; matrix-scan -v 1 -quick -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.111447_ipJLhL.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_2026-08-17.111447_XxumdE.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_2026-08-17.111447_XxumdE.fasta ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/08/17/matrix-scan_2026-08-17.111447_ipJLhL.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 AT1G70040|AT1G70040 limit START_END D -500 -1 . 0 0 0 0 AT2G45990|AT2G45990 limit START_END D -500 -1 . 0 0 0 0 AT1G02067|AT1G02067 limit START_END D -500 -1 . 0 0 0 0 AT5G50920|CLPC1 limit START_END D -500 -1 . 0 0 0 0 AT1G23010|LPR1 limit START_END D -500 -1 . 0 0 0 0 AT2G48150|GPX4 limit START_END D -500 -1 . 0 0 0 0 AT5G56970|CKX3 limit START_END D -500 -1 . 0 0 0 0 AT1G25055|AT1G25055 limit START_END D -500 -1 . 0 0 0 0 AT3G61150|HDG1 limit START_END D -500 -1 . 0 0 0 0 AT5G14360|AT5G14360 limit START_END D -500 -1 . 0 0 0 0 AT1G73470|AT1G73470 limit START_END D -500 -1 . 0 0 0 0 AT1G08127|AT1G08127 limit START_END D -500 -1 . 0 0 0 0 AT1G65140|AT1G65140 limit START_END D -500 -1 . 0 0 0 0 AT1G27700|AT1G27700 limit START_END D -500 -1 . 0 0 0 0 AT2G19590|ACO1 limit START_END D -500 -1 . 0 0 0 0 AT1G07025|AT1G07025 limit START_END D -500 -1 . 0 0 0 0 AT3G22660|EBP2 limit START_END D -500 -1 . 0 0 0 0 AT4G16540|AT4G16540 limit START_END D -500 -1 . 0 0 0 0 AT1G68238|AT1G68238 limit START_END D -500 -1 . 0 0 0 0 AT1G08703|AT1G08703 limit START_END D -500 -1 . 0 0 0 0 AT5G49620|AtMYB78 limit START_END D -500 -1 . 0 0 0 0 AT3G14490|TPS17 limit START_END D -500 -1 . 0 0 0 0 AT2G37435|AT2G37435 limit START_END D -500 -1 . 0 0 0 0 AT2G45990|AT2G45990 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -471 -464 TTTCCCGA 7.1 1.4e-04 -8.874 3.854 AT2G45990|AT2G45990 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -208 -201 ATACCGGC 5.0 7.4e-04 -7.209 3.131 AT2G45990|AT2G45990 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -70 -63 TTTTCCGC 7.2 1.0e-04 -9.210 4.000 AT1G02067|AT1G02067 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -423 -416 ATTCCAGC 6.7 2.5e-04 -8.294 3.602 AT1G02067|AT1G02067 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -363 -356 TTCCCCGA 4.8 8.8e-04 -7.036 3.056 AT1G02067|AT1G02067 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -299 -292 TTACCAGC 5.2 5.9e-04 -7.435 3.229 AT5G50920|CLPC1 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -182 -175 TCTCTCGC 5.4 4.2e-04 -7.775 3.377 AT1G25055|AT1G25055 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -467 -460 TATCCCGC 8.5 1.5e-05 -11.107 4.824 AT1G65140|AT1G65140 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -412 -405 TCTCTCGC 5.4 4.2e-04 -7.775 3.377 AT1G65140|AT1G65140 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -388 -381 TTTCCCGC 10.2 4.7e-06 -12.268 5.328 AT1G65140|AT1G65140 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -57 -50 TTTCGCGC 7.7 3.5e-05 -10.260 4.456 AT1G27700|AT1G27700 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -418 -411 TTTCCCAC 6.9 2.1e-04 -8.468 3.678 AT3G22660|EBP2 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -456 -449 TTTCCCGC 10.2 4.7e-06 -12.268 5.328 AT3G22660|EBP2 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -103 -96 GTTCCCGT 5.4 4.2e-04 -7.775 3.377 AT4G16540|AT4G16540 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -149 -142 ATATCCGC 5.1 6.7e-04 -7.308 3.174 AT1G08703|AT1G08703 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -390 -383 ATGGCCGC 4.7 9.5e-04 -6.959 3.022 AT1G08703|AT1G08703 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -348 -341 TTGCTCGC 5.3 5.1e-04 -7.581 3.292 AT5G49620|AtMYB78 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -338 -331 ATTTCCGC 6.8 2.1e-04 -8.468 3.678 AT5G49620|AtMYB78 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -8 -1 TGTCCCAC 4.8 8.8e-04 -7.036 3.056 AT3G14490|TPS17 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -214 -207 TTTCTCGC 7.4 6.6e-05 -9.626 4.180 AT3G14490|TPS17 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -202 -195 TTTCCCGG 7.0 1.6e-04 -8.740 3.796 AT2G37435|AT2G37435 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -398 -391 TTTCCCAC 6.9 2.1e-04 -8.468 3.678 AT2G37435|AT2G37435 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -217 -210 TTACCCGT 5.3 5.1e-04 -7.581 3.292 AT2G37435|AT2G37435 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -164 -157 TTACCCGT 5.3 5.1e-04 -7.581 3.292 AT2G37435|AT2G37435 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ D -139 -132 TTACCCGA 5.2 5.9e-04 -7.435 3.229 AT2G37435|AT2G37435 site 5014_E2Fa_Athamap_20091028__E2Fe_Athamap_20091028_ R -92 -85 TTACCCGA 5.2 5.9e-04 -7.435 3.229 AT2G45990|AT2G45990 site 5015_E2Fb_Athamap_20091028_ R -471 -464 TTTCCCGA 7.3 1.3e-04 -8.948 3.886 AT2G45990|AT2G45990 site 5015_E2Fb_Athamap_20091028_ D -208 -201 ATACCGGC 4.6 9.4e-04 -6.970 3.027 AT2G45990|AT2G45990 site 5015_E2Fb_Athamap_20091028_ R -70 -63 TTTTCCGC 7.4 9.3e-05 -9.283 4.032 AT1G02067|AT1G02067 site 5015_E2Fb_Athamap_20091028_ D -423 -416 ATTCCAGC 6.6 2.4e-04 -8.335 3.620 AT1G02067|AT1G02067 site 5015_E2Fb_Athamap_20091028_ D -363 -356 TTCCCCGA 4.8 7.9e-04 -7.143 3.102 AT1G02067|AT1G02067 site 5015_E2Fb_Athamap_20091028_ D -299 -292 TTACCAGC 5.1 5.8e-04 -7.452 3.237 AT5G50920|CLPC1 site 5015_E2Fb_Athamap_20091028_ R -182 -175 TCTCTCGC 5.4 4.4e-04 -7.729 3.357 AT1G25055|AT1G25055 site 5015_E2Fb_Athamap_20091028_ D -467 -460 TATCCCGC 8.7 1.1e-05 -11.418 4.959 AT1G65140|AT1G65140 site 5015_E2Fb_Athamap_20091028_ R -412 -405 TCTCTCGC 5.4 4.4e-04 -7.729 3.357 AT1G65140|AT1G65140 site 5015_E2Fb_Athamap_20091028_ R -388 -381 TTTCCCGC 10.7 4.7e-06 -12.268 5.328 AT1G65140|AT1G65140 site 5015_E2Fb_Athamap_20091028_ D -57 -50 TTTCGCGC 7.9 2.8e-05 -10.483 4.553 AT1G27700|AT1G27700 site 5015_E2Fb_Athamap_20091028_ D -418 -411 TTTCCCAC 7.1 1.7e-04 -8.680 3.770 AT3G22660|EBP2 site 5015_E2Fb_Athamap_20091028_ R -456 -449 TTTCCCGC 10.7 4.7e-06 -12.268 5.328 AT3G22660|EBP2 site 5015_E2Fb_Athamap_20091028_ R -103 -96 GTTCCCGT 5.3 5.1e-04 -7.581 3.292 AT4G16540|AT4G16540 site 5015_E2Fb_Athamap_20091028_ R -149 -142 ATATCCGC 4.7 8.2e-04 -7.106 3.086 AT1G08703|AT1G08703 site 5015_E2Fb_Athamap_20091028_ R -348 -341 TTGCTCGC 5.3 5.1e-04 -7.581 3.292 AT5G49620|AtMYB78 site 5015_E2Fb_Athamap_20091028_ D -338 -331 ATTTCCGC 6.7 2.1e-04 -8.468 3.678 AT5G49620|AtMYB78 site 5015_E2Fb_Athamap_20091028_ D -8 -1 TGTCCCAC 4.7 7.9e-04 -7.143 3.102 AT3G14490|TPS17 site 5015_E2Fb_Athamap_20091028_ D -214 -207 TTTCTCGC 7.6 5.8e-05 -9.755 4.237 AT3G14490|TPS17 site 5015_E2Fb_Athamap_20091028_ D -202 -195 TTTCCCGG 7.2 1.4e-04 -8.874 3.854 AT2G37435|AT2G37435 site 5015_E2Fb_Athamap_20091028_ D -398 -391 TTTCCCAC 7.1 1.7e-04 -8.680 3.770 AT2G37435|AT2G37435 site 5015_E2Fb_Athamap_20091028_ R -217 -210 TTACCCGT 5.2 5.1e-04 -7.581 3.292 AT2G37435|AT2G37435 site 5015_E2Fb_Athamap_20091028_ R -164 -157 TTACCCGT 5.2 5.1e-04 -7.581 3.292 AT2G37435|AT2G37435 site 5015_E2Fb_Athamap_20091028_ D -139 -132 TTACCCGA 5.2 5.8e-04 -7.452 3.237 AT2G37435|AT2G37435 site 5015_E2Fb_Athamap_20091028_ R -92 -85 TTACCCGA 5.2 5.8e-04 -7.452 3.237 AT2G45990|AT2G45990 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -207 -197 TACCGGCGATA 7.2 1.0e-04 -9.210 4.000 AT2G45990|AT2G45990 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -74 -64 TTTCCGCGTTA 5.6 3.6e-04 -7.929 3.444 AT1G02067|AT1G02067 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -298 -288 TACCAGCAATA 4.7 7.7e-04 -7.169 3.114 AT5G50920|CLPC1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -184 -174 TTCTCTCGCTA 5.1 5.4e-04 -7.524 3.268 AT1G23010|LPR1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -496 -486 TTCTCCCCAAA 4.9 7.2e-04 -7.236 3.143 AT5G56970|CKX3 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -335 -325 TACGCGTTCAT 5.5 3.9e-04 -7.849 3.409 AT1G25055|AT1G25055 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -466 -456 ATCCCGCAAAA 7.9 4.8e-05 -9.944 4.319 AT3G61150|HDG1 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -407 -397 AATCCGCCAAA 6.3 2.3e-04 -8.377 3.638 AT1G65140|AT1G65140 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -392 -382 TTCCCGCGTCT 6.8 1.5e-04 -8.805 3.824 AT1G65140|AT1G65140 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -127 -117 TGCCCACCAAA 5.7 3.3e-04 -8.016 3.481 AT1G65140|AT1G65140 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -57 -47 TGAGCGCGAAA 4.4 9.8e-04 -6.928 3.009 AT1G65140|AT1G65140 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -56 -46 TTCGCGCTCAA 10.1 4.6e-06 -12.289 5.337 AT1G27700|AT1G27700 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -417 -407 TTCCCACACTT 5.1 5.4e-04 -7.524 3.268 AT1G07025|AT1G07025 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -296 -286 TTCCTTCCAAA 4.6 8.3e-04 -7.094 3.081 AT1G07025|AT1G07025 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -134 -124 ATCGTGCTCTA 5.5 4.2e-04 -7.775 3.377 AT1G07025|AT1G07025 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -60 -50 TTACCTCGCAA 4.9 6.5e-04 -7.339 3.187 AT3G22660|EBP2 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -475 -465 AACCCTCTAAT 4.5 9.1e-04 -7.002 3.041 AT3G22660|EBP2 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -460 -450 TTCCCGCTCAT 10.8 2.8e-06 -12.786 5.553 AT3G22660|EBP2 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -107 -97 TTCCCGTTACT 4.8 7.7e-04 -7.169 3.114 AT3G22660|EBP2 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -92 -82 TTATCGCTCAA 4.6 8.3e-04 -7.094 3.081 AT4G16540|AT4G16540 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -478 -468 TACAAGCCCAA 4.6 8.3e-04 -7.094 3.081 AT1G68238|AT1G68238 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -184 -174 AACTCGCTCTT 5.0 6.0e-04 -7.419 3.222 AT5G49620|AtMYB78 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -283 -273 TTCTCGTGCTT 4.4 9.8e-04 -6.928 3.009 AT2G37435|AT2G37435 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ R -494 -484 AACCAGCCCTT 5.8 3.1e-04 -8.079 3.509 AT2G37435|AT2G37435 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -397 -387 TTCCCACTCAT 6.9 1.3e-04 -8.948 3.886 AT2G37435|AT2G37435 site 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ D -138 -128 TACCCGACTAA 5.9 2.9e-04 -8.146 3.538 ; ; 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_ 26 0 ; 2 5015_E2Fb_Athamap_20091028_ 25 0 ; 3 5016_E2Fc_Athamap_20091028__E2Fd_Athamap_20091028_ 26 0 ; TOTAL 77 0 ; Host name rsat ; Job started 2026-08-17.111447 ; Job done 2026-08-17.111448 ; Seconds 0.5 ; user 0.51 ; system 0.03 ; cuser 0.73 ; csystem 0.09