; matrix-scan -v 1 -matrix_format transfac -m $RSAT/public_html/tmp/www-data/2026/07/22/matrix-scan_2026-07-22.120245_USuC9o.matrix -pseudo 1 -decimals 1 -2str -origin end -bginput -markov 1 -bg_pseudo 0.01 -return limits -return sites -return pval -return rank -lth score 1 -uth pval 1e-4 -i $RSAT/public_html/tmp/www-data/2026/07/22/tmp_sequence_2026-07-22.120245_BcROYp.fasta -seq_format fasta -n score ; Slow counting mode ; Input files ; input $RSAT/public_html/tmp/www-data/2026/07/22/tmp_sequence_2026-07-22.120245_BcROYp.fasta ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/07/22/matrix-scan_2026-07-22.120245_USuC9o.matrix ; Sequence format fasta ; Pseudo counts 1 ; Background model ; Method input ; Markov order 1 ; Strand undef ; Background pseudo-frequency 0.01 ; Residue probabilities ; a 0.34472 ; c 0.16489 ; g 0.15126 ; t 0.33913 ; Thresholds lower upper ; pval NA 0.0001 ; score 1 NA ; 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 rank rank_pm F6'H1 limit START_END D -1701 -1 . 0 0 0 0 F6'H1 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -1661 -1648 CCACCAACCATGCC 12.2 2.5e-07 -15.218 6.609 1 1 F6'H1 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -1472 -1459 TAACCTACCAAATC 9.0 1.9e-05 -10.867 4.719 2 2 F6'H1 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -1496 -1483 TCACCAACCAGTTC 8.7 2.6e-05 -10.558 4.585 3 3 F6'H1 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -1690 -1677 TGGCCAACCATGCC 8.0 4.9e-05 -9.922 4.309 4 4 FMO1 limit START_END D -1701 -1 . 0 0 0 0 FMO1 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 R -14 -1 ACACCAGCACCGAT 7.2 9.6e-05 -9.256 4.020 1 1 GLP9 limit START_END D -1701 -1 . 0 0 0 0 UGT73D1 limit START_END D -551 -1 . 0 0 0 0 UGT76B1 limit START_END D -1701 -1 . 0 0 0 0 AT5G38900 limit START_END D -345 -1 . 0 0 0 0 AT5G38900 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 R -129 -116 TGACCAACCATGCA 9.2 1.6e-05 -11.048 4.798 1 1 GSTL1 limit START_END D -1668 -1 . 0 0 0 0 GSTU10 limit START_END D -201 -1 . 0 0 0 0 AT5G40590 limit START_END D -1235 -1 . 0 0 0 0 AT3G22600 limit START_END D -898 -1 . 0 0 0 0 AT3G22600 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 R -783 -770 CCACCAACGACCCC 10.5 3.5e-06 -12.550 5.450 1 1 ALD1 limit START_END D -1701 -1 . 0 0 0 0 ALD1 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -857 -844 TCATCAGCCACCAT 7.3 8.7e-05 -9.344 4.058 1 1 WRKY31 limit START_END D -1701 -1 . 0 0 0 0 NUDT5 limit START_END D -1168 -1 . 0 0 0 0 AATP1 limit START_END D -863 -1 . 0 0 0 0 UGT72E2 limit START_END D -1701 -1 . 0 0 0 0 AT2G39530 limit START_END D -1464 -1 . 0 0 0 0 DUR limit START_END D -1492 -1 . 0 0 0 0 DUR site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 R -843 -830 CCACCTAACCTAAT 7.3 8.7e-05 -9.344 4.058 1 1 DUR site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -483 -470 ACACCAAACAACCA 7.2 9.6e-05 -9.256 4.020 2 2 CYP71B15 limit START_END D -1701 -1 . 0 0 0 0 CYP71B15 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -1271 -1258 ACACCACCCACAAA 9.4 1.3e-05 -11.267 4.893 1 1 RABA1E limit START_END D -890 -1 . 0 0 0 0 AT3G54040 limit START_END D -1384 -1 . 0 0 0 0 AT1G51890 limit START_END D -1208 -1 . 0 0 0 0 AT5G42830 limit START_END D -1701 -1 . 0 0 0 0 AT5G42830 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -187 -174 TCACCAACCTAGAC 10.1 5.8e-06 -12.052 5.234 1 1 AT5G42830 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -886 -873 ACACCAACCAGATT 7.7 6.3e-05 -9.670 4.200 2 2 PP2A8 limit START_END D -1701 -1 . 0 0 0 0 AT3G28510 limit START_END D -1701 -1 . 0 0 0 0 CHI limit START_END D -1332 -1 . 0 0 0 0 MPT2 limit START_END D -868 -1 . 0 0 0 0 AT3G51330 limit START_END D -519 -1 . 0 0 0 0 CYP71A12 limit START_END D -1701 -1 . 0 0 0 0 RBOHG limit START_END D -695 -1 . 0 0 0 0 GAD1 limit START_END D -1701 -1 . 0 0 0 0 PER37 limit START_END D -1701 -1 . 0 0 0 0 AT3G26470 limit START_END D -1475 -1 . 0 0 0 0 GLR2.5 limit START_END D -201 -1 . 0 0 0 0 CXE2 limit START_END D -1701 -1 . 0 0 0 0 CXE2 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 R -305 -292 CCACCAACCAATCG 9.7 9.2e-06 -11.595 5.036 1 1 FOX2 limit START_END D -1701 -1 . 0 0 0 0 PBS3 limit START_END D -1701 -1 . 0 0 0 0 PBS3 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -1629 -1616 ACACCAAACCCCAC 9.1 1.8e-05 -10.949 4.755 1 1 MSRB8 limit START_END D -1701 -1 . 0 0 0 0 MSRB8 site dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 D -1580 -1567 TCACCTACCCAGTT 9.8 8.3e-06 -11.700 5.081 1 1 AT2G42060 limit START_END D -1701 -1 . 0 0 0 0 CYP71A13 limit START_END D -1701 -1 . 0 0 0 0 JUB1 limit START_END D -1701 -1 . 0 0 0 0 SAL4 limit START_END D -905 -1 . 0 0 0 0 EXT3 limit START_END D -1701 -1 . 0 0 0 0 AT3G07720 limit START_END D -662 -1 . 0 0 0 0 GSTU8 limit START_END D -344 -1 . 0 0 0 0 ABCC7 limit START_END D -201 -1 . 0 0 0 0 AT5G48290 limit START_END D -1272 -1 . 0 0 0 0 GRDP2 limit START_END D -229 -1 . 0 0 0 0 AT2G28960 limit START_END D -1329 -1 . 0 0 0 0 ; ; Matrices ; matrix name ncol nrow pseudo Wmin Wmax Wrange ; 1 dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 14 4 1 -36.300 14.600 50.900 a:0.345 c:0.165 g:0.151 t:0.339 ; Number of sequences scanned 48 ; Sum of sequence lengths 60821 ; N residues 7719 ; Matches per matrix ; matrix name matches scored ; 1 dyads_test_vs_ctrl_m5dyads_test_vs_ctrl_m5 16 120394 ; TOTAL 16 120394 ; Host name rsat ; Job started 2026-07-22.120245 ; Job done 2026-07-22.120256 ; Seconds 10.63 ; user 10.63 ; system 0.01 ; cuser 0.12 ; csystem 0.01