Origin IGS: taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagtagggcggtaggtaaaagaatggtgaggtaactcgccatttttgtggtgaaatggtgttaatgttaataaagtgcggtcaaaatccacagtaaattttgaccgcactttttcttttataagctttaagggaaccttaagttgaggctagtcctta Mask Tandem Repeat Region ================================================ taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta Find is-nt database================================================ Query_seq: AA02751:AA02754|AA02751:AA02754:L-lactate permease:conserved hypothetical protein:->->:1928929..1929088 160 taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02751:AA02754|AA02751:AA02754:L-lactate permease:conserved hypothetical protein:->->:1928929..1929088 160 taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02751:AA02754|AA02751:AA02754:L-lactate permease:conserved hypothetical protein:->->:1928929..1929088 160 taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 38 End: 160 ..................................... M K E K V R S K F T V D F D R T L L T L T P F H H K N G E L P H H S F T Y R P T L taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta 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================================================ taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -17.4 Tail_Score: -4.20918 Start: 50 End: 84 Full_Region: CTTATAAAAGAAAAA GTGCGGTCAAAATTTA CTG TGGATTTTGACCGCAC TTTATTAACATTAAC .................................................GTGCGGTCAAAATTTACTGTGGATTTTGACCGCAC............................................................................ TransTerm Strand: - Conf: 100 HP_score: -13.1 Tail_Score: -5.54907 Start: 50 End: 84 Full_Region: gttaatgttaataaa gtgcggtcaaaat ccacagtaa attttgaccgcac tttttcttttataag .................................................gtgcggtcaaaatccacagtaaattttgaccgcac............................................................................ Find igs database================================================ Query_seq: AA02751:AA02754|AA02751:AA02754:L-lactate permease:conserved hypothetical protein:->->:1928929..1929088 160 taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: aact_AA02751_AA02754|L-lactate permease:conserved hypothetical protein|POSITIVE:POSITIVE|[1928929,1929088]|160 HSP 1 e-value: 6.0E-86 bit: 317.0 Len: 160 Query Start:1 Query End:160 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta taaggactagcctcaacttaaggttcccttaaagcttataaaagaaaaagtgcggtcaaaatttactgtggattttgaccgcactttattaacattaacaccatttcaccacaaaaatggcgagttacctcaccattcttttacctaccgccctacttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGGACUAGCCUCAACUUAAGGUUCCCUUAAAGCUUAUAAAAGAAAAAGUGCGGUCAAAAUUUACUGUGGAUUUUGACCGCACUUUAUUAACAUUAACACCAUUUCACCACAAAAAUGGCGAGUUACCUCACCAUUCUUUUACCUACCGCCCUACUUUA (((((...(((((.......))))).))))).......(((((((.((((((((((((((((((.....)))))))))))))))))).............................((((.(((....))).)))))))))))................. (-43.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGUAGGGCGGUAGGUAAAAGAAUGGUGAGGUAACUCGCCAUUUUUGUGGUGAAAUGGUGUUAAUGUUAAUAAAGUGCGGUCAAAAUCCACAGUAAAUUUUGACCGCACUUUUUCUUUUAUAAGCUUUAAGGGAACCUUAAGUUGAGGCUAGUCCUUA ......(((((.........((((((((((((....)))))))))))).........((((.(((((......((((((((((((((((.........))))))))))))))))((((((((.......))))))))......))))).))))))))).. (-53.