Origin IGS: gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaatataacgatatgaaaacaaaacatttcacattgctgctcatctccatactggcggtgtgcggcgcgcaggcagcagggctgtcgggcagagacatc Mask Tandem Repeat Region ================================================ gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta Find is-nt database================================================ Query_seq: PI0732:PI0733|PI0732:PI0733:conserved hypothetical protein:membrane protein; predicted exporter:->->:664428..664528 101 gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0732:PI0733|PI0732:PI0733:conserved hypothetical protein:membrane protein; predicted exporter:->->:664428..664528 101 gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0732:PI0733|PI0732:PI0733:conserved hypothetical protein:membrane protein; predicted exporter:->->:664428..664528 101 gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 2 End: 100 . M S L P D S P A A C A P H T A S M E M S S N V K C F V F I S L Y F . gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta 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================================================ gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0732:PI0733|PI0732:PI0733:conserved hypothetical protein:membrane protein; predicted exporter:->->:664428..664528 101 gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta Intra-Species Hit: Count: 1 Min: 1 Max: 101 Len: 101 Subject: pint_PI0732_PI0733|conserved hypothetical protein:membrane protein; predicted exporter|POSITIVE:POSITIVE|[664428,664528]|101 HSP 1 e-value: 6.0E-51 bit: 200.0 Len: 101 Query Start:1 Query End:101 Subject Strand: POSITIVE Subject Start: 1 Subject End: 101 gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta gatgtctctgcccgacagccctgctgcctgcgcgccgcacaccgccagtatggagatgagcagcaatgtgaaatgttttgttttcatatcgttatatttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGUCUCUGCCCGACAGCCCUGCUGCCUGCGCGCCGCACACCGCCAGUAUGGAGAUGAGCAGCAAUGUGAAAUGUUUUGUUUUCAUAUCGUUAUAUUUUA ...((((((......((((...)))).(((.(((........))))))...))))))....(((.((((((((........)))))))).)))........ (-22.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUAUAACGAUAUGAAAACAAAACAUUUCACAUUGCUGCUCAUCUCCAUACUGGCGGUGUGCGGCGCGCAGGCAGCAGGGCUGUCGGGCAGAGACAUC ............................((((.....(((((.((((.((.....)).)))).)))))..((.((((((...))))))..)).)))).... (-29.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 476 60 12 114 41 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 465 50 2 66 3 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 437 50 2 161 104 pint:PI0285|5end_succinyltransferase_protein_270097..270327_POSITIVE 431 56 13 223 179 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 431 56 13 56 12 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 395 41 8 72 33 pint:PI0734|5end_ABC_transporter,_ATP-binding_/_permease_667052..667282_POSITIVE 390 47 4 84 29 pint:PI0259|5end_conserved_protein_found_in_conjugation,_TraI_252355..252585_POSITIVE 388 47 10 230 170 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 387 50 3 105 52 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 380 49 2 166 103 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 380 51 11 88 36 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 378 49 3 161 120 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 376 37 3 52 13 pint:PI0221|5end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_212356..212586_POSITIVE 375 60 13 218 166 pint:PI1001|5end_hypothetical_protein_923510..923740_POSITIVE 375 70 21 99 50 pint:PI0176|5end_hypothetical_protein_168230..168460_POSITIVE 373 59 12 105 30 pint:PI0005|5end_hypothetical_protein_6984..7214_POSITIVE 372 39 1 217 159 pint:PI0250|5end_hypothetical_protein_246946..247176_POSITIVE 368 69 21 90 30 pint:PI1609|5end_Na+/H+_anti-porter_1536058..1536288_POSITIVE 367 60 11 95 26 pint:PI0052|5end_hypothetical_protein_52312..52542_POSITIVE 365 70 22 214 161 pint:PI0418|5end_hypothetical_protein_386666..386896_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 476 60 12 105 32 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 437 50 2 141 84 pint:PI0284|3end_flavoprotein_A_270157..270307_POSITIVE 381 49 13 151 108 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 380 59 11 62 11 pint:PI0091|3end_hypothetical_protein_89774..89924_POSITIVE 369 45 3 67 20 pint:PI0111|3end_hypothetical_protein_108265..108415_POSITIVE 364 46 9 57 4 pint:PI1608|3end_possible_Na+/H+_anti-porter_1536300..1536450_POSITIVE 361 60 12 76 8 pint:PI0696|3end_NADH_pyrophosphatase,_MutT_family_hydrolase_(NAD+_diphosphatase)_633600..633750_POSITIVE 353 47 4 130 75 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 348 46 1 144 81 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 347 53 12 94 36 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 347 56 13 101 47 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 344 58 11 135 77 pint:PI0456|3end_30S_ribosomal_protein_S12_429219..429369_POSITIVE 343 60 12 121 51 pint:PI0728|3end_integrase_661508..661658_POSITIVE 341 47 9 123 92 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 337 44 3 56 10 pint:PI0999|3end_hypothetical_protein_922812..922962_POSITIVE 332 59 15 118 73 pint:PI0817|3end_glycosyl_transferase,_group_1_family_protein_758209..758359_POSITIVE 331 48 3 144 92 pint:PI2122|3end_conserved_hypothetical_protein_2070480..2070630_POSITIVE 329 48 9 147 92 pint:PI1493|3end_conserved_hypothetical_protein_1412818..1412968_POSITIVE 329 56 11 63 3 pint:PI0206|3end_TPR-repeat-containing_protein_199856..200006_POSITIVE 326 60 12 142 82 pint:PI1716|3end_hypothetical_protein_1632006..1632156_POSITIVE