Origin IGS: taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaatctttctcacagcaatgcggaaagggtatatcaatgcttaagcaaccctgaaacatacccttatcagcacaaataaaccgctatcaaacagcttttgcctcgtttgatggcggtttttattatcttcaaatctatgctgacaagggtggttgtta Mask Tandem Repeat Region ================================================ taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta Find is-nt database================================================ Query_seq: PI2165:PI2168|PI2165:PI2168:conserved hypothetical protein; possible membrane protein:hypothetical protein:->->:2111266..2111425 160 taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2165:PI2168|PI2165:PI2168:conserved hypothetical protein; possible membrane protein:hypothetical protein:->->:2111266..2111425 160 taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2165:PI2168|PI2165:PI2168:conserved hypothetical protein; possible membrane protein:hypothetical protein:->->:2111266..2111425 160 taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 3 End: 101 .. C G G K D A Y I Q L Y Y F G G D F S A F A T Q Y R N I Q A S L P M ........................................................... taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta 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: 82 Start: 33 End: 62 ................................TTTGCCTCGTTTGATGGCGGTTTTTATTAT.................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -9.2 Tail_Score: -5.29716 Start: 43 End: 78 Full_Region: atcagcacaaataaa ccgctatcaaacag cttttgc ctcgtttgatggcgg tttttattatcttca ..........................................ccgctatcaaacagcttttgcctcgtttgatggcgg.................................................................................. Find igs database================================================ Query_seq: PI2165:PI2168|PI2165:PI2168:conserved hypothetical protein; possible membrane protein:hypothetical protein:->->:2111266..2111425 160 taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: pint_PI2165_PI2168|conserved hypothetical protein; possible membrane protein:hypothetical protein|POSITIVE:POSITIVE|[2111266,2111425]|160 HSP 1 e-value: 6.0E-86 bit: 317.0 Len: 160 Query Start:1 Query End:160 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta taacaaccacccttgtcagcatagatttgaagataataaaaaccgccatcaaacgaggcaaaagctgtttgatagcggtttatttgtgctgataagggtatgtttcagggttgcttaagcattgatataccctttccgcattgctgtgagaaagatttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAACCACCCUUGUCAGCAUAGAUUUGAAGAUAAUAAAAACCGCCAUCAAACGAGGCAAAAGCUGUUUGAUAGCGGUUUAUUUGUGCUGAUAAGGGUAUGUUUCAGGGUUGCUUAAGCAUUGAUAUACCCUUUCCGCAUUGCUGUGAGAAAGAUUUUA ........((((((((((((((((((.............(((((((.(((((((..(((....)))))))))).))))))))))))))))))))))))).(((.((((.(((.....))).)))).)))..(((((((((....)))).)))))...... (-57.41) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUCUUUCUCACAGCAAUGCGGAAAGGGUAUAUCAAUGCUUAAGCAACCCUGAAACAUACCCUUAUCAGCACAAAUAAACCGCUAUCAAACAGCUUUUGCCUCGUUUGAUGGCGGUUUUUAUUAUCUUCAAAUCUAUGCUGACAAGGGUGGUUGUUA ....((((((..(.((....)).)..)))))).............(((((((.........((((((.((((((.....(((((((((((((((.((....))...)))))))))))))))..................)))))).))))))))))))). (-52.