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 554 87 44 149 106 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 521 89 41 152 105 aact:AA02084|5end_conserved_hypothetical_protein_1417843..1418073_POSITIVE 503 87 42 119 75 aact:AA02362|5end_conserved_hypothetical_protein_1619905..1620135_POSITIVE 501 87 44 141 98 aact:AA00126|5end_conserved_hypothetical_protein_91053..91283_POSITIVE 498 88 42 157 109 aact:AA00473|5end_tryptophanyl-tRNA_synthetase_328996..329226_POSITIVE 487 87 42 152 107 aact:AA00124|5end_conserved_hypothetical_protein_(possible_cytoplasmic_protein)_90270..90500_POSITIVE 487 87 42 103 58 aact:AA00123|5end_hypothetical_protein_90221..90451_POSITIVE 487 87 42 94 49 aact:AA00122|5end_hypothetical_protein_90212..90442_POSITIVE 482 88 41 202 153 aact:AA01830|5end_2,3-cyclic-nucleotide_2-phosphodiesterase_1231556..1231786_POSITIVE 478 87 41 142 96 aact:AA02288|5end_conserved_hypothetical_protein_1558590..1558820_POSITIVE 473 88 42 49 1 aact:AA01829|5end_hypothetical_protein_1231403..1231633_POSITIVE 462 87 47 158 118 aact:AA00759|5end_3-oxoacyl-[acyl-carrier-protein]_synthase_I_520603..520833_POSITIVE 453 87 48 40 1 aact:AA00758|5end_hypothetical_protein_520485..520715_POSITIVE 440 87 42 188 140 aact:AA02893|5end_oligopeptide_transport_system_permease_protein,_N-terminal_2027201..2027431_POSITIVE 434 87 43 162 117 aact:AA02340|5end_hypothetical_protein_1598887..1599117_POSITIVE 428 87 41 188 142 aact:AA01965|5end_poly(A)_polymerase_1329478..1329708_POSITIVE 428 87 45 153 110 aact:AA01407|5end_outer_membrane_antigenic_lipoprotein_b_precursor_949005..949235_POSITIVE 426 88 44 213 169 aact:AA01625|5end_riboflavin_synthase,_beta_chain_1099964..1100194_POSITIVE 408 87 46 165 123 aact:AA00899|5end_possible_quaternary_ammonium_compound_resistance_protein_623214..623444_POSITIVE 402 87 47 156 115 aact:AA02993|5end_6-phosphofructokinase_2091766..2091996_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 599 87 41 78 31 aact:AA02781|3end_protein-export_membrane_protein_1945981..1946131_POSITIVE 567 87 47 44 4 aact:AA02751|3end_L-lactate_permease_1928868..1929018_POSITIVE 521 89 41 77 30 aact:AA02082|3end_glutaminyl-tRNA_synthetase_1417848..1417998_POSITIVE 503 87 42 81 37 aact:AA02360|3end_threonine_synthase_1619947..1620097_POSITIVE 498 88 42 64 16 aact:AA00471|3end_3,4-dihydroxy-2-butanone_4-phosphate_synthase;_GTP_cyclohydrase_II_328983..329133_POSITIVE 487 87 42 83 38 aact:AA00120|3end_ATP-dependent_Clp_protease_ATP-binding_subunit_90281..90431_POSITIVE 474 87 46 86 45 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 471 87 46 57 16 aact:AA00010|3end_transposase_orfB_fragment_6297..6447_POSITIVE 441 87 46 76 37 aact:AA01922|3end_translation_initiation_factor_IF2_1297279..1297429_POSITIVE 440 87 42 84 36 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 434 87 43 80 35 aact:AA02338|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1598885..1599035_POSITIVE 431 99 52 92 39 aact:AA01351|3end_probable_sulfatase_916393..916543_POSITIVE 428 87 41 68 22 aact:AA01963|3end_dnaK_suppressor_protein_1329438..1329588_POSITIVE 426 88 44 70 26 aact:AA01624|3end_glucose-6-phosphate_isomerase_1099901..1100051_POSITIVE 408 87 46 77 35 aact:AA00896|3end_prolyl-tRNA_synthetase_(proline-tRNA_ligase)_623206..623356_POSITIVE 402 87 47 50 9 aact:AA02992|3end_RNA_methyltransferase_2091740..2091890_POSITIVE 400 87 47 82 42 aact:AA02474|3end_transmembrane_protein_1711548..1711698_POSITIVE 397 87 44 75 30 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 396 83 41 145 101 aact:AA00623|3end_hypothetical_protein_430632..430782_POSITIVE 388 88 41 61 13 aact:AA02721|3end_spermidine/putrescine_ABC_transporter,_periplasmic-binding_protein_1905334..1905484_POSITIVE