Origin IGS: tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 aatttcggtaaggcgaaacagcttccccctaccctatgcttagtccattaattaacaatgtgttactatccaagttgcaaaattacaaattttaataggtataacaagtcttttaccgaattaatttggtgaaaagcggaaaagaacgggcagttgaagacaattgtttgatagaaataagatgggatatggttttccttttttgatgcttgagggcggtgttggggtaagttggggcgtggtttattgctttcttggcattgaatgagaaagggtttatatagtaattctagtttatctatgatttcta Mask Tandem Repeat Region ================================================ tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt Find is-nt database================================================ Query_seq: PI2153:PI2154|PI2153:PI2154:hypothetical protein:leucyl-tRNA synthetase:->->:2099691..2100000 310 tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2153:PI2154|PI2153:PI2154:hypothetical protein:leucyl-tRNA synthetase:->->:2099691..2100000 310 tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2153:PI2154|PI2153:PI2154:hypothetical protein:leucyl-tRNA synthetase:->->:2099691..2100000 310 tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 55 Strand: + Start: 31 End: 195 .............................. M N P F S F N A K K A I N H A P T Y P N T A L K H Q K R K T I S H L I S I K Q L S S T A R S F P L F T K L I R ................................................................................................................... Protein_Len: 60 Strand: + Start: 6 End: 242 ..... M I D K L E L L Y K P F L I Q C Q E S N K P R P N L P Q H R P Q A S K K E N H I P S Y F Y Q T I V F N C P F F S A F H Q .................................................................... Protein_Len: 34 Strand: - Start: 46 End: 147 ............................................. E I G L F C Y V V G W S V G V G G E L M L F P F G Y G M K N R D F M ................................................................................................................................................................... tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt 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================================================ tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI2153:PI2154|PI2153:PI2154:hypothetical protein:leucyl-tRNA synthetase:->->:2099691..2100000 310 tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 310 Len: 310 Subject: pint_PI2153_PI2154|hypothetical protein:leucyl-tRNA synthetase|POSITIVE:POSITIVE|[2099691,2100000]|310 HSP 1 e-value: 1.0E-175 bit: 615.0 Len: 310 Query Start:1 Query End:310 Subject Strand: POSITIVE Subject Start: 1 Subject End: 310 tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt tagaaatcatagataaactagaattactatataaaccctttctcattcaatgccaagaaagcaataaaccacgccccaacttaccccaacaccgccctcaagcatcaaaaaaggaaaaccatatcccatcttatttctatcaaacaattgtcttcaactgcccgttcttttccgcttttcaccaaattaattcggtaaaagacttgttatacctattaaaatttgtaattttgcaacttggatagtaacacattgttaattaatggactaagcatagggtagggggaagctgtttcgccttaccgaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAAUCAUAGAUAAACUAGAAUUACUAUAUAAACCCUUUCUCAUUCAAUGCCAAGAAAGCAAUAAACCACGCCCCAACUUACCCCAACACCGCCCUCAAGCAUCAAAAAAGGAAAACCAUAUCCCAUCUUAUUUCUAUCAAACAAUUGUCUUCAACUGCCCGUUCUUUUCCGCUUUUCACCAAAUUAAUUCGGUAAAAGACUUGUUAUACCUAUUAAAAUUUGUAAUUUUGCAACUUGGAUAGUAACACAUUGUUAAUUAAUGGACUAAGCAUAGGGUAGGGGGAAGCUGUUUCGCCUUACCGAAAUU (((.(((..(((.....)))..))).)))........(((((((............(((..((((............................((......)).........(((........)))....................))))..)))..((((((...(((.(((.(((((.(((..........))))))))...(((((...(((((.....(((((....)))))....))))))))))..............)))..)))....)))))))))))))..((((((......)))))). (-46.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUCGGUAAGGCGAAACAGCUUCCCCCUACCCUAUGCUUAGUCCAUUAAUUAACAAUGUGUUACUAUCCAAGUUGCAAAAUUACAAAUUUUAAUAGGUAUAACAAGUCUUUUACCGAAUUAAUUUGGUGAAAAGCGGAAAAGAACGGGCAGUUGAAGACAAUUGUUUGAUAGAAAUAAGAUGGGAUAUGGUUUUCCUUUUUUGAUGCUUGAGGGCGGUGUUGGGGUAAGUUGGGGCGUGGUUUAUUGCUUUCUUGGCAUUGAAUGAGAAAGGGUUUAUAUAGUAAUUCUAGUUUAUCUAUGAUUUCUA .....(((.(((((((...((((.((((((((((((.((...((((......((((.....)))).....(((((..(((((......((((((.............(..((((((((((....))))))))))..).........((((((((((....)))))))))).......)))))).(((........)))..)))))..))))).))))...)))))))))....)))).).))))..))))))).))).(((.((.((((..((((((........))))))..)))))).)))....... (-72.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 397 306 268 79 37 pint:PI1468|5end_conserved_hypothetical_protein;_probable_TPR_domain_protein_1393900..1394130_POSITIVE 367 100 52 138 97 pint:PI0791|5end_conserved_hypothetical_protein_728361..728591_POSITIVE 310 103 70 225 193 pint:PI0365|5end_hypothetical_protein_335721..335951_POSITIVE 298 130 86 135 96 pint:PI0432|5end_hypothetical_protein_404781..405011_POSITIVE 298 130 86 78 39 pint:PI0433|5end_hypothetical_protein_404724..404954_POSITIVE 294 307 261 139 100 pint:PI1960|5end_hypothetical_protein_1918013..1918243_POSITIVE 289 116 76 77 42 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 286 298 252 139 84 pint:PI1745|5end_conserved_hypothetical_protein_1666615..1666845_POSITIVE 284 307 263 85 32 pint:PI0792|5end_conserved_hypothetical_protein_729068..729298_POSITIVE 284 306 272 146 123 pint:PI0756|5end_50S_ribosomal_protein_L7/L12_687146..687376_POSITIVE 280 298 263 87 51 pint:PI1607|5end_ABC-related_lipoprotein_releasing_system,_ATP-binding_protein_1535125..1535355_POSITIVE 280 298 263 61 25 pint:PI1606|5end_conserved_hypothetical_protein_1535099..1535329_POSITIVE 280 307 262 152 103 pint:PI1578|5end_rod_shape-determining_protein_1504188..1504418_POSITIVE 279 307 263 71 19 pint:PI1786|5end_hypothetical_protein_1718124..1718354_POSITIVE 279 307 273 161 108 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 279 303 264 192 153 pint:PI0017|5end_thiol-disulfide_isomerase;_thioredoxin_21733..21963_POSITIVE 278 305 265 192 151 pint:PI0736|5end_transcriptional_regulator,_TetR_family_670580..670810_POSITIVE 277 103 61 179 145 pint:PI0668|5end_peptidyl-prolyl_cis-trans_isomerase_SlyD,_FKBP-type_(peptidylprolyl_isomerase)_610216..610446_POSITIVE 277 103 61 76 42 pint:PI0667|5end_hypothetical_protein_610113..610343_POSITIVE 276 308 263 216 166 pint:PI1873|5end_hypothetical_protein_1817878..1818108_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 367 100 52 82 41 pint:PI0789|3end_NAD-utilizing_dehydrogenase_728385..728535_POSITIVE 314 106 62 126 89 pint:PI1979|3end_conserved_hypothetical_protein_1937327..1937477_POSITIVE 302 308 264 88 31 pint:PI1918|3end_uracil-DNA_glycosylase_1862224..1862374_POSITIVE 302 100 51 144 92 pint:PI1448|3end_hypothetical_protein_1371832..1371982_POSITIVE 286 298 252 64 9 pint:PI1744|3end_chromosome_partitioning_protein_1666620..1666770_POSITIVE 284 307 263 143 90 pint:PI0790|3end_hypothetical_protein_729206..729356_POSITIVE 280 298 263 60 24 pint:PI1605|3end_conserved_hypothetical_protein_1535178..1535328_POSITIVE 279 307 273 122 69 pint:PI0196|3end_hypothetical_protein_188643..188793_POSITIVE 279 303 264 104 65 pint:PI0016|3end_magnesium_chelatase,_subunit_ChlI_21725..21875_POSITIVE 278 305 265 123 82 pint:PI0735|3end_ABC_transporter,_ATP-binding_/_permease_670591..670741_POSITIVE 277 103 61 54 20 pint:PI0666|3end_chorismate_synthase_610171..610321_POSITIVE 276 306 263 143 103 pint:PI1207|3end_hypothtical_protein_1127209..1127359_POSITIVE 276 306 263 66 26 pint:PI1206|3end_ATP-dependent_DNA_helicase,_UvrD/PcrA/Rep_family_1127132..1127282_POSITIVE 275 306 263 100 69 pint:PI2129|3end_octaprenyl-diphosphate_synthase_2077721..2077871_POSITIVE 275 301 267 128 90 pint:PI0835|3end_conserved_hypothetical_protein;_possible_protein-export_membrane_protein_771859..772009_POSITIVE 273 307 271 118 81 pint:PI0999|3end_hypothetical_protein_922812..922962_POSITIVE 272 290 245 123 72 pint:PI0125|3end_undecaprenyl_pyrophosphate_synthase_117890..118040_POSITIVE 268 297 263 135 103 pint:PI1854|3end_possible_glycosyl_transferase_1801727..1801877_POSITIVE 266 305 263 70 29 pint:PI0326|3end_ISPg3-related_transposase_307768..307918_POSITIVE 265 184 147 131 87 pint:PI0396|3end_possible_tetracycline_resistance_element_mobilization_regulatory_protein,_C-terminal_fragment_362396..362546_POSITIVE