Origin IGS: tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacattaacaccacaagacttaaaactagataacgtaaaatttttttcatttatttctcctccttaaaatttaataacacctgtatgttaacatatatttaagaaattttaaagtaattattataga Mask Tandem Repeat Region ================================================ tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Find is-nt database================================================ Query_seq: FN0688:FN0689|FN0688:FN0689:hypothetical protein:hypothetical protein:->->:1344670..1344797 128 tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0688:FN0689|FN0688:FN0689:hypothetical protein:hypothetical protein:->->:1344670..1344797 128 tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0688:FN0689|FN0688:FN0689:hypothetical protein:hypothetical protein:->->:1344670..1344797 128 tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Predict ORF larger than 30AA ================================================ tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 84 Start: 14 End: 43 .............CTTTAAAATTTCTTAAATATATGTTAACAT..................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0688:FN0689|FN0688:FN0689:hypothetical protein:hypothetical protein:->->:1344670..1344797 128 tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Intra-Species Hit: Count: 1 Min: 1 Max: 128 Len: 128 Subject: NC_003454_FN0688_FN0689|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1344670,1344797]|128 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgnnnnnnnttttacgttatctagttttaagtcttgtggtgttaatgtta tctataataattactttaaaatttcttaaatatatgttaacatacaggtgttattaaattttaaggaggagaaataaatgaaaaaaattttacgttatctagttttaagtcttgtggtgttaatgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUAUAAUAAUUACUUUAAAAUUUCUUAAAUAUAUGUUAACAUACAGGUGUUAUUAAAUUUUAAGGAGGAGAAAUAAAUGAAAAAAAUUUUACGUUAUCUAGUUUUAAGUCUUGUGGUGUUAAUGUUA ....(((((....(((((((((((..(((.(((.(((......))).))))))..)))))))))))..((((..((((.........................))))..))))....)))))...... (-13.61) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAUUAACACCACAAGACUUAAAACUAGAUAACGUAAAAUUUUUUUCAUUUAUUUCUCCUCCUUAAAAUUUAAUAACACCUGUAUGUUAACAUAUAUUUAAGAAAUUUUAAAGUAAUUAUUAUAGA ..........................((((((((..(((((((((((...((((...........)))).............((((((....))))))...)))))))))))......))))).))). ( -8.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 238 73 34 204 159 NC_003454:FN1129|5end_Chromosome_partition_protein_smc_1774204..1774434_POSITIVE 232 117 85 42 12 NC_003454:FN1903|5end_Coenzyme_A_disulfide_reductase/_disulfide_bond_regulator_domain_393104..393334_NEGATIVE 204 120 85 82 44 NC_003454:FN0694|5end_S-layer_protein_1350853..1351083_POSITIVE 193 49 1 130 84 NC_003454:FN1752|5end_Regulatory_protein_TENI_249211..249441_NEGATIVE 187 53 22 138 104 NC_003454:FN1870|5end_hypothetical_protein_362182..362412_NEGATIVE 183 110 64 196 155 NC_003454:FN0842|5end_hypothetical_protein_1503055..1503285_NEGATIVE 181 70 21 74 23 NC_003454:FN0583|5end_hypothetical_protein_1239001..1239231_POSITIVE 179 92 51 221 177 NC_003454:FN1134|5end_Hypothetical_cytosolic_protein_1781495..1781725_POSITIVE 177 113 85 113 80 NC_003454:FN2008|5end_Glycine_betaine_transport_ATP-binding_protein_508319..508549_NEGATIVE 172 86 42 208 162 NC_003454:FN0122|5end_hypothetical_protein_753401..753631_POSITIVE 172 83 56 231 202 NC_003454:FN1786|5end_ADP-heptose_synthase_266770..267000_POSITIVE 170 71 41 66 31 NC_003454:FN0938|5end_hypothetical_protein_1591125..1591355_NEGATIVE 170 119 87 73 38 NC_003454:FN1831|5end_Nitrogen_assimilation_regulatory_protein_321423..321653_NEGATIVE 169 84 46 37 5 NC_003454:FN1073|5end_hypothetical_protein_1720403..1720633_POSITIVE 167 70 41 120 89 NC_003454:FN1339|5end_Transposase_1991669..1991899_POSITIVE 158 81 46 197 164 NC_003454:FN0896|5end_hypothetical_protein_1555780..1556010_NEGATIVE 157 80 43 180 132 NC_003454:FN0534|5end_hypothetical_protein_1188858..1189088_POSITIVE 156 68 23 204 151 NC_003454:FN1756|5end_ThiS_protein_251935..252165_NEGATIVE 153 79 44 206 177 NC_003454:FN1895|5end_hypothetical_protein_382871..383101_NEGATIVE 150 117 79 202 173 NC_003454:FN0588|5end_hypothetical_protein_1242402..1242632_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 193 49 1 127 81 NC_003454:FN1753|3end_thiamine_biosynthesis_protein_ThiH_249214..249364_NEGATIVE 183 110 64 65 24 NC_003454:FN0843|3end_hypothetical_protein_1503186..1503336_NEGATIVE 177 113 85 113 80 NC_003454:FN2009|3end_Glycine_betaine_transport_system_permease_protein_508319..508469_NEGATIVE 170 119 87 56 21 NC_003454:FN1832|3end_TonB_protein_321440..321590_NEGATIVE 169 84 46 35 3 NC_003454:FN1072|3end_GTP-binding_protein_1720481..1720631_POSITIVE 158 110 64 88 48 NC_003454:FN1679|3end_LPS_biosynthesis_protein_WbpG_174590..174740_NEGATIVE 157 70 31 67 35 NC_003454:FN2077|3end_NA+/H+_antiporter_NHAC_589410..589560_POSITIVE 155 56 19 131 95 NC_003454:FN1924|3end_Arsenical_pump_membrane_protein_421716..421866_NEGATIVE 149 79 46 85 55 NC_003454:FN1680|3end_Transposase_175971..176121_NEGATIVE 146 67 33 77 41 NC_003454:FN1369|3end_Zinc_finger_protein_2018779..2018929_NEGATIVE 145 75 46 150 119 NC_003454:FN1413|3end_translation_initiation_factor_IF-2B_subunit_alpha_2073221..2073371_NEGATIVE 145 53 24 122 89 NC_003454:FN1302|3end_hypothetical_protein_1959667..1959817_POSITIVE 144 118 95 38 16 NC_003454:FN1101|3end_ATPase_1746039..1746189_POSITIVE 141 80 45 48 10 NC_003454:FN0051|3end_hypothetical_protein_688783..688933_NEGATIVE 139 75 35 67 22 NC_003454:FN2015|3end_ATP-dependent_protease_ATP-binding_subunit_516984..517134_NEGATIVE 139 101 62 63 29 NC_003454:FN1903|3end_Coenzyme_A_disulfide_reductase/_disulfide_bond_regulator_domain_390672..390822_NEGATIVE 138 46 2 82 43 NC_003454:FN1493|3end_hypothetical_protein_2173485..2173635_NEGATIVE 138 70 22 74 24 NC_003454:FN1939|3end_hypothetical_protein_438494..438644_NEGATIVE 137 120 79 64 23 NC_003454:FN1349|3end_ABC_transporter_permease_protein_2001150..2001300_NEGATIVE 136 66 21 121 62 NC_003454:FN1305|3end_Hypothetical_cytosolic_protein_1961620..1961770_POSITIVE