Origin IGS: tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aacgttttccttttcttcgggttgattgagtataaaacgccaaaatgatagcacaaagattgattggaatcattaaacgttacaatttattaacaaacaaagaagatggtgattagccatcttctttattttttgttaagtcgtca Mask Tandem Repeat Region ================================================ tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt Find is-nt database================================================ Query_seq: AA00066:AA00068|AA00066:AA00068:NADP-dependent malic enzyme (NADP-ME):manganese superoxide dismutase:->->:51404..51549 146 tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00066:AA00068|AA00066:AA00068:NADP-dependent malic enzyme (NADP-ME):manganese superoxide dismutase:->->:51404..51549 146 tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00066:AA00068|AA00066:AA00068:NADP-dependent malic enzyme (NADP-ME):manganese superoxide dismutase:->->:51404..51549 146 tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt Predict ORF larger than 30AA ================================================ tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt 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================================================ tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 95 HP_score: -7.7 Tail_Score: -5.4833 Start: 19 End: 49 Full_Region: caatttattaacaaa caaagaagatggt gatta gccatcttcttta ttttttgttaagtcg ..................caaagaagatggtgattagccatcttcttta................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -8.5 Tail_Score: -5.20735 Start: 23 End: 45 Full_Region: ttattaacaaacaaa gaagatggt gatta gccatcttc tttattttttgttaa ......................gaagatggtgattagccatcttc..................................................................................................... Find igs database================================================ Query_seq: AA00066:AA00068|AA00066:AA00068:NADP-dependent malic enzyme (NADP-ME):manganese superoxide dismutase:->->:51404..51549 146 tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: aact_AA00066_AA00068|NADP-dependent malic enzyme (NADP-ME):manganese superoxide dismutase|POSITIVE:POSITIVE|[51404,51549]|146 HSP 1 e-value: 1.0E-77 bit: 289.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt tgacgacttaacaaaaaataaagaagatggctaatcaccatcttctttgtttgttaataaattgtaacgtttaatgattccaatcaatctttgtgctatcattttggcgttttatactcaatcaacccgaagaaaaggaaaacgtt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACGACUUAACAAAAAAUAAAGAAGAUGGCUAAUCACCAUCUUCUUUGUUUGUUAAUAAAUUGUAACGUUUAAUGAUUCCAAUCAAUCUUUGUGCUAUCAUUUUGGCGUUUUAUACUCAAUCAACCCGAAGAAAAGGAAAACGUU .((((..(((((((...(((((((((((((.......))))))))))))))))))))........((((((.((((((.((((.......))).)..))))))..))))))...............((........))....)))) (-32.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACGUUUUCCUUUUCUUCGGGUUGAUUGAGUAUAAAACGCCAAAAUGAUAGCACAAAGAUUGAUUGGAAUCAUUAAACGUUACAAUUUAUUAACAAACAAAGAAGAUGGUGAUUAGCCAUCUUCUUUAUUUUUUGUUAAGUCGUCA (((((((........(((.(((..(((..((.....................))...)))..))).))).....)))))))........((((((((.((((((((((((.....))))))))))))....))))))))