Origin IGS: gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagccgattctattcaatagtaataataaaattcattaatccatttagatttaatacataagatttacaatgaaattatatcgtttgcaatttgtaaaagcagctttaatc Mask Tandem Repeat Region ================================================ gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta Find is-nt database================================================ Query_seq: PI1247:PI1248|PI1247:PI1248:conserved hypothetical protein:conserved hypothetical protein:->->:1173243..1173353 111 gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1247:PI1248|PI1247:PI1248:conserved hypothetical protein:conserved hypothetical protein:->->:1173243..1173353 111 gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1247:PI1248|PI1247:PI1248:conserved hypothetical protein:conserved hypothetical protein:->->:1173243..1173353 111 gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta Predict ORF larger than 30AA ================================================ gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta 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================================================ gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1247:PI1248|PI1247:PI1248:conserved hypothetical protein:conserved hypothetical protein:->->:1173243..1173353 111 gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta Intra-Species Hit: Count: 1 Min: 1 Max: 111 Len: 111 Subject: pint_PI1247_PI1248|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1173243,1173353]|111 HSP 1 e-value: 7.0E-57 bit: 220.0 Len: 111 Query Start:1 Query End:111 Subject Strand: POSITIVE Subject Start: 1 Subject End: 111 gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta gattaaagctgcttttacaaattgcaaacgatataatttcattgtaaatcttatgtattaaatctaaatggattaatgaattttattattactattgaatagaatcggcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUAAAGCUGCUUUUACAAAUUGCAAACGAUAUAAUUUCAUUGUAAAUCUUAUGUAUUAAAUCUAAAUGGAUUAAUGAAUUUUAUUAUUACUAUUGAAUAGAAUCGGCUA ......(((((.(((((....((((((..((.......)).))))))...................(((((..((((((......)))))))))))...))))).))))). (-13.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCCGAUUCUAUUCAAUAGUAAUAAUAAAAUUCAUUAAUCCAUUUAGAUUUAAUACAUAAGAUUUACAAUGAAAUUAUAUCGUUUGCAAUUUGUAAAAGCAGCUUUAAUC .(((.(((....((((...((((..............((((......)))).............))))..)))).....))).(((((.....)))))....)))...... ( -7.83) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 253 48 7 118 70 pint:PI1552|5end_transcriptional_regulator,_LuxR_family_1468521..1468751_POSITIVE 210 30 5 77 53 pint:PI1028|5end_glutamate_synthase,_small_subunit_943420..943650_POSITIVE 205 33 7 93 68 pint:PI1829|5end_hypothetical_protein_1769255..1769485_POSITIVE 203 109 86 101 76 pint:PI0693|5end_periplasmic_iron_binding_protein,_ABC_transporter_628387..628617_POSITIVE 202 45 7 65 32 pint:PI0815|5end_hypothetical_protein_754475..754705_POSITIVE 200 30 1 55 20 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 194 44 8 126 86 pint:PI0108|5end_L-lactate_permease_104892..105122_POSITIVE 193 41 2 176 139 pint:PI1356|5end_hypothetical_protein_1273162..1273392_POSITIVE 193 33 7 93 68 pint:PI1076|5end_hypothetical_protein_998893..999123_POSITIVE 191 32 7 118 93 pint:PI1475|5end_possible_short_chain_dehydrogenase_1397142..1397372_POSITIVE 191 40 1 82 49 pint:PI0968|5end_hypothetical_protein_895946..896176_POSITIVE 186 30 7 201 178 pint:PI1870|5end_hypothetical_protein_1815302..1815532_POSITIVE 186 30 7 30 7 pint:PI1869|5end_hypothetical_protein_1815131..1815361_POSITIVE 182 33 7 93 68 pint:PI2002|5end_hypothetical_protein_1960662..1960892_POSITIVE 181 48 7 95 54 pint:PI2128|5end_hypothetical_protein_2076512..2076742_POSITIVE 181 40 3 50 10 pint:PI0473|5end_30S_ribosomal_protein_S14_438634..438864_POSITIVE 180 45 8 37 3 pint:PI0614|5end_glucose-6-phosphate_isomerase_563170..563400_POSITIVE 180 46 7 65 26 pint:PI0448|5end_hypothetical_protein_421844..422074_POSITIVE 179 45 6 75 35 pint:PI0702|5end_conserved_hypothetical_protein;_possible_tetracenomycin_C_synthesis_protein_homolog_638640..638870_POSITIVE 178 44 8 167 135 pint:PI0937|5end_hypothetical_protein_869235..869465_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 253 48 7 97 49 pint:PI1551|3end_HesA/MoeB/ThiF_family_protein_1468580..1468730_POSITIVE 193 41 2 94 57 pint:PI1355|3end_possible_capsular_polysaccharide_biosynthesis_protein_1273160..1273310_POSITIVE 182 36 7 53 31 pint:PI0764|3end_permease_699145..699295_POSITIVE 181 40 3 41 1 pint:PI0472|3end_50S_ribosomal_protein_L5_438705..438855_POSITIVE 176 44 8 145 112 pint:PI0868|3end_exodeoxyribonuclease_VII,_large_subunit_805576..805726_POSITIVE 175 30 7 148 122 pint:PI0182|3end_hypothetical_protein_174277..174427_POSITIVE 173 28 7 147 128 pint:PI2011|3end_hypothetical_protein_1970730..1970880_POSITIVE 173 48 7 55 19 pint:PI1051|3end_hypothetical_protein_970228..970378_POSITIVE 173 28 7 147 128 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 173 28 7 147 128 pint:PI0200|3end_hypothetical_protein_191735..191885_POSITIVE 173 28 7 147 128 pint:PI0158|3end_hypothetical_protein_151298..151448_POSITIVE 172 45 6 60 17 pint:PI1038|3end_hypothetical_protein_958920..959070_POSITIVE 171 79 38 104 62 pint:PI0569|3end_phosphoglycerate_kinase_514624..514774_POSITIVE 170 48 5 151 106 pint:PI1252|3end_hypothetical_protein_1175440..1175590_POSITIVE 168 45 9 65 34 pint:PI1824|3end_ThiJ/PfpI_family_protein_1765005..1765155_POSITIVE 166 33 7 48 23 pint:PI0186|3end_hypothetical_protein_178003..178153_POSITIVE 166 33 7 76 51 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 162 50 7 71 20 pint:PI0163|3end_conserved_hypothetical_protein_158410..158560_POSITIVE 160 45 2 92 51 pint:PI0074|3end_Na+/phosphate_symporter_(sodium-dependent_inorganic_phosphate_(Pi)_transporter)_73639..73789_POSITIVE 156 44 8 59 26 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE