Origin IGS: aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatataaattctcgaaagagagtttgtacagattgatttttaaagcactataatagaattatccctttcatcttaataggtgtaagggatatttgtgtttatgaagaaaatagtacttacaggtggaccgtgtgcaggtaaaacgaccgccttggtgaaaatt Mask Tandem Repeat Region ================================================ aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta Find is-nt database================================================ Query_seq: PI1147:PI1148|PI1147:PI1148:conserved hypothetical protein:50S ribosomal protein L9:->->:1074830..1074993 164 aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1147:PI1148|PI1147:PI1148:conserved hypothetical protein:50S ribosomal protein L9:->->:1074830..1074993 164 aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1147:PI1148|PI1147:PI1148:conserved hypothetical protein:50S ribosomal protein L9:->->:1074830..1074993 164 aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta Predict ORF larger than 30AA ================================================ aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta 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================================================ aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -11.0 Tail_Score: -4.40003 Start: 73 End: 104 Full_Region: gcactataatagaat tatccctttcatct taat aggtgtaagggata tttgtgtttatgaag ........................................................................tatccctttcatcttaataggtgtaagggata............................................................ Find igs database================================================ Query_seq: PI1147:PI1148|PI1147:PI1148:conserved hypothetical protein:50S ribosomal protein L9:->->:1074830..1074993 164 aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta Intra-Species Hit: Count: 1 Min: 1 Max: 164 Len: 164 Subject: pint_PI1147_PI1148|conserved hypothetical protein:50S ribosomal protein L9|POSITIVE:POSITIVE|[1074830,1074993]|164 HSP 1 e-value: 3.0E-88 bit: 325.0 Len: 164 Query Start:1 Query End:164 Subject Strand: POSITIVE Subject Start: 1 Subject End: 164 aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta aattttcaccaaggcggtcgttttacctgcacacggtccacctgtaagtactattttcttcataaacacaaatatcccttacacctattaagatgaaagggataattctattatagtgctttaaaaatcaatctgtacaaactctctttcgagaatttatatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUCACCAAGGCGGUCGUUUUACCUGCACACGGUCCACCUGUAAGUACUAUUUUCUUCAUAAACACAAAUAUCCCUUACACCUAUUAAGAUGAAAGGGAUAAUUCUAUUAUAGUGCUUUAAAAAUCAAUCUGUACAAACUCUCUUUCGAGAAUUUAUAUUA (((((((....(((.((((((...........)))).)).)))..(((((((((..................((((((((.((.((....)).)).))))))))........))))))))).............................)))))))....... (-29.17) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUAAAUUCUCGAAAGAGAGUUUGUACAGAUUGAUUUUUAAAGCACUAUAAUAGAAUUAUCCCUUUCAUCUUAAUAGGUGUAAGGGAUAUUUGUGUUUAUGAAGAAAAUAGUACUUACAGGUGGACCGUGUGCAGGUAAAACGACCGCCUUGGUGAAAAUU ...(((((((((((....)))))))))))......(((((((((((.(((((((((.((.((((((((.(((((....))))).)))))))).)).))))..........))))).)))..((((((..(((...........))).))))))...)))))))) (-48.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 44 8 213 176 pint:PI2074|5end_conserved_hypothetical_protein_2033660..2033890_POSITIVE 322 47 3 54 10 pint:PI2012|5end_hypothetical_protein_1970807..1971037_POSITIVE 315 64 21 92 47 pint:PI0035|5end_NAD-dependent_protein_deacetylase,_SIR2_family_37873..38103_POSITIVE 313 60 16 142 86 pint:PI0985|5end_aspartyl-tRNA_synthetase_910174..910404_POSITIVE 303 56 14 93 46 pint:PI1971|5end_possible_IS1249-related_transposase_1928027..1928257_POSITIVE 303 56 14 93 46 pint:PI1533|5end_conserved_hypothetical_protein;_possible_transposase_1452667..1452897_POSITIVE 303 56 14 93 46 pint:PI0534|5end_conserved_hypothetical_protein;_possible_transposase_488568..488798_POSITIVE 297 55 13 71 29 pint:PI0959|5end_uridine_kinase_890495..890725_POSITIVE 293 48 9 162 123 pint:PI1448|5end_hypothetical_protein_1371579..1371809_POSITIVE 289 47 3 111 66 pint:PI1764|5end_conserved_hypothetical_protein_1688948..1689178_POSITIVE 287 43 8 43 1 pint:PI0692|5end_iron_compound_ABC_transporter,_permease_protein_627350..627580_POSITIVE 281 60 13 103 47 pint:PI0259|5end_conserved_protein_found_in_conjugation,_TraI_252355..252585_POSITIVE 279 45 7 209 159 pint:PI1811|5end_conserved_hypothetical_protein_1749518..1749748_POSITIVE 278 50 12 62 13 pint:PI1819|5end_hypothetical_protein_1756620..1756850_POSITIVE 276 60 16 180 146 pint:PI1002|5end_metal_dependent_hydrolase_923842..924072_POSITIVE 273 60 11 128 93 pint:PI0272|5end_conserved_hypothetical_protein_262621..262851_POSITIVE 271 49 13 67 19 pint:PI0837|5end_conserved_hypothetical_protein_772308..772538_POSITIVE 266 35 8 55 21 pint:PI0755|5end_hypothetical_protein_686691..686921_POSITIVE 263 50 6 96 41 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 262 50 13 118 80 pint:PI1402|5end_3-deoxy-7-phosphoheptulonate_synthase_1322935..1323165_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 70 27 148 109 pint:PI0734|3end_ABC_transporter,_ATP-binding_/_permease_668760..668910_POSITIVE 306 48 10 140 107 pint:PI0938|3end_hypothetical_protein_869541..869691_POSITIVE 306 48 10 117 84 pint:PI0937|3end_hypothetical_protein_869518..869668_POSITIVE 306 48 10 63 30 pint:PI0936|3end_conserved_hypothetical_protein_869464..869614_POSITIVE 297 55 13 65 23 pint:PI0958|3end_G:T/U_mismatch-specific_DNA_glycosylase_890569..890719_POSITIVE 282 60 19 32 1 pint:PI0984|3end_hypothetical_protein_910144..910294_POSITIVE 271 49 13 52 4 pint:PI0836|3end_conserved_hypothetical_protein_772373..772523_POSITIVE 270 54 12 150 111 pint:PI0407|3end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_374147..374297_POSITIVE 261 45 1 76 33 pint:PI0634|3end_conserved_hypothetical_protein_581121..581271_POSITIVE 259 53 13 43 4 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 259 36 10 63 39 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 252 60 12 133 77 pint:PI1712|3end_hypothetical_protein_1627774..1627924_POSITIVE 251 118 89 120 87 pint:PI1987|3end_conserved_hypothetical_protein;_possible_outer_outer_membrane_lipoprotein_Omp28_1942400..1942550_POSITIVE 251 52 16 145 105 pint:PI0205|3end_deoxyuridine_5'-triphosphate_nucleotidohydrolase_198095..198245_POSITIVE 250 48 1 141 92 pint:PI1773|3end_alpha-amylase_(neopullulanase)_1706107..1706257_POSITIVE 249 46 7 63 27 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 248 60 12 151 101 pint:PI0680|3end_hypothetical_protein_618633..618783_POSITIVE 244 58 11 143 95 pint:PI1999|3end_hypothetical_protein_1956668..1956818_POSITIVE 244 36 13 45 22 pint:PI1647|3end_hypothetical_protein_1562531..1562681_POSITIVE 244 70 27 76 22 pint:PI1003|3end_conserved_hypothetical_protein_925718..925868_POSITIVE