; matrix-scan -v 1 -matrix_format tab -m $RSAT/public_html/tmp/www-data/2026/04/30/matrix-scan_2026-04-30.194339_FqH4PV.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/2026/04/30/retrieve-seq_2026-04-30.194300_4VZnzw.fasta.fasta.fasta -seq_format fasta -n score ; Slow counting mode ; Input files ; input $RSAT/public_html/tmp/www-data/2026/04/30/retrieve-seq_2026-04-30.194300_4VZnzw.fasta.fasta.fasta ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/04/30/matrix-scan_2026-04-30.194339_FqH4PV.matrix ; Sequence format fasta ; Pseudo counts 1 ; Background model ; Method input ; Markov order 1 ; Strand undef ; Background pseudo-frequency 0.01 ; Residue probabilities ; a 0.32963 ; c 0.19135 ; g 0.17131 ; t 0.30771 ; 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 ompT limit START_END D -474 -1 . 0 0 0 0 ompT site matrix-scan_2026-04-30.2 D -290 -274 ATGCCTCTAAAGGCATG 15.6 7.3e-10 -21.042 9.138 1 1 ompT site matrix-scan_2026-04-30.5 D -394 -378 GCCTTGCAAGCCATTGC 16.0 2.7e-09 -19.735 8.571 2 1 ompT site matrix-scan_2026-04-30.5 R -389 -373 GCCTCGCAATGGCTTGC 15.9 3.1e-09 -19.594 8.509 3 2 ompT site matrix-scan_2026-04-30.4 D -289 -273 TGCCTCTAAAGGCATGG 15.4 4.4e-09 -19.231 8.352 4 1 ompT site matrix-scan_2026-04-30.5 R -399 -383 GGCTTGCAAGGCTTTAC 15.1 1.2e-08 -18.252 7.927 5 3 ompT site matrix-scan_2026-04-30.4 R -292 -276 TGCCTTTAGAGGCATAT 14.7 1.4e-08 -18.090 7.857 6 2 ompT site matrix-scan_2026-04-30.3 D -48 -32 CGGGCGAAACTTCTGGG 14.3 2.2e-08 -17.643 7.662 7 1 ompT site matrix-scan_2026-04-30.5 D -288 -272 GCCTCTAAAGGCATGGC 14.4 3.2e-08 -17.268 7.500 8 4 ompT site matrix-scan_2026-04-30.2 R -291 -275 ATGCCTTTAGAGGCATA 13.8 3.6e-08 -17.136 7.442 9 2 ompT site matrix-scan_2026-04-30.4 D -395 -379 AGCCTTGCAAGCCATTG 13.7 6.3e-08 -16.578 7.200 10 3 ompT site matrix-scan_2026-04-30.2 R -83 -67 AATCGTTTTAATGATTG 10.9 1.9e-06 -13.169 5.719 11 3 ompT site matrix-scan_2026-04-30.3 R -63 -47 CGCATAAAAGTTCTCCA 10.8 2.2e-06 -13.013 5.651 12 2 ompT site matrix-scan_2026-04-30.4 R -407 -391 AGGCTTTACATGTTTTG 10.7 2.5e-06 -12.883 5.595 13 4 ompT site matrix-scan_2026-04-30.6 R -260 -244 CTTTTGTGGTGCTTTTA 10.3 3.7e-06 -12.509 5.433 14 1 ompT site matrix-scan_2026-04-30.4 R -398 -382 TGGCTTGCAAGGCTTTA 9.1 1.3e-05 -11.256 4.888 15 5 ompT site matrix-scan_2026-04-30.2 D -405 -389 AAACATGTAAAGCCTTG 8.4 2.7e-05 -10.536 4.576 16 4 ompT site matrix-scan_2026-04-30.5 D -404 -388 AACATGTAAAGCCTTGC 7.2 6.1e-05 -9.703 4.214 17 5 ompT site matrix-scan_2026-04-30.6 R -418 -402 GTTTTGAGGTAGTGGGA 6.9 1.0e-04 -9.205 3.998 18 2 gadB limit START_END D -412 -1 . 