; matrix-scan -v 1 -matrix_format tab -m $RSAT/public_html/tmp/www-data/2026/04/30/matrix-scan_2026-04-30.200103_ovzHSN.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_2026-04-30.193419_fEUhtg.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_2026-04-30.193419_fEUhtg.fasta.fasta.fasta ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/04/30/matrix-scan_2026-04-30.200103_ovzHSN.matrix ; Sequence format fasta ; Pseudo counts 1 ; Background model ; Method input ; Markov order 1 ; Strand undef ; Background pseudo-frequency 0.01 ; Residue probabilities ; a 0.30335 ; c 0.19690 ; g 0.19856 ; t 0.30118 ; 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 insA limit START_END D -106 -1 . 0 0 0 0 insA site matrix-scan_2026-04-30.4 D -61 -45 AGGTGCTCCAGTGGCTT 10.4 2.0e-06 -13.121 5.698 1 1 borD limit START_END D -341 -1 . 0 0 0 0 borD site matrix-scan_2026-04-30.5 D -331 -315 CCGGTTTCTTCCGTGTC 11.2 3.2e-07 -14.964 6.499 1 1 borD site matrix-scan_2026-04-30.3 R -121 -105 AAACAAACCCTAAACAA 10.0 3.9e-06 -12.461 5.412 2 1 borD site matrix-scan_2026-04-30.5 D -26 -10 CGCTGGCCCTGCTTATT 8.9 1.5e-05 -11.097 4.819 3 2 borD site matrix-scan_2026-04-30.6 R -241 -225 TTCTCTGCGGGAGTGTC 8.7 2.1e-05 -10.792 4.687 4 1 borD site matrix-scan_2026-04-30.4 D -28 -12 TGCGCTGGCCCTGCTTA 8.1 4.2e-05 -10.072 4.374 5 1 borD site matrix-scan_2026-04-30.2 R -78 -62 CCGATGCTTTTTGAAGT 7.7 7.6e-05 -9.486 4.120 6 1 ompT limit START_END D -474 -1 . 0 0 0 0 ompT site matrix-scan_2026-04-30.4 R -387 -371 AGGCCTCGCAATGGCTT 11.2 5.4e-07 -14.437 6.270 1 1 ompT site matrix-scan_2026-04-30.4 D -386 -370 AGCCATTGCGAGGCCTT 10.1 3.2e-06 -12.648 5.493 2 2 ompT site matrix-scan_2026-04-30.5 R -234 -218 CGGTTTTACTGTGTGGT 9.5 6.4e-06 -11.954 5.192 3 1 ompT site matrix-scan_2026-04-30.3 D -237 -221 AAAACCACACAGTAAAA 9.5 8.4e-06 -11.685 5.075 4 1 ompT site matrix-scan_2026-04-30.4 R -397 -381 ATGGCTTGCAAGGCTTT 9.2 1.1e-05 -11.399 4.950 5 3 ompT site matrix-scan_2026-04-30.2 R -244 -228 GTGTGGTTTTTTTATGC 9.0 1.4e-05 -11.144 4.840 6 1 ompT site matrix-scan_2026-04-30.4 R -258 -242 TGCTTTTGTGGTGCTTT 8.7 2.1e-05 -10.771 4.678 7 4 ompT site matrix-scan_2026-04-30.3 D -229 -213 ACAGTAAAACCGAAATA 8.4 3.5e-05 -10.267 4.459 8 2 ompT site matrix-scan_2026-04-30.3 D -253 -237 ACCACAAAAGCATAAAA 8.2 4.4e-05 -10.028 4.355 9 3 ompT site matrix-scan_2026-04-30.3 D -252 -236 CCACAAAAGCATAAAAA 7.8 6.8e-05 -9.597 4.168 10 4 ompT site matrix-scan_2026-04-30.3 D -251 -235 CACAAAAGCATAAAAAA 7.6 8.3e-05 -9.401 4.083 11 5 ybeF limit START_END D -309 -1 . 