Origin IGS: tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaacgtcattaaaaacgtttgaaaaaatgaccgcactttaagtgcaaaaataaaggctttcatttggaagcctttattttattgaactcacaatatgaaaaaacaatttttaattatcggctttatttgga Mask Tandem Repeat Region ================================================ tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta Find is-nt database================================================ Query_seq: AA01969:AA01972|AA01969:AA01972:hypothetical protein:phosphotransacetylase:->->:1332226..1332358 133 tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01969:AA01972|AA01969:AA01972:hypothetical protein:phosphotransacetylase:->->:1332226..1332358 133 tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01969:AA01972|AA01969:AA01972:hypothetical protein:phosphotransacetylase:->->:1332226..1332358 133 tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta Predict ORF larger than 30AA ================================================ tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta 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================================================ tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 93 HP_score: -9.1 Tail_Score: -4.66833 Start: 56 End: 81 Full_Region: GTGAGTTCAATAAAA TAAAGGCTTCC AAAT GAAAGCCTTTA TTTTTGCACTTAAAG .......................................................TAAAGGCTTCCAAATGAAAGCCTTTA.................................................... TransTerm Strand: - Conf: 100 HP_score: -11.3 Tail_Score: -4.65916 Start: 56 End: 81 Full_Region: ctttaagtgcaaaaa taaaggctttc attt ggaagccttta ttttattgaactcac .......................................................taaaggctttcatttggaagccttta.................................................... TransTerm Strand: + Conf: 75 HP_score: -5.5 Tail_Score: -4.88293 Start: 60 End: 77 Full_Region: GTTCAATAAAATAAA GGCTTCC AAAT GAAAGCC TTTATTTTTGCACTT ...........................................................GGCTTCCAAATGAAAGCC........................................................ TransTerm Strand: - Conf: 88 HP_score: -7.7 Tail_Score: -4.87892 Start: 60 End: 77 Full_Region: aagtgcaaaaataaa ggctttc attt ggaagcc tttattttattgaac ...........................................................ggctttcatttggaagcc........................................................ Find igs database================================================ Query_seq: AA01969:AA01972|AA01969:AA01972:hypothetical protein:phosphotransacetylase:->->:1332226..1332358 133 tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta Intra-Species Hit: Count: 1 Min: 1 Max: 133 Len: 133 Subject: aact_AA01969_AA01972|hypothetical protein:phosphotransacetylase|POSITIVE:POSITIVE|[1332226 ,1332358]|133 HSP 1 e-value: 7.0E-70 bit: 264.0 Len: 133 Query Start:1 Query End:133 Subject Strand: POSITIVE Subject Start: 1 Subject End: 133 tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta tccaaataaagccgataattaaaaattgttttttcatattgtgagttcaataaaataaaggcttccaaatgaaagcctttatttttgcacttaaagtgcggtcattttttcaaacgtttttaatgacgtttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCCAAAUAAAGCCGAUAAUUAAAAAUUGUUUUUUCAUAUUGUGAGUUCAAUAAAAUAAAGGCUUCCAAAUGAAAGCCUUUAUUUUUGCACUUAAAGUGCGGUCAUUUUUUCAAACGUUUUUAAUGACGUUUUA ......((((((.....(((((((((.((((.........((((.......(((((((((((((.(....).))))))))))))).((((.....))))..))))......)))))))))))))...)))))) (-28.76) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAACGUCAUUAAAAACGUUUGAAAAAAUGACCGCACUUUAAGUGCAAAAAUAAAGGCUUUCAUUUGGAAGCCUUUAUUUUAUUGAACUCACAAUAUGAAAAAACAAUUUUUAAUUAUCGGCUUUAUUUGGA .....((..(((((((((((((....)))))...((((.....)))).(((((((((((((((....)))))))))))))))..........................))))))))...))............ (-30.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 408 121 87 231 200 aact:AA01609|5end_p-aminobenzoate_synthase_component_I_homolog_1087903..1088133_POSITIVE 360 122 87 122 90 aact:AA01286|5end_5,10-methylenetetrahydrofolate_dehydrogenase_(bifunctional_protein)_870309..870539_POSITIVE 346 123 87 124 86 aact:AA00860|5end_phosphoheptose_isomerase_591866..592096_POSITIVE 341 127 93 163 126 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 340 128 87 47 1 aact:AA00500|5end_hypothetical_protein_347151..347381_POSITIVE 339 120 71 216 161 aact:AA02144|5end_iron_(III)_ABC_transporter,_permease_protein_1467583..1467813_POSITIVE 339 120 71 66 11 aact:AA02143|5end_hypothetical_protein_1467433..1467663_POSITIVE 339 128 89 187 149 aact:AA01173|5end_VapD-homolog_803850..804080_POSITIVE 337 122 84 157 113 aact:AA01171|5end_LysA_activator_protein_802811..803041_POSITIVE 329 129 93 214 178 aact:AA01883|5end_recycling_protein;_permease_1269821..1270051_POSITIVE 326 129 87 109 61 aact:AA02533|5end_zinc_protease;_peptidase_1762010..1762240_POSITIVE 326 128 93 151 117 aact:AA01666|5end_penicillin-binding_protein_4;_D-alanyl-D-alanine_carboxypeptidase;_D-alanyl-D-alanine-endopeptidase_1128231..1128461_POSITIVE 322 128 92 178 141 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 321 128 89 157 115 aact:AA00356|5end_DNA-directed_RNA_polymerase,_beta'_chain_238937..239167_POSITIVE 320 123 85 187 147 aact:AA00272|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_III_190406..190636_POSITIVE 320 123 85 45 5 aact:AA00271|5end_hypothetical_protein_190264..190494_POSITIVE 314 127 87 194 149 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 314 125 92 165 131 aact:AA01471|5end_type_I_restriction_enzyme_M_(modification_chain)_987321..987551_POSITIVE 309 121 90 107 74 aact:AA00618|5end_molybdopterin_biosynthesis_protein_422984..423214_POSITIVE 306 127 81 143 96 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 121 83 57 16 aact:AA02412|3end_cysteine_synthetase_1658552..1658702_POSITIVE 339 120 71 85 30 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 339 128 89 104 66 aact:AA01172|3end_conserved_hypothetical_protein_803847..803997_POSITIVE 329 129 93 78 42 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 326 128 93 44 10 aact:AA01663|3end_GTP_cyclohydrolase_I_1128204..1128354_POSITIVE 322 128 92 138 101 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 321 128 89 51 9 aact:AA00355|3end_DNA-directed_RNA_polymerase_beta_chain_(transcriptase_beta_chain)_238911..239061_POSITIVE 320 123 85 62 22 aact:AA00270|3end_malonyl_coA-acyl_carrier_protein_transacylase_190361..190511_POSITIVE 314 127 87 89 44 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 310 121 94 28 1 aact:AA00450|3end_outer_membrane_antigenic_lipoprotein_b_precursor_315156..315306_POSITIVE 307 130 82 99 49 aact:AA02167|3end_hypothetical_protein_1483474..1483624_POSITIVE 306 127 81 77 30 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 306 127 87 84 43 aact:AA00221|3end_NADP-specific_glutamate_dehydrogenase_153865..154015_POSITIVE 305 130 93 53 14 aact:AA01057|3end_DnaJ-like_protein_djlA_735047..735197_POSITIVE 304 122 96 27 1 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 303 120 75 76 30 aact:AA00072|3end_conserved_hypothetical_protein_54947..55097_POSITIVE 299 88 48 81 41 aact:AA02615|3end_conserved_hypothetical_protein_1823701..1823851_POSITIVE 297 116 71 71 17 aact:AA00046|3end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36756..36906_POSITIVE 295 127 93 84 51 aact:AA01718|3end_DNA_polymerase_III,_chi_subunit_1163316..1163466_POSITIVE 294 122 84 90 50 aact:AA02172|3end_conserved_hypothetical_protein_1486650..1486800_POSITIVE