0 0 0 0 gadB site matrix-scan_2026-04-30.3 D -24 -8 AGGTCGGAACTACTCGA 15.8 1.3e-09 -20.454 8.883 1 1 gadB site matrix-scan_2026-04-30.2 R -73 -57 ACTCCTTAAAATGATTG 12.4 2.9e-07 -15.069 6.544 2 1 gadB site matrix-scan_2026-04-30.3 R -177 -161 CGTGAGATATTACGCGA 11.5 9.9e-07 -13.826 6.005 3 2 mgrB limit START_END D -209 -1 . 0 0 0 0 mgrB site matrix-scan_2026-04-30.6 D -29 -13 TTCTGGTTGTCGTGGTG 15.8 7.0e-10 -21.083 9.156 1 1 mgrB site matrix-scan_2026-04-30.6 D -26 -10 TGGTTGTCGTGGTGTTG 14.3 1.6e-08 -17.948 7.795 2 2 yrbL limit START_END D -264 -1 . 0 0 0 0 yrbL site matrix-scan_2026-04-30.4 D -133 -117 AACCTTAAGAGGCATTG 14.7 1.4e-08 -18.090 7.857 1 1 yrbL site matrix-scan_2026-04-30.6 R -229 -213 TTCTTATTGTCGGGGGG 13.4 6.8e-08 -16.500 7.166 2 1 yrbL site matrix-scan_2026-04-30.6 R -150 -134 TTCTTAAGGTTCTTCTG 11.6 8.2e-07 -14.017 6.087 3 2 yrbL site matrix-scan_2026-04-30.2 R -135 -119 ATGCCTCTTAAGGTTTT 8.6 2.2e-05 -10.718 4.655 4 1 yrbL site matrix-scan_2026-04-30.2 D -134 -118 AAACCTTAAGAGGCATT 7.7 5.1e-05 -9.882 4.292 5 2 yrbL site matrix-scan_2026-04-30.4 R -136 -120 TGCCTCTTAAGGTTTTC 7.1 7.7e-05 -9.473 4.114 6 2 gadA limit START_END D -261 -1 . 0 0 0 0 gadA site matrix-scan_2026-04-30.3 D -24 -8 CGCTCAGAACTACTCGA 16.3 3.5e-10 -21.787 9.462 1 1 gadA site matrix-scan_2026-04-30.2 D -128 -112 AAGCCTGTAATGCCTTG 13.5 5.7e-08 -16.676 7.242 2 1 gadA site matrix-scan_2026-04-30.5 D -127 -111 AGCCTGTAATGCCTTGC 13.8 7.3e-08 -16.431 7.136 3 1 gadA site matrix-scan_2026-04-30.4 R -130 -114 AGGCATTACAGGCTTAA 7.4 6.0e-05 -9.727 4.224 4 1 ; ; Matrices ; matrix name ncol nrow pseudo Wmin Wmax Wrange ; 1 matrix-scan_2026-04-30.2 17 4 1 -30.500 16.600 47.100 a:0.330 c:0.191 g:0.171 t:0.308 ; 2 matrix-scan_2026-04-30.3 17 4 1 -30.500 17.600 48.100 a:0.330 c:0.191 g:0.171 t:0.308 ; 3 matrix-scan_2026-04-30.4 17 4 1 -30.500 17.700 48.200 a:0.330 c:0.191 g:0.171 t:0.308 ; 4 matrix-scan_2026-04-30.5 17 4 1 -30.500 19.200 49.700 a:0.330 c:0.191 g:0.171 t:0.308 ; 5 matrix-scan_2026-04-30.6 17 4 1 -30.500 16.900 47.400 a:0.330 c:0.191 g:0.171 t:0.308 ; Number of sequences scanned 5 ; Sum of sequence lengths 1620 ; N residues 0 ; Matches per matrix ; matrix name matches scored ; 1 matrix-scan_2026-04-30.2 8 3080 ; 2 matrix-scan_2026-04-30.3 5 3080 ; 3 matrix-scan_2026-04-30.4 8 3080 ; 4 matrix-scan_2026-04-30.5 6 3080 ; 5 matrix-scan_2026-04-30.6 6 3080 ; TOTAL 33 15400 ; Host name rsat ; Job started 2026-04-30.194340 ; Job done 2026-04-30.194345 ; Seconds 4.86 ; user 4.86 ; system 0.01 ; cuser 0.11 ; csystem 0.01