; matrix-scan -v 1 -matrix_format tab -m $RSAT/public_html/tmp/www-data/2026/04/30/matrix-scan_2026-04-30.194017_oIC6sH.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_2026-04-30.193217_ikSeFi.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_2026-04-30.193217_ikSeFi.fasta.fasta.fasta ; Matrix files ; matrix 1 $RSAT/public_html/tmp/www-data/2026/04/30/matrix-scan_2026-04-30.194017_oIC6sH.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 R -77 -61 TCAAAAACACCATCATA 8.4 3.3e-05 -10.305 4.475 1 1 borD limit START_END D -341 -1 . 0 0 0 0 borD site matrix-scan_2026-04-30.4 R -119 -103 TTAAACAAACCCTAAAC 11.1 2.6e-07 -15.144 6.577 1 1 borD site matrix-scan_2026-04-30.2 D -117 -101 TTAGGGTTTGTTTAATT 11.4 3.2e-07 -14.964 6.499 2 1 borD site matrix-scan_2026-04-30.4 R -120 -104 TAAACAAACCCTAAACA 10.7 6.6e-07 -14.234 6.182 3 2 borD site matrix-scan_2026-04-30.3 R -121 -105 AAACAAACCCTAAACAA 10.8 6.8e-07 -14.201 6.167 4 1 borD site matrix-scan_2026-04-30.5 D -322 -306 TCCGTGTCAGCACCGGG 10.5 1.8e-06 -13.247 5.753 5 1 borD site matrix-scan_2026-04-30.3 R -122 -106 AACAAACCCTAAACAAT 10.1 2.7e-06 -12.822 5.568 6 2 borD site matrix-scan_2026-04-30.5 R -331 -315 GACACGGAAGAAACCGG 10.0 3.9e-06 -12.463 5.413 7 2 borD site matrix-scan_2026-04-30.3 D -154 -138 TAATAAATATTAACAAT 8.8 2.0e-05 -10.838 4.707 8 3 borD site matrix-scan_2026-04-30.3 R -110 -94 TGTAGAAAATTAAACAA 7.4 9.8e-05 -9.229 4.008 9 4 ompT limit START_END D -474 -1 . 0 0 0 0 ompT site matrix-scan_2026-04-30.5 R -379 -363 GACACATAAGGCCTCGC 10.1 3.4e-06 -12.600 5.472 1 1 ompT site matrix-scan_2026-04-30.2 R -244 -228 GTGTGGTTTTTTTATGC 8.7 2.3e-05 -10.694 4.644 2 1 ompT site matrix-scan_2026-04-30.5 R -394 -378 GCAATGGCTTGCAAGGC 8.3 3.6e-05 -10.238 4.446 3 2 ompT site matrix-scan_2026-04-30.4 D -253 -237 ACCACAAAAGCATAAAA 8.2 4.3e-05 -10.045 4.362 4 1 ompT site matrix-scan_2026-04-30.3 D -250 -234 ACAAAAGCATAAAAAAA 8.1 4.6e-05 -9.978 4.333 5 1 ompT site matrix-scan_2026-04-30.4 D -237 -221 AAAACCACACAGTAAAA 8.1 4.9e-05 -9.928 4.312 6 2 ompT site matrix-scan_2026-04-30.3 D -196 -180 AATTAAACCAAAAACAG 7.7 7.3e-05 -9.531 4.139 7 2 ompT site matrix-scan_2026-04-30.3 D -149 -133 AACAAAATATAAACAGT 7.7 7.3e-05 -9.531 4.139 8 3 ompT site matrix-scan_2026-04-30.4 D -152 -136 CTAAACAAAATATAAAC 7.5 9.5e-05 -9.257 4.020 9 3 ompT site matrix-scan_2026-04-30.2 R -255 -239 TTATGCTTTTGTGGTGC 7.3 1.0e-04 -9.179 3.986 10 2 ompT site matrix-scan_2026-04-30.4 D -193 -177 TAAACCAAAAACAGATA 7.4 1.0e-04 -9.163 3.979 11 4 ybeF limit START_END D -309 -1 . 0 0 0 0 ybeF site matrix-scan_2026-04-30.6 D -187 -171 CTCCGTAACTCACCCCA 10.3 2.2e-06 -13.024 5.656 1 1 ybeF site matrix-scan_2026-04-30.5 D -198 -182 GCCACGCCTTGCTCCGT 8.7 2.3e-05 -10.696 4.645 2 1 ybeF site matrix-scan_2026-04-30.2 D -240 -224 TTCGCGTTTGTATATTT 8.7 2.3e-05 -10.694 4.644 3 1 ybjX limit START_END D -165 -1 . 