Origin IGS: taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagaaaaataaaagagaaatcagcgcattatgcgctgattttttatccggaaagcagaaaagtgcggtcataaaaaacaatgttttttatgaccgcactttttgttgtta Mask Tandem Repeat Region ================================================ taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta Find is-nt database================================================ Query_seq: AA02899:AA02902|AA02899:AA02902:oligopeptide ABC transporter, ATP-binding protein:aerobic respiration control protein:->->:2031199..2031310 112 taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02899:AA02902|AA02899:AA02902:oligopeptide ABC transporter, ATP-binding protein:aerobic respiration control protein:->->:2031199..2031310 112 taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02899:AA02902|AA02899:AA02902:oligopeptide ABC transporter, ATP-binding protein:aerobic respiration control protein:->->:2031199..2031310 112 taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 3 End: 92 .. C C F T R D Y F V N N K I V A S K Q K G S L F D A C L A S M .................... taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta 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================================================ taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -13.2 Tail_Score: -4.61807 Start: 73 End: 91 Full_Region: TTTCCGGATAAAAAA TCAGCGCA TAA TGCGCTGA TTTCTCTTTTATTTT ........................................................................TCAGCGCATAATGCGCTGA..................... Find igs database================================================ Query_seq: AA02899:AA02902|AA02899:AA02902:oligopeptide ABC transporter, ATP-binding protein:aerobic respiration control protein:->->:2031199..2031310 112 taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta Intra-Species Hit: Count: 1 Min: 1 Max: 112 Len: 112 Subject: aact_AA02899_AA02902|oligopeptide ABC transporter, ATP-binding protein:aerobic respiration control protein|POSITIVE:POSITIVE|[2031199,2031310]|112 HSP 1 e-value: 2.0E-57 bit: 222.0 Len: 112 Query Start:1 Query End:112 Subject Strand: POSITIVE Subject Start: 1 Subject End: 112 taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta taacaacaaaaagtgcggtcataaaaaacattgttttttatgaccgcacttttctgctttccggataaaaaatcagcgcataatgcgctgatttctcttttatttttcttta HSP 2 e-value: 4.0E-15 bit: 81.8 Len: 45 Query Start:9 Query End:53 Subject Strand: NEGATIVE Subject Start: 9 Subject End: 53 ........aaaagtgcggtcataaaaaacattgttttttatgaccgcactttt........................................................... ........aaaagtgcggtcataaaaaacaatgttttttatgaccgcactttt........................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAACAAAAAGUGCGGUCAUAAAAAACAUUGUUUUUUAUGACCGCACUUUUCUGCUUUCCGGAUAAAAAAUCAGCGCAUAAUGCGCUGAUUUCUCUUUUAUUUUUCUUUA ......(((((((((((((((((((((((...))))))))))))))))))))).))......(((((((((((((((((.....)))))))))....))))))))....... (-44.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAAAAAUAAAAGAGAAAUCAGCGCAUUAUGCGCUGAUUUUUUAUCCGGAAAGCAGAAAAGUGCGGUCAUAAAAAACAAUGUUUUUUAUGACCGCACUUUUUGUUGUUA ...............(((((((((((((.....)))))))))))))........((((((((((((((((((((((((((...))))))))))))))))))))))..)))). (-50.