Origin IGS: taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taactttactccacaataacacaaaagacaccccatttgcttgaggtgtcttttttttatctaaatcgtaagggttcttttgtttagttttgtaaaaataattctgttaaaaagtgataactgcgctttgacgttgcgaaagcggctcttttgcgatgcaaaaccta Mask Tandem Repeat Region ================================================ taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta Find is-nt database================================================ Query_seq: PI0759:PI0760|PI0759:PI0760:hypothetical protein:ATP-dependent RNA helicase, DEAD/DEAH box family:->->:694059..694225 167 taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0759:PI0760|PI0759:PI0760:hypothetical protein:ATP-dependent RNA helicase, DEAD/DEAH box family:->->:694059..694225 167 taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0759:PI0760|PI0759:PI0760:hypothetical protein:ATP-dependent RNA helicase, DEAD/DEAH box family:->->:694059..694225 167 taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 2 End: 103 . P K A D C F L R K R L T L A C N D S K L L I I K V F S F L L V R V M ................................................................ taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta 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================================================ taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 75 HP_score: -9.0 Tail_Score: -3.48824 Start: 113 End: 146 Full_Region: TACGATTTAGATAAA AAAAAGACACCTCA AGCAAA TGGGGTGTCTTTTG TGTTATTGTGGAGTA ................................................................................................................AAAAAGACACCTCAAGCAAATGGGGTGTCTTTTG..................... TransTerm Strand: + Conf: 100 HP_score: -8.9 Tail_Score: -4.82162 Start: 118 End: 141 Full_Region: TTTAGATAAAAAAAA GACACCTCA AGCAAA TGGGGTGTC TTTTGTGTTATTGTG .....................................................................................................................GACACCTCAAGCAAATGGGGTGTC.......................... Find igs database================================================ Query_seq: PI0759:PI0760|PI0759:PI0760:hypothetical protein:ATP-dependent RNA helicase, DEAD/DEAH box family:->->:694059..694225 167 taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta Intra-Species Hit: Count: 1 Min: 1 Max: 167 Len: 167 Subject: pint_PI0759_PI0760|hypothetical protein:ATP-dependent RNA helicase, DEAD/DEAH box family|POSITIVE:POSITIVE|[694059,694225]|167 HSP 1 e-value: 9.0E-76 bit: 283.0 Len: 167 Query Start:1 Query End:167 Subject Strand: POSITIVE Subject Start: 1 Subject End: 167 taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagatnnnnnnnngacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta taggttttgcatcgcaaaagagccgctttcgcaacgtcaaagcgcagttatcactttttaacagaattatttttacaaaactaaacaaaagaacccttacgatttagataaaaaaaagacacctcaagcaaatggggtgtcttttgtgttattgtggagtaaagtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUUGCAUCGCAAAAGAGCCGCUUUCGCAACGUCAAAGCGCAGUUAUCACUUUUUAACAGAAUUAUUUUUACAAAACUAAACAAAAGAACCCUUACGAUUUAGAUAAAAAAAAGACACCUCAAGCAAAUGGGGUGUCUUUUGUGUUAUUGUGGAGUAAAGUUA ..(((((((............((.(((((.((...)).))))))).((((........)))).............))))))).........(((..((((......(((((..(((((((((((((......)))))))))))))...))))).....)))).))). (-38.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACUUUACUCCACAAUAACACAAAAGACACCCCAUUUGCUUGAGGUGUCUUUUUUUUAUCUAAAUCGUAAGGGUUCUUUUGUUUAGUUUUGUAAAAAUAAUUCUGUUAAAAAGUGAUAACUGCGCUUUGACGUUGCGAAAGCGGCUCUUUUGCGAUGCAAAACCUA ...