0 0 0 0 ybjX site matrix-scan_2026-04-30.4 D -112 -96 TCAACAAAACCCTAAAA 11.9 2.3e-08 -17.605 7.646 1 1 ybjX site matrix-scan_2026-04-30.2 R -114 -98 TTAGGGTTTTGTTGATA 10.7 1.3e-06 -13.583 5.899 2 1 ybjX site matrix-scan_2026-04-30.3 D -110 -94 AACAAAACCCTAAAATT 7.9 5.8e-05 -9.762 4.240 3 1 nudJ limit START_END D -60 -1 . 0 0 0 0 yncH limit START_END D -126 -1 . 0 0 0 0 yncH site matrix-scan_2026-04-30.2 D -53 -37 TCATGGTATGTTTTTTA 8.9 1.7e-05 -10.954 4.757 1 1 yncH site matrix-scan_2026-04-30.6 D -95 -79 TTCAGTAACTTTATCCA 8.2 4.2e-05 -10.083 4.379 2 1 yncH site matrix-scan_2026-04-30.3 R -43 -27 TGATATAAATTAAAAAA 7.9 5.8e-05 -9.762 4.240 3 1 gadC limit START_END D -206 -1 . 0 0 0 0 gadC site matrix-scan_2026-04-30.6 R -62 -46 AGCCATATTATCCCCCT 9.9 4.2e-06 -12.378 5.376 1 1 gadB limit START_END D -412 -1 . 0 0 0 0 gadB site matrix-scan_2026-04-30.2 D -150 -134 TTAGGATTTTGTTATTT 12.4 2.8e-08 -17.382 7.549 1 1 gadB site matrix-scan_2026-04-30.2 R -328 -312 TTAGTACTTGATTATTA 9.6 7.0e-06 -11.868 5.154 2 2 gadB site matrix-scan_2026-04-30.6 D -235 -219 CACCTTACCACCACCCA 9.5 7.7e-06 -11.779 5.115 3 1 gadB site matrix-scan_2026-04-30.6 R -62 -46 ATCCATTTTAAACTCCT 9.0 1.5e-05 -11.085 4.814 4 2 gadB site matrix-scan_2026-04-30.6 R -148 -132 TTAAATAACAAAATCCT 8.5 2.9e-05 -10.450 4.538 5 3 gadB site matrix-scan_2026-04-30.2 R -257 -241 TGCTGTTATTTTTATGC 7.4 9.3e-05 -9.278 4.030 6 3 slyB limit START_END D -324 -1 . 0 0 0 0 slyB site matrix-scan_2026-04-30.2 D -163 -147 TTATGATTTGCTCATAT 9.4 9.1e-06 -11.602 5.039 1 1 slyB site matrix-scan_2026-04-30.5 R -85 -69 ACCATGAAACGCCACGC 8.2 4.1e-05 -10.113 4.392 2 1 slyB site matrix-scan_2026-04-30.6 R -35 -19 TACCATTGAAACAACCA 7.7 7.3e-05 -9.530 4.139 3 1 slyB site matrix-scan_2026-04-30.4 R -202 -186 TAAACAAAACATTCATG 7.5 9.5e-05 -9.257 4.020 4 1 mgrB limit START_END D -209 -1 . 0 0 0 0 mgrB site matrix-scan_2026-04-30.6 R -74 -58 CTCCGTTTCACCTACCT 8.3 3.7e-05 -10.210 4.434 1 1 ygdR limit START_END D -188 -1 . 0 0 0 0 ygdR site matrix-scan_2026-04-30.6 D -157 -141 CTCACTCCTTTTACCCT 8.6 2.6e-05 -10.561 4.586 1 1 ygeN limit START_END D -51 -1 . 0 0 0 0 higB limit START_END D -334 -1 . 0 0 0 0 higB site matrix-scan_2026-04-30.5 R -266 -250 GCCGCGTCTTATCCGGC 11.5 2.9e-07 -15.040 6.532 1 1 higB site matrix-scan_2026-04-30.5 D -257 -241 GACGCGGCAAGCGTCGC 10.0 3.9e-06 -12.463 5.413 2 2 higB site matrix-scan_2026-04-30.5 D -306 -290 TAAACGCCTTATCCGGC 8.8 2.0e-05 -10.819 4.698 3 3 higB site matrix-scan_2026-04-30.5 D -114 -98 TCCGTTGCCAATCTGGC 8.4 3.2e-05 -10.353 4.496 4 4 higB site matrix-scan_2026-04-30.3 R -163 -147 AGAAAAACGCTAAACAA 7.4 9.8e-05 -9.229 4.008 5 1 higB site matrix-scan_2026-04-30.5 R -108 -92 TCCGTTGCCAGATTGGC 7.3 1.0e-04 -9.176 3.985 6 5 yrbL limit START_END D -264 -1 . 