Origin IGS: tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttagtttcctctgaatgggtgataacgctattgctagctcccctgttgttaaaaaggctgcattctaatcaaatacaaccggcttttcaagtaaaacgccgaaaaaatcgaccgcactttcccaaaagtgcggtagaaaattcatgtgtttttacta Mask Tandem Repeat Region ================================================ tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Find is-nt database================================================ Query_seq: AA00345:AA00347|AA00345:AA00347:transcription antitermination protein:50S ribosomal protein L11:->->:232119..232276 158 tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00345:AA00347|AA00345:AA00347:transcription antitermination protein:50S ribosomal protein L11:->->:232119..232276 158 tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00345:AA00347|AA00345:AA00347:transcription antitermination protein:50S ribosomal protein L11:->->:232119..232276 158 tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 17 End: 106 ................ M F Y R T F G K V R S I F S A F Y L K S R L Y L I R M Q P F .................................................... Protein_Len: 46 Strand: - Start: 2 End: 139 . T F V C S N E V A S K P F H P R N K R R K V Q F A P Q I Q N S H L R K L L L P A L L L T I M ................... tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 84 Start: 67 End: 96 ..................................................................CTTGAAAAGCCGGTTGTATTTGATTAGAAT.............................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00345:AA00347|AA00345:AA00347:transcription antitermination protein:50S ribosomal protein L11:->->:232119..232276 158 tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Intra-Species Hit: Count: 1 Min: 1 Max: 158 Len: 158 Subject: aact_AA00345_AA00347|transcription antitermination protein:50S ribosomal protein L11|POSITIVE:POSITIVE|[232119,232276]|158 HSP 1 e-value: 9.0E-85 bit: 313.0 Len: 158 Query Start:1 Query End:158 Subject Strand: POSITIVE Subject Start: 1 Subject End: 158 tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa tagtaaaaacacatgaattttctaccgcacttttgggaaagtgcggtcgattttttcggcgttttacttgaaaagccggttgtatttgattagaatgcagcctttttaacaacaggggagctagcaatagcgttatcacccattcagaggaaactaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUAAAAACACAUGAAUUUUCUACCGCACUUUUGGGAAAGUGCGGUCGAUUUUUUCGGCGUUUUACUUGAAAAGCCGGUUGUAUUUGAUUAGAAUGCAGCCUUUUUAACAACAGGGGAGCUAGCAAUAGCGUUAUCACCCAUUCAGAGGAAACUAAA .(((((((.....((((...((.((((((((((....)))))))))).))....))))...)))))))((((.....((((((((((.....))))))))))............(((((((((....))))....)).))).)))).((....))... (-48.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAGUUUCCUCUGAAUGGGUGAUAACGCUAUUGCUAGCUCCCCUGUUGUUAAAAAGGCUGCAUUCUAAUCAAAUACAACCGGCUUUUCAAGUAAAACGCCGAAAAAAUCGACCGCACUUUCCCAAAAGUGCGGUAGAAAAUUCAUGUGUUUUUACUA (((((......)))))..(((((.(((((...(((.((((................))))))).................((((.(((......))).))))......((.((((((((((....)))))))))).))........))))).))))). (-37.29) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 515 69 25 213 165 aact:AA01284|5end_heat_shock_protein_(hsp60)_868574..868804_POSITIVE 474 63 24 172 129 aact:AA01519|5end_conserved_hypothetical_protein_1021794..1022024_POSITIVE 463 47 5 56 11 aact:AA01041|5end_hypothetical_protein_724853..725083_POSITIVE 461 69 24 177 120 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 460 65 24 168 127 aact:AA01027|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_F_717676..717906_POSITIVE 448 65 21 183 144 aact:AA02915|5end_thioredoxin_m_2040652..2040882_POSITIVE 448 49 1 196 137 aact:AA02486|5end_topoisomerase_IV,_subunit_B_1724337..1724567_POSITIVE 445 80 35 66 15 aact:AA02484|5end_ABC_transporter,_ATP-binding_protein_1721077..1721307_POSITIVE 439 79 35 199 137 aact:AA03003|5end_GTP-binding_membrane_protein_2096544..2096774_POSITIVE 439 79 35 78 16 aact:AA03002|5end_hypothetical_protein_2096423..2096653_POSITIVE 439 64 22 128 88 aact:AA02076|5end_conserved_hypothetical_protein_1409926..1410156_POSITIVE 435 60 14 195 149 aact:AA02867|5end_ribonuclease_T_2013118..2013348_POSITIVE 435 65 22 159 112 aact:AA00686|5end_hypothetical_protein_468852..469082_POSITIVE 427 89 41 90 39 aact:AA00582|5end_conserved_hypothetical_protein_397904..398134_POSITIVE 426 65 21 182 136 aact:AA00501|5end_hypothetical_protein_347293..347523_POSITIVE 425 62 21 167 128 aact:AA03010|5end_thiophene_and_furan_oxidation_protein_2101102..2101332_POSITIVE 425 62 21 66 27 aact:AA03009|5end_hypothetical_protein_2101001..2101231_POSITIVE 418 87 41 173 112 aact:AA00819|5end_D-alanyl-D-alanine_carboxypeptidase_562644..562874_POSITIVE 415 65 24 164 113 aact:AA02762|5end_ribonuclease_H_1933164..1933394_POSITIVE 415 77 32 67 16 aact:AA01877|5end_conserved_hypothetical_protein_1264115..1264345_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 515 69 25 89 41 aact:AA01280|3end_groES_chaperonin_868530..868680_POSITIVE 474 63 24 89 46 aact:AA01517|3end_peptidyl-prolyl_cis-trans_isomerase;_macrophage_infectivity_protein_1021791..1021941_POSITIVE 463 47 5 69 24 aact:AA01040|3end_possible_lipoprotein_724946..725096_POSITIVE 461 69 24 96 39 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 453 76 40 38 1 aact:AA01945|3end_selenophosphate_synthase_1316022..1316172_POSITIVE 442 67 24 119 67 aact:AA02135|3end_hypothetical_protein_1459067..1459217_POSITIVE 442 67 24 135 83 aact:AA02135.1|3end_hypothetical_protein_1459083..1459233_POSITIVE 439 64 22 101 61 aact:AA02075|3end_conserved_hypothetical_protein_1409979..1410129_POSITIVE 435 60 14 105 59 aact:AA02866|3end_lactoylglutathione_lyase_2013108..2013258_POSITIVE 435 65 22 88 41 aact:AA00684|3end_adenylosuccinate_synthase_468861..469011_POSITIVE 433 65 24 80 30 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 427 89 41 72 21 aact:AA00581|3end_thiosulfate_sulfurtransferase_(rhodanese)_397966..398116_POSITIVE 426 65 21 88 42 aact:AA00499|3end_pyridoxamine-5'-phosphate_oxidase_347279..347429_POSITIVE 425 62 21 57 18 aact:AA03008|3end_GTP-binding_protein_era_homolog_(GTPase)_2101072..2101222_POSITIVE 425 79 35 62 5 aact:AA03001|3end_probable_glycyl_radical_protein/pyruvate-formate_lyase_2096487..2096637_POSITIVE 415 65 24 70 19 aact:AA02758|3end_3-phosphoshikimate_1-carboxyvinyltransferase_1933150..1933300_POSITIVE 410 70 24 132 77 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 406 65 22 85 35 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 405 65 21 65 18 aact:AA02834|3end_colicin_transport_protein_1991768..1991918_POSITIVE 404 65 27 81 40 aact:AA00465|3end_hypothetical_protein_324600..324750_POSITIVE