((((((.............((((((((((.((......)).)))))))))).............))))))........((((.((.((((((((.............((((((.......))))))...(((((....)))))..)))))))).)).))))... (-40.97) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 851 47 1 231 185 pint:PI2046|5end_hypothetical_protein_1999030..1999260_POSITIVE 844 50 2 49 1 pint:PI1064|5end_hypothetical_protein_983071..983301_POSITIVE 840 50 1 82 33 pint:PI0089|5end_hypothetical_protein_88162..88392_POSITIVE 838 50 1 82 33 pint:PI0568|5end_hypothetical_protein_512950..513180_POSITIVE 823 60 11 219 171 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 822 49 1 140 92 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 822 49 1 57 9 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 792 50 1 228 179 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 777 60 14 53 7 pint:PI1041|5end_hypothetical_protein_960443..960673_POSITIVE 773 50 1 101 52 pint:PI2022|5end_hypothetical_protein_1978631..1978861_POSITIVE 773 50 1 55 6 pint:PI2023|5end_hypothetical_protein_1978585..1978815_POSITIVE 703 50 1 141 92 pint:PI0119|5end_hypothetical_protein_111506..111736_POSITIVE 682 50 1 97 48 pint:PI1204|5end_hypothetical_protein_1124430..1124660_POSITIVE 661 79 31 130 82 pint:PI1702|5end_hypothetical_protein_1620587..1620817_POSITIVE 648 70 21 183 134 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 636 50 4 87 41 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 634 49 4 227 182 pint:PI1437|5end_hypothetical_protein_1356088..1356318_POSITIVE 634 49 4 100 55 pint:PI1436|5end_hypothetical_protein_1355961..1356191_POSITIVE 634 50 1 79 30 pint:PI0638|5end_hypothetical_protein_582218..582448_POSITIVE 619 70 23 48 1 pint:PI1540|5end_hypothetical_protein_1461362..1461592_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 838 50 1 107 58 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE 736 50 1 134 85 pint:PI0819|3end_hypothetical_protein_759919..760069_POSITIVE 694 50 3 134 84 pint:PI0560|3end_hypothetical_protein_508910..509060_POSITIVE 649 50 1 51 2 pint:PI0574|3end_hypothetical_protein_519444..519594_POSITIVE 545 84 41 45 2 pint:PI0010|3end_conserved_hypothetical_protein_11679..11829_POSITIVE 514 44 3 150 106 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 480 80 31 51 2 pint:PI2021|3end_DNA_repair_protein_1978631..1978781_POSITIVE 466 49 3 64 15 pint:PI1520|3end_hypothetical_protein_1441370..1441520_POSITIVE 460 44 3 150 106 pint:PI1521|3end_hypothetical_protein_1441461..1441611_POSITIVE 448 43 1 149 108 pint:PI0551|3end_hypothetical_protein_502683..502833_POSITIVE 419 43 1 149 108 pint:PI2131|3end_hypothetical_protein_2080868..2081018_POSITIVE 391 45 4 149 105 pint:PI0182|3end_hypothetical_protein_174277..174427_POSITIVE 352 155 111 79 29 pint:PI1365|3end_conserved_hypothetical_protein;_probable_transmembrane_protein_1285675..1285825_POSITIVE 338 66 25 41 1 pint:PI1203|3end_conserved_hypothetical_protein_1124439..1124589_POSITIVE 329 45 3 71 26 pint:PI1861|3end_hypothetical_protein_1806114..1806264_POSITIVE 328 43 3 149 107 pint:PI2011|3end_hypothetical_protein_1970730..1970880_POSITIVE 325 58 15 137 100 pint:PI1761|3end_hypothetical_protein_1684543..1684693_POSITIVE 313 43 3 148 109 pint:PI1905|3end_hypothetical_protein_1847854..1848004_POSITIVE 311 43 4 149 111 pint:PI0158|3end_hypothetical_protein_151298..151448_POSITIVE 304 79 51 31 3 pint:PI1379|3end_hypothetical_protein_1302292..1302442_POSITIVE