....... (-30.52) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 360 131 93 224 183 aact:AA01250|5end_nadAB_transcriptional_regulator_850432..850662_POSITIVE 276 110 62 77 23 aact:AA01994|5end_chorismate_mutase;_prephenate_dehydrogenase_1354959..1355189_POSITIVE 275 129 94 194 158 aact:AA00052|5end_cytochrome_c-type_biogenesis_protein_precursor_40842..41072_POSITIVE 265 138 93 56 8 aact:AA02561|5end_conserved_hypothetical_protein_1783553..1783783_POSITIVE 253 109 75 58 33 aact:AA01546|5end_deoxyribose_operon_repressor_1035494..1035724_POSITIVE 245 127 87 171 133 aact:AA01553|5end_conserved_hypothetical_protein_1039220..1039450_POSITIVE 244 110 64 227 187 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 244 119 75 191 150 aact:AA01991|5end_conserved_hypothetical_protein_(possible_nitroreductase)_1352372..1352602_POSITIVE 240 129 81 206 166 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 233 130 81 140 89 aact:AA02742|5end_tRNA_nucleotidyltransferase_1921308..1921538_POSITIVE 231 131 91 98 65 aact:AA00383|5end_chloride_channel_protein_258894..259124_POSITIVE 230 128 82 152 104 aact:AA01839|5end_conserved_hypothetical_protein_(possible_transcriptional_regulator)_1236870..1237100_POSITIVE 226 111 76 84 50 aact:AA00512|5end_conserved_hypothetical_protein_354411..354641_POSITIVE 224 109 76 202 173 aact:AA01953|5end_hypothetical_protein_1320132..1320362_POSITIVE 223 116 72 141 105 aact:AA02766|5end_hypothetical_protein_1934931..1935161_POSITIVE 223 120 78 48 5 aact:AA01746|5end_thiol:disulfide_interchange_protein_1180636..1180866_POSITIVE 220 106 62 230 184 aact:AA01995|5end_conserved_hypothetical_protein_(possible_chorismate_mutase)_1355120..1355350_POSITIVE 218 80 38 204 158 aact:AA01918|5end_anaerobic_C4-dicarboxylate_transporter_1290931..1291161_POSITIVE 216 117 75 53 6 aact:AA01877|5end_conserved_hypothetical_protein_1264115..1264345_POSITIVE 215 50 3 162 109 aact:AA01619|5end_phospho-2-dehydro-3-deoxyheptonate_aldolase_(DAHP_synthase)_1094422..1094652_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 376 138 93 151 94 aact:AA01249|3end_conserved_hypothetical_protein_(possible_phosphoesterase)_850423..850573_POSITIVE 327 57 16 83 39 aact:AA00066|3end_NADP-dependent_malic_enzyme_(NADP-ME)_51343..51493_POSITIVE 265 138 93 53 5 aact:AA02560|3end_integral_membrane_protein_1783630..1783780_POSITIVE 259 53 15 112 74 aact:AA02480|3end_excinuclease_ABC_subunit_B_1718442..1718592_POSITIVE 244 110 64 145 105 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 233 130 81 146 95 aact:AA02740|3end_conserved_hypothetical_protein_1921394..1921544_POSITIVE 233 120 75 55 1 aact:AA01992|3end_protease_IV;_signal_peptide_peptidase;_Endopeptidase_IV_1355004..1355154_POSITIVE 230 128 82 145 97 aact:AA01838|3end_conserved_hypothetical_protein_1236943..1237093_POSITIVE 226 111 76 75 41 aact:AA00511|3end_nicotinamide_mononucleotide_transporter_354482..354632_POSITIVE 225 109 69 49 3 aact:AA01567|3end_conserved_hypothetical_protein_(possible_cell-wall-associated_hydrolase)_1055215..1055365_POSITIVE 224 109 76 145 116 aact:AA01952|3end_ABC_transporter,_substrate_binding_protein_1320155..1320305_POSITIVE 224 130 83 140 95 aact:AA00221|3end_NADP-specific_glutamate_dehydrogenase_153865..154015_POSITIVE 216 119 77 72 24 aact:AA00544|3end_glutathionylspermidine_synthetase;amidase_373733..373883_POSITIVE 215 50 3 58 5 aact:AA01618|3end_lipoprotein_releasing_system_transmembrane_protein_1094398..1094548_POSITIVE 215 129 89 62 8 aact:AA00906|3end_sigma-E_factor_regulatory_protein_626143..626293_POSITIVE 214 110 70 138 103 aact:AA01668|3end_transcription_elongation_factor_1130383..1130533_POSITIVE 212 109 61 73 27 aact:AA00267|3end_hypothetical_protein_188143..188293_POSITIVE 210 130 88 151 109 aact:AA00820|3end_succinyl-diaminopimelate_desuccinylase_564536..564686_POSITIVE 208 110 62 137 92 aact:AA02656|3end_possible_polysaccharide_polymerization_protein_1851980..1852130_POSITIVE 208 60 19 133 89 aact:AA00642|3end_conserved_hypothetical_protein_440462..440612_POSITIVE