Origin IGS: ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgattatcttggcctcatttgggtagtgatgagaatatcaatctgtctcttttgtcctagtcgtagcgccacaagctgccacttgaatgaaaagtgatggaataagaa Mask Tandem Repeat Region ================================================ ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca Find is-nt database================================================ Query_seq: PI0740:PI0742|PI0740:PI0742:hypothetical protein:hypothetical protein:->->:672426..672533 108 ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0740:PI0742|PI0740:PI0742:hypothetical protein:hypothetical protein:->->:672426..672533 108 ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0740:PI0742|PI0740:PI0742:hypothetical protein:hypothetical protein:->->:672426..672533 108 ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca Predict ORF larger than 30AA ================================================ ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca 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================================================ ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0740:PI0742|PI0740:PI0742:hypothetical protein:hypothetical protein:->->:672426..672533 108 ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: pint_PI0740_PI0742|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[672426,672533]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca ttcttattccatcacttttcattcaagtggcagcttgtggcgctacgactaggacaaaagagacagattgatattctcatcactacccaaatgaggccaagataatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUUAUUCCAUCACUUUUCAUUCAAGUGGCAGCUUGUGGCGCUACGACUAGGACAAAAGAGACAGAUUGAUAUUCUCAUCACUACCCAAAUGAGGCCAAGAUAAUCA .((((..((..((.((((((......(((((.((.....)))))))......))..)))).))..)).......((((((..........))))))..))))...... (-16.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUAUCUUGGCCUCAUUUGGGUAGUGAUGAGAAUAUCAAUCUGUCUCUUUUGUCCUAGUCGUAGCGCCACAAGCUGCCACUUGAAUGAAAAGUGAUGGAAUAAGAA ......(((((..((((((........))))))........((((((.(((((.((..(((.(((((.......))))).))).))...))))).)))))).))))). (-27.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 311 60 16 85 30 pint:PI0782|5end_beta-lactamase_induction_signal_transducer,_AmpG_protein_720573..720803_POSITIVE 308 68 25 163 117 pint:PI1439|5end_hypothetical_protein_1360009..1360239_POSITIVE 302 66 23 220 166 pint:PI0429|5end_hypothetical_protein_396418..396648_POSITIVE 298 52 13 150 104 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 297 69 28 54 11 pint:PI2078|5end_hypothetical_protein_2036053..2036283_POSITIVE 297 67 29 87 50 pint:PI1009|5end_cytochrome_c_nitrite_reductase,_large_subunit_929342..929572_POSITIVE 294 68 25 88 45 pint:PI1951|5end_ABC_transporter,_ATP-binding_protein_1905823..1906053_POSITIVE 293 49 4 147 104 pint:PI0221|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_212356..212586_POSITIVE 292 67 22 172 127 pint:PI0649|5end_oxaloacetate_decarboxylase_589695..589925_POSITIVE 284 65 30 195 150 pint:PI0201|5end_hypothetical_protein_195070..195300_POSITIVE 281 45 15 37 1 pint:PI0964|5end_conserved_hypothetical_protein_893238..893468_POSITIVE 281 56 24 63 27 pint:PI0953|5end_hypothetical_protein_885119..885349_POSITIVE 279 67 24 172 132 pint:PI1755|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1681930..1682160_POSITIVE 275 63 30 231 189 pint:PI0203|5end_conserved_hypothetical_protein_195109..195339_POSITIVE 274 69 26 206 144 pint:PI1078|5end_conserved_hypothetical_protein_999500..999730_POSITIVE 273 67 26 154 108 pint:PI1440|5end_conserved_hypothetical_protein_1357185..1357415_POSITIVE 272 53 21 183 138 pint:PI0447|5end_DNA-directed_RNA_polymerase,_beta'_subunit_417314..417544_POSITIVE 270 67 27 57 9 pint:PI0317|5end_possible_kinase;_TPR_repeat?_299179..299409_POSITIVE 269 49 8 148 102 pint:PI2044|5end_hypothetical_protein_1996999..1997229_POSITIVE 268 50 21 41 10 pint:PI1513|5end_conserved_hypothetical_protein_1430152..1430382_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 294 68 25 73 30 pint:PI1950|3end_iron-regulated_membrane_permease_1905888..1906038_POSITIVE 293 49 4 52 9 pint:PI0220|3end_conserved_hypothetical_protein_212341..212491_POSITIVE 292 67 22 128 83 pint:PI0648|3end_hypothetical_protein_589731..589881_POSITIVE 273 51 16 109 74 pint:PI1089|3end_conserved_hypothetical_protein_1014040..1014190_POSITIVE 270 62 22 54 8 pint:PI0953|3end_hypothetical_protein_885390..885540_POSITIVE 270 62 22 112 66 pint:PI0951|3end_hypothetical_protein_885448..885598_POSITIVE 267 56 21 111 74 pint:PI2008|3end__ABC_transporter,_ATP-binding_protein_1967961..1968111_POSITIVE 267 78 34 56 1 pint:PI0428|3end_hypothetical_protein_396321..396471_POSITIVE 266 61 22 90 44 pint:PI0906|3end_hypothetical_protein_836008..836158_POSITIVE 261 55 27 137 106 pint:PI0043|3end_thiamine_phosphate_pyrophosphorylase_43156..43306_POSITIVE 257 70 24 132 84 pint:PI2025|3end_conserved_hypothetical_protein_1979452..1979602_POSITIVE 251 50 26 103 77 pint:PI1947|3end_hypothetical_protein_1902865..1903015_POSITIVE 251 52 26 145 118 pint:PI1438|3end_penicillin_tolerance_protein/steroid_biosynthesis_1357275..1357425_POSITIVE 250 39 5 108 67 pint:PI0494|3end_hypothetical_protein_455170..455320_POSITIVE 249 67 26 67 20 pint:PI1235|3end_60_kDa_chaperonin,_groEL,_cpn60_1158888..1159038_POSITIVE 247 50 8 89 41 pint:PI1487|3end_hypothetical_protein_1407940..1408090_POSITIVE 247 55 15 140 103 pint:PI0799|3end_alpha-amylase_family_protein_738854..739004_POSITIVE 247 64 21 128 90 pint:PI0694|3end_Na+/dicarboxylate_or_sulfate_symporter_631177..631327_POSITIVE 246 67 27 138 88 pint:PI1570|3end_succinyl-diaminopimelate_desuccinylase_1494778..1494928_POSITIVE 246 54 24 129 98 pint:PI0644|3end_dnaJ_protein_586569..586719_POSITIVE