Origin IGS: ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgccggtctgatcctctctagtccttttcactccagaataagggaaatatgttatacttgtttttaagaaaatagtttcatggaattggttgtaaggagttagaa Mask Tandem Repeat Region ================================================ ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca Find is-nt database================================================ Query_seq: SMT_1124:SMT_1125|SMT_1124:SMT_1125:pyrrolidone-carboxylate peptidase:K08987 putative membrane protein:<-<-:1060960..1061064 105 ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1124:SMT_1125|SMT_1124:SMT_1125:pyrrolidone-carboxylate peptidase:K08987 putative membrane protein:<-<-:1060960..1061064 105 ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1124:SMT_1125|SMT_1124:SMT_1125:pyrrolidone-carboxylate peptidase:K08987 putative membrane protein:<-<-:1060960..1061064 105 ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca Predict ORF larger than 30AA ================================================ ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca 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================================================ ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1124:SMT_1125|SMT_1124:SMT_1125:pyrrolidone-carboxylate peptidase:K08987 putative membrane protein:<-<-:1060960..1061064 105 ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: smit_SMT_1124_SMT_1125|pyrrolidone-carboxylate peptidase:K08987 putative membrane protein|NEGATIVE:NEGATIVE|[1060960,1061064]|105 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca ttctaactccttacaaccaattccatgaaactattttcttaaaaacaagtataacatatttcccttattctggagtgaaaaggactagagaggatcagaccggca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUAACUCCUUACAACCAAUUCCAUGAAACUAUUUUCUUAAAAACAAGUAUAACAUAUUUCCCUUAUUCUGGAGUGAAAAGGACUAGAGAGGAUCAGACCGGCA (((((..(((((.......((((((.((((....))))........((((((...)))))).........))))))...))))).))))).((......)).... (-12.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCCGGUCUGAUCCUCUCUAGUCCUUUUCACUCCAGAAUAAGGGAAAUAUGUUAUACUUGUUUUUAAGAAAAUAGUUUCAUGGAAUUGGUUGUAAGGAGUUAGAA ......(((((((((..(....((..(((.....((((((((..............))))))))...((((....))))...)))..))..)..)))).))))). (-18.14) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 857 100 51 191 142 smit:SMT_1124|5end_pyrrolidone-carboxylate_peptidase_1060869..1061099_NEGATIVE 291 99 62 49 1 smit:SMT_880|5end_beta-lactam_resistance_factor_828300..828530_NEGATIVE 275 96 61 122 92 smit:SMT_1788|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1765029..1765259_NEGATIVE 275 96 61 122 92 smit:SMT_1197|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1158751..1158981_NEGATIVE 261 100 55 228 183 smit:SMT_1681|5end_D-alanine-activating_enzyme_1664184..1664414_POSITIVE 243 98 53 138 87 smit:SMT_1345|5end_K06198_competence_protein_CoiA_1323770..1324000_NEGATIVE 239 97 54 193 155 smit:SMT_432|5end_UDP-N-acetylglucosamine--N-acetylmuramyl-_(pentapeptide)_pyrophosphoryl-undecaprenol_N-acetylglucosamine_transferase_373553..373783_POSITIVE 237 100 55 141 89 smit:SMT_1785|5end_phenylalanyl-tRNA_synthetase_beta_chain_1763277..1763507_NEGATIVE 232 86 61 228 206 smit:SMT_1787|5end_phosphoribosylformylglycinamidine_synthase_1764915..1765145_NEGATIVE 232 86 61 228 206 smit:SMT_1196|5end_phosphoribosylformylglycinamidine_synthase_1158637..1158867_NEGATIVE 229 99 55 220 173 smit:SMT_1924|5end_isoleucyl-tRNA_synthetase_1866188..1866418_POSITIVE 229 99 55 53 6 smit:SMT_1923|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1866021..1866251_POSITIVE 224 96 55 141 89 smit:SMT_631|5end_glycerate_kinase_536112..536342_POSITIVE 221 55 15 94 37 smit:SMT_346|5end_K01992_ABC-2_type_transport_system_permease_protein_284720..284950_POSITIVE 221 86 58 192 171 smit:SMT_232|5end_DNA_polymerase_III,_alpha_subunit,_Gram-positive_type_168246..168476_POSITIVE 220 98 60 139 97 smit:SMT_1742|5end_sodium-dependent_phosphate_transporter_1723553..1723783_POSITIVE 218 100 56 56 18 smit:SMT_226|5end_putative_L-glutamine-D-fructose-6-phosphate_amidotransferase_163630..163860_POSITIVE 215 95 63 157 130 smit:SMT_970|5end_threonyl-tRNA_synthetase_915772..916002_POSITIVE 214 66 21 227 181 smit:SMT_1304|5end_hypothetical_protein_1266630..1266860_POSITIVE 214 99 51 58 3 smit:SMT_1076|5end_2-amino-4-hydroxy-6-_hydroxymethyldihydropteridine_pyrophosphokinase_/_dihydroneopterin_aldolase_1014813..1015043_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 96 61 36 6 smit:SMT_1198|3end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_1158837..1158987_NEGATIVE 261 100 55 137 92 smit:SMT_1680|3end_hypothetical_protein_1664173..1664323_POSITIVE 243 98 53 65 14 smit:SMT_1346|3end_tellurite_resistance_protein_TehB_1323843..1323993_NEGATIVE 224 96 55 132 80 smit:SMT_630|3end_phosphoserine_phosphatase_536183..536333_POSITIVE 221 55 15 97 40 smit:SMT_345|3end_K01990_ABC-2_type_transport_system_ATP-binding_protein_284803..284953_POSITIVE 221 86 58 88 67 smit:SMT_231|3end_translation_elongation_factor_G_168222..168372_POSITIVE 216 92 60 85 61 smit:SMT_452|3end_phosphomethylpyrimidine_kinase_389777..389927_NEGATIVE 215 99 69 44 2 smit:SMT_881|3end_peptidoglycan_branched_peptide_synthesis_protein,_alanine_adding_enzyme_828305..828455_NEGATIVE 214 95 58 50 10 smit:SMT_1876|3end_transcriptional_regulator,_MarR_family_1834135..1834285_POSITIVE 213 97 55 115 75 smit:SMT_117|3end_K02025_multiple_sugar_transport_system_permease_protein_69496..69646_POSITIVE 205 93 63 133 89 smit:SMT_1772|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1749370..1749520_POSITIVE 204 99 62 69 23 smit:SMT_1066|3end_holo-(acyl_carrier_protein)_synthase_1005859..1006009_POSITIVE 202 48 14 84 48 smit:SMT_354|3end_hypothetical_protein_291671..291821_POSITIVE 199 93 57 66 33 smit:SMT_788|3end_hypothetical_protein_699153..699303_NEGATIVE 199 93 58 148 107 smit:SMT_711|3end_choline_kinase_619487..619637_NEGATIVE 196 91 55 146 109 smit:SMT_105|3end_hypothetical_protein_51496..51646_POSITIVE 190 97 64 149 100 smit:SMT_1648|3end_hypothetical_protein_1634883..1635033_POSITIVE 190 97 60 148 109 smit:SMT_1618|3end_K02015_iron_complex_transport_system_permease_protein_1604490..1604640_NEGATIVE 189 97 55 73 28 smit:SMT_1604|3end_K05833_putative_ABC_transport_system_ATP-binding_protein_1595163..1595313_POSITIVE 189 92 58 150 104 smit:SMT_422|3end_K02004_365876..366026_POSITIVE