Origin IGS: accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgacatatgcgtccctcgataaataattatcgggggattttctttttacatacaataagaaagaataaagtgcgttactcttaaaagcaaacaaatatggaagcatcaatgtacgaaatactaacaaatagtcctttcttcaatggattaactgctaaggaaattaaagagctattacaaacagtaaactataaaatagtggaatatcctgccaaggagatttacacacttgctggt Mask Tandem Repeat Region ================================================ accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca Find is-nt database================================================ Query_seq: PI1013:PI1014|PI1013:PI1014:probable transcriptional regulator:prismane protein, hybrid-cluster protein:->->:934429..934665 237 accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1013:PI1014|PI1013:PI1014:probable transcriptional regulator:prismane protein, hybrid-cluster protein:->->:934429..934665 237 accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1013:PI1014|PI1013:PI1014:probable transcriptional regulator:prismane protein, hybrid-cluster protein:->->:934429..934665 237 accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 111 End: 236 .............................................................................................................. M L V F R T L M L P Y L F A F K S N A L Y S F L L Y V K R K S P D N Y L S R D A Y V . Protein_Len: 47 Strand: - Start: 1 End: 141 G A L T Y I E K A P Y E V I K Y N V T Q L L E K I E K A T L G N F F P S N T L I E Y M S A E M ................................................................................................ accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca 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================================================ accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1013:PI1014|PI1013:PI1014:probable transcriptional regulator:prismane protein, hybrid-cluster protein:->->:934429..934665 237 accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca Intra-Species Hit: Count: 1 Min: 1 Max: 237 Len: 237 Subject: pint_PI1013_PI1014|probable transcriptional regulator:prismane protein, hybrid-cluster protein|POSITIVE:POSITIVE|[934429,934665]|237 HSP 1 e-value: 1.0E-131 bit: 470.0 Len: 237 Query Start:1 Query End:237 Subject Strand: POSITIVE Subject Start: 1 Subject End: 237 accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca accagcaagtgtgtaaatctccttggcaggatattccactattttatagtttactgtttgtaatagctctttaatttccttagcagttaatccattgaagaaaggactatttgttagtatttcgtacattgatgcttccatatttgtttgcttttaagagtaacgcactttattctttcttattgtatgtaaaaagaaaatcccccgataattatttatcgagggacgcatatgtca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCAGCAAGUGUGUAAAUCUCCUUGGCAGGAUAUUCCACUAUUUUAUAGUUUACUGUUUGUAAUAGCUCUUUAAUUUCCUUAGCAGUUAAUCCAUUGAAGAAAGGACUAUUUGUUAGUAUUUCGUACAUUGAUGCUUCCAUAUUUGUUUGCUUUUAAGAGUAACGCACUUUAUUCUUUCUUAUUGUAUGUAAAAAGAAAAUCCCCCGAUAAUUAUUUAUCGAGGGACGCAUAUGUCA ....((.(((((((...(((....((((((....(((.(((((..((((....))))....))))).((((((((..................))))))))..))).....((..((((((.........))))))..))......))))))....)))...)))))))...((((((.((((.....))))))))))..((((.((((((....)))))).)))).))........ (-48.77) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACAUAUGCGUCCCUCGAUAAAUAAUUAUCGGGGGAUUUUCUUUUUACAUACAAUAAGAAAGAAUAAAGUGCGUUACUCUUAAAAGCAAACAAAUAUGGAAGCAUCAAUGUACGAAAUACUAACAAAUAGUCCUUUCUUCAAUGGAUUAACUGCUAAGGAAAUUAAAGAGCUAUUACAAACAGUAAACUAUAAAAUAGUGGAAUAUCCUGCCAAGGAGAUUUACACACUUGCUGGU .((...((((.(((((((((((....)))))))))))..((((((((..........))))))))......))))...)).....(((((.....(((((..(((....)))......((((....(((((..((((.(((..(((........)))..)))...))))..)))))......))))..))))).....(((((((.((((....)))).)))).)))..)))))... (-49.