; matrix-scan -v 1 -quick -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.111005_CUUE7n.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_2026-08-17.111005_9bLmBn.fasta -seq_format fasta -n score ; Quick counting mode ; Input files ; input $RSAT/public_html/tmp/www-data/2026/08/17/tmp_sequence_2026-08-17.111005_9bLmBn.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_2026-08-17.111005_CUUE7n.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 AT4G32950|AT4G32950 limit START_END D -500 -1 . 0 0 0 0 AT1G61860|AT1G61860 limit START_END D -500 -1 . 0 0 0 0 AT5G48940|RCH1 limit START_END D -500 -1 . 0 0 0 0 AT5G43290|WRKY49 limit START_END D -500 -1 . 0 0 0 0 AT1G20330|SMT2 limit START_END D -500 -1 . 0 0 0 0 AT5G09500|RPS15C limit START_END D -500 -1 . 0 0 0 0 AT1G09113|AT1G09113 limit START_END D -500 -1 . 0 0 0 0 AT4G07410|PCN limit START_END D -500 -1 . 0 0 0 0 AT4G35987|AT4G35987 limit START_END D -500 -1 . 0 0 0 0 AT1G60500|DRP4C limit START_END D -500 -1 . 0 0 0 0 AT1G55060|UBQ12 limit START_END D -500 -1 . 0 0 0 0 AT5G47880|ERF1-1 limit START_END D -500 -1 . 0 0 0 0 AT2G12465|LCR50 limit START_END D -500 -1 . 0 0 0 0 AT3G25080|AT3G25080 limit START_END D -500 -1 . 0 0 0 0 AT1G19250|FMO1 limit START_END D -500 -1 . 0 0 0 0 AT4G22755|SMO1-3 limit START_END D -500 -1 . 0 0 0 0 AT5G08945|AT5G08945 limit START_END D -500 -1 . 0 0 0 0 AT5G03645|AT5G03645 limit START_END D -500 -1 . 0 0 0 0 AT3G06655|AT3G06655 limit START_END D -500 -1 . 0 0 0 0 AT1G76400|OST1A limit START_END D -500 -1 . 0 0 0 0 AT1G45201|ATTLL1 limit START_END D -500 -1 . 0 0 0 0 AT5G58510|AT5G58510 limit START_END D -500 -1 . 0 0 0 0 AT5G10280|MYB92 limit START_END D -500 -1 . 0 0 0 0 AT4G32950|AT4G32950 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -253 -246 GTTTCCGC 5.4 4.2e-04 -7.775 3.377 AT1G61860|AT1G61860 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -440 -433 ATTACCGC 7.2 1.0e-04 -9.210 4.000 AT1G61860|AT1G61860 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -416 -409 GTTCCCGA 5.3 5.1e-04 -7.581 3.292 AT5G43290|WRKY49 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -449 -442 TTTGCCGC 7.3 7.6e-05 -9.485 4.119 AT5G09500|RPS15C site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -416 -409 TCTCCCTC 4.9 8.0e-04 -7.131 3.097 AT1G60500|DRP4C site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -31 -24 TCTCCCAC 4.9 8.8e-04 -7.036 3.056 AT1G55060|UBQ12 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -93 -86 TTACCCGC 8.3 1.8e-05 -10.925 4.745 AT5G47880|ERF1-1 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -289 -282 TCTCCAGC 5.1 6.7e-04 -7.308 3.174 AT3G25080|AT3G25080 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -421 -414 TGTCCCTC 4.9 8.8e-04 -7.036 3.056 AT3G25080|AT3G25080 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -115 -108 CTTCCCGC 8.5 1.5e-05 -11.107 4.824 AT3G25080|AT3G25080 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -57 -50 TATCCGGC 5.5 4.2e-04 -7.775 3.377 AT1G19250|FMO1 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -144 -137 TCTCACGC 5.4 4.2e-04 -7.775 3.377 AT1G19250|FMO1 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -98 -91 TTTATCGC 4.7 9.5e-04 -6.959 3.022 AT5G08945|AT5G08945 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -327 -320 TTTAGCGC 4.8 8.8e-04 -7.036 3.056 AT5G08945|AT5G08945 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -188 -181 ATTCCAGC 6.7 2.5e-04 -8.294 3.602 AT1G76400|OST1A site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -310 -303 ATACCAGC 4.9 8.8e-04 -7.036 3.056 AT1G76400|OST1A site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -50 -43 TTCCCCGG 4.7 9.5e-04 -6.959 3.022 AT5G10280|MYB92 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -165 -158 GTTCCCGA 5.3 5.1e-04 -7.581 3.292 AT4G32950|AT4G32950 site 5015_E2Fb_Athamap_20091028_ R -253 -246 GTTTCCGC 5.3 4.4e-04 -7.729 3.357 AT1G61860|AT1G61860 site 5015_E2Fb_Athamap_20091028_ D -440 -433 ATTACCGC 7.1 1.7e-04 -8.680 3.770 AT1G61860|AT1G61860 site 5015_E2Fb_Athamap_20091028_ D -416 -409 GTTCCCGA 5.2 5.1e-04 -7.581 3.292 AT5G43290|WRKY49 site 5015_E2Fb_Athamap_20091028_ D -449 -442 TTTGCCGC 7.5 6.2e-05 -9.688 4.208 AT5G09500|RPS15C site 5015_E2Fb_Athamap_20091028_ R -416 -409 TCTCCCTC 4.8 7.5e-04 -7.195 3.125 AT1G60500|DRP4C site 5015_E2Fb_Athamap_20091028_ D -31 -24 TCTCCCAC 4.8 7.5e-04 -7.195 3.125 AT1G55060|UBQ12 site 5015_E2Fb_Athamap_20091028_ R -93 -86 TTACCCGC 8.5 1.8e-05 -10.925 4.745 AT5G47880|ERF1-1 site 5015_E2Fb_Athamap_20091028_ R -289 -282 TCTCCAGC 5.0 6.5e-04 -7.339 3.187 AT3G25080|AT3G25080 site 5015_E2Fb_Athamap_20091028_ D -421 -414 TGTCCCTC 4.8 7.5e-04 -7.195 3.125 AT3G25080|AT3G25080 site 5015_E2Fb_Athamap_20091028_ D -115 -108 CTTCCCGC 8.6 1.5e-05 -11.107 4.824 AT3G25080|AT3G25080 site 5015_E2Fb_Athamap_20091028_ R -57 -50 TATCCGGC 5.4 3.9e-04 -7.849 3.409 AT1G19250|FMO1 site 5015_E2Fb_Athamap_20091028_ D -144 -137 TCTCACGC 5.3 4.4e-04 -7.729 3.357 AT1G19250|FMO1 site 5015_E2Fb_Athamap_20091028_ R -98 -91 TTTATCGC 4.6 8.2e-04 -7.106 3.086 AT5G08945|AT5G08945 site 5015_E2Fb_Athamap_20091028_ D -327 -320 TTTAGCGC 4.7 7.9e-04 -7.143 3.102 AT5G08945|AT5G08945 site 5015_E2Fb_Athamap_20091028_ R -188 -181 ATTCCAGC 6.6 2.4e-04 -8.335 3.620 AT1G76400|OST1A site 5015_E2Fb_Athamap_20091028_ R -50 -43 TTCCCCGG 4.7 8.2e-04 -7.106 3.086 AT5G10280|MYB92 site 5015_E2Fb_Athamap_20091028_ D -165 -158 GTTCCCGA 5.2 5.1e-04 -7.581 3.292 AT4G32950|AT4G32950 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -257 -247 TTTCCGCCAAT 8.3 3.1e-05 -10.382 4.509 AT1G61860|AT1G61860 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -415 -405 TTCCCGAGATC 5.2 5.0e-04 -7.601 3.301 AT5G09500|RPS15C site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -175 -165 ATCCCGAGATT 6.1 2.5e-04 -8.294 3.602 AT1G55060|UBQ12 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -97 -87 TACCCGCGAAT 10.4 3.4e-06 -12.592 5.469 AT1G55060|UBQ12 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -96 -86 TTCGCGGGTAA 4.7 8.3e-04 -7.094 3.081 AT3G25080|AT3G25080 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -453 -443 TTCTCACCATA 5.2 5.0e-04 -7.601 3.301 AT3G25080|AT3G25080 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -114 -104 TTCCCGCGATT 10.8 2.4e-06 -12.940 5.620 AT1G19250|FMO1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -145 -135 TTCTCACGCTT 4.4 9.8e-04 -6.928 3.009 AT4G22755|SMO1-3 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -125 -115 AGTCCGCCAAA 5.0 6.0e-04 -7.419 3.222 AT5G08945|AT5G08945 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -479 -469 TCCACGCTATT 4.6 8.3e-04 -7.094 3.081 AT5G08945|AT5G08945 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -325 -315 AACCTGCGCTA 6.0 2.7e-04 -8.217 3.569 AT5G08945|AT5G08945 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -192 -182 TTCCAGCCATA 8.5 2.4e-05 -10.637 4.620 AT1G76400|OST1A site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -340 -330 TTCATGCCAAA 5.1 5.4e-04 -7.524 3.268 AT1G76400|OST1A site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -269 -259 TTCTCGAGAAA 4.5 9.1e-04 -7.002 3.041 AT1G76400|OST1A site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -268 -258 TTCTCGAGAAA 4.5 9.1e-04 -7.002 3.041 AT5G10280|MYB92 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -164 -154 TTCCCGAGATG 5.2 5.0e-04 -7.601 3.301 ; ; 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_ 18 0 ; 2 5015_E2Fb_Athamap_20091028_ 17 0 ; 3 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ 16 0 ; TOTAL 51 0 ; Host name rsat ; Job started 2026-08-17.111006 ; Job done 2026-08-17.111007 ; Seconds 0.46 ; user 0.46 ; system 0.06 ; cuser 0.73 ; csystem 0.1