Origin IGS: taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaaacgccgttgaaaacgaccgcacttttccttcaggcgataaagtgcggtcattattttaggtgttttttaccatggaaaaaaggcttactcattacaagtaagccttcttatttaaaaccgagtta Mask Tandem Repeat Region ================================================ taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta Find is-nt database================================================ Query_seq: AA01601:AA01603|AA01601:AA01603:PTS system, glucose-specific IIA componen:oligopeptidase A:->->:1082907..1083037 131 taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01601:AA01603|AA01601:AA01603:PTS system, glucose-specific IIA componen:oligopeptidase A:->->:1082907..1083037 131 taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01601:AA01603|AA01601:AA01603:PTS system, glucose-specific IIA componen:oligopeptidase A:->->:1082907..1083037 131 taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: - Start: 3 End: 119 .. S P K L Y S P K S T I L L G K K W P L F C R F Y H G C K I A Q L F L A T T K M ............ taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta 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================================================ taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 76 HP_score: -7.8 Tail_Score: -4.08557 Start: 22 End: 44 Full_Region: ttaccatggaaaaaa ggcttact cattaca agtaagcc ttcttatttaaaacc .....................ggcttactcattacaagtaagcc....................................................................................... TransTerm Strand: + Conf: 89 HP_score: -9.5 Tail_Score: -4.0896 Start: 76 End: 112 Full_Region: AAACACCTAAAATAA TGACCGCACTTTATC GCCTGAA GGAAAAGTGCGGTCG TTTTCAACGGCGTTT ...........................................................................TGACCGCACTTTATCGCCTGAAGGAAAAGTGCGGTCG................... TransTerm Strand: + Conf: 83 HP_score: -10.8 Tail_Score: -3.04894 Start: 77 End: 111 Full_Region: AACACCTAAAATAAT GACCGCACTTTATC GCCTGAA GGAAAAGTGCGGTC GTTTTCAACGGCGTT ............................................................................GACCGCACTTTATCGCCTGAAGGAAAAGTGCGGTC.................... Find igs database================================================ Query_seq: AA01601:AA01603|AA01601:AA01603:PTS system, glucose-specific IIA componen:oligopeptidase A:->->:1082907..1083037 131 taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: aact_AA01601_AA01603|PTS system, glucose-specific IIA componen:oligopeptidase A|POSITIVE:POSITIVE|[1082907,1083037]|131 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 131 Query Start:1 Query End:131 Subject Strand: POSITIVE Subject Start: 1 Subject End: 131 taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta taactcggttttaaataagaaggcttacttgtaatgagtaagccttttttccatggtaaaaaacacctaaaataatgaccgcactttatcgcctgaaggaaaagtgcggtcgttttcaacggcgtttttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUCGGUUUUAAAUAAGAAGGCUUACUUGUAAUGAGUAAGCCUUUUUUCCAUGGUAAAAAACACCUAAAAUAAUGACCGCACUUUAUCGCCUGAAGGAAAAGUGCGGUCGUUUUCAACGGCGUUUUUUA ......((........((((((((((((((.....)))))))))))))).))....((((((((.((......((((((((((((((....((....)).))))))))))))))......)).)))))))) (-48.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAAACGCCGUUGAAAACGACCGCACUUUUCCUUCAGGCGAUAAAGUGCGGUCAUUAUUUUAGGUGUUUUUUACCAUGGAAAAAAGGCUUACUCAUUACAAGUAAGCCUUCUUAUUUAAAACCGAGUUA (((((((((((...((.((.(((((((((((.((....))....))))))))))).)).))...)))))))))))..........((((((((((.......))))))))))................... (-44.