Origin IGS: tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taggctgattcaaaaaatacctttgaaggattttagcctttctaccaagcgtttgaggatagtagaagtatagcggagaaagcctactttgggcacgaaaagaaagcgataaaactgtaaacatttttcacaagcataggta Mask Tandem Repeat Region ================================================ tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta Find is-nt database================================================ Query_seq: PI1204:PI1206|PI1204:PI1206:hypothetical protein:ATP-dependent DNA helicase, UvrD/PcrA/Rep family:->->:1124696..1124837 142 tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1204:PI1206|PI1204:PI1206:hypothetical protein:ATP-dependent DNA helicase, UvrD/PcrA/Rep family:->->:1124696..1124837 142 tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1204:PI1206|PI1204:PI1206:hypothetical protein:ATP-dependent DNA helicase, UvrD/PcrA/Rep family:->->:1124696..1124837 142 tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 19 End: 141 .................. M F T V L S L S F R A Q S R L S P L Y F Y Y P Q T L G R K A K I L Q R Y F L N Q P . tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta 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================================================ tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1204:PI1206|PI1204:PI1206:hypothetical protein:ATP-dependent DNA helicase, UvrD/PcrA/Rep family:->->:1124696..1124837 142 tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta Intra-Species Hit: Count: 1 Min: 1 Max: 142 Len: 142 Subject: pint_PI1204_PI1206|hypothetical protein:ATP-dependent DNA helicase, UvrD/PcrA/Rep family|POSITIVE:POSITIVE|[1124696,1124837]|142 HSP 1 e-value: 3.0E-75 bit: 281.0 Len: 142 Query Start:1 Query End:142 Subject Strand: POSITIVE Subject Start: 1 Subject End: 142 tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta tacctatgcttgtgaaaaatgtttacagttttatcgctttcttttcgtgcccaaagtaggctttctccgctatacttctactatcctcaaacgcttggtagaaaggctaaaatccttcaaaggtattttttgaatcagccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACCUAUGCUUGUGAAAAAUGUUUACAGUUUUAUCGCUUUCUUUUCGUGCCCAAAGUAGGCUUUCUCCGCUAUACUUCUACUAUCCUCAAACGCUUGGUAGAAAGGCUAAAAUCCUUCAAAGGUAUUUUUUGAAUCAGCCUA .......((.((((((.....))))))........((((.((((........)))).)))).......))......(((((((..(......)..))))))).(((((((((((((....))).))))).......))))). (-23.71) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGCUGAUUCAAAAAAUACCUUUGAAGGAUUUUAGCCUUUCUACCAAGCGUUUGAGGAUAGUAGAAGUAUAGCGGAGAAAGCCUACUUUGGGCACGAAAAGAAAGCGAUAAAACUGUAAACAUUUUUCACAAGCAUAGGUA .(((((((((((((.......)))))).....)))))))...((((.(..(((((.(((.(((.(...(((((........((((.....)))).((.........))......)))))..)))).))).))))).).)))) (-25.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 501 48 4 150 106 pint:PI1733|5end_hypothetical_protein_1652160..1652390_POSITIVE 487 60 11 190 141 pint:PI1934|5end_hypothetical_protein_1882363..1882593_POSITIVE 467 60 11 51 2 pint:PI2011|5end_hypothetical_protein_1970429..1970659_POSITIVE 438 47 5 108 66 pint:PI0928|5end_hypothetical_protein_859851..860081_POSITIVE 387 60 11 217 168 pint:PI0851|5end_hypothetical_protein_784310..784540_POSITIVE 379 50 2 205 161 pint:PI0841|5end_hypothetical_protein_775406..775636_POSITIVE 377 60 18 71 30 pint:PI2164|5end_acetyltransferase,_GNAT_family_2110018..2110248_POSITIVE 376 50 5 150 107 pint:PI0200|5end_hypothetical_protein_191545..191775_POSITIVE 370 50 7 179 137 pint:PI1694|5end_hypothetical_protein_1609717..1609947_POSITIVE 352 58 13 149 104 pint:PI1339|5end_hypothetical_protein_1256671..1256901_POSITIVE 352 58 13 46 1 pint:PI1340|5end_hypothetical_protein_1256568..1256798_POSITIVE 350 47 6 59 18 pint:PI0670|5end_hypothetical_protein_611000..611230_POSITIVE 343 79 34 134 98 pint:PI0916|5end_hypothetical_protein_845617..845847_POSITIVE 342 42 5 85 44 pint:PI0689|5end_hypothetical_protein_625624..625854_POSITIVE 341 47 5 57 17 pint:PI1814|5end_hypothetical_protein_1752953..1753183_POSITIVE 340 100 55 121 78 pint:PI0868|5end_exodeoxyribonuclease_VII,_large_subunit_804201..804431_POSITIVE 332 60 11 175 113 pint:PI2131|5end_hypothetical_protein_2080678..2080908_POSITIVE 331 50 1 142 92 pint:PI0099|5end_hypothetical_protein_95530..95760_POSITIVE 329 45 5 147 107 pint:PI0061|5end_hypothetical_protein_60500..60730_POSITIVE 323 46 4 148 109 pint:PI0182|5end_hypothetical_protein_174093..174323_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 391 48 5 58 16 pint:PI0770|3end_hypothetical_protein_706354..706504_POSITIVE 350 47 6 126 85 pint:PI0669|3end_hypothetical_protein_611147..611297_POSITIVE 342 42 5 131 90 pint:PI0688|3end_hypothetical_protein_625750..625900_POSITIVE 341 47 5 110 70 pint:PI1813|3end_hypothetical_protein_1753086..1753236_POSITIVE 339 100 59 42 1 pint:PI0867|3end_hypothetical_protein_804202..804352_POSITIVE 334 60 11 87 38 pint:PI2172|3end_hypothetical_protein_2113991..2114141_POSITIVE 334 60 11 60 11 pint:PI2173|3end_hypothetical_protein_2113964..2114114_POSITIVE 332 60 11 128 66 pint:PI2130|3end_DNA_polymerase_I_2080711..2080861_POSITIVE 331 50 1 64 14 pint:PI0098|3end_conserved_hypothetical_protein_(possible_glycosyl/glycerophosphate_transferase)_95532..95682_POSITIVE 329 79 31 119 57 pint:PI1715|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1632324..1632474_POSITIVE 322 50 7 118 68 pint:PI1847|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_1793849..1793999_POSITIVE 315 79 34 151 108 pint:PI2155|3end_hypothetical_protein_2101052..2101202_POSITIVE 315 46 7 61 22 pint:PI1424|3end_probable_peptidase_family_M48_1344044..1344194_POSITIVE 302 88 41 42 2 pint:PI0091|3end_hypothetical_protein_89774..89924_POSITIVE 290 59 11 124 76 pint:PI1603|3end_hypothetical_protein_1534005..1534155_POSITIVE 285 69 21 145 99 pint:PI1665|3end_thymidylate_synthase_1578804..1578954_POSITIVE 285 60 11 107 45 pint:PI0051|3end_hypothetical_protein_53388..53538_POSITIVE 278 46 5 78 38 pint:PI1117|3end_glycosyl_transferase,_family_2_1042279..1042429_POSITIVE 272 80 31 73 14 pint:PI1628|3end_hypothetical_protein_1551782..1551932_POSITIVE 267 70 28 68 18 pint:PI1785|3end_conserved_hypothetical_protein_1718104..1718254_POSITIVE