0 0 0 0 ybeF site matrix-scan_2026-04-30.4 R -206 -190 AGGCGTGGCACCGCATT 10.9 8.9e-07 -13.935 6.052 1 1 ybeF site matrix-scan_2026-04-30.4 D -205 -189 ATGCGGTGCCACGCCTT 8.9 1.6e-05 -11.030 4.790 2 2 ybeF site matrix-scan_2026-04-30.3 R -94 -78 AAAATAATATTTAAAAA 8.0 5.5e-05 -9.809 4.260 3 1 ybeF site matrix-scan_2026-04-30.4 R -256 -240 AGGAGATGTAAAGCATT 7.6 7.2e-05 -9.540 4.143 4 3 ybeF site matrix-scan_2026-04-30.6 R -147 -131 TTTTGCTCACCATAATC 7.6 7.6e-05 -9.490 4.122 5 1 ybjX limit START_END D -165 -1 . 0 0 0 0 ybjX site matrix-scan_2026-04-30.3 D -111 -95 CAACAAAACCCTAAAAT 8.6 2.8e-05 -10.490 4.556 1 1 ybjX site matrix-scan_2026-04-30.3 D -110 -94 AACAAAACCCTAAAATT 8.6 2.8e-05 -10.490 4.556 2 2 nudJ limit START_END D -60 -1 . 0 0 0 0 yncH limit START_END D -126 -1 . 0 0 0 0 gadC limit START_END D -206 -1 . 0 0 0 0 gadC site matrix-scan_2026-04-30.2 R -204 -188 CCGTTACCGTTAAACGT 9.1 1.3e-05 -11.279 4.898 1 1 gadC site matrix-scan_2026-04-30.6 R -112 -96 TGTTCTGAAGCGTATTC 7.6 7.6e-05 -9.490 4.122 2 1 gadB limit START_END D -412 -1 . 0 0 0 0 gadB site matrix-scan_2026-04-30.3 R -303 -287 AAAATCAGACCTTAAAA 10.0 3.9e-06 -12.461 5.412 1 1 gadB site matrix-scan_2026-04-30.3 D -252 -236 AAAATAACAGCATAAAA 9.9 4.6e-06 -12.295 5.340 2 2 gadB site matrix-scan_2026-04-30.6 D -70 -54 TCATTTTAAGGAGTTTA 9.6 5.6e-06 -12.088 5.250 3 1 gadB site matrix-scan_2026-04-30.2 R -259 -243 CTGTTATTTTTATGCGC 8.3 3.7e-05 -10.193 4.427 4 1 gadB site matrix-scan_2026-04-30.4 D -125 -109 GTCCTTTGCACTTGCTT 7.7 6.5e-05 -9.635 4.184 5 1 slyB limit START_END D -324 -1 . 0 0 0 0 slyB site matrix-scan_2026-04-30.5 D -251 -235 CCGATTTTTACCGTTGG 8.0 4.8e-05 -9.949 4.321 1 1 mgrB limit START_END D -209 -1 . 0 0 0 0 mgrB site matrix-scan_2026-04-30.4 D -22 -6 TGTCGTGGTGTTGGCTT 8.6 2.4e-05 -10.651 4.625 1 1 ygdR limit START_END D -188 -1 . 0 0 0 0 ygdR site matrix-scan_2026-04-30.5 R -69 -53 CGGTTATCCTCATTTGG 7.4 9.3e-05 -9.286 4.033 1 1 ygeN limit START_END D -51 -1 . 0 0 0 0 ygeN site matrix-scan_2026-04-30.6 R -21 -5 CCATTTGCAGGAGATTT 8.3 3.4e-05 -10.298 4.472 1 1 higB limit START_END D -334 -1 . 0 0 0 0 higB site matrix-scan_2026-04-30.6 R -24 -8 TTTTCCGCAGCATCTTT 9.0 1.4e-05 -11.211 4.869 1 1 higB site matrix-scan_2026-04-30.6 R -21 -5 TATTTTTCCGCAGCATC 8.9 1.6e-05 -11.073 4.809 2 2 higB site matrix-scan_2026-04-30.3 R -163 -147 AGAAAAACGCTAAACAA 8.9 1.9e-05 -10.872 4.722 3 1 higB site matrix-scan_2026-04-30.6 D -165 -149 TCTTGTTTAGCGTTTTT 8.3 3.4e-05 -10.298 4.472 4 3 higB site matrix-scan_2026-04-30.3 R -152 -136 AGAATAAACGTAGAAAA 8.3 3.9e-05 -10.151 4.408 5 2 higB site matrix-scan_2026-04-30.6 D -189 -173 TCCCTGTCACCATCGTC 8.0 4.9e-05 -9.929 4.312 6 4 yrbL limit START_END D -264 -1 . 