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 587 118 74 168 125 aact:AA01519|5end_conserved_hypothetical_protein_1021794..1022024_POSITIVE 513 120 74 161 116 aact:AA01014|5end_UTP-glucose-1-phosphate_uridylyltransferase_709469..709699_POSITIVE 511 128 81 171 122 aact:AA03003|5end_GTP-binding_membrane_protein_2096544..2096774_POSITIVE 511 128 81 50 1 aact:AA03002|5end_hypothetical_protein_2096423..2096653_POSITIVE 505 119 78 145 103 aact:AA00047|5end_formate_dependent_nitrite_reductase,_cytochrome_c552_36753..36983_POSITIVE 485 116 74 171 124 aact:AA02410|5end_cell_division_protein_1655429..1655659_POSITIVE 473 116 74 158 120 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 454 110 63 157 97 aact:AA00515|5end_hypothetical_protein_355730..355960_POSITIVE 451 109 61 162 110 aact:AA00419|5end_conserved_hypothetical_protein_(possible_phosphatidylethanolamine-binding_protein)_284337..284567_POSITIVE 450 129 81 165 116 aact:AA02762|5end_ribonuclease_H_1933164..1933394_POSITIVE 445 116 74 157 116 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 443 110 61 150 110 aact:AA01027|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_F_717676..717906_POSITIVE 438 110 61 148 99 aact:AA01692|5end_hexulose-6-phosphate_synthase_1149178..1149408_POSITIVE 428 110 61 147 96 aact:AA00792|5end_conserved_hypothetical_protein_543142..543372_POSITIVE 427 116 74 152 109 aact:AA01704|5end_tyrosine-specific_transport_protein_1156170..1156400_POSITIVE 423 130 100 173 143 aact:AA02509|5end_chorismate_synthase_1740952..1741182_POSITIVE 423 112 74 148 109 aact:AA00613|5end_lipid-A-disaccharide_synthase_418713..418943_POSITIVE 421 120 71 156 108 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 420 116 74 164 111 aact:AA02716|5end_peptidase_T_1899789..1900019_POSITIVE 420 128 84 184 138 aact:AA01991|5end_conserved_hypothetical_protein_(possible_nitroreductase)_1352372..1352602_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 587 118 74 85 42 aact:AA01517|3end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1021791..1021941_POSITIVE 513 120 74 82 37 aact:AA01013|3end_phosphomannomutase_709470..709620_POSITIVE 505 119 78 68 26 aact:AA00046|3end_formate_dependent_nitrite_reductase,_cytochrome-c_type_protein_36756..36906_POSITIVE 485 116 74 66 19 aact:AA02409|3end_DNA_ligase_1655404..1655554_POSITIVE 473 116 74 61 23 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 469 116 74 47 5 aact:AA02254|3end_2-oxoglutarate/malate_translocator_1536380..1536530_POSITIVE 459 116 74 72 35 aact:AA00223|3end_catalase_(hydroperoxidase;_iron_heme_axial_ligand)_155808..155958_POSITIVE 455 88 42 90 44 aact:AA00574|3end_regulatory_protein_392381..392531_POSITIVE 451 109 61 53 1 aact:AA00417|3end_outer_membrane_lipoprotein_precursor_(probable_D-methionine-binding_lipoprotein)_284308..284458_POSITIVE 450 129 81 71 22 aact:AA02758|3end_3-phosphoshikimate_1-carboxyvinyltransferase_1933150..1933300_POSITIVE 445 116 74 76 35 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 428 110 61 59 8 aact:AA00790|3end_recombination_DNA_repair_protein_543134..543284_POSITIVE 427 116 74 63 20 aact:AA01703|3end_L-ribulose-phosphate_4-epimerase_1156161..1156311_POSITIVE 423 130 100 148 118 aact:AA02507|3end_penicillin-insensitive_murein_endopeptidase_A_1741007..1741157_POSITIVE 423 112 74 60 21 aact:AA00612|3end_acyl-(acyl-carrier-protein)-UDP-N-acetylglucosami_ne_418705..418855_POSITIVE 421 120 71 72 24 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 420 116 74 82 29 aact:AA02715|3end_paraquat-inducible_protein_pqiB_homolog_1899787..1899937_POSITIVE 417 116 71 106 62 aact:AA02135|3end_hypothetical_protein_1459067..1459217_POSITIVE 417 116 71 122 78 aact:AA02135.1|3end_hypothetical_protein_1459083..1459233_POSITIVE 413 129 91 72 34 aact:AA01557|3end_recombinase_A_1045965..1046115_POSITIVE