Origin IGS: gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggaatcactccgatgtttgagcgttttaataactaaaaggaatttataactacaacgagttagtgttgattctagtgtatctaaatataaatactttgatttcagtcaagtaaaataaattaattcctttatttccttataaatcagtaaattaatttcatttctgtgataacaattacgatataatcaatagttatatatatttttatattaagagggtttaaaaggagtttgagccaatggtaatttttgtgctatctgctaaaatacgccccatttttctatgggttaaaaagtgaattaac Mask Tandem Repeat Region ================================================ gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc Find is-nt database================================================ Query_seq: AA02249:AA02250|AA02249:AA02250:thiamine biosynthesis protein:possible cytochrome c-type protein:->->:1529960..1530264 305 gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02249:AA02250|AA02249:AA02250:thiamine biosynthesis protein:possible cytochrome c-type protein:->->:1529960..1530264 305 gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02249:AA02250|AA02249:AA02250:thiamine biosynthesis protein:possible cytochrome c-type protein:->->:1529960..1530264 305 gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 201 End: 305 ........................................................................................................................................................................................................ M K S K Y L Y L D T L E S T L T R C S Y K F L L V I K T L K H R S D S gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc 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================================================ gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02249:AA02250|AA02249:AA02250:thiamine biosynthesis protein:possible cytochrome c-type protein:->->:1529960..1530264 305 gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc Intra-Species Hit: Count: 1 Min: 1 Max: 305 Len: 305 Subject: aact_AA02249_AA02250|thiamine biosynthesis protein:possible cytochrome c-type protein|POSITIVE:POSITIVE|[1529960,1530264]|305 HSP 1 e-value: 1.0E-172 bit: 605.0 Len: 305 Query Start:1 Query End:305 Subject Strand: POSITIVE Subject Start: 1 Subject End: 305 gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc gttaattcactttttaacccatagaaaaatggggcgtattttagcagatagcacaaaaattaccattggctcaaactccttttaaaccctcttaatataaaaatatatataactattgattatatcgtaattgttatcacagaaatgaaattaatttactgatttataaggaaataaaggaattaatttattttacttgactgaaatcaaagtatttatatttagatacactagaatcaacactaactcgttgtagttataaattccttttagttattaaaacgctcaaacatcggagtgattcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUAAUUCACUUUUUAACCCAUAGAAAAAUGGGGCGUAUUUUAGCAGAUAGCACAAAAAUUACCAUUGGCUCAAACUCCUUUUAAACCCUCUUAAUAUAAAAAUAUAUAUAACUAUUGAUUAUAUCGUAAUUGUUAUCACAGAAAUGAAAUUAAUUUACUGAUUUAUAAGGAAAUAAAGGAAUUAAUUUAUUUUACUUGACUGAAAUCAAAGUAUUUAUAUUUAGAUACACUAGAAUCAACACUAACUCGUUGUAGUUAUAAAUUCCUUUUAGUUAUUAAAACGCUCAAACAUCGGAGUGAUUCC ......(((((((....(((((......)))))((((.........(((((((.....(((((....((........))...............((((((.((((........))))..)))))).))))))))))))...((((((((.(((((((....((((......))))....)))))))))))))))...(((((((((.....(((((((....)))))))..(((...((((........))))...)))........))))))))).....)))).........))))))).... (-47.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAAUCACUCCGAUGUUUGAGCGUUUUAAUAACUAAAAGGAAUUUAUAACUACAACGAGUUAGUGUUGAUUCUAGUGUAUCUAAAUAUAAAUACUUUGAUUUCAGUCAAGUAAAAUAAAUUAAUUCCUUUAUUUCCUUAUAAAUCAGUAAAUUAAUUUCAUUUCUGUGAUAACAAUUACGAUAUAAUCAAUAGUUAUAUAUAUUUUUAUAUUAAGAGGGUUUAAAAGGAGUUUGAGCCAAUGGUAAUUUUUGUGCUAUCUGCUAAAAUACGCCCCAUUUUUCUAUGGGUUAAAAAGUGAAUUAAC ....(((((...........((((.((........(((((((((.((...((((..((((((....))))))...))))............(((((.(((....))))))))......)).)))))))))..((((((.((((((.((((.......((((....))))......)))).(((((((.....)))))))..................)))))).))))))....(((..((((((.......))))))..)))..)).))))(((((......)))))......)))))