Origin IGS: aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta .........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 taatatatagtatttggtaaggtaacagcttgactactaatcttcagaagtagtcagaaacaacataaacaacaagaggatacaccgtttaaatggtgtgtcctcttgtcgtttatgtgtgttaaataaagttataacactcttgtaatcagttattatatttggtttatattataaactacattatatttgcagtgtaattaataaattaaaggaaaccaatt Mask Tandem Repeat Region ================================================ aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta Find is-nt database================================================ Query_seq: PI1190:PI1191|PI1190:PI1191:conserved hypothetical protein:phosphoribosyl pyrophosphate synthetase:->->:1109380..1109603 224 aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1190:PI1191|PI1190:PI1191:conserved hypothetical protein:phosphoribosyl pyrophosphate synthetase:->->:1109380..1109603 224 aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1190:PI1191|PI1190:PI1191:conserved hypothetical protein:phosphoribosyl pyrophosphate synthetase:->->:1109380..1109603 224 aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 66 End: 185 ................................................................. M I T D Y K S V I T L F N T H K R Q E D T P F K R C I L L L F M L F L T T S E D ....................................... aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta 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================================================ aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -22.1 Tail_Score: -4.09519 Start: 108 End: 161 Full_Region: ACTTTATTTAACACA CATAAACGACAAGAGGACACACCAT TTAA ACGGTGTATCCTCTTGTTGTTTATG TTGTTTCTGACTACT ...........................................................................................................CATAAACGACAAGAGGACACACCATTTAAACGGTGTATCCTCTTGTTGTTTATG............................................................... TransTerm Strand: - Conf: 100 HP_score: -24.3 Tail_Score: -3.10522 Start: 108 End: 161 Full_Region: agtagtcagaaacaa cataaacaacaagaggatacaccgt ttaa atggtgtgtcctcttgtcgtttatg tgtgttaaataaagt ...........................................................................................................cataaacaacaagaggatacaccgtttaaatggtgtgtcctcttgtcgtttatg............................................................... TransTerm Strand: - Conf: 100 HP_score: -21.1 Tail_Score: -3.11072 Start: 110 End: 159 Full_Region: tagtcagaaacaaca taaacaacaagaggatacaccgt ttaa atggtgtgtcctcttgtcgttta tgtgtgttaaataaa .............................................................................................................taaacaacaagaggatacaccgtttaaatggtgtgtcctcttgtcgttta................................................................. TransTerm Strand: + Conf: 100 HP_score: -15.3 Tail_Score: -4.42743 Start: 114 End: 155 Full_Region: TTTAACACACATAAA CGACAAGAGGACACACCAT TTAA ACGGTGTATCCTCTTGTTG TTTATGTTGTTTCTG .................................................................................................................CGACAAGAGGACACACCATTTAAACGGTGTATCCTCTTGTTG..................................................................... TransTerm Strand: - Conf: 100 HP_score: -17.5 Tail_Score: -4.21343 Start: 114 End: 155 Full_Region: cagaaacaacataaa caacaagaggatacaccgt ttaa atggtgtgtcctcttgtcg tttatgtgtgttaaa .................................................................................................................caacaagaggatacaccgtttaaatggtgtgtcctcttgtcg..................................................................... Find igs database================================================ Query_seq: PI1190:PI1191|PI1190:PI1191:conserved hypothetical protein:phosphoribosyl pyrophosphate synthetase:->->:1109380..1109603 224 aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta Intra-Species Hit: Count: 1 Min: 1 Max: 224 Len: 224 Subject: pint_PI1190_PI1191|conserved hypothetical protein:phosphoribosyl pyrophosphate synthetase|POSITIVE:POSITIVE|[1109380,1109603]|224 HSP 1 e-value: 1.0E-124 bit: 444.0 Len: 224 Query Start:1 Query End:224 Subject Strand: POSITIVE Subject Start: 1 Subject End: 224 aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta aattggtttcctttaatttattaattacactgcaaatataatgtagtttataatataaaccaaatataataactgattacaagagtgttataactttatttaacacacataaacgacaagaggacacaccatttaaacggtgtatcctcttgttgtttatgttgtttctgactacttctgaagattagtagtcaagctgttaccttaccaaatactatatatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUGGUUUCCUUUAAUUUAUUAAUUACACUGCAAAUAUAAUGUAGUUUAUAAUAUAAACCAAAUAUAAUAACUGAUUACAAGAGUGUUAUAACUUUAUUUAACACACAUAAACGACAAGAGGACACACCAUUUAAACGGUGUAUCCUCUUGUUGUUUAUGUUGUUUCUGACUACUUCUGAAGAUUAGUAGUCAAGCUGUUACCUUACCAAAUACUAUAUAUUA ..