Origin IGS: agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt .........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 aaaaacctctcataaatgaaatgtgccacgggaagattgatatcggcacttgaaaaacggcaggcattatagcggattttagccatgatgagaaatgacaaggctttggcgtgataatttatttctaaaaatcactttaaaaattttctgtcggcattatattaaccaggtgaaattttatactggtcatctcatcaattcattaaatgctctgagtcgttcttgtacttagcggcgaatcaaaccgaataatataatttataaacattaagcaattaaggataact Mask Tandem Repeat Region ================================================ agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt Find is-nt database================================================ Query_seq: AA00688:AA00689|AA00688:AA00689:curved DNA-binding protein:GTP-binding protein:->->:470286..470572 287 agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00688:AA00689|AA00688:AA00689:curved DNA-binding protein:GTP-binding protein:->->:470286..470572 287 agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00688:AA00689|AA00688:AA00689:curved DNA-binding protein:GTP-binding protein:->->:470286..470572 287 agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 166 End: 285 ..................................................................................................................................................................... M N Y H A K A L S F L I M A K I R Y N A C R F S S A D I N L P V A H F I Y E R F .. Protein_Len: 39 Strand: + Start: 170 End: 286 ......................................................................................................................................................................... M I T P K P C H F S S W L K S A I M P A V F Q V P I S I F P W H I S F M R G F . Protein_Len: 45 Strand: - Start: 59 End: 193 .......................................................... T C S R S L A N L S N I L H G T Y F K V Q N I Y H R C F I K L T I K L F L N D R W L R T M .............................................................................................. agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt 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: 86 Start: 193 End: 222 ................................................................................................................................................................................................TTTCTCATCATGGCTAAAATCCGCTATAAT................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00688:AA00689|AA00688:AA00689:curved DNA-binding protein:GTP-binding protein:->->:470286..470572 287 agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt Intra-Species Hit: Count: 1 Min: 1 Max: 287 Len: 287 Subject: aact_AA00688_AA00689|curved DNA-binding protein:GTP-binding protein|POSITIVE:POSITIVE|[470286,470572]|287 HSP 1 e-value: 1.0E-161 bit: 569.0 Len: 287 Query Start:1 Query End:287 Subject Strand: POSITIVE Subject Start: 1 Subject End: 287 agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt agttatccttaattgcttaatgtttataaattatattattcggtttgattcgccgctaagtacaagaacgactcagagcatttaatgaattgatgagatgaccagtataaaatttcacctggttaatataatgccgacagaaaatttttaaagtgatttttagaaataaattatcacgccaaagccttgtcatttctcatcatggctaaaatccgctataatgcctgccgtttttcaagtgccgatatcaatcttcccgtggcacatttcatttatgagaggttttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUAUCCUUAAUUGCUUAAUGUUUAUAAAUUAUAUUAUUCGGUUUGAUUCGCCGCUAAGUACAAGAACGACUCAGAGCAUUUAAUGAAUUGAUGAGAUGACCAGUAUAAAAUUUCACCUGGUUAAUAUAAUGCCGACAGAAAAUUUUUAAAGUGAUUUUUAGAAAUAAAUUAUCACGCCAAAGCCUUGUCAUUUCUCAUCAUGGCUAAAAUCCGCUAUAAUGCCUGCCGUUUUUCAAGUGCCGAUAUCAAUCUUCCCGUGGCACAUUUCAUUUAUGAGAGGUUUUU ....(((...(((((..((((((.........))))))..))))).)))..(((((...(((((((((((...(((.(((((........(((((((((((((((.............)))))))..........(((((....(((.....(((((.((((....))))..)))))...)))...)))))...))))))))((((........)))).)))))))).)))))))...)))).(((....))).....)))))...(((((....)))))....... (-58.92) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAACCUCUCAUAAAUGAAAUGUGCCACGGGAAGAUUGAUAUCGGCACUUGAAAAACGGCAGGCAUUAUAGCGGAUUUUAGCCAUGAUGAGAAAUGACAAGGCUUUGGCGUGAUAAUUUAUUUCUAAAAAUCACUUUAAAAAUUUUCUGUCGGCAUUAUAUUAACCAGGUGAAAUUUUAUACUGGUCAUCUCAUCAAUUCAUUAAAUGCUCUGAGUCGUUCUUGUACUUAGCGGCGAAUCAAACCGAAUAAUAUAAUUUAUAAACAUUAAGCAAUUAAGGAUAACU .....((....((((((...((((....(((.....