0 0 0 0 yrbL site matrix-scan_2026-04-30.3 R -119 -103 AAACAAAACCTAAACAA 9.4 9.7e-06 -11.541 5.012 1 1 yrbL site matrix-scan_2026-04-30.5 R -20 -4 CCGATGTCTTCCGGTGC 9.0 1.3e-05 -11.234 4.879 2 1 yrbL site matrix-scan_2026-04-30.2 R -221 -205 ACGTGATTTTCTTATTG 8.8 2.0e-05 -10.841 4.708 3 1 yrbL site matrix-scan_2026-04-30.6 R -148 -132 TTTTCTTAAGGTTCTTC 8.3 3.4e-05 -10.298 4.472 4 1 yrbL site matrix-scan_2026-04-30.2 R -20 -4 CCGATGTCTTCCGGTGC 8.0 5.4e-05 -9.823 4.266 5 2 yrbL site matrix-scan_2026-04-30.2 D -125 -109 GAGGCATTGTTTAGGTT 7.9 6.0e-05 -9.719 4.221 6 3 zntA limit START_END D -124 -1 . 0 0 0 0 zntA site matrix-scan_2026-04-30.2 R -45 -29 CCGTGATTGTCAGGAGT 9.1 1.3e-05 -11.279 4.898 1 1 hdeD limit START_END D -305 -1 . 0 0 0 0 hdeD site matrix-scan_2026-04-30.3 R -68 -52 AGAACCACCCTATAAAA 10.4 1.9e-06 -13.189 5.728 1 1 hdeD site matrix-scan_2026-04-30.5 D -240 -224 CTGGTTTTCTGTATATG 8.3 3.3e-05 -10.321 4.482 2 1 hdeD site matrix-scan_2026-04-30.6 D -119 -103 TTCTTAGACGCGTTTTT 7.6 7.6e-05 -9.490 4.122 3 1 gadE limit START_END D -362 -1 . 0 0 0 0 gadE site matrix-scan_2026-04-30.2 D -287 -271 ACGTTAACTTTTTGTTT 9.3 9.1e-06 -11.608 5.041 1 1 gadE site matrix-scan_2026-04-30.6 D -23 -7 TTCTTTTACAGGGCTTT 8.5 2.6e-05 -10.547 4.581 2 1 gadE site matrix-scan_2026-04-30.6 D -22 -6 TCTTTTACAGGGCTTTT 8.4 3.0e-05 -10.421 4.526 3 2 gadE site matrix-scan_2026-04-30.6 R -123 -107 TCCTTGTCCGAATCGTT 8.3 3.4e-05 -10.298 4.472 4 3 gadE site matrix-scan_2026-04-30.3 R -20 -4 CCAAAAGCCCTGTAAAA 8.2 4.4e-05 -10.028 4.355 5 1 gadA limit START_END D -261 -1 . 0 0 0 0 gadA site matrix-scan_2026-04-30.5 D -162 -146 TCGTTTTTCTGCTTAGG 9.7 4.8e-06 -12.245 5.318 1 1 gadA site matrix-scan_2026-04-30.2 D -165 -149 AAGTCGTTTTTCTGCTT 9.0 1.4e-05 -11.144 4.840 2 1 yhjC limit START_END D -570 -1 . 0 0 0 0 yhjC site matrix-scan_2026-04-30.6 R -68 -52 TTCTTTGACCGATTGTT 9.1 1.2e-05 -11.338 4.924 1 1 yhjC site matrix-scan_2026-04-30.6 D -224 -208 TCTGTTTAAGGGGATTC 8.8 1.8e-05 -10.924 4.744 2 2 yhjC site matrix-scan_2026-04-30.2 D -90 -74 GCGTTACTGTTTCGCTG 8.4 3.3e-05 -10.321 4.482 3 1 yiaG limit START_END D -484 -1 . 0 0 0 0 yiaG site matrix-scan_2026-04-30.4 D -154 -138 AGAGCATGCCCTGACTT 8.8 1.9e-05 -10.894 4.731 1 1 yiaG site matrix-scan_2026-04-30.4 D -26 -10 AGCTGTTGAGCAGCCTG 8.8 1.9e-05 -10.894 4.731 2 2 yiaG site matrix-scan_2026-04-30.5 D -132 -116 CGCTGTGTCTGCTTTTC 8.7 2.0e-05 -10.816 4.698 3 1 yiaG site matrix-scan_2026-04-30.4 R -159 -143 AGGGCATGCTCTGGCTA 8.4 3.0e-05 -10.427 4.528 4 3 yiaG site matrix-scan_2026-04-30.6 D -123 -107 TGCTTTTCCCGACTATT 7.6 7.6e-05 -9.490 4.122 5 1 yidX limit START_END D -328 -1 . 