Origin IGS: taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatatttctcctctactttatggtttgtgcatcttactaatttaataaaaaagataaacgatctaaactacaagaccgagcattttattcgcttgagtatagaaaaaagttcataatagagcaagttgtta Mask Tandem Repeat Region ================================================ taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt Find is-nt database================================================ Query_seq: AA01733:AA01734|AA01733:AA01734:hypothetical protein:DNA-binding protein; DPS family protein:->->:1172052..1172182 131 taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01733:AA01734|AA01733:AA01734:hypothetical protein:DNA-binding protein; DPS family protein:->->:1172052..1172182 131 taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01733:AA01734|AA01733:AA01734:hypothetical protein:DNA-binding protein; DPS family protein:->->:1172052..1172182 131 taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt Predict ORF larger than 30AA ================================================ taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt 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: 83 Start: 7 End: 36 ......CTTGCTCTATTATGAACTTTTTTCTATACT............................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01733:AA01734|AA01733:AA01734:hypothetical protein:DNA-binding protein; DPS family protein:->->:1172052..1172182 131 taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: aact_AA01733_AA01734|hypothetical protein:DNA-binding protein; DPS family protein|POSITIVE:POSITIVE|[1172052,1172182]|131 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 131 Query Start:1 Query End:131 Subject Strand: POSITIVE Subject Start: 1 Subject End: 131 taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt taacaacttgctctattatgaacttttttctatactcaagcgaataaaatgctcggtcttgtagtttagatcgtttatcttttttattaaattagtaagatgcacaaaccataaagtagaggagaaatatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAACUUGCUCUAUUAUGAACUUUUUUCUAUACUCAAGCGAAUAAAAUGCUCGGUCUUGUAGUUUAGAUCGUUUAUCUUUUUUAUUAAAUUAGUAAGAUGCACAAACCAUAAAGUAGAGGAGAAAUAUU ......(((.((((((((((........((((.((((((((((.........)))..)))).))).))))..((.((((((..(((......))).)))))).))....))))..)))))))))....... (-23.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAUUUCUCCUCUACUUUAUGGUUUGUGCAUCUUACUAAUUUAAUAAAAAAGAUAAACGAUCUAAACUACAAGACCGAGCAUUUUAUUCGCUUGAGUAUAGAAAAAAGUUCAUAAUAGAGCAAGUUGUUA ..........(((((..((((((.((((..(((((...............)))))..))))((((.(((.((((..((((.......))))))))))).)))).......))))))))))).......... (-19.36) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 248 75 40 87 49 aact:AA01078|5end_transcriptional_regulator_(probable_MerR_family)_746873..747103_POSITIVE 247 56 12 140 87 aact:AA00616|5end_phosphatidate_cytidylyltransferase_421965..422195_POSITIVE 245 73 36 206 163 aact:AA01928|5end_ATP-dependent_RNA_helicase_1301986..1302216_POSITIVE 220 64 25 105 59 aact:AA00500|5end_hypothetical_protein_347151..347381_POSITIVE 219 88 41 51 3 aact:AA00528|5end_conserved_hypothetical_protein_361396..361626_POSITIVE 218 88 50 165 133 aact:AA02025|5end_hypothetical_protein_1378667..1378897_POSITIVE 218 56 38 83 66 aact:AA01552|5end_hypothetical_protein_1038993..1039223_POSITIVE 215 127 92 184 139 aact:AA03011|5end_inner_membrane_protein,_60_kDa_2102585..2102815_POSITIVE 215 80 39 65 21 aact:AA01985|5end_pyruvate_dehydrogenase,_E1_component_1346067..1346297_POSITIVE 215 88 41 197 129 aact:AA01692|5end_hexulose-6-phosphate_synthase_1149178..1149408_POSITIVE 215 75 48 83 59 aact:AA00759|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_I_520603..520833_POSITIVE 210 100 51 119 72 aact:AA01600|5end_phosphotransferase_system_enzyme_I_1080481..1080711_POSITIVE 210 72 50 210 189 aact:AA00852|5end_hypothetical_protein_588538..588768_POSITIVE 209 67 28 134 95 aact:AA01385|5end_50S_ribosomal_protein_L9_935509..935739_POSITIVE 206 80 31 140 110 aact:AA00350|5end_50S_ribosomal_protein_L10_233621..233851_POSITIVE 204 86 50 69 38 aact:AA00424|5end_hypothetical_protein_287123..287353_POSITIVE 201 74 39 52 20 aact:AA00448|5end_C-terminal_region_of_competence_protein_M_312268..312498_POSITIVE 200 56 17 221 168 aact:AA01731|5end_multidrug_resistance_protein_B_1169150..1169380_POSITIVE 199 82 50 186 146 aact:AA02695|5end_hydrogenase-3_component_G_1878565..1878795_POSITIVE 198 61 35 121 88 aact:AA01538|5end_conserved_hypothetical_protein_1031527..1031757_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 247 56 12 137 84 aact:AA00615|3end_cation_transport_protein_422042..422192_POSITIVE 245 73 36 131 88 aact:AA01927|3end_conserved_hypothetical_protein_1301991..1302141_POSITIVE 236 127 82 53 1 aact:AA03010|3end_thiophene_and_furan_oxidation_protein_2102534..2102684_POSITIVE 222 57 18 150 113 aact:AA01695|3end_carbohydrate_transport_protein_1152294..1152444_POSITIVE 219 59 11 122 60 aact:AA00049|3end_conserved_hypothetical_protein_39864..40014_POSITIVE 218 74 35 56 17 aact:AA00507|3end_hypothetical_protein_353201..353351_POSITIVE 215 88 41 81 13 aact:AA01690|3end_penicillin-binding_protein_1C_1149142..1149292_POSITIVE 215 75 48 96 72 aact:AA00758|3end_hypothetical_protein_520696..520846_POSITIVE 211 80 43 138 105 aact:AA01845|3end_gamma-glutamyltranspeptidase_precursor_1241687..1241837_POSITIVE 210 67 23 111 67 aact:AA00948|3end_probable_ECF-family_RNA_polymerase_sigma_factor_656123..656273_POSITIVE 210 72 50 27 6 aact:AA00851|3end_carbon_starvation_protein_588435..588585_POSITIVE 209 67 28 85 46 aact:AA01384|3end_hypothetical_protein_935540..935690_POSITIVE 204 86 50 90 59 aact:AA00423|3end_GTP-binding_protein_287224..287374_POSITIVE 200 56 17 74 21 aact:AA01730|3end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_1169083..1169233_POSITIVE 198 61 35 121 88 aact:AA01537|3end_possible_glucokinase_regulatory_protein_1031607..1031757_POSITIVE 195 73 39 145 97 aact:AA00519|3end_O-acetyltransferase_357821..357971_POSITIVE 195 56 29 122 87 aact:AA00072|3end_conserved_hypothetical_protein_54947..55097_POSITIVE 193 81 47 88 52 aact:AA01765|3end_Mu-like_prophage_FluMu_transposase_A_1192636..1192786_POSITIVE 191 78 39 51 1 aact:AA01832|3end_formate_dehydrogenase_formation_protein_E_1234603..1234753_POSITIVE 190 89 43 78 25 aact:AA00590|3end_outer_membrane_substrate_binding_protein;_TonB-dependent_outer_membrane_receptor_403097..403247_POSITIVE