...... (-53.52) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 70 34 203 164 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 273 52 24 144 114 aact:AA02603|5end_possible_thioredoxin_trxA_homolog_1814635..1814865_POSITIVE 269 49 2 186 130 aact:AA00229|5end_DNA_polymerase_III,_alpha_subunit_156863..157093_POSITIVE 266 48 18 130 100 aact:AA01663|5end_GTP_cyclohydrolase_I_1127471..1127701_POSITIVE 257 290 245 123 74 aact:AA00605|5end_CDP-diglyceride_pyrophosphorylase_410930..411160_POSITIVE 255 75 32 191 136 aact:AA01976|5end_colicin_V_production_protein_1336513..1336743_POSITIVE 248 80 31 111 64 aact:AA02253|5end_hypothetical_protein_1534605..1534835_POSITIVE 247 57 18 147 98 aact:AA01718|5end_DNA_polymerase_III,_chi_subunit_1162790..1163020_POSITIVE 235 70 23 211 158 aact:AA02602|5end_conserved_hypothetical_protein_1813407..1813637_POSITIVE 234 80 31 180 140 aact:AA01197|5end_conserved_hypothetical_protein_820863..821093_POSITIVE 228 46 9 225 191 aact:AA01228|5end_50S_ribosomal_protein_L14_838897..839127_POSITIVE 225 46 6 180 142 aact:AA01813|5end_electron_transport_complex_protein_1220949..1221179_POSITIVE 224 89 46 55 1 aact:AA01473|5end_type_I_restriction-modification_system_S_(specificity_subunit)_989025..989255_POSITIVE 221 55 19 168 132 aact:AA01070|5end_DNA_repair_protein_740920..741150_POSITIVE 220 53 23 102 77 aact:AA02631|5end_undecaprenyl-phosphate_galactosephosphotransferase_homolog_1830469..1830699_POSITIVE 220 71 31 58 19 aact:AA00786|5end_possible_protein-export_membrane_protein_539975..540205_POSITIVE 219 54 29 52 18 aact:AA00499|5end_pyridoxamine-5'-phosphate_oxidase_346570..346800_POSITIVE 218 47 23 32 8 aact:AA02590|5end_conserved_hypothetical_protein_1801113..1801343_POSITIVE 216 68 33 143 106 aact:AA00816|5end_lacZ_expression_regulator_560900..561130_POSITIVE 214 180 137 229 177 aact:AA02891|5end_oligopeptide-binding_protein_precursor_2025475..2025705_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 257 290 245 105 56 aact:AA00603|3end_undecaprenyl_pyrophosphate_synthetase_(UPPS)_410992..411142_POSITIVE 254 80 33 131 93 aact:AA01818|3end_high-affinity_zinc_uptake_system_membrane_protein_1225078..1225228_POSITIVE 248 80 31 122 75 aact:AA02252|3end_conserved_hypothetical_protein_1534696..1534846_POSITIVE 230 69 30 116 83 aact:AA01296|3end_shikimate_kinase_(shikimic_acid_kinase_I)_878952..879102_POSITIVE 228 46 9 93 59 aact:AA01227|3end_hypothetical_protein_838845..838995_POSITIVE 225 71 31 129 79 aact:AA00976|3end_conserved_hypothetical_protein_682278..682428_POSITIVE 224 89 46 108 54 aact:AA01472|3end_hypothetical_protein_989158..989308_POSITIVE 222 43 18 90 64 aact:AA00485|3end_hypothetical_protein_336708..336858_POSITIVE 220 53 23 27 2 aact:AA02630|3end_hypothetical_protein_1830474..1830624_POSITIVE 217 78 31 60 7 aact:AA00474|3end_cell_division_protein_Y_(GTP-binding_signal_recognition_particle)_331724..331874_POSITIVE 214 54 14 120 65 aact:AA02051|3end_geranylgeranyl_pyrophosphate_synthase;_farnesyl-diphosphate_synthase_1398527..1398677_POSITIVE 211 67 22 52 3 aact:AA00109|3end_conserved_hypothetical_protein_79153..79303_POSITIVE 210 41 17 145 115 aact:AA00342|3end_hypothetical_protein_229939..230089_POSITIVE 209 79 32 65 15 aact:AA01231|3end_30S_ribosomal_protein_S14_840485..840635_POSITIVE 208 72 31 45 13 aact:AA01416|3end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_953336..953486_POSITIVE 207 70 28 151 108 aact:AA02687|3end_hydrogenase-4_component_D_1874043..1874193_POSITIVE 206 75 31 143 99 aact:AA02922|3end_gamma-glutamylphosphate_reductase_2047441..2047591_POSITIVE 205 70 26 123 72 aact:AA02885|3end_conserved_hypothetical_protein_2023422..2023572_POSITIVE 205 47 31 20 4 aact:AA02589|3end_NAD(P)H_oxidoreductase_1801181..1801331_POSITIVE 205 61 30 147 117 aact:AA01597|3end_oligoribonuclease_1078936..1079086_POSITIVE