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 366 87 42 160 115 pint:PI0907|5end_NAD-dependent_DNA_ligase_834887..835117_POSITIVE 341 150 105 220 174 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 318 120 73 219 174 pint:PI0795|5end_hypothetical_protein_730964..731194_POSITIVE 313 90 43 207 159 pint:PI1000|5end_conserved_hypothetical_protein_923332..923562_POSITIVE 307 120 71 205 143 pint:PI1180|5end_ferric_uptake_regulation_protein_1101892..1102122_POSITIVE 302 149 101 117 69 pint:PI1825|5end_2-C-methyl-D-erythritol_4-phosphate_cytidylyltransferase_1764996..1765226_POSITIVE 298 82 41 59 5 pint:PI0976|5end_dihydrolipoamide_dehydrogenase_(dihydrolipoyl_dehydrogenanse)_902297..902527_POSITIVE 292 93 55 220 188 pint:PI1898|5end_S-adenosyl-methyltransferase_1841288..1841518_POSITIVE 292 87 43 68 13 pint:PI0041|5end_hypothetical_protein_41785..42015_POSITIVE 291 90 41 206 160 pint:PI0203|5end_conserved_hypothetical_protein_195109..195339_POSITIVE 291 90 41 167 121 pint:PI0201|5end_hypothetical_protein_195070..195300_POSITIVE 289 109 70 105 62 pint:PI2143|5end_DNA_mismatch_repair_protein_2089123..2089353_POSITIVE 286 150 102 73 33 pint:PI0035|5end_NAD-dependent_protein_deacetylase,_SIR2_family_37873..38103_POSITIVE 282 81 43 105 65 pint:PI0872|5end_hypothetical_protein_807371..807601_POSITIVE 281 149 103 62 13 pint:PI1715|5end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1631639..1631869_POSITIVE 281 139 96 225 184 pint:PI0028|5end_aminopeptidase_31559..31789_POSITIVE 280 125 83 73 34 pint:PI1650|5end_N-acetylmuramoyl-L-alanine_amidase_1563195..1563425_POSITIVE 279 109 63 83 41 pint:PI2044|5end_hypothetical_protein_1996999..1997229_POSITIVE 278 88 41 205 153 pint:PI2028|5end_shikimate_kinase_1982162..1982392_POSITIVE 278 145 105 154 113 pint:PI0398|5end_hypothetical_protein_363378..363608_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 325 110 64 57 3 pint:PI2123|3end_adenine_phosphoribosyltransferase_2072324..2072474_POSITIVE 313 90 43 131 83 pint:PI0998|3end_possible_flavin_reductase_domain_protein_923336..923486_POSITIVE 304 99 51 82 21 pint:PI2165|3end_conserved_hypothetical_protein;_possible_membrane_protein_2111205..2111355_POSITIVE 301 80 31 65 21 pint:PI0642|3end_thioredoxin_family_protein_585582..585732_POSITIVE 292 93 55 40 8 pint:PI1896|3end_hypothetical_protein_1841188..1841338_POSITIVE 292 93 55 87 55 pint:PI1897|3end_conserved_hypothetical_protein_1841235..1841385_POSITIVE 292 87 43 75 20 pint:PI0040|3end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_41872..42022_POSITIVE 290 147 102 49 8 pint:PI1636|3end_hypothetical_protein_1554823..1554973_POSITIVE 289 109 70 78 35 pint:PI2142|3end_conserved_hypothetical_protein_2089176..2089326_POSITIVE 286 78 42 85 53 pint:PI0654|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_597223..597373_POSITIVE 278 88 41 93 41 pint:PI2027|3end_arginine_decarboxylase_1982130..1982280_POSITIVE 275 146 107 118 81 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 273 100 52 141 86 pint:PI1605|3end_conserved_hypothetical_protein_1535178..1535328_POSITIVE 272 149 108 46 3 pint:PI1824|3end_ThiJ/PfpI_family_protein_1765005..1765155_POSITIVE 269 150 105 61 12 pint:PI1830|3end_conserved_hypothetical_protein_1770361..1770511_POSITIVE 268 80 31 61 12 pint:PI0910|3end_possible_sodium_hydrogen_antiporter_(Na+/H+_antiporter)_839544..839694_POSITIVE 267 90 44 114 50 pint:PI0369|3end_hypothetical_protein_340409..340559_POSITIVE 266 147 103 145 104 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE 265 68 21 134 82 pint:PI0806|3end_heavy_metal_efflux_pump_744394..744544_POSITIVE 261 93 54 43 2 pint:PI0975|3end_glycine_dehydrogenase_[decarboxylating]_subunit_2_902353..902503_POSITIVE