(((((.(((.(.((.(((..((..((((((((...((........))..((((((((..(((((..(.(((((.(((((..((((....)))).))))).)))))....)..)))))...........(((((((((....)))).)))))..))))))))........))))).))).))..)))........)).).)))))))).)))....)))).)))))).....((((....))))))...... (-53.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 353 230 183 142 103 aact:AA01556|5end_ABC_transporter_ATP-binding_protein_1044218..1044448_POSITIVE 353 249 205 169 109 aact:AA01295|5end_3-dehydroquinate_synthase_877272..877502_POSITIVE 344 263 221 160 118 aact:AA01651|5end_hypothetical_protein_1119796..1120026_POSITIVE 337 244 201 187 135 aact:AA02196|5end_oxaloacetate_decarboxylase_beta_chain_1496308..1496538_POSITIVE 333 259 217 219 172 aact:AA01166|5end_sulphite_synthesis_pathway_protein_798599..798829_POSITIVE 322 261 223 174 124 aact:AA02230|5end_sugar_kinase_1515984..1516214_POSITIVE 320 268 221 140 96 aact:AA01303|5end_competence_protein_A_881996..882226_POSITIVE 318 260 211 137 84 aact:AA01837|5end_transcriptional_regulatory_protein_1235450..1235680_POSITIVE 312 243 205 67 28 aact:AA00475|5end_conserved_hypothetical_protein_(possible_N6-adenine-specific_methylase)_331621..331851_POSITIVE 309 264 226 210 175 aact:AA02678|5end_formate_dehydrogenase,_gamma_subunit_1865021..1865251_POSITIVE 309 232 205 183 149 aact:AA01630|5end_threonine_efflux_protein_1102381..1102611_POSITIVE 307 259 214 47 10 aact:AA01956|5end_3-deoxy-manno-octulosonate_cytidylyltransferase_1322436..1322666_POSITIVE 306 245 201 66 29 aact:AA02931|5end_UDP-N-acetylmuramate:L-alanyl-gamma-d-glutamayl-m_edo-diaminopimelate_2050596..2050826_POSITIVE 305 263 229 141 105 aact:AA02723|5end_hypothetical_protein_1906263..1906493_POSITIVE 305 235 193 82 40 aact:AA01175|5end_6-phosphogluconate_dehydrogenase_804864..805094_POSITIVE 304 270 221 73 12 aact:AA02658|5end_conserved_hypothetical_protein_1852260..1852490_POSITIVE 304 270 221 85 24 aact:AA01270|5end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863317..863547_POSITIVE 301 263 221 142 99 aact:AA00534|5end_hypothetical_protein_365419..365649_POSITIVE 301 263 221 46 3 aact:AA00533|5end_conserved_hypothetical_protein_365323..365553_POSITIVE 297 260 211 107 47 aact:AA00574|5end_regulatory_protein_392113..392343_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 263 221 133 91 aact:AA01650|3end_maltose_transport_inner_membrane_protein_1119849..1119999_POSITIVE 339 258 214 78 24 aact:AA01666|3end_penicillin-binding_protein_4;_D-alanyl-D-alanine_carboxypeptidase;_D-alanyl-D-alanine-endopeptidase_1129621..1129771_POSITIVE 330 244 202 126 84 aact:AA00977|3end_transcriptional_regulator_(LysR_family)_683334..683484_POSITIVE 322 261 223 121 71 aact:AA02228|3end_regulatory_protein,_sorC_family_1516011..1516161_POSITIVE 312 243 205 90 51 aact:AA00474|3end_cell_division_protein_Y_(GTP-binding_signal_recognition_particle)_331724..331874_POSITIVE 306 259 221 129 91 aact:AA01062|3end_ribonuclease_PH_(RNase_PH)_736499..736649_POSITIVE 305 263 229 150 114 aact:AA02722|3end_cytidine_deaminase_1906352..1906502_POSITIVE 305 235 193 61 19 aact:AA01174|3end_hypothetical_protein_804923..805073_POSITIVE 304 270 221 73 12 aact:AA02657|3end_conserved_hypothetical_protein_1852340..1852490_POSITIVE 304 270 221 101 40 aact:AA01269|3end_hypothetical_protein_863413..863563_POSITIVE 299 259 227 147 115 aact:AA01743|3end_lysyl-tRNA_synthetase_1179351..1179501_POSITIVE 297 258 211 138 84 aact:AA01662|3end_molybdopterin_biosynthesis_protein_1127422..1127572_POSITIVE 297 244 211 140 100 aact:AA00007|3end_superoxide_dismutase_[Cu-Zn]_precursor_5055..5205_POSITIVE 292 239 199 141 101 aact:AA02418|3end_peptidyl-tRNA_hydrolase_1661811..1661961_POSITIVE 292 230 183 144 99 aact:AA01262|3end_hydrolase_860087..860237_POSITIVE 291 259 221 87 42 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 290 270 223 146 99 aact:AA02432|3end_penicillin-binding_protein_1B_1678325..1678475_POSITIVE 287 270 221 102 50 aact:AA01396|3end_saccharide_biosynthesis_regulatory_protein_944880..945030_POSITIVE 286 264 221 95 56 aact:AA01891|3end_pyridoxine_kinase_1276784..1276934_POSITIVE 286 80 40 45 10 aact:AA01465|3end_mannose-specific_phosphotransferase_element_985547..985697_POSITIVE