Origin IGS: acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tcaaccaaagttccttgtgagtatgtacctttgctagtaaaagcgtcaaaacgttgtaacgaaagagattatgaaaatctttgaagttaagactttttcttgtgtgtctgaaaagtctgtgacttgtattccttagtcaccttatttacaattacctaaattctatagttaataaaaattgagaggtttgt Mask Tandem Repeat Region ================================================ acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Find is-nt database================================================ Query_seq: SMT_1441:SMT_1442|SMT_1441:SMT_1442:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-<-:1425661..1425851 191 acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1441:SMT_1442|SMT_1441:SMT_1442:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-<-:1425661..1425851 191 acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1441:SMT_1442|SMT_1441:SMT_1442:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-<-:1425661..1425851 191 acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Predict ORF larger than 30AA ================================================ acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1441:SMT_1442|SMT_1441:SMT_1442:hypothetical protein predicted by Glimmer/Critica:hypothetical protein:<-<-:1425661..1425851 191 acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Intra-Species Hit: Count: 1 Min: 1 Max: 191 Len: 191 Subject: smit_SMT_1441_SMT_1442|hypothetical protein predicted by Glimmer/Critica:hypothetical protein|NEGATIVE:NEGATIVE|[1425661,1425851]|191 HSP 1 e-value: 1.0E-104 bit: 379.0 Len: 191 Query Start:1 Query End:191 Subject Strand: POSITIVE Subject Start: 1 Subject End: 191 acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga acaaacctctcaatttttattaactatagaatttaggtaattgtaaataaggtgactaaggaatacaagtcacagacttttcagacacacaagaaaaagtcttaacttcaaagattttcataatctctttcgttacaacgttttgacgcttttactagcaaaggtacatactcacaaggaactttggttga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAAACCUCUCAAUUUUUAUUAACUAUAGAAUUUAGGUAAUUGUAAAUAAGGUGACUAAGGAAUACAAGUCACAGACUUUUCAGACACACAAGAAAAAGUCUUAACUUCAAAGAUUUUCAUAAUCUCUUUCGUUACAACGUUUUGACGCUUUUACUAGCAAAGGUACAUACUCACAAGGAACUUUGGUUGA ...((((.......((((((.....))))))...((((..((((.......((((((..........))))))..(((((.........(((((....((..((((.....(((((.....))))).....))))..)).)))))..(((......))).)))))........))))...)))).)))).. (-26.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAACCAAAGUUCCUUGUGAGUAUGUACCUUUGCUAGUAAAAGCGUCAAAACGUUGUAACGAAAGAGAUUAUGAAAAUCUUUGAAGUUAAGACUUUUUCUUGUGUGUCUGAAAAGUCUGUGACUUGUAUUCCUUAGUCACCUUAUUUACAAUUACCUAAAUUCUAUAGUUAAUAAAAAUUGAGAGGUUUGU ..((((........(((((((((.....((((..(((.....(((..((((.(((.((((...(((((((.....)))))))...)))).))).))))..)))....))).))))...((((((..........))))))..)))))))))..........(((.(((((......))))))))))))... (-33.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 838 100 51 191 142 smit:SMT_1441|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1425570..1425800_NEGATIVE 260 167 136 137 105 smit:SMT_1257|5end_acetolactate_synthase_small_subunit_1223173..1223403_NEGATIVE 260 114 77 138 98 smit:SMT_139|5end_hypothetical_protein_90523..90753_POSITIVE 248 89 49 68 21 smit:SMT_1470|5end_K06188_aquaporin_Z_1452560..1452790_POSITIVE 244 179 131 183 136 smit:SMT_1952|5end_hypothetical_protein_1886100..1886330_POSITIVE 243 90 49 91 46 smit:SMT_1977|5end_endopeptidase_O_1907832..1908062_POSITIVE 