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 589 54 11 179 136 aact:AA00654|5end_conserved_hypothetical_protein_447772..448002_POSITIVE 589 54 11 89 46 aact:AA00653|5end_hypothetical_protein_447682..447912_POSITIVE 497 50 2 169 118 aact:AA01117|5end_signal_recognition_particle_protein_54_(GTP-binding_export_factor)_767919..768149_POSITIVE 475 57 11 156 110 aact:AA02010|5end_peptide_methionine_sulfoxide_reductase;_cytochrome_C-TYPE_biogenesis_protein;_transcriptional_regulator_1367180..1367410_POSITIVE 472 59 11 85 34 aact:AA02002|5end_hypothetical_protein_1360196..1360426_POSITIVE 472 55 11 207 160 aact:AA01830|5end_2,3-cyclic-nucleotide_2-phosphodiesterase_1231556..1231786_POSITIVE 472 55 11 54 7 aact:AA01829|5end_hypothetical_protein_1231403..1231633_POSITIVE 469 70 23 151 103 aact:AA01554|5end_conserved_hypothetical_protein;_hypothetical_membrane_protein_1042061..1042291_POSITIVE 466 58 11 230 176 aact:AA02778|5end_hypothetical_protein_1942585..1942815_POSITIVE 459 50 3 151 105 aact:AA01407|5end_outer_membrane_antigenic_lipoprotein_b_precursor_949005..949235_POSITIVE 456 50 7 149 103 aact:AA01648|5end_alpha-amylase_protein;_1,4-alpha-D-glucan_glucanohydrolase_1115170..1115400_POSITIVE 456 50 7 48 2 aact:AA01646|5end_hypothetical_protein_1115069..1115299_POSITIVE 444 59 13 145 104 aact:AA01530|5end_conserved_hypothetical_protein_1027308..1027538_POSITIVE 441 56 11 161 116 aact:AA02993|5end_6-phosphofructokinase_2091766..2091996_POSITIVE 438 55 11 158 115 aact:AA02113|5end_conserved_hypothetical_protein_1442183..1442413_POSITIVE 430 57 11 154 111 aact:AA02084|5end_conserved_hypothetical_protein_1417843..1418073_POSITIVE 417 58 11 166 114 aact:AA02700|5end_succinyl-CoA_synthase,_alpha_subunit_1883256..1883486_POSITIVE 416 53 11 170 125 aact:AA00721|5end_probable_beta-N-acetylhexosaminidase_(lacto-N-biosidase);_dispersin_B_494739..494969_POSITIVE 416 53 11 58 13 aact:AA00719|5end_hypothetical_protein_494627..494857_POSITIVE 415 59 11 194 149 aact:AA00218|5end_argininosuccinate_lyase_150758..150988_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 603 53 11 82 40 aact:AA02899|3end_oligopeptide_ABC_transporter,_ATP-binding_protein_2031138..2031288_POSITIVE 516 50 2 76 28 aact:AA00218|3end_argininosuccinate_lyase_152211..152361_POSITIVE 466 58 11 92 38 aact:AA02777|3end_tRNA-guanine_transglycosylase_1942527..1942677_POSITIVE 456 50 7 83 37 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 452 57 11 64 18 aact:AA00010|3end_transposase_orfB_fragment_6297..6447_POSITIVE 441 56 11 55 10 aact:AA02992|3end_RNA_methyltransferase_2091740..2091890_POSITIVE 438 55 11 79 36 aact:AA02112|3end_cell_division_protein_1442184..1442334_POSITIVE 430 57 11 79 36 aact:AA02082|3end_glutaminyl-tRNA_synthetase_1417848..1417998_POSITIVE 416 53 11 74 29 aact:AA00718|3end_ABC-related_ATP-binding_protein;_MRP_protein_494723..494873_POSITIVE 415 57 11 94 47 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 415 59 11 78 33 aact:AA00216|3end_conserved_hypothetical_protein_150722..150872_POSITIVE 413 50 1 74 18 aact:AA02886|3end_OBG-related_GTP-binding_protein_2024634..2024784_POSITIVE 405 53 11 110 68 aact:AA00909|3end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_B_627183..627333_POSITIVE 403 53 11 85 43 aact:AA02892|3end_oligopeptide_ABC_transporter,_periplasmic-binding_protein_2027177..2027327_POSITIVE 401 59 15 48 1 aact:AA02001|3end_conserved_hypothetical_protein_1360239..1360389_POSITIVE 393 53 11 87 42 aact:AA01966|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1331514..1331664_POSITIVE 389 46 6 97 59 aact:AA02167|3end_hypothetical_protein_1483474..1483624_POSITIVE 388 57 11 86 41 aact:AA00696|3end_iron(III)_ABC_transporter,_periplasmic_iron-compound-binding_protein_477106..477256_POSITIVE 387 59 11 95 45 aact:AA00384|3end_conserved_hypothetical_protein_(possible_nitrogen_fixation_protein)_261168..261318_POSITIVE 386 53 11 69 29 aact:AA01963|3end_dnaK_suppressor_protein_1329438..1329588_POSITIVE