Origin IGS: taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaaacctaccgcactttttaagtcaatctctttacgcctcccgtttatggggaaggaacgtcttgcttttaagaataaaaatacaaaaacaaacaaaaagcggcatagcgccactttctgttttttcggtttggatta Mask Tandem Repeat Region ================================================ taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt Find is-nt database================================================ Query_seq: AA01835:AA01837|AA01835:AA01837:conserved hypothetical protein:transcriptional regulatory protein:->->:1235450..1235589 140 taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01835:AA01837|AA01835:AA01837:conserved hypothetical protein:transcriptional regulatory protein:->->:1235450..1235589 140 taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01835:AA01837|AA01835:AA01837:conserved hypothetical protein:transcriptional regulatory protein:->->:1235450..1235589 140 taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 3 End: 104 .. M Q T E K T E S G A M P L F V C F C I F I L K S K T F L P H K R E A .................................... Protein_Len: 38 Strand: + Start: 25 End: 138 ........................ M A L C R F L F V F V F L F L K A R R S F P I N G R R K E I D L K S A V G F .. Protein_Len: 37 Strand: - Start: 3 End: 113 .. D L G F F C F T A S H R K K N T K T N K N K F A L R E K G M F P L R L S M ........................... taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt 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================================================ taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 79 HP_score: -5.1 Tail_Score: -5.22039 Start: 19 End: 45 Full_Region: aaatacaaaaacaaa caaaaagcggc atagc gccactttctg ttttttcggtttgga ..................caaaaagcggcatagcgccactttctg............................................................................................... Find igs database================================================ Query_seq: AA01835:AA01837|AA01835:AA01837:conserved hypothetical protein:transcriptional regulatory protein:->->:1235450..1235589 140 taatccaaaccgaaaaaacagaaagtggcgctatgccgctttttgtttgtttttgtatttttattcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt Intra-Species Hit: Count: 1 Min: 1 Max: 140 Len: 140 Subject: aact_AA01835_AA01837|conserved hypothetical protein:transcriptional regulatory protein|POSITIVE:POSITIVE|[1235450,1235589]|140 HSP 1 e-value: 5.0E-37 bit: 155.0 Len: 78 Query Start:63 Query End:140 Subject Strand: POSITIVE Subject Start: 63 Subject End: 140 ..............................................................attcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt ..............................................................attcttaaaagcaagacgttccttccccataaacgggaggcgtaaagagattgacttaaaaagtgcggtaggtttttt HSP 2 e-value: 9.0E-14 bit: 77.8 Len: 39 Query Start:1 Query End:39 Subject Strand: POSITIVE Subject Start: 1 Subject End: 39 taatccaaaccgaaaaaacagaaagtggcgctatgccgc..................................................................................................... taatccaaaccgaaaaaacagaaagtggcgctatgccgc..................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCCAAACCGAAAAAACAGAAAGUGGCGCUAUGCCGCUUUUUGUUUGUUUUUGUAUUUUUAUUCUUAAAAGCAAGACGUUCCUUCCCCAUAAACGGGAGGCGUAAAGAGAUUGACUUAAAAAGUGCGGUAGGUUUUUU ......(((((....((((((((((((((.....))))))))))))))....((((((((((....((((.......(((..((((((........))))))))).......))))....))))))))))..)))))... (-38.34) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAACCUACCGCACUUUUUAAGUCAAUCUCUUUACGCCUCCCGUUUAUGGGGAAGGAACGUCUUGCUUUUAAGAAUAAAAAUACAAAAACAAACAAAAAGCGGCAUAGCGCCACUUUCUGUUUUUUCGGUUUGGAUUA ......((.((((...((((((................((((((.......))).)))....(((((....))))).)))))).........(((((.((((.(((.....))).)))).)))))...))))..)).... (-27.