Origin IGS: ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagatttctccgtaattggttgtattgtaaaaactttttattgcgggcgcaggtttcaacaattacccacaagaaccgggcagtattatacgccgaaaataaagttagatcgagatcacatttcaggaaaaaccgttgcaattttagccgattttataaag Mask Tandem Repeat Region ================================================ ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta Find is-nt database================================================ Query_seq: AA02213:AA02214|AA02213:AA02214:hypothetical protein:pyruvate kinase II:->->:1507226..1507387 162 ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02213:AA02214|AA02213:AA02214:hypothetical protein:pyruvate kinase II:->->:1507226..1507387 162 ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02213:AA02214|AA02213:AA02214:hypothetical protein:pyruvate kinase II:->->:1507226..1507387 162 ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 21 End: 161 .................... M Q R F F L K C D L D L T L F S A Y N T A R F L W V I V E T C A R N K K F L Q Y N Q L R R N L . Protein_Len: 47 Strand: - Start: 2 End: 142 . K Y F R S F N C R N K R F H S R S R V K N E A Y L V A R N K H T I T S V Q A R L L F N K C Y M .................... Protein_Len: 49 Strand: - Start: 1 End: 147 K I F D A L I A V T K G S I H D R D L K I K P T Y Y Q G T R T P L Q Q F R R G C Y F T K V I C G M ............... ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta 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: 81 Start: 48 End: 77 ...............................................CTCGATCTAACTTTATTTTCGGCGTATAAT..................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02213:AA02214|AA02213:AA02214:hypothetical protein:pyruvate kinase II:->->:1507226..1507387 162 ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta Intra-Species Hit: Count: 1 Min: 1 Max: 162 Len: 162 Subject: aact_AA02213_AA02214|hypothetical protein:pyruvate kinase II|POSITIVE:POSITIVE|[1507226,1507387]|162 HSP 1 e-value: 4.0E-87 bit: 321.0 Len: 162 Query Start:1 Query End:162 Subject Strand: POSITIVE Subject Start: 1 Subject End: 162 ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta ctttataaaatcggctaaaattgcaacggtttttcctgaaatgtgatctcgatctaactttattttcggcgtataatactgcccggttcttgtgggtaattgttgaaacctgcgcccgcaataaaaagtttttacaatacaaccaattacggagaaatctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUUAUAAAAUCGGCUAAAAUUGCAACGGUUUUUCCUGAAAUGUGAUCUCGAUCUAACUUUAUUUUCGGCGUAUAAUACUGCCCGGUUCUUGUGGGUAAUUGUUGAAACCUGCGCCCGCAAUAAAAAGUUUUUACAAUACAACCAAUUACGGAGAAAUCUUA .............((.......))...((((((((((((...((...........((((((....((((.(((......)))))))...((((((((....((....))....))))))))...))))))...........))...))).)))))))))... (-30.55) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAUUUCUCCGUAAUUGGUUGUAUUGUAAAAACUUUUUAUUGCGGGCGCAGGUUUCAACAAUUACCCACAAGAACCGGGCAGUAUUAUACGCCGAAAAUAAAGUUAGAUCGAGAUCACAUUUCAGGAAAAACCGUUGCAAUUUUAGCCGAUUUUAUAAAG ..............(((((((((.(((((((.((((((...(((.(((.....((....)).....))).)))......(((.(((...))))))......)))))).....(((((...)))))...........)))))))..)))))))))........ (-27.