240 145 106 39 2 smit:SMT_107|5end_ribose-phosphate_pyrophosphokinase_52402..52632_POSITIVE 235 154 117 48 8 smit:SMT_1179|5end_aldose_1-epimerase_1137854..1138084_NEGATIVE 230 90 42 117 70 smit:SMT_1944|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1879494..1879724_NEGATIVE 230 99 51 102 45 smit:SMT_862|5end_hypothetical_protein_predicted_by_Glimmer/Critica_808587..808817_POSITIVE 225 160 125 142 105 smit:SMT_1850|5end_K01421_putative_membrane_protein_1815062..1815292_POSITIVE 222 160 112 183 133 smit:SMT_1105|5end_K03217_preprotein_translocase_YidC_subunit_1047632..1047862_NEGATIVE 222 151 111 192 145 smit:SMT_1098|5end_hypothetical_protein_1041992..1042222_NEGATIVE 221 149 101 66 7 smit:SMT_1259|5end_hypothetical_protein_1225139..1225369_POSITIVE 219 118 88 203 174 smit:SMT_227|5end_hypothetical_protein_164039..164269_POSITIVE 219 118 88 203 174 smit:SMT_224|5end_hypothetical_protein_158470..158700_POSITIVE 217 188 144 215 161 smit:SMT_168|5end_anaerobic_ribonucleoside-triphosphate_reductase_activating_protein_113670..113900_POSITIVE 215 90 51 225 179 smit:SMT_1985|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1914571..1914801_NEGATIVE 214 160 124 98 62 smit:SMT_2042|5end_K04077_chaperonin_GroEL_(Hsp60)_1953889..1954119_NEGATIVE 214 180 136 46 5 smit:SMT_1527|5end_two-component_sensor_kinase_1511183..1511413_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 260 167 136 144 112 smit:SMT_1258|3end_acetolactate_synthase_large_subunit_1223166..1223316_NEGATIVE 248 89 49 60 13 smit:SMT_1469|3end_GTP_pyrophosphokinase_1452632..1452782_POSITIVE 231 119 75 88 37 smit:SMT_1778|3end_ATP-dependent_RNA_helicase_1753611..1753761_NEGATIVE 229 159 116 135 94 smit:SMT_1170|3end_acetyltransferase,_CysE/LacA/LpxA/NodL_family_1117569..1117719_NEGATIVE 228 160 112 118 68 smit:SMT_640|3end_PTS_system,_lactose-specific_IIBC_component_545099..545249_NEGATIVE 226 170 123 56 2 smit:SMT_826|3end_hypothetical_protein_749591..749741_NEGATIVE 222 151 111 140 93 smit:SMT_1099|3end_protein_tyrosine_phosphatase_1042044..1042194_NEGATIVE 219 118 88 84 55 smit:SMT_226|3end_putative_L-glutamine-D-fructose-6-phosphate_amidotransferase_164000..164150_POSITIVE 219 118 88 84 55 smit:SMT_223|3end_D-fructose-6-phosphate_amidotransferase_158431..158581_POSITIVE 218 164 127 130 81 smit:SMT_1641|3end_arginyl-tRNA_synthetase_1626562..1626712_NEGATIVE 212 156 124 130 96 smit:SMT_275|3end_transcriptional_activator-exopolysaccharide_biosynthesis_218894..219044_POSITIVE 211 167 121 68 15 smit:SMT_1611|3end_K05896_segregation_and_condensation_protein_A_1600113..1600263_POSITIVE 208 176 131 50 8 smit:SMT_1606|3end_glutamate_racemase_1596731..1596881_POSITIVE 207 151 124 114 80 smit:SMT_1704|3end_D-alanine-D-alanine_ligase_1688554..1688704_POSITIVE 205 160 130 136 101 smit:SMT_1756|3end_hypothetical_protein_1733967..1734117_NEGATIVE 200 120 72 75 16 smit:SMT_1115|3end_K02245_competence_protein_ComGC_1052473..1052623_NEGATIVE 200 165 130 145 108 smit:SMT_817|3end_aminotransferase_727533..727683_NEGATIVE 199 180 139 66 25 smit:SMT_1914|3end_K03696_ATP-dependent_Clp_protease_ATP-binding_subunit_ClpC_1860324..1860474_POSITIVE 199 157 116 93 35 smit:SMT_535|3end_hypothetical_protein_454456..454606_POSITIVE 195 146 115 137 107 smit:SMT_1048|3end_K06518_holin-like_protein_988521..988671_POSITIVE