0 0 0 0 yrbL site matrix-scan_2026-04-30.4 R -118 -102 TAAACAAAACCTAAACA 11.7 3.9e-08 -17.052 7.406 1 1 yrbL site matrix-scan_2026-04-30.3 R -120 -104 AACAAAACCTAAACAAT 10.8 6.8e-07 -14.201 6.167 2 1 yrbL site matrix-scan_2026-04-30.2 D -115 -99 TTAGGTTTTGTTTAAGT 10.9 8.6e-07 -13.962 6.064 3 1 yrbL site matrix-scan_2026-04-30.3 D -149 -133 AGAAGAACCTTAAGAAA 10.5 1.3e-06 -13.544 5.882 4 2 yrbL site matrix-scan_2026-04-30.4 R -117 -101 TTAAACAAAACCTAAAC 10.0 2.9e-06 -12.765 5.544 5 2 yrbL site matrix-scan_2026-04-30.3 R -119 -103 AAACAAAACCTAAACAA 9.9 3.8e-06 -12.469 5.415 6 3 yrbL site matrix-scan_2026-04-30.6 D -242 -226 CTCCCTTCAAACTCCCC 9.1 1.4e-05 -11.205 4.866 7 1 yrbL site matrix-scan_2026-04-30.3 D -138 -122 AAGAAAACCTTAAGAGG 8.4 3.2e-05 -10.344 4.492 8 4 zntA limit START_END D -124 -1 . 0 0 0 0 zntA site matrix-scan_2026-04-30.5 R -63 -47 GACATGGCATCCTCCGG 9.9 4.5e-06 -12.315 5.348 1 1 zntA site matrix-scan_2026-04-30.3 D -76 -60 AGAAAAAACTTAACCGG 9.5 7.2e-06 -11.837 5.141 2 1 zntA site matrix-scan_2026-04-30.4 D -78 -62 TGAGAAAAAACTTAACC 7.4 1.0e-04 -9.163 3.979 3 1 hdeD limit START_END D -305 -1 . 0 0 0 0 hdeD site matrix-scan_2026-04-30.2 D -147 -131 TTAGGAAATTTTTATTA 9.7 6.1e-06 -12.011 5.216 1 1 hdeD site matrix-scan_2026-04-30.6 R -62 -46 TAACATAGAACCACCCT 9.3 1.0e-05 -11.493 4.991 2 1 hdeD site matrix-scan_2026-04-30.3 R -27 -11 AGATCAAACTTCAAAAT 7.7 7.3e-05 -9.531 4.139 3 1 hdeD site matrix-scan_2026-04-30.4 R -68 -52 AGAACCACCCTATAAAA 7.5 9.5e-05 -9.257 4.020 4 1 gadE limit START_END D -362 -1 . 0 0 0 0 gadE site matrix-scan_2026-04-30.6 R -233 -217 CTCCATATATTGATCCT 9.8 5.0e-06 -12.209 5.302 1 1 gadE site matrix-scan_2026-04-30.6 R -110 -94 TTCATTATTTACATCCT 9.7 5.8e-06 -12.058 5.237 2 2 gadE site matrix-scan_2026-04-30.4 R -286 -270 CAAACAAAAAGTTAACG 7.5 9.5e-05 -9.257 4.020 3 1 gadA limit START_END D -261 -1 . 0 0 0 0 gadA site matrix-scan_2026-04-30.2 D -150 -134 TTAGGATTTTGTTATTT 12.4 2.8e-08 -17.382 7.549 1 1 gadA site matrix-scan_2026-04-30.3 R -154 -138 AACAAAATCCTAAGCAG 8.5 2.9e-05 -10.464 4.545 2 1 gadA site matrix-scan_2026-04-30.6 R -148 -132 TTAAATAACAAAATCCT 8.5 2.9e-05 -10.450 4.538 3 1 gadA site matrix-scan_2026-04-30.3 R -188 -172 ATATAAACATTTAACAT 8.1 4.6e-05 -9.978 4.333 4 2 gadA site matrix-scan_2026-04-30.2 D -234 -218 TTGGGCGATTTTTATTA 7.5 8.5e-05 -9.369 4.069 5 2 yhjC limit START_END D -570 -1 . 