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 131 96 214 171 aact:AA00698|5end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477191..477421_POSITIVE 315 134 94 174 131 aact:AA02743|5end_outer_membrane_lipoprotein_precursor/glutamyl-tRNA_reductase_subunit_1922650..1922880_POSITIVE 313 131 97 63 22 aact:AA00233|5end_hypothetical_protein_162339..162569_POSITIVE 311 139 95 167 123 aact:AA01654|5end_periplasmic_maltose-binding_protein_precursor_1119896..1120126_POSITIVE 311 139 95 67 23 aact:AA01651|5end_hypothetical_protein_1119796..1120026_POSITIVE 310 138 99 110 77 aact:AA00186|5end_o-succinylbenzoate-CoA_synthase;_OSB_synthase_131367..131597_POSITIVE 309 131 96 81 46 aact:AA02932|5end_lytic_murein_transglycosylase_A_2052349..2052579_POSITIVE 309 130 81 147 71 aact:AA01474|5end_hypothetical_protein_990259..990489_POSITIVE 307 140 94 156 120 aact:AA02603|5end_possible_thioredoxin_trxA_homolog_1814635..1814865_POSITIVE 305 138 96 185 139 aact:AA01621|5end_replicative_DNA_helicase_1095647..1095877_POSITIVE 305 138 96 51 5 aact:AA01620|5end_hypothetical_protein_1095513..1095743_POSITIVE 298 131 97 120 84 aact:AA02974|5end_conserved_hypothetical_protein_2078990..2079220_POSITIVE 298 138 96 82 45 aact:AA02041|5end_hypothetical_protein_1389043..1389273_POSITIVE 296 50 6 156 104 aact:AA00563|5end_elongation_factor_Tu_386507..386737_POSITIVE 294 138 96 123 55 aact:AA01146|5end_conserved_hypothetical_protein_784433..784663_POSITIVE 293 140 96 110 67 aact:AA00837|5end_cell_division_protein_W_576317..576547_POSITIVE 293 138 95 84 48 aact:AA00384|5end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_260108..260338_POSITIVE 291 140 97 87 41 aact:AA02359|5end_hypothetical_protein_1618100..1618330_POSITIVE 291 68 24 217 159 aact:AA02196|5end_oxaloacetate_decarboxylase_beta_chain_1496308..1496538_POSITIVE 290 138 113 99 72 aact:AA02832|5end_outer_membrane_integrity_protein_1990044..1990274_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 392 55 11 80 36 aact:AA01835|3end_conserved_hypothetical_protein_1235389..1235539_POSITIVE 340 110 78 40 7 aact:AA01421|3end_phosphoglycolate_phosphatase_955806..955956_POSITIVE 316 131 96 117 74 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE 316 131 96 49 6 aact:AA00696|3end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477106..477256_POSITIVE 315 134 94 142 99 aact:AA02742|3end_tRNA_nucleotidyltransferase_1922698..1922848_POSITIVE 313 131 97 43 2 aact:AA00231|3end_long-chain-fatty-acid--CoA_ligase_162399..162549_POSITIVE 298 131 97 48 12 aact:AA02973|3end_tyrosine-specific_transport_protein_2078998..2079148_POSITIVE 296 139 98 73 19 aact:AA00223|3end_catalase_(hydroperoxidase;_iron_heme_axial_ligand)_155808..155958_POSITIVE 294 138 96 70 2 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 293 140 96 66 23 aact:AA00835|3end_UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapep_tide)_576353..576503_POSITIVE 293 138 95 78 42 aact:AA00383|3end_chloride_channel_protein_260182..260332_POSITIVE 291 140 97 56 10 aact:AA02358|3end_homoserine_kinase_1618149..1618299_POSITIVE 290 138 113 61 34 aact:AA02830|3end_colicin_tolerance_protein_1990086..1990236_POSITIVE 289 65 23 72 19 aact:AA00847|3end_S-adenosyl-dependent_methyltransferase_586005..586155_POSITIVE 288 130 85 145 107 aact:AA02927|3end_hypothetical_protein_2048405..2048555_POSITIVE 288 130 85 87 49 aact:AA02926|3end_hypothetical_protein_2048347..2048497_POSITIVE 288 131 97 69 34 aact:AA00168|3end_possible_sigma_54_modulation_protein_120240..120390_POSITIVE 285 139 97 49 8 aact:AA00270|3end_malonyl_coA-acyl_carrier_protein_transacylase_190361..190511_POSITIVE 284 117 71 90 47 aact:AA02998|3end_conserved_hypothetical_protein_2094350..2094500_POSITIVE 284 139 101 74 37 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE