Origin IGS: taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcggtatgatttatcacattcatcatcttcactttgcagcttcttgggtgttaggaacgtgataaatcacgcccctacacatagaaatctgtggtctgtaacaagcaaagagtaaactcactcctccaatataattctacaagacttgtgtttcacctgctta Mask Tandem Repeat Region ================================================ taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc Find is-nt database================================================ Query_seq: PI0901:PI0902|PI0901:PI0902:hypothetical protein:hypothetical protein:->->:832268..832430 163 taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0901:PI0902|PI0901:PI0902:hypothetical protein:hypothetical protein:->->:832268..832430 163 taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0901:PI0902|PI0901:PI0902:hypothetical protein:hypothetical protein:->->:832268..832430 163 taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 34 End: 132 ................................. M G G V S L L F A C Y R P Q I S M C R G V I Y H V P N T Q E A A K ............................... taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc 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================================================ taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0901:PI0902|PI0901:PI0902:hypothetical protein:hypothetical protein:->->:832268..832430 163 taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc Intra-Species Hit: Count: 1 Min: 1 Max: 163 Len: 163 Subject: pint_PI0901_PI0902|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[832268,832430]|163 HSP 1 e-value: 1.0E-87 bit: 323.0 Len: 163 Query Start:1 Query End:163 Subject Strand: POSITIVE Subject Start: 1 Subject End: 163 taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc taagcaggtgaaacacaagtcttgtagaattatattggaggagtgagtttactctttgcttgttacagaccacagatttctatgtgtaggggcgtgatttatcacgttcctaacacccaagaagctgcaaagtgaagatgatgaatgtgataaatcataccgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCAGGUGAAACACAAGUCUUGUAGAAUUAUAUUGGAGGAGUGAGUUUACUCUUUGCUUGUUACAGACCACAGAUUUCUAUGUGUAGGGGCGUGAUUUAUCACGUUCCUAACACCCAAGAAGCUGCAAAGUGAAGAUGAUGAAUGUGAUAAAUCAUACCGC ...((.(((....(((..((((.((((..........((((((((....)))))))).....))))))))..(((.(((((..((((((((((((((....)))))))))).))))...))))))))....)))...(((((...........)))))))))) (-43.16) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCGGUAUGAUUUAUCACAUUCAUCAUCUUCACUUUGCAGCUUCUUGGGUGUUAGGAACGUGAUAAAUCACGCCCCUACACAUAGAAAUCUGUGGUCUGUAACAAGCAAAGAGUAAACUCACUCCUCCAAUAUAAUUCUACAAGACUUGUGUUUCACCUGCUUA ..((..(((((((((((.(((..(((((.................)))))....))).)))))))))))..))..(((((((((....)))))...))))..(((((..(((....)))........(((((((.((.....)).))))))).....))))). (-40.23) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 515 129 83 229 182 pint:PI1750|5end_sulfate_transporter_1672134..1672364_POSITIVE 509 130 85 127 82 pint:PI0933|5end_hypothetical_protein_865700..865930_POSITIVE 477 112 80 220 189 pint:PI0648|5end_hypothetical_protein_589448..589678_POSITIVE 472 128 82 225 176 pint:PI1689|5end_conserved_hypothetical_protein_1604310..1604540_POSITIVE 395 128 85 86 43 pint:PI0118|5end_hypothetical_protein_111321..111551_POSITIVE 360 119 77 146 103 pint:PI0069|5end_hypothetical_protein_67072..67302_POSITIVE 358 109 67 139 97 pint:PI0020|5end_conserved_hypothetical_protein_24525..24755_POSITIVE 349 96 51 113 74 pint:PI1650|5end_N-acetylmuramoyl-L-alanine_amidase_1563195..1563425_POSITIVE 340 109 77 177 144 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 337 95 53 69 32 pint:PI0649|5end_oxaloacetate_decarboxylase_589695..589925_POSITIVE 313 94 57 195 156 pint:PI0086|5end_possible_uroporphyrinogen-III_synthase_84944..85174_POSITIVE 309 132 91 188 144 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 300 47 2 219 158 pint:PI0740|5end_hypothetical_protein_672112..672342_POSITIVE 290 97 61 223 173 pint:PI0136|5end_surface_antigen_BspA_127105..127335_POSITIVE 288 49 2 116 68 pint:PI0407|5end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_372973..373203_POSITIVE 286 127 86 137 91 pint:PI2012|5end_hypothetical_protein_1970807..1971037_POSITIVE 284 110 61 100 51 pint:PI1931|5end_alpha_glycan_phosphorylase,_maltodextrin_phosphorylase_1875456..1875686_POSITIVE 284 86 45 203 158 pint:PI1891|5end_hypothetical_protein_1835196..1835426_POSITIVE 283 59 18 201 165 pint:PI2074|5end_conserved_hypothetical_protein_2033660..2033890_POSITIVE 279 50 2 114 72 pint:PI1805|5end_TPR_repeat_containing_protein_1738369..1738599_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 497 123 82 48 7 pint:PI1820|3end_hypothetical_protein_1760377..1760527_POSITIVE 425 115 74 74 29 pint:PI1440|3end_conserved_hypothetical_protein_1363009..1363159_POSITIVE 346 115 77 56 14 pint:PI2088|3end_conserved_hypothetical_protein;_possible_PAP2_superfamily_protein_2045815..2045965_POSITIVE 334 130 84 56 7 pint:PI0117|3end_ribonuclease_HI_111314..111464_POSITIVE 333 110 84 37 11 pint:PI0962|3end_phosphoglycerate_mutase_892702..892852_POSITIVE 313 94 57 131 92 pint:PI0085|3end_RNase_P_protein_component_84960..85110_POSITIVE 288 49 2 116 68 pint:PI0406|3end_hypothetical_protein_373053..373203_POSITIVE 283 47 7 135 99 pint:PI2073|3end_mobilization_protein_2033487..2033637_POSITIVE 281 150 104 100 43 pint:PI1758|3end_hypothetical_protein_1684057..1684207_POSITIVE 281 95 71 25 2 pint:PI0648|3end_hypothetical_protein_589731..589881_POSITIVE 278 123 82 144 100 pint:PI2144|3end_hypothetical_protein_2092300..2092450_POSITIVE 273 96 51 144 90 pint:PI1792|3end_hypothetical_protein_1725143..1725293_POSITIVE 272 60 18 147 94 pint:PI1553|3end_hypothetical_protein_1470170..1470320_POSITIVE 261 145 102 51 4 pint:PI2158|3end_glycosyl_transferase,_group_2_family_protein_2105347..2105497_POSITIVE 256 76 40 53 12 pint:PI1960|3end_hypothetical_protein_1918983..1919133_POSITIVE 256 115 71 73 31 pint:PI1715|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1632324..1632474_POSITIVE 255 150 109 138 97 pint:PI1518|3end_outer_membrane_protein_oprM_precursor,_multidrug_resistance_protein_1440378..1440528_POSITIVE 252 69 24 85 37 pint:PI1129|3end_hypothetical_protein_1055603..1055753_POSITIVE 252 130 81 84 31 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 251 127 81 118 67 pint:PI1338|3end_phosphoserine_phosphatase_1256594..1256744_POSITIVE