0 0 0 0 yidX site matrix-scan_2026-04-30.5 D -322 -306 TCCTTGTGCTCTGTATG 10.6 1.0e-06 -13.772 5.981 1 1 yidX site matrix-scan_2026-04-30.3 R -41 -25 AAAAAATCCCTTAAAAT 8.7 2.5e-05 -10.612 4.609 2 1 yidX site matrix-scan_2026-04-30.2 R -166 -150 ATGTCATTTTTTTATGC 8.5 2.9e-05 -10.450 4.539 3 1 yidX site matrix-scan_2026-04-30.3 R -40 -24 TAAAAAATCCCTTAAAA 8.3 3.9e-05 -10.151 4.408 4 2 yidX site matrix-scan_2026-04-30.3 D -174 -158 AGAACAATGCATAAAAA 7.8 6.8e-05 -9.597 4.168 5 3 yidX site matrix-scan_2026-04-30.3 R -29 -13 ACCGGCAGCCTTAAAAA 7.8 6.8e-05 -9.597 4.168 6 4 yidX site matrix-scan_2026-04-30.2 D -36 -20 AAGGGATTTTTTAAGGC 7.7 7.6e-05 -9.486 4.120 7 2 yidX site matrix-scan_2026-04-30.6 R -172 -156 TTTTTTTATGCATTGTT 7.5 8.5e-05 -9.371 4.070 8 1 yjbJ limit START_END D -166 -1 . 0 0 0 0 yjeT limit START_END D -132 -1 . 0 0 0 0 yjeT site matrix-scan_2026-04-30.5 D -82 -66 CGGTGGTTTTCTTTTTC 9.9 3.4e-06 -12.579 5.463 1 1 yjeT site matrix-scan_2026-04-30.4 D -31 -15 GGCGCTTGCCCTGGTTT 10.0 3.7e-06 -12.514 5.435 2 1 yjeT site matrix-scan_2026-04-30.4 R -106 -90 TGAGGATGCGGTGGCTT 9.7 5.7e-06 -12.073 5.243 3 2 yjeT site matrix-scan_2026-04-30.5 D -29 -13 CGCTTGCCCTGGTTTTG 8.0 4.8e-05 -9.949 4.321 4 2 mgtA limit START_END D -191 -1 . 0 0 0 0 mgtA site matrix-scan_2026-04-30.4 R -112 -96 AGGCGTGGCGAAGCCTT 12.2 7.2e-08 -16.442 7.141 1 1 mgtA site matrix-scan_2026-04-30.2 D -156 -140 CCGTGACGTTTTAACGT 10.2 1.8e-06 -13.236 5.748 2 1 mgtA site matrix-scan_2026-04-30.5 D -65 -49 CGGAGGGACTCCTTATG 9.0 1.3e-05 -11.234 4.879 3 1 mgtA site matrix-scan_2026-04-30.4 D -111 -95 AGGCTTCGCCACGCCTG 8.9 1.6e-05 -11.030 4.790 4 2 mgtA site matrix-scan_2026-04-30.6 D -139 -123 CCCTGCTCAGCTTTATT 8.5 2.6e-05 -10.547 4.581 5 1 mgtA site matrix-scan_2026-04-30.2 R -164 -148 ACGTCACGGCCTTACGC 7.9 6.0e-05 -9.719 4.221 6 2 fecC limit START_END D -51 -1 . 0 0 0 0 fecC site matrix-scan_2026-04-30.5 D -34 -18 CCCGGTGCTGCTGTGGG 9.0 1.3e-05 -11.234 4.879 1 1 fecC site matrix-scan_2026-04-30.5 D -32 -16 CGGTGCTGCTGTGGGGG 8.9 1.5e-05 -11.097 4.819 2 2 fecC site matrix-scan_2026-04-30.4 D -29 -13 TGCTGCTGTGGGGGCTT 7.7 6.5e-05 -9.635 4.184 3 1 ; ; Matrices ; matrix name ncol nrow pseudo Wmin Wmax Wrange ; 1 matrix-scan_2026-04-30.2 17 4 1 -46.600 13.100 59.700 a:0.303 c:0.197 g:0.199 t:0.301 ; 2 matrix-scan_2026-04-30.3 17 4 1 -45.800 13.400 59.200 a:0.303 c:0.197 g:0.199 t:0.301 ; 3 matrix-scan_2026-04-30.4 17 4 1 -35.800 15.100 50.900 a:0.303 c:0.197 g:0.199 t:0.301 ; 4 matrix-scan_2026-04-30.5 17 4 1 -45.400 13.700 59.100 a:0.303 c:0.197 g:0.199 t:0.301 ; 5 matrix-scan_2026-04-30.6 17 4 1 -44.500 13.300 57.800 a:0.303 c:0.197 g:0.199 t:0.301 ; Number of sequences scanned 26 ; Sum of sequence lengths 6543 ; N residues 0 ; Matches per matrix ; matrix name matches scored ; 1 matrix-scan_2026-04-30.2 15 12254 ; 2 matrix-scan_2026-04-30.3 20 12254 ; 3 matrix-scan_2026-04-30.4 19 12254 ; 4 matrix-scan_2026-04-30.5 15 12254 ; 5 matrix-scan_2026-04-30.6 19 12254 ; TOTAL 88 61270 ; Host name rsat ; Job started 2026-04-30.200104 ; Job done 2026-04-30.200113 ; Seconds 9.68 ; user 9.68 ; system 0.02 ; cuser 0.08 ; csystem 0.04