; matrix-scan -v 1 -matrix_format tab -m $RSAT/public_html/tmp/www-data/2026/04/30/matrix-scan_2026-04-30.194146_0yADxL.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_2026-04-30.193434_R4my6B.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_2026-04-30.193434_R4my6B.fasta.fasta.fasta ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/04/30/matrix-scan_2026-04-30.194146_0yADxL.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_2026-04-30.4 D -403 -387 ACATGTAAAGCCTTGCA 14.8 2.9e-09 -19.653 8.535 1 1 ompT site matrix-scan_2026-04-30.3 R -394 -378 GCAATGGCTTGCAAGGC 14.6 4.2e-09 -19.294 8.379 2 1 ompT site matrix-scan_2026-04-30.2 D -28 -12 AGTCCTGACAACCCCTA 14.7 7.1e-09 -18.762 8.148 3 1 ompT site matrix-scan_2026-04-30.4 R -380 -364 ACACATAAGGCCTCGCA 13.8 2.6e-08 -17.457 7.582 4 2 ompT site matrix-scan_2026-04-30.3 D -389 -373 GCAAGCCATTGCGAGGC 13.2 7.4e-08 -16.421 7.131 5 2 ompT site matrix-scan_2026-04-30.6 D -426 -410 CTCACACGTCCCACTAC 12.7 1.7e-07 -15.566 6.760 6 1 ompT site matrix-scan_2026-04-30.3 D -399 -383 GTAAAGCCTTGCAAGCC 12.1 3.9e-07 -14.763 6.411 7 3 ompT site matrix-scan_2026-04-30.3 D -288 -272 GCCTCTAAAGGCATGGC 11.6 7.7e-07 -14.074 6.112 8 4 ompT site matrix-scan_2026-04-30.4 R -400 -384 GCTTGCAAGGCTTTACA 11.4 9.8e-07 -13.840 6.011 9 3 ompT site matrix-scan_2026-04-30.5 R -398 -382 TGGCTTGCAAGGCTTTA 9.0 1.5e-05 -11.080 4.812 10 1 ompT site matrix-scan_2026-04-30.3 R -288 -272 GCCATGCCTTTAGAGGC 7.4 7.1e-05 -9.547 4.146 11 5 gadB limit START_END D -412 -1 . 0 0 0 0 gadB site matrix-scan_2026-04-30.5 R -343 -327 TATTTTGAACGCATTTA 13.0 7.7e-08 -16.382 7.114 1 1 gadB site matrix-scan_2026-04-30.6 D -237 -221 AACACCTTACCACCACC 13.2 8.4e-08 -16.298 7.078 2 1 gadB site matrix-scan_2026-04-30.2 D -236 -220 ACACCTTACCACCACCC 13.2 9.6e-08 -16.158 7.018 3 1 gadB site matrix-scan_2026-04-30.5 R -65 -49 CATTTTAAACTCCTTAA 12.8 1.1e-07 -16.002 6.950 4 2 gadB site matrix-scan_2026-04-30.2 D -408 -392 AGCCCCGTCAACACATC 12.9 1.5e-07 -15.738 6.835 5 2 gadB site matrix-scan_2026-04-30.2 R -395 -379 AATCCCCGCCAACGATG 10.3 3.8e-06 -12.487 5.423 6 3 gadB site matrix-scan_2026-04-30.4 D -257 -241 GCATAAAAATAACAGCA 8.8 1.9e-05 -10.885 4.727 7 1 mgrB limit START_END D -209 -1 . 0 0 0 0 mgrB site matrix-scan_2026-04-30.6 R -72 -56 ATCTCCGTTTCACCTAC 13.3 7.1e-08 -16.463 7.150 1 1 yrbL limit START_END D -264 -1 . 0 0 0 0 yrbL site matrix-scan_2026-04-30.2 D -243 -227 ACTCCCTTCAAACTCCC 13.9 3.2e-08 -17.264 7.498 1 1 yrbL site matrix-scan_2026-04-30.6 D -244 -228 AACTCCCTTCAAACTCC 13.8 3.3e-08 -17.218 7.478 2 1 yrbL site matrix-scan_2026-04-30.4 D -250 -234 ACATACAACTCCCTTCA 13.3 6.2e-08 -16.589 7.204 3 1 yrbL site matrix-scan_2026-04-30.5 D -172 -156 CATTTTGTGCGCTTTTC 11.2 1.2e-06 -13.654 5.930 4 1 yrbL site matrix-scan_2026-04-30.3 D -20 -4 GCACCGGAAGACATCGG 10.9 1.9e-06 -13.194 5.730 5 1 yrbL site matrix-scan_2026-04-30.6 R -60 -44 CGAATCATGCCATCTCC 10.3 3.5e-06 -12.551 5.451 6 2 gadA limit START_END D -261 -1 . 0 0 0 0 gadA site matrix-scan_2026-04-30.5 R -65 -49 CATTTCGAACTCCTTAA 13.8 1.9e-08 -17.787 7.725 1 1 gadA site matrix-scan_2026-04-30.4 D -126 -110 GCCTGTAATGCCTTGCT 7.8 4.9e-05 -9.921 4.309 2 1 gadA site matrix-scan_2026-04-30.3 R -127 -111 GCAAGGCATTACAGGCT 7.1 9.3e-05 -9.281 4.031 3 1 ; ; Matrices ; matrix name ncol nrow pseudo Wmin Wmax Wrange ; 1 matrix-scan_2026-04-30.2 17 4 1 -29.100 16.200 45.300 a:0.330 c:0.191 g:0.171 t:0.308 ; 2 matrix-scan_2026-04-30.3 17 4 1 -29.100 17.100 46.200 a:0.330 c:0.191 g:0.171 t:0.308 ; 3 matrix-scan_2026-04-30.4 17 4 1 -30.500 16.400 46.900 a:0.330 c:0.191 g:0.171 t:0.308 ; 4 matrix-scan_2026-04-30.5 17 4 1 -30.500 16.400 46.900 a:0.330 c:0.191 g:0.171 t:0.308 ; 5 matrix-scan_2026-04-30.6 17 4 1 -29.100 16.300 45.400 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 5 3080 ; 2 matrix-scan_2026-04-30.3 7 3080 ; 3 matrix-scan_2026-04-30.4 6 3080 ; 4 matrix-scan_2026-04-30.5 5 3080 ; 5 matrix-scan_2026-04-30.6 5 3080 ; TOTAL 28 15400 ; Host name rsat ; Job started 2026-04-30.194147 ; Job done 2026-04-30.194151 ; Seconds 4.72 ; user 4.72 ; system 0.02 ; cuser 0.1 ; csystem 0.02