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 120 77 67 22 aact:AA01834|5end_hypothetical_protein_1234640..1234870_POSITIVE 312 120 78 136 80 aact:AA00989|5end_hypothetical_protein_692319..692549_POSITIVE 310 119 80 55 22 aact:AA01411|5end_stationary-phase_survival_protein_951000..951230_POSITIVE 308 105 68 174 135 aact:AA02175|5end_anthranilate_synthase_component_II_1488299..1488529_POSITIVE 301 128 84 49 6 aact:AA00601|5end_hypothetical_protein_408863..409093_POSITIVE 300 113 79 49 14 aact:AA01116|5end_hypothetical_protein_767629..767859_POSITIVE 300 119 81 61 14 aact:AA00581|5end_thiosulfate_sulfurtransferase_(rhodanese)_397605..397835_POSITIVE 299 110 62 89 30 aact:AA02206|5end_tryptophan_synthase,_beta_chain_1501917..1502147_POSITIVE 296 117 77 135 80 aact:AA01347|5end_conserved_hypothetical_protein_913209..913439_POSITIVE 296 118 80 42 4 aact:AA00652|5end_arginyl-tRNA_synthetase_(arginine--tRNA_ligase)_445718..445948_POSITIVE 294 119 81 200 165 aact:AA00790|5end_recombination_DNA_repair_protein_542455..542685_POSITIVE 294 118 78 169 131 aact:AA00534|5end_hypothetical_protein_365419..365649_POSITIVE 294 118 78 73 35 aact:AA00533|5end_conserved_hypothetical_protein_365323..365553_POSITIVE 293 119 71 52 15 aact:AA02966|5end_conserved_hypothetical_protein_2074223..2074453_POSITIVE 290 104 65 47 2 aact:AA01818|5end_high-affinity_zinc_uptake_system_membrane_protein_1224306..1224536_POSITIVE 290 119 84 44 1 aact:AA00132|5end_conserved_hypothetical_protein_(possible_regulator_protein,_VirR_family)_94938..95168_POSITIVE 289 118 79 66 18 aact:AA02163|5end_integration_host_factor_alpha-subunit_1479490..1479720_POSITIVE 285 120 78 228 188 aact:AA02967|5end_elongation_factor_P_(EF-P)_2075232..2075462_POSITIVE 285 124 82 84 48 aact:AA02599|5end_outer_membrane_protein,_Slp_family_1810083..1810313_POSITIVE 284 120 75 185 138 aact:AA00528|5end_conserved_hypothetical_protein_361396..361626_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 339 119 83 139 99 aact:AA00116|3end_conserved_hypothetical_protein_88207..88357_POSITIVE 322 95 57 52 10 aact:AA01817|3end_hypothetical_protein_1224400..1224550_POSITIVE 301 128 84 45 2 aact:AA00600|3end_ribosome_recycling_factor_(ribosome_releasing_factor)_408939..409089_POSITIVE 299 110 62 76 17 aact:AA02205|3end_short_chain_dehydrogenase/reductase_1501984..1502134_POSITIVE 296 117 77 107 52 aact:AA01345|3end_conserved_hypothetical_protein_(possible_membrane_protein)_913261..913411_POSITIVE 295 110 65 71 15 aact:AA00544|3end_glutathionylspermidine_synthetase;amidase_373733..373883_POSITIVE 294 118 78 55 17 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 290 120 74 98 31 aact:AA00977|3end_transcriptional_regulator_(LysR_family)_683334..683484_POSITIVE 287 119 80 35 2 aact:AA02965|3end_hypothetical_protein_2074286..2074436_POSITIVE 285 124 82 38 2 aact:AA02598|3end_long-chain-fatty-acid-CoA_ligase_1810117..1810267_POSITIVE 284 90 48 151 108 aact:AA02184|3end_anthranilate_isomerase;_indole-3-glycerol_phosphate_synthase;_phosphoribosylanthranilate_isomerase_1492541..1492691_POSITIVE 283 99 67 141 109 aact:AA00980|3end_hypothetical_protein_685409..685559_POSITIVE 282 118 79 57 7 aact:AA02536|3end_conserved_hypothetical_protein_1765263..1765413_POSITIVE 281 97 60 135 98 aact:AA02846|3end_crossover_junction_endodeoxyribonuclease_1999297..1999447_POSITIVE 278 87 41 70 23 aact:AA01384|3end_hypothetical_protein_935540..935690_POSITIVE 278 106 69 56 21 aact:AA00830|3end_cell_division_protein_A_572057..572207_POSITIVE 276 116 79 150 120 aact:AA01372|3end_ribonuclease_r,_virulence_associated_protein_930363..930513_POSITIVE 272 106 62 127 75 aact:AA02080|3end_ABC_transporter,_ATP-binding/permease_1414794..1414944_POSITIVE 272 120 79 107 68 aact:AA02048|3end_galactitol_utilization_operon_repressor_1395579..1395729_POSITIVE 272 95 64 135 91 aact:AA01305|3end_conserved_hypothetical_protein_886520..886670_POSITIVE