Origin IGS: tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taggtgcgcatcttgtgtgcgctttaatagctgatgctacctgtgctttccctgccctgcctcttgttgctttcagaaaaaaaaggtatatttgtacccgaataaagaagtatcgacgtttgtca Mask Tandem Repeat Region ================================================ tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta Find is-nt database================================================ Query_seq: PI1617:PI1619|PI1617:PI1619:hypothetical protein:two-component system response regulator:->->:1543225..1543349 125 tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1617:PI1619|PI1617:PI1619:hypothetical protein:two-component system response regulator:->->:1543225..1543349 125 tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1617:PI1619|PI1617:PI1619:hypothetical protein:two-component system response regulator:->->:1543225..1543349 125 tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 23 End: 124 ...................... M R V Q I Y L F F L K A T R G R A G K A Q V A S A I K A H T R C A P . Protein_Len: 37 Strand: - Start: 1 End: 111 S L R R Y K K I R T C I Y R K K R F A V L P L A P F A C T A D A I L A C M .............. tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta 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================================================ tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1617:PI1619|PI1617:PI1619:hypothetical protein:two-component system response regulator:->->:1543225..1543349 125 tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta Intra-Species Hit: Count: 1 Min: 1 Max: 125 Len: 125 Subject: pint_PI1617_PI1619|hypothetical protein:two-component system response regulator|POSITIVE:POSITIVE|[1543225,1543349]|125 HSP 1 e-value: 8.0E-51 bit: 200.0 Len: 125 Query Start:1 Query End:125 Subject Strand: POSITIVE Subject Start: 1 Subject End: 125 tgacaaacgtcgatacttctttattcgggtacaaatataccnnnnnnnnctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta tgacaaacgtcgatacttctttattcgggtacaaatataccttttttttctgaaagcaacaagaggcagggcagggaaagcacaggtagcatcagctattaaagcgcacacaagatgcgcaccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACAAACGUCGAUACUUCUUUAUUCGGGUACAAAUAUACCUUUUUUUUCUGAAAGCAACAAGAGGCAGGGCAGGGAAAGCACAGGUAGCAUCAGCUAUUAAAGCGCACACAAGAUGCGCACCUA .(((....)))...............(((((......))))).((((..(((...((........))....)))..))))....((((((....))))))...((((((....).)))))..... (-26.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUGCGCAUCUUGUGUGCGCUUUAAUAGCUGAUGCUACCUGUGCUUUCCCUGCCCUGCCUCUUGUUGCUUUCAGAAAAAAAAGGUAUAUUUGUACCCGAAUAAAGAAGUAUCGACGUUUGUCA .((((((((((...))))))))))...((((....))))...(((((((..(((....((........))...)))........(((((....)))))........))))))).(((....))). (-27.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 378 109 61 148 94 pint:PI0897|5end_ferredoxin,_4Fe-4S_828227..828457_POSITIVE 365 98 56 93 46 pint:PI1816|5end_acid_phosphatase_1754646..1754876_POSITIVE 362 110 63 223 177 pint:PI1675|5end_TonB-dependent_outer_membrane_receptor_1588107..1588337_POSITIVE 342 105 61 115 68 pint:PI1495|5end_conserved_hypothetical_protein_1414432..1414662_POSITIVE 332 106 61 68 24 pint:PI0268|5end_lysozyme-related_protein_259198..259428_POSITIVE 328 96 51 74 21 pint:PI0277|5end_hypothetical_protein_264980..265210_POSITIVE 326 97 56 174 131 pint:PI1947|5end_hypothetical_protein_1902534..1902764_POSITIVE 322 106 65 64 8 pint:PI0139|5end_pyridoxine_biosynthesis_protein_131835..132065_POSITIVE 319 92 55 76 40 pint:PI1032|5end_methylmalonyl-CoA_decarboxylase,_alpha_subunit_948463..948693_POSITIVE 317 87 41 227 181 pint:PI1721|5end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_1638086..1638316_POSITIVE 317 96 65 227 198 pint:PI1475|5end_possible_short_chain_dehydrogenase_1397142..1397372_POSITIVE 317 106 62 66 14 pint:PI1474|5end_conserved_hypothetical_protein_1395927..1396157_POSITIVE 316 90 49 229 185 pint:PI2136|5end_hypothetical_protein_2082605..2082835_POSITIVE 315 110 62 182 144 pint:PI0280|5end_conserved_hypothetical_protein_266001..266231_POSITIVE 310 109 65 152 99 pint:PI1150|5end_30S_ribosomal_protein_S6_1075683..1075913_POSITIVE 310 98 55 60 14 pint:PI1007|5end_conserved_hypothetical_protein_926956..927186_POSITIVE 309 110 62 64 14 pint:PI1774|5end_hypothetical_protein_1706184..1706414_POSITIVE 308 98 52 75 18 pint:PI1822|5end_ABC_transporter,_ATP-binding_/_permease_1761452..1761682_POSITIVE 303 90 48 174 130 pint:PI1162|5end_hemolysin-related_protein,_with_CBS_domain_1086443..1086673_POSITIVE 300 110 61 99 41 pint:PI1801|5end_30S_ribosomal_protein_S9_1733949..1734179_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 381 99 56 96 51 pint:PI1789|3end_hypothetical_protein_1719037..1719187_POSITIVE 378 109 61 117 63 pint:PI0896|3end_2-oxoglutarate_oxidoreductase,_alpha_subunit_828276..828426_POSITIVE 334 120 74 140 97 pint:PI1891|3end_hypothetical_protein_1835917..1836067_POSITIVE 332 106 61 81 37 pint:PI0267|3end_conjugative_transposon_protein,_TraQ_259291..259441_POSITIVE 326 97 56 147 104 pint:PI1945|3end_ribonuclease_HII_1902587..1902737_POSITIVE 319 92 55 40 4 pint:PI1031|3end_hypothetical_protein_948507..948657_POSITIVE 317 87 41 53 7 pint:PI1720|3end_conserved_hypothetical_protein_1637992..1638142_POSITIVE 317 96 55 35 1 pint:PI0276|3end_anti-restriction_protein_265021..265171_POSITIVE 310 109 65 146 93 pint:PI1149|3end_30S_ribosomal_protein_S18_1075757..1075907_POSITIVE 310 98 55 73 27 pint:PI1006|3end_conserved_hypothetical_protein_927049..927199_POSITIVE 310 96 55 151 103 pint:PI0918|3end_Fe-S_oxidoreductase,_family_2_849236..849386_POSITIVE 308 98 52 60 3 pint:PI1821|3end_possible_thioredoxin_family_protein_1761517..1761667_POSITIVE 306 87 53 102 59 pint:PI0286|3end_ISPg3-related_transposase_272065..272215_POSITIVE 298 110 61 90 34 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 296 103 62 42 7 pint:PI0170|3end_hypothetical_protein_163891..164041_POSITIVE 293 108 66 114 60 pint:PI0732|3end_conserved_hypothetical_protein_664367..664517_POSITIVE 292 91 51 148 113 pint:PI0740|3end_hypothetical_protein_672365..672515_POSITIVE 288 96 55 59 20 pint:PI0058|3end_conserved_hypothetical_protein_57044..57194_POSITIVE 285 120 71 122 67 pint:PI0684|3end_coproporphyrinogen_III_oxidase_620507..620657_POSITIVE 284 108 62 61 20 pint:PI1605|3end_conserved_hypothetical_protein_1535178..1535328_POSITIVE