Origin IGS: taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttatttgtttgataaagtgattttcatcggttaactgaattatacttacaataaaagccttcccaacggaaaggcttttatttttaatgaagcaaatta Mask Tandem Repeat Region ================================================ taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa Find is-nt database================================================ Query_seq: AA01988:AA01989|AA01988:AA01989:dihydrolipoamide dehydrogenase; lipoamide dehydrogenase:hypothetical protein:->->:1352079..1352178 100 taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01988:AA01989|AA01988:AA01989:dihydrolipoamide dehydrogenase; lipoamide dehydrogenase:hypothetical protein:->->:1352079..1352178 100 taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01988:AA01989|AA01988:AA01989:dihydrolipoamide dehydrogenase; lipoamide dehydrogenase:hypothetical protein:->->:1352079..1352178 100 taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 3 End: 98 .. M C F I K N K S L S V G K A F I V S I I Q L T D E N H F I K Q I .. taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa 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================================================ taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -13.3 Tail_Score: -4.72272 Start: 20 End: 48 Full_Region: gaattatacttacaa taaaagccttccc aac ggaaaggctttta tttttaatgaagcaa ...................taaaagccttcccaacggaaaggctttta.................................................... TransTerm Strand: - Conf: 100 HP_score: -8.8 Tail_Score: -5.3104 Start: 25 End: 43 Full_Region: atacttacaataaaa gccttccc aac ggaaaggc ttttatttttaatga ........................gccttcccaacggaaaggc......................................................... Find igs database================================================ Query_seq: AA01988:AA01989|AA01988:AA01989:dihydrolipoamide dehydrogenase; lipoamide dehydrogenase:hypothetical protein:->->:1352079..1352178 100 taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: aact_AA01988_AA01989|dihydrolipoamide dehydrogenase; lipoamide dehydrogenase:hypothetical protein|POSITIVE:POSITIVE|[1352079,1352178]|100 HSP 1 e-value: 2.0E-50 bit: 198.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa taatttgcttcattaaaaataaaagcctttccgttgggaaggcttttattgtaagtataattcagttaaccgatgaaaatcactttatcaaacaaataaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUUGCUUCAUUAAAAAUAAAAGCCUUUCCGUUGGGAAGGCUUUUAUUGUAAGUAUAAUUCAGUUAACCGAUGAAAAUCACUUUAUCAAACAAAUAAA ..(((((..........(((((((((((((((...))))))))))))))).....................((((((......))))))...)))))... (-24.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUUUGUUUGAUAAAGUGAUUUUCAUCGGUUAACUGAAUUAUACUUACAAUAAAAGCCUUCCCAACGGAAAGGCUUUUAUUUUUAAUGAAGCAAAUUA ...((((((((.((.(((((.......((((....))))....)))))..((((((((((((((....)).))))))))))))....)).)))))))).. (-24.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 257 75 32 144 104 aact:AA01853|5end_hypothetical_protein_1246458..1246688_POSITIVE 246 43 23 32 13 aact:AA01143|5end_hypothetical_protein_783111..783341_POSITIVE 243 58 15 147 109 aact:AA02335|5end_6-O-methylguanine-DNA_methyltransferase_1596814..1597044_POSITIVE 242 77 31 139 101 aact:AA02329|5end_conserved_hypothetical_protein_1589659..1589889_POSITIVE 238 60 23 87 36 aact:AA02290|5end_cell_division_protein_J;_ribosomal_RNA_large_subunit_methyltransferase_J_1561282..1561512_POSITIVE 