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 304 160 111 83 25 pint:PI0999|5end_hypothetical_protein_922376..922606_POSITIVE 266 170 121 168 122 pint:PI0380|5end_conserved_hypothetical_protein_350162..350392_POSITIVE 252 165 129 47 9 pint:PI1224|5end_sensor_histidine_kinase_and_response_regulator_1144574..1144804_POSITIVE 246 33 2 58 26 pint:PI1812|5end_possible_alpha-amylase_1750759..1750989_POSITIVE 242 31 1 164 131 pint:PI1719|5end_conserved_hypothetical_protein_1635858..1636088_POSITIVE 242 170 123 148 84 pint:PI0388|5end_integrase_354927..355157_POSITIVE 240 152 111 183 144 pint:PI1693|5end_possible_RmuC_domain_protein_1608183..1608413_POSITIVE 239 147 107 110 70 pint:PI0191|5end_O-methyltransferase_181070..181300_POSITIVE 237 169 122 197 154 pint:PI0869|5end_possible_exodeoxyribonuclease_VII_(small_subunit)_805518..805748_POSITIVE 237 49 3 132 79 pint:PI0168|5end_methionyl-tRNA_synthetase_(methionine--tRNA_ligase)_161181..161411_POSITIVE 236 67 21 229 182 pint:PI2064|5end_conserved_hypothetical_protein;_possible_type_I_restriction-modification_system,_S_subunit_2025076..2025306_POSITIVE 236 166 121 199 147 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 235 70 24 68 13 pint:PI1326|5end_Na+-driven_multidrug_efflux_pump_1244182..1244412_POSITIVE 235 38 4 179 140 pint:PI0235|5end_hypothetical_protein_234938..235168_POSITIVE 234 138 95 78 39 pint:PI1155|5end_hypothetical_protein_1080084..1080314_POSITIVE 234 138 92 175 134 pint:PI0432|5end_hypothetical_protein_404781..405011_POSITIVE 234 138 92 118 77 pint:PI0433|5end_hypothetical_protein_404724..404954_POSITIVE 233 180 131 122 80 pint:PI1090|5end_tRNA_uracil_5-methyltransferase_1014366..1014596_POSITIVE 226 125 83 227 173 pint:PI0925|5end_ribosomal_protein_L11_methyltransferase_855806..856036_POSITIVE 224 30 1 71 40 pint:PI0816|5end_glycogen_debranching_enzyme_754930..755160_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 245 155 119 133 95 pint:PI0734|3end_ABC_transporter,_ATP-binding_/_permease_668760..668910_POSITIVE 242 31 1 147 114 pint:PI1718|3end_DNA_mismatch_repair_protein_1635921..1636071_POSITIVE 241 42 2 129 94 pint:PI1940|3end_conserved_hypothetical_protein;_possible_outer_membrane_protein_1897267..1897417_POSITIVE 239 147 107 86 46 pint:PI0190|3end_3-dehydroquinate_dehydratase_II_181126..181276_POSITIVE 237 49 3 129 76 pint:PI0166|3end_hypothetical_protein_161258..161408_POSITIVE 235 146 103 148 106 pint:PI0379|3end_conserved_hypothetical_protein_350239..350389_POSITIVE 235 38 4 142 103 pint:PI0234|3end_integrase_234981..235131_POSITIVE 226 58 25 95 67 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 223 186 145 107 55 pint:PI1777|3end_conserved_hypothetical_protein_1710081..1710231_POSITIVE 221 169 128 55 19 pint:PI1510|3end_cell_division_protein_1429274..1429424_POSITIVE 221 88 46 70 30 pint:PI0063|3end_transcriptional_regulator,_GntR_family_63620..63770_POSITIVE 219 189 145 140 92 pint:PI1343|3end_conserved_hypothetical_protein_1258539..1258689_POSITIVE 219 156 114 64 25 pint:PI0600|3end_bifunctional_purine_biosynthesis_protein,_5-aminoimidazole-4-carboxamide_ribonucleotide(AICAR)_transformylase/IMP_cyclohydrolase_548797..548947_POSITIVE 219 67 21 151 98 pint:PI0117|3end_ribonuclease_HI_111314..111464_POSITIVE 217 158 111 148 107 pint:PI0447|3end_DNA-directed_RNA_polymerase,_beta'_subunit_421755..421905_POSITIVE 216 45 5 133 87 pint:PI0953|3end_hypothetical_protein_885390..885540_POSITIVE 214 55 18 81 43 pint:PI1629|3end_hypothetical_protein_1551966..1552116_POSITIVE 214 176 139 119 78 pint:PI1013|3end_probable_transcriptional_regulator_934368..934518_POSITIVE 213 36 1 151 109 pint:PI0475|3end_50S_ribosomal_protein_L6_440096..440246_POSITIVE 213 230 202 144 113 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE