Origin IGS: gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttcttccttttttacttaaatcaacactttgttgatttttgattattgctttttatctaagctcattatataatatctgtgatttagaatcaacaccttgttgatttaaggaaacgagttttgaaaaggagagatgataac Mask Tandem Repeat Region ================================================ gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa Find is-nt database================================================ Query_seq: SSA_1589:SSA_1590|SSA_1589:SSA_1590:ABC-type antimicrobial peptide transport system, ATPase component, putative:Transcriptional regulator, TetR/AcrR family, putative:<-->:1592699..1592841 143 gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1589:SSA_1590|SSA_1589:SSA_1590:ABC-type antimicrobial peptide transport system, ATPase component, putative:Transcriptional regulator, TetR/AcrR family, putative:<-->:1592699..1592841 143 gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1589:SSA_1590|SSA_1589:SSA_1590:ABC-type antimicrobial peptide transport system, ATPase component, putative:Transcriptional regulator, TetR/AcrR family, putative:<-->:1592699..1592841 143 gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa Predict ORF larger than 30AA ================================================ gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa 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: 86 Start: 68 End: 97 ...................................................................ATTGCTTTTTATCTAAGCTCATTATATAAT.............................................. PromScan Matrix: RpoD-17 Strand: + Score: 85 Start: 48 End: 77 ...............................................GTTGATTCTAAATCACAGATATTATATAAT.................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1589:SSA_1590|SSA_1589:SSA_1590:ABC-type antimicrobial peptide transport system, ATPase component, putative:Transcriptional regulator, TetR/AcrR family, putative:<-->:1592699..1592841 143 gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 143 Len: 143 Subject: NC_009009_SSA_1589_SSA_1590|ABC-type antimicrobial peptide transport system, ATPase component, putative:Transcriptional regulator, TetR/AcrR family, putative|NEGATIVE:POSITIVE|[1592699,1592841]|143 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 143 gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa gttatcatctctccttttcaaaactcgtttccttaaatcaacaaggtgttgattctaaatcacagatattatataatgagcttagataaaaagcaataatcaaaaatcaacaaagtgttgatttaagtaaaaaaggaagaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUAUCAUCUCUCCUUUUCAAAACUCGUUUCCUUAAAUCAACAAGGUGUUGAUUCUAAAUCACAGAUAUUAUAUAAUGAGCUUAGAUAAAAAGCAAUAAUCAAAAAUCAACAAAGUGUUGAUUUAAGUAAAAAAGGAAGAAAA .......(((.(((((((..........((.((((((((((((...((((((((....(((...)))............((((.......))))..........))))))))...)))))))))))).))))))))))))... (-30.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCUUCCUUUUUUACUUAAAUCAACACUUUGUUGAUUUUUGAUUAUUGCUUUUUAUCUAAGCUCAUUAUAUAAUAUCUGUGAUUUAGAAUCAACACCUUGUUGAUUUAAGGAAACGAGUUUUGAAAAGGAGAGAUGAUAAC .(((((.(((((((.(((((((((((((...((((((((((.((((((......((((.(((.....))).)))).....)))))).))))))))))...)))))))))).(....).)))...))))))))))))....... (-37.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 790 50 1 141 92 NC_009009:SSA_1589|5end_ABC-type_antimicrobial_peptide_transport_system,_ATPase_component,_putative_1592608..1592838_NEGATIVE 286 55 16 49 1 NC_009009:SSA_2239|5end_Conserved_uncharacterized_cytosolic_protein_2237233..2237463_NEGATIVE 279 50 1 136 87 NC_009009:SSA_2102|5end_Conserved_uncharacterized_protein_2106410..2106640_NEGATIVE 266 50 5 94 48 NC_009009:SSA_1254|5end_hypothetical_protein_1281484..1281714_NEGATIVE 255 50 3 187 134 NC_009009:SSA_1988|5end_ABC-type_transport_system_(uncharacterized),_permease_component,_putative_1984188..1984418_NEGATIVE 250 33 7 170 137 NC_009009:SSA_1634|5end_Heme_utilization/adhesion_exoprotein,_putative_1637062..1637292_NEGATIVE 249 32 1 121 94 NC_009009:SSA_1447|5end_ATP_phosphoribosyltransferase,_putative_1449831..1450061_NEGATIVE 245 56 11 147 97 NC_009009:SSA_1994|5end_CTP_synthase,_putative_1992474..1992704_NEGATIVE 236 55 11 134 87 NC_009009:SSA_2072|5end_Phosphatidate_cytidylyltransferase,_putative_2075603..2075833_NEGATIVE 236 63 23 161 124 NC_009009:SSA_1987|5end_hypothetical_protein_1983368..1983598_NEGATIVE 227 49 6 205 147 NC_009009:SSA_1231|5end_hypothetical_protein_1254758..1254988_NEGATIVE 221 83 42 84 53 NC_009009:SSA_0098|5end_Hydrolase,_haloacid_dehalogenase-like_family,_putative_99422..99652_POSITIVE 217 52 19 63 26 NC_009009:SSA_1303|5end_RimM_protein,_required_for_16S_rRNA_processing,_putative_1322992..1323222_NEGATIVE 209 70 28 92 45 NC_009009:SSA_1956|5end_ABC-type_Fe-S_cluster_assembly_transporter,_ATPase_component,_putative_1953414..1953644_NEGATIVE 206 48 11 200 151 NC_009009:SSA_1256|5end_NAD-dependent_deacetylase,_putative_1283094..1283324_NEGATIVE 205 57 11 130 81 NC_009009:SSA_0218|5end_Sugar-binding_periplasmic_protein,_putative_213863..214093_POSITIVE 203 49 7 138 101 NC_009009:SSA_1888|5end_hypothetical_protein_1886025..1886255_NEGATIVE 203 31 1 117 84 NC_009009:SSA_0315|5end_Transcriptional_regulator,_MarR_family,_putative_310102..310332_POSITIVE 201 46 9 62 30 NC_009009:SSA_2017|5end_Hypothetical_protein_(possibly_membrane-associated)_2017331..2017561_NEGATIVE 201 67 25 118 66 NC_009009:SSA_0317|5end_Ribosomal_protein_alanine_acetyl_transferase,_putative_311259..311489_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 266 50 5 122 76 NC_009009:SSA_1255|3end_hypothetical_protein_1281456..1281606_NEGATIVE 250 33 7 80 47 NC_009009:SSA_1635|3end_hypothetical_protein_1637152..1637302_NEGATIVE 249 32 1 124 97 NC_009009:SSA_1448|3end_ATP_phosphoribosyltransferase_regulatory_subunit,_putative_1449828..1449978_NEGATIVE 236 55 11 115 68 NC_009009:SSA_2073|3end_Undecaprenyl_pyrophosphate_synthetase,_putative_2075622..2075772_NEGATIVE 226 68 24 132 97 NC_009009:SSA_0915|3end_hypothetical_protein_928014..928164_POSITIVE 223 47 4 150 97 NC_009009:SSA_0040|3end_Phosphoribosylaminoimidazole_carboxylase,_ATPase_subunit,_putative_47479..47629_POSITIVE 221 83 42 87 56 NC_009009:SSA_0097|3end_Multi_antimicrobial_extrusion_(MATE)_family_transporter,_putative_99505..99655_POSITIVE 220 50 8 46 4 NC_009009:SSA_2103|3end_hypothetical_protein_2106500..2106650_NEGATIVE 214 48 13 49 12 NC_009009:SSA_0442|3end_ABC-type_multidrug_transport_system,_ATPase_component,_putative_443030..443180_POSITIVE 210 66 25 105 60 NC_009009:SSA_1264|3end_hypothetical_protein_1289305..1289455_NEGATIVE 206 65 32 143 105 NC_009009:SSA_1986|3end_Acetyltransferase,_GNAT_family,_putative_1982073..1982223_NEGATIVE 205 57 11 133 84 NC_009009:SSA_0217|3end_Two-component_system_transcriptional_regulator_(CheY_domain_and_HTH-like_DNA-binding_domain),_putative_213946..214096_POSITIVE 203 47 23 145 122 NC_009009:SSA_1988|3end_ABC-type_transport_system_(uncharacterized),_permease_component,_putative_1983370..1983520_NEGATIVE 201 34 1 120 83 NC_009009:SSA_1111|3end_Branched-chain_amino_acid_transport_system_II_carrier_protein,_putative_1137940..1138090_POSITIVE 201 67 25 121 69 NC_009009:SSA_0316|3end_hypothetical_protein_311342..311492_POSITIVE 200 40 10 118 85 NC_009009:SSA_0353|3end_Conserved_uncharacterized_protein_346310..346460_POSITIVE 199 32 1 51 14 NC_009009:SSA_2177|3end_hypothetical_protein_2175232..2175382_NEGATIVE 198 49 12 123 85 NC_009009:SSA_1232|3end_Topoisomerase_IV_subunit_B,_putative_1254806..1254956_NEGATIVE 197 140 102 55 10 NC_009009:SSA_1215|3end_hypothetical_protein_1238247..1238397_POSITIVE 196 49 7 120 80 NC_009009:SSA_2309|3end_Fimbrial_assembly_protein,_putative_2310474..2310624_NEGATIVE