Origin IGS: taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gaaattgtccccaacgtatttataaaatacggacctaaaagcaaaaataagaataaagtgcggtcaaaaaatccatcgaattttccgaccgcacttttgatta Mask Tandem Repeat Region ================================================ taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc Find is-nt database================================================ Query_seq: AA02892:AA02893|AA02892:AA02893:oligopeptide ABC transporter, periplasmic-binding protein:oligopeptide transport system permease protein, N-terminal:->->:2027238..2027340 103 taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02892:AA02893|AA02892:AA02893:oligopeptide ABC transporter, periplasmic-binding protein:oligopeptide transport system permease protein, N-terminal:->->:2027238..2027340 103 taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02892:AA02893|AA02892:AA02893:oligopeptide ABC transporter, periplasmic-binding protein:oligopeptide transport system permease protein, N-terminal:->->:2027238..2027340 103 taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 3 End: 101 .. M K S A V G K F D G F F D R T L F L F L L L G P Y F I N T L G T I .. Protein_Len: 33 Strand: - Start: 2 End: 100 . I L L A T P F N S P N K S R V K N K N K S K P G Y K I F V N P V M ... taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc 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================================================ taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02892:AA02893|AA02892:AA02893:oligopeptide ABC transporter, periplasmic-binding protein:oligopeptide transport system permease protein, N-terminal:->->:2027238..2027340 103 taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc Intra-Species Hit: Count: 1 Min: 1 Max: 103 Len: 103 Subject: aact_AA02892_AA02893|oligopeptide ABC transporter, periplasmic-binding protein:oligopeptide transport system permease protein, N-terminal|POSITIVE:POSITIVE|[2027238,2027340]|103 HSP 1 e-value: 4.0E-52 bit: 204.0 Len: 103 Query Start:1 Query End:103 Subject Strand: POSITIVE Subject Start: 1 Subject End: 103 taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc taatcaaaagtgcggtcggaaaattcgatggattttttgaccgcactttattcttatttttgcttttaggtccgtattttataaatacgttggggacaatttc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCAAAAGUGCGGUCGGAAAAUUCGAUGGAUUUUUUGACCGCACUUUAUUCUUAUUUUUGCUUUUAGGUCCGUAUUUUAUAAAUACGUUGGGGACAAUUUC ......(((((((((((((((((((.....)))))))))))))))))))....................((((.((..............)).))))...... (-32.64) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAUUGUCCCCAACGUAUUUAUAAAAUACGGACCUAAAAGCAAAAAUAAGAAUAAAGUGCGGUCAAAAAAUCCAUCGAAUUUUCCGACCGCACUUUUGAUUA ......((((.....(((((.....)))))))))....................(((((((((((.((((.((....)).))))..)))))))))))...... (-22.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 539 50 6 202 158 aact:AA01830|5end_2,3-cyclic-nucleotide_2-phosphodiesterase_1231556..1231786_POSITIVE 539 50 6 49 5 aact:AA01829|5end_hypothetical_protein_1231403..1231633_POSITIVE 514 49 5 165 122 aact:AA00899|5end_possible_quaternary_ammonium_compound_resistance_protein_623214..623444_POSITIVE 499 49 6 141 100 aact:AA00126|5end_conserved_hypothetical_protein_91053..91283_POSITIVE 497 49 7 156 115 aact:AA02993|5end_6-phosphofructokinase_2091766..2091996_POSITIVE 492 49 7 188 148 aact:AA01965|5end_poly(A)_polymerase_1329478..1329708_POSITIVE 471 49 7 158 118 aact:AA00759|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_I_520603..520833_POSITIVE 462 49 8 40 1 aact:AA00758|5end_hypothetical_protein_520485..520715_POSITIVE 459 49 6 142 100 aact:AA00497|5end_hexose_phosphate_transport_system_regulatory_protein;_regulator_of_uhpT_expression_345077..345307_POSITIVE 457 49 6 119 78 aact:AA02362|5end_conserved_hypothetical_protein_1619905..1620135_POSITIVE 449 45 2 158 115 aact:AA00625|5end_hypothetical_protein_430565..430795_POSITIVE 449 45 2 50 7 aact:AA00623|5end_hypothetical_protein_430457..430687_POSITIVE 442 50 6 186 143 aact:AA02722|5end_cytidine_deaminase_1905379..1905609_POSITIVE 438 49 6 149 108 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 426 50 6 159 112 aact:AA02700|5end_succinyl-CoA_synthase,_alpha_subunit_1883256..1883486_POSITIVE 426 49 7 141 101 aact:AA00266|5end_conserved_hypothetical_protein_(probable_metabolite_transport_protein)_186634..186864_POSITIVE 425 49 6 81 40 aact:AA02378|5end_hypothetical_protein_1627753..1627983_POSITIVE 419 49 5 140 97 aact:AA03010|5end_thiophene_and_furan_oxidation_protein_2101102..2101332_POSITIVE 419 49 6 153 111 aact:AA01407|5end_outer_membrane_antigenic_lipoprotein_b_precursor_949005..949235_POSITIVE 417 49 7 154 114 aact:AA02113|5end_conserved_hypothetical_protein_1442183..1442413_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 547 49 7 84 42 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 522 50 5 79 34 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 514 49 5 77 34 aact:AA00896|3end_prolyl-tRNA_synthetase_(proline-tRNA_ligase)_623206..623356_POSITIVE 498 49 2 86 40 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 497 49 7 50 9 aact:AA02992|3end_RNA_methyltransferase_2091740..2091890_POSITIVE 492 49 7 68 28 aact:AA01963|3end_dnaK_suppressor_protein_1329438..1329588_POSITIVE 463 49 6 57 16 aact:AA00010|3end_transposase_orfB_fragment_6297..6447_POSITIVE 460 49 6 78 37 aact:AA02781|3end_protein-export_membrane_protein_1945981..1946131_POSITIVE 459 49 6 124 82 aact:AA00495|3end_hypothetical_protein_345139..345289_POSITIVE 457 49 6 81 40 aact:AA02360|3end_threonine_synthase_1619947..1620097_POSITIVE 449 45 2 145 102 aact:AA00623|3end_hypothetical_protein_430632..430782_POSITIVE 442 50 6 61 18 aact:AA02721|3end_spermidine/putrescine_ABC_transporter,_periplasmic-binding_protein_1905334..1905484_POSITIVE 417 49 7 75 35 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 412 49 6 81 38 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 407 50 6 76 34 aact:AA02082|3end_glutaminyl-tRNA_synthetase_1417848..1417998_POSITIVE 406 49 7 44 4 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 406 49 5 65 23 aact:AA01796|3end_branched-chain_amino_acid_aminotransferase_1212168..1212318_POSITIVE 396 48 6 98 58 aact:AA02160|3end_conserved_hypothetical_protein_1478929..1479079_POSITIVE 396 49 5 81 39 aact:AA00191|3end_conserved_hypothetical_protein_(possible_acetyltransferase,_GNAT_family)_135545..135695_POSITIVE 395 49 6 149 107 aact:AA00697|3end_hypothetical_protein_477174..477324_POSITIVE