Origin IGS: gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagtttttaaaaattttatgaaagcccgtttattttacagcatcgtctttatcgtcttagttctcgctattatttatcttttcccctggctgtttaagcaggttgtc Mask Tandem Repeat Region ================================================ gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta Find is-nt database================================================ Query_seq: AA02481:AA02482|AA02481:AA02482:conserved hypothetical protein:conserved hypothetical protein:->->:1720164..1720270 107 gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02481:AA02482|AA02481:AA02482:conserved hypothetical protein:conserved hypothetical protein:->->:1720164..1720270 107 gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02481:AA02482|AA02481:AA02482:conserved hypothetical protein:conserved hypothetical protein:->->:1720164..1720270 107 gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 1 End: 90 V V Q K F L W P F L Y I I A L V L V I F V I S Y F L R A K M ................. gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta 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================================================ gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02481:AA02482|AA02481:AA02482:conserved hypothetical protein:conserved hypothetical protein:->->:1720164..1720270 107 gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta Intra-Species Hit: Count: 1 Min: 1 Max: 107 Len: 107 Subject: aact_AA02481_AA02482|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1720164,1720270]|107 HSP 1 e-value: 2.0E-54 bit: 212.0 Len: 107 Query Start:1 Query End:107 Subject Strand: POSITIVE Subject Start: 1 Subject End: 107 gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta gacaacctgcttaaacagccaggggaaaagataaataatagcgagaactaagacgataaagacgatgctgtaaaataaacgggctttcataaaatttttaaaaacta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GACAACCUGCUUAAACAGCCAGGGGAAAAGAUAAAUAAUAGCGAGAACUAAGACGAUAAAGACGAUGCUGUAAAAUAAACGGGCUUUCAUAAAAUUUUUAAAAACUA ((...((((.(((.(((((...................(((......)))...((.......))..)))))....))).))))...))................... ( -9.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUUUAAAAAUUUUAUGAAAGCCCGUUUAUUUUACAGCAUCGUCUUUAUCGUCUUAGUUCUCGCUAUUAUUUAUCUUUUCCCCUGGCUGUUUAAGCAGGUUGUC ...................((.((((.(((((....(((((..((.......))...((((....))))...................))))).))))).)))).)) (-15.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 292 45 2 190 155 aact:AA02936|5end_lipoprotein_E_precursor;_outer_membrane_protein_P4_precursor;_acid_phosphatase_2055610..2055840_POSITIVE 272 88 41 67 9 aact:AA02726|5end_anaerobic_C4-dicarboxylate_transporter_1907978..1908208_POSITIVE 267 88 47 202 162 aact:AA01568|5end_dipeptide_transport_system_ATP-binding_protein_1056037..1056267_POSITIVE 245 84 41 142 102 aact:AA02990|5end_beta_hexosaminadase_2089473..2089703_POSITIVE 238 45 6 74 34 aact:AA01866|5end_thiamin_ABC_transporter,_permease_protein_1253313..1253543_POSITIVE 230 67 21 48 1 aact:AA02888|5end_ssrA-binding_protein,_small_protein_B_2024628..2024858_POSITIVE 228 83 41 214 170 aact:AA00937|5end_L-xylulokinase_646816..647046_POSITIVE 227 48 6 139 88 aact:AA02968|5end_hypothetical_protein_2075917..2076147_POSITIVE 227 72 40 88 51 aact:AA01780|5end_ABC-related_molybdenum_transport_system_permease_protein_1201084..1201314_POSITIVE 227 46 1 122 74 aact:AA00365|5end_30S_ribosomal_protein_S19_245914..246144_POSITIVE 226 65 21 122 78 aact:AA01151|5end_porphobilinogen_synthase_(delta-aminolevulinic_acid_dehydratase)_788323..788553_POSITIVE 225 57 14 154 113 aact:AA02368|5end_conserved_hypothetical_protein_1623544..1623774_POSITIVE 225 49 1 156 111 aact:AA01547|5end_deoxyribose-phosphate_aldolase_1036271..1036501_POSITIVE 223 82 47 231 200 aact:AA02111|5end_killing_protein_suppressor_1436877..1437107_POSITIVE 222 57 15 218 178 aact:AA01165|5end_conserved_hypothetical_protein_798133..798363_POSITIVE 219 48 4 145 104 aact:AA02688|5end_hydrogenase_4_component_E_1873977..1874207_POSITIVE 215 62 24 141 97 aact:AA00555|5end_hypothetical_protein_380201..380431_POSITIVE 212 50 3 116 63 aact:AA01636|5end_conserved_hypothetical_protein_1105947..1106177_POSITIVE 211 90 41 103 47 aact:AA02712|5end_tail_specific_protease_precursor_1892853..1893083_POSITIVE 211 50 2 56 6 aact:AA01584|5end_host_factor-I_protein_1065589..1065819_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 245 84 41 137 97 aact:AA02989|3end_conserved_hypothetical_protein_2089548..2089698_POSITIVE 227 48 6 56 5 aact:AA02967|3end_elongation_factor_P_(EF-P)_2075914..2076064_POSITIVE 227 72 40 98 61 aact:AA01779|3end_molybdenum_ABC_transporter,_ATP-binding_protein_1201174..1201324_POSITIVE 227 46 1 108 60 aact:AA00363|3end_50S_ribosomal_protein_L22_245980..246130_POSITIVE 225 57 14 110 69 aact:AA02367|3end_conserved_hypothetical_protein_1623580..1623730_POSITIVE 225 49 1 125 80 aact:AA01546|3end_deoxyribose_operon_repressor_1036320..1036470_POSITIVE 225 87 52 108 81 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 222 66 22 43 7 aact:AA00719|3end_hypothetical_protein_494829..494979_POSITIVE 219 48 4 131 90 aact:AA02687|3end_hydrogenase-4_component_D_1874043..1874193_POSITIVE 218 72 37 103 60 aact:AA00504|3end_ATPase_351287..351437_POSITIVE 215 62 24 72 28 aact:AA00553|3end_NapD_component_of_periplasmic_nitrate_reductase_380212..380362_POSITIVE 211 68 22 59 14 aact:AA01525|3end_amino_acid_ABC_transporter,_permease_component_1025079..1025229_POSITIVE 211 25 4 149 128 aact:AA01294|3end_DNA_adenine_methylase_877367..877517_POSITIVE 210 90 70 63 44 aact:AA01678|3end_possible_transcriptional_regulator_1134375..1134525_POSITIVE 208 50 7 87 27 aact:AA02252|3end_conserved_hypothetical_protein_1534696..1534846_POSITIVE 207 71 39 62 30 aact:AA02411|3end_cysteine_synthetase_1657504..1657654_POSITIVE 206 70 22 66 16 aact:AA00209|3end_D-ribose_ABC_transporter,_periplasmic-binding_protein_146032..146182_POSITIVE 204 84 41 139 95 aact:AA02290|3end_cell_division_protein_J;_ribosomal_RNA_large_subunit_methyltransferase_J_1561988..1562138_POSITIVE 204 50 3 79 27 aact:AA02020|3end_conserved_hypothetical_protein_(possible_tetrapyrrole_methylase_family_protein)_1374742..1374892_POSITIVE 203 87 41 72 27 aact:AA00652|3end_arginyl-tRNA_synthetase_(arginine--tRNA_ligase)_447486..447636_POSITIVE