236 73 31 218 167 aact:AA01603|5end_oligopeptidase_A_1082898..1083128_POSITIVE 235 68 22 171 128 aact:AA02950|5end_isoleucyl-tRNA_synthetase_2062295..2062525_POSITIVE 231 64 21 163 111 aact:AA01881|5end_adenylate_kinase_1269044..1269274_POSITIVE 227 63 25 176 125 aact:AA00106|5end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase_75544..75774_POSITIVE 226 79 31 97 45 aact:AA01773|5end_hypothetical_protein_1194877..1195107_POSITIVE 222 57 21 84 39 aact:AA02357|5end_bifunctional_protein:_aspartokinase_I;_homoserine_dehydrogenaseI_1614668..1614898_POSITIVE 222 73 31 62 30 aact:AA01039|5end_transcriptional_regulator_(possible_murein_gene_regulator)_723864..724094_POSITIVE 221 44 1 125 92 aact:AA01891|5end_pyridoxine_kinase_1275922..1276152_POSITIVE 219 76 31 203 154 aact:AA00052|5end_cytochrome_c-type_biogenesis_protein_precursor_40842..41072_POSITIVE 218 68 23 91 37 aact:AA02168|5end_possible_protease;_heat_shock_protein_1483529..1483759_POSITIVE 216 51 11 47 1 aact:AA02668|5end_gluconate_permease_1856758..1856988_POSITIVE 215 73 32 98 36 aact:AA01961|5end_lipid_A_export_ATP-binding/permease_protein_msbA_1324405..1324635_POSITIVE 215 70 22 74 29 aact:AA00290|5end_conserved_hypothetical_protein_201272..201502_POSITIVE 213 69 24 67 26 aact:AA02286|5end_sugar_ABC_transporter,_ATP-binding_protein_1557578..1557808_POSITIVE 212 68 22 109 59 aact:AA00537|5end_conserved_hypothetical_protein_367992..368222_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 374 50 2 73 29 aact:AA01988|3end_dihydrolipoamide_dehydrogenase;_lipoamide_dehydrogenase_1352018..1352168_POSITIVE 246 43 23 29 10 aact:AA01141|3end_conserved_hypothetical_protein_(possible_component_of_anaerobic_dehydrogenase/oxidoreductase)_783188..783338_POSITIVE 243 58 15 67 29 aact:AA02334|3end_outer_membrane_protein_P1_1596814..1596964_POSITIVE 242 77 31 136 98 aact:AA02328|3end_anti-sigma_factor_B_antagonist_1589736..1589886_POSITIVE 236 73 31 86 35 aact:AA01601|3end_PTS_system,_glucose-specific_IIA_componen_1082846..1082996_POSITIVE 230 65 32 147 117 aact:AA01852|3end_peptide_chain_release_factor_3_1246551..1246701_POSITIVE 227 69 26 110 65 aact:AA02242|3end_molybdenum_cofactor_biosynthesis_protein_A_1525088..1525238_POSITIVE 226 79 31 82 30 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE 221 44 1 90 57 aact:AA01890|3end_cell-cycle_protein_1275967..1276117_POSITIVE 215 73 32 76 14 aact:AA01959|3end_tetraacyldisaccharide_4'-kinase_1324463..1324613_POSITIVE 215 70 22 69 24 aact:AA00288|3end_conserved_hypothetical_protein_201347..201497_POSITIVE 212 68 22 79 29 aact:AA00536|3end_5'-nucleotidase_precursor_368042..368192_POSITIVE 211 44 25 38 19 aact:AA01705|3end_beta-galactosidase_1157980..1158130_POSITIVE 210 73 32 120 78 aact:AA01561|3end_conserved_hypothetical_protein_1046971..1047121_POSITIVE 207 75 35 127 79 aact:AA00947|3end_hypothetical_protein_655509..655659_POSITIVE 207 75 35 100 52 aact:AA00946|3end_hypothetical_protein_655482..655632_POSITIVE 206 47 24 139 116 aact:AA01003|3end_conserved_hypothetical_protein_700454..700604_POSITIVE 203 53 19 150 118 aact:AA01607|3end_oligopeptide_transporter,_periplasmic-binding_protein_1087112..1087262_POSITIVE 198 69 26 74 14 aact:AA01421|3end_phosphoglycolate_phosphatase_955806..955956_POSITIVE 197 57 16 82 33 aact:AA02158|3end_TonB-dependent_outer_membrane_receptor_1477317..1477467_POSITIVE