(((((.........(((((....((.((((((.......)))))).))....)))))..........((((........(((((......)))))....((((.((((((((((((((((((.(((((........))))).))))))))))))))))))))))..((((((((((....))..))))))))....))))....)))))............. (-60.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUAUAGUAUUUGGUAAGGUAACAGCUUGACUACUAAUCUUCAGAAGUAGUCAGAAACAACAUAAACAACAAGAGGAUACACCGUUUAAAUGGUGUGUCCUCUUGUCGUUUAUGUGUGUUAAAUAAAGUUAUAACACUCUUGUAAUCAGUUAUUAUAUUUGGUUUAUAUUAUAAACUACAUUAUAUUUGCAGUGUAAUUAAUAAAUUAAAGGAAACCAAUU ....((((((((.(((((...(((((...(((((((((..((....))))))))))).((((((((((((.(((((((((((((((((....))))))))))))))))).)))))))).)))).......)))))...((....)).))))).))))))))(((((((...(((........(((((((.....)))))))........)))...))))))).. (-68.19) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 151 118 205 169 pint:PI0489|5end_probable_cardiolipin_synthetase_447610..447840_POSITIVE 269 180 135 208 163 pint:PI0127|5end_conserved_hypothetical_protein_118683..118913_POSITIVE 268 160 119 207 167 pint:PI0963|5end_hypothetical_protein_893198..893428_POSITIVE 267 178 137 86 45 pint:PI0917|5end_phosphoglycolate_phosphatase_846371..846601_POSITIVE 265 157 112 156 113 pint:PI0142|5end_DNA-binding_protein_133839..134069_POSITIVE 259 210 162 95 46 pint:PI0011|5end_conserved_hypothetical_protein_12142..12372_POSITIVE 258 166 121 154 116 pint:PI0398|5end_hypothetical_protein_363378..363608_POSITIVE 254 162 122 72 34 pint:PI0692|5end_iron_compound_ABC_transporter,_permease_protein_627350..627580_POSITIVE 253 143 107 159 123 pint:PI0500|5end_mobilizable_transposon,_tnpC_protein_460674..460904_POSITIVE 253 188 149 194 154 pint:PI0081|5end_hypothetical_protein_80423..80653_POSITIVE 246 149 104 70 5 pint:PI0028|5end_aminopeptidase_31559..31789_POSITIVE 243 166 121 176 132 pint:PI1382|5end_hypothetical_protein_1303608..1303838_POSITIVE 241 179 138 189 145 pint:PI0743|5end_hypothetical_protein_672728..672958_POSITIVE 241 198 162 215 179 pint:PI0460|5end_50S_ribosomal_protein_L3_432471..432701_POSITIVE 239 150 102 152 87 pint:PI1677|5end_cell_division_protein_FtsH_1591766..1591996_POSITIVE 239 170 127 214 171 pint:PI1497|5end_LuxS_protein,_autoinducer_AI-2_production_protein_1417571..1417801_POSITIVE 239 170 122 227 175 pint:PI1041|5end_hypothetical_protein_960443..960673_POSITIVE 238 180 139 105 62 pint:PI2005|5end_potassium_uptake_protein_1962950..1963180_POSITIVE 238 155 114 47 8 pint:PI1847|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1792006..1792236_POSITIVE 237 158 118 162 119 pint:PI0799|5end_alpha-amylase_family_protein_737083..737313_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 359 151 118 52 16 pint:PI0488|3end_conserved_hypothetical_protein_447537..447687_POSITIVE 259 158 116 127 81 pint:PI0173|3end_hypothetical_protein_165558..165708_POSITIVE 253 143 107 51 15 pint:PI0499|3end_integrase,_C-terminal_region_460646..460796_POSITIVE 253 188 149 113 73 pint:PI0080|3end_hypothetical_protein_80422..80572_POSITIVE 252 183 147 42 1 pint:PI1367|3end_redox-sensitive_transcriptional_activator,__OxyR_1287863..1288013_POSITIVE 248 164 126 63 21 pint:PI2071|3end_hypothetical_protein_2030308..2030458_POSITIVE 241 179 138 130 86 pint:PI0742|3end_hypothetical_protein_672749..672899_POSITIVE 241 198 162 131 95 pint:PI0459|3end_30S_ribosomal_protein_S10_432467..432617_POSITIVE 239 150 102 79 14 pint:PI1676|3end_phosphatidate_cytidylyltransferase_1591773..1591923_POSITIVE 238 180 139 79 36 pint:PI2004|3end_1-deoxy-D-xylulose_5-phosphate_synthase_1963004..1963154_POSITIVE 226 168 139 89 51 pint:PI0802|3end_hypothetical_protein_739827..739977_POSITIVE 225 154 111 47 6 pint:PI0685|3end_elongation_factor_G_623048..623198_POSITIVE 225 180 131 108 63 pint:PI0380|3end_conserved_hypothetical_protein_350541..350691_POSITIVE 223 210 164 89 47 pint:PI0152|3end_DNA_mismatch_endonuclease_vsr_145984..146134_POSITIVE 219 218 176 102 53 pint:PI1264|3end_hypothetical_protein_1185074..1185224_POSITIVE 218 169 122 45 1 pint:PI1549|3end_conserved_hypothetical_protein_1467382..1467532_POSITIVE 216 149 107 124 85 pint:PI1755|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1682510..1682660_POSITIVE 216 207 180 88 58 pint:PI1546|3end_mobilizable_transposon,_excision_protein_1465099..1465249_POSITIVE 216 210 169 143 93 pint:PI0139|3end_pyridoxine_biosynthesis_protein_132724..132874_POSITIVE 215 168 122 101 46 pint:PI0718|3end_hypothetical_protein_654212..654362_POSITIVE