0 0 0 0 yhjC site matrix-scan_2026-04-30.4 D -119 -103 TAGAAAAAACAATAAAC 9.6 5.9e-06 -12.049 5.233 1 1 yhjC site matrix-scan_2026-04-30.2 D -379 -363 TGAGGATTTCCTTATAT 9.2 1.2e-05 -11.321 4.917 2 1 yhjC site matrix-scan_2026-04-30.3 D -116 -100 AAAAAACAATAAACAAT 8.9 1.7e-05 -10.981 4.769 3 1 yhjC site matrix-scan_2026-04-30.5 R -419 -403 GACATGTAATTTCAGGC 8.7 2.3e-05 -10.696 4.645 4 1 yhjC site matrix-scan_2026-04-30.6 R -362 -346 ATGCGTACTAACCACCA 8.2 4.2e-05 -10.083 4.379 5 1 yiaG limit START_END D -484 -1 . 0 0 0 0 yiaG site matrix-scan_2026-04-30.6 R -62 -46 TTCCATTGAAAACTCCT 10.1 3.1e-06 -12.679 5.506 1 1 yiaG site matrix-scan_2026-04-30.5 D -90 -74 GCAATTCACGATCCCGC 8.1 4.5e-05 -10.001 4.343 2 1 yiaG site matrix-scan_2026-04-30.2 D -341 -325 TTGTTGTTTCATTGTTA 7.4 9.3e-05 -9.278 4.030 3 1 yidX limit START_END D -328 -1 . 0 0 0 0 yidX site matrix-scan_2026-04-30.4 R -40 -24 TAAAAAATCCCTTAAAA 10.1 2.4e-06 -12.928 5.614 1 1 yidX site matrix-scan_2026-04-30.5 R -232 -216 TACATTACACGCACGGC 8.7 2.3e-05 -10.696 4.645 2 1 yidX site matrix-scan_2026-04-30.3 D -172 -156 AACAATGCATAAAAAAA 7.9 5.8e-05 -9.762 4.240 3 1 yidX site matrix-scan_2026-04-30.6 R -35 -19 AGCCTTAAAAAATCCCT 7.9 5.8e-05 -9.757 4.237 4 1 yidX site matrix-scan_2026-04-30.3 R -41 -25 AAAAAATCCCTTAAAAT 7.6 8.0e-05 -9.437 4.098 5 2 yidX site matrix-scan_2026-04-30.2 R -177 -161 TTATGCATTGTTCTTTT 7.5 8.5e-05 -9.369 4.069 6 1 yjbJ limit START_END D -166 -1 . 0 0 0 0 yjbJ site matrix-scan_2026-04-30.2 D -64 -48 TGAGGTCTTGATTATGA 9.5 8.0e-06 -11.742 5.100 1 1 yjbJ site matrix-scan_2026-04-30.3 D -148 -132 AAATAATCCTAAGCCAA 8.2 4.1e-05 -10.096 4.385 2 1 yjeT limit START_END D -132 -1 . 0 0 0 0 mgtA limit START_END D -191 -1 . 0 0 0 0 mgtA site matrix-scan_2026-04-30.5 R -191 -175 GCCGTGAAAAGACGGGC 9.1 1.4e-05 -11.197 4.863 1 1 mgtA site matrix-scan_2026-04-30.5 R -176 -160 TACGCATCCGGTAACGC 7.3 1.0e-04 -9.176 3.985 2 2 fecC limit START_END D -51 -1 . 0 0 0 0 fecC site matrix-scan_2026-04-30.5 R -34 -18 CCCACAGCAGCACCGGG 8.6 2.6e-05 -10.576 4.593 1 1 ; ; Matrices ; matrix name ncol nrow pseudo Wmin Wmax Wrange ; 1 matrix-scan_2026-04-30.2 17 4 1 -44.900 13.400 58.300 a:0.303 c:0.197 g:0.199 t:0.301 ; 2 matrix-scan_2026-04-30.3 17 4 1 -49.000 13.700 62.700 a:0.303 c:0.197 g:0.199 t:0.301 ; 3 matrix-scan_2026-04-30.4 17 4 1 -47.600 13.400 61.000 a:0.303 c:0.197 g:0.199 t:0.301 ; 4 matrix-scan_2026-04-30.5 17 4 1 -35.500 15.500 51.000 a:0.303 c:0.197 g:0.199 t:0.301 ; 5 matrix-scan_2026-04-30.6 17 4 1 -37.300 13.600 50.900 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 18 12254 ; 2 matrix-scan_2026-04-30.3 22 12254 ; 3 matrix-scan_2026-04-30.4 16 12254 ; 4 matrix-scan_2026-04-30.5 18 12254 ; 5 matrix-scan_2026-04-30.6 17 12254 ; TOTAL 91 61270 ; Host name rsat ; Job started 2026-04-30.194017 ; Job done 2026-04-30.194027 ; Seconds 9.82 ; user 9.82 ; system 0.01 ; cuser 0.1 ; csystem 0.02