125 -115 TACGTGCTAAT 5.3 5.0e-04 -7.601 3.301 AT4G05632|AT4G05632 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -448 -438 TGCCCACGCAT 5.5 4.2e-04 -7.775 3.377 AT4G05632|AT4G05632 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -431 -421 GTCCCTCCAAA 5.8 3.1e-04 -8.079 3.509 AT4G05632|AT4G05632 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -396 -386 TTCCCGGTAAA 7.0 1.2e-04 -9.028 3.921 AT4G05632|AT4G05632 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -162 -152 TTCCCCCTAAG 4.6 8.3e-04 -7.094 3.081 AT4G05632|AT4G05632 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -102 -92 TAGGCGCCGAA 4.7 7.7e-04 -7.169 3.114 AT5G09285|AT5G09285 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -355 -345 TCCCCGTTCAT 4.5 9.1e-04 -7.002 3.041 AT3G45100|PIGA site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -286 -276 TTCCAGCGATA 7.9 4.8e-05 -9.944 4.319 AT5G11640|AT5G11640 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -438 -428 TTCAAGCCAAT 4.9 6.5e-04 -7.339 3.187 AT2G46550|AT2G46550 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -190 -180 TACGCGCGATG 7.4 8.1e-05 -9.421 4.092 AT2G46550|AT2G46550 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -189 -179 ATCGCGCGTAA 7.7 6.1e-05 -9.705 4.215 AT2G35155|AT2G35155 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -391 -381 TTCTCGACATT 5.0 6.5e-04 -7.339 3.187 AT1G29355|AT1G29355 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -431 -421 TATCCGCCGTA 5.9 2.9e-04 -8.146 3.538 AT2G40210|AGL48 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -78 -68 TTCCCGCGCTA 11.9 3.4e-07 -14.894 6.469 AT2G40210|AGL48 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -76 -66 CCCGCGCTAAT 4.7 7.7e-04 -7.169 3.114 AT4G16095|AT4G16095 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -320 -310 TTCCGTCCCAA 5.3 4.6e-04 -7.684 3.337 AT4G16095|AT4G16095 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -266 -256 ATCCCTCCAAT 7.0 1.2e-04 -9.028 3.921 AT4G16095|AT4G16095 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -182 -172 TGCGAGCCCTT 4.8 7.2e-04 -7.236 3.143 AT5G43403|AT5G43403 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -172 -162 TTCGCACCTAA 5.5 3.9e-04 -7.849 3.409 ; ; 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_ 24 0 ; 2 5015_E2Fb_Athamap_20091028_ 25 0 ; 3 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ 23 0 ; TOTAL 72 0 ; Host name rsat ; Job started 2026-08-17.111819 ; Job done 2026-08-17.111820 ; Seconds 0.47 ; user 0.47 ; system 0.04 ; cuser 0.75 ; csystem 0.11