Origin IGS: tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt .........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 aatattgttatatatttaaaatgtgaatactgaatactaagtatttatttgcaaatatacccttttattttgtgaacaccaaaccttaagggaagattaacctgtatgactgttaaattatacatatttcttgatttaagcgaagaattgccgcacaaaaccaatggaaagccctacacacggaaaaatatgttctgttggaataaaagatatttca Mask Tandem Repeat Region ================================================ tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt Find is-nt database================================================ Query_seq: PI0546:PI0547|PI0546:PI0547:hypothetical protein:fructose-bisphosphate aldolase:->->:498299..498515 217 tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0546:PI0547|PI0546:PI0547:hypothetical protein:fructose-bisphosphate aldolase:->->:498299..498515 217 tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0546:PI0547|PI0546:PI0547:hypothetical protein:fructose-bisphosphate aldolase:->->:498299..498515 217 tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 7 End: 102 ...... M F Y S N R T Y F S V C R A F H W F C A A I L R L N Q E I C I I ................................................................................................................... Protein_Len: 39 Strand: + Start: 54 End: 170 ..................................................... M V L C G N S S L K S R N M Y N L T V I Q V N L P L R F G V H K I K G Y I C K ............................................... Protein_Len: 37 Strand: - Start: 2 End: 112 . F Y R K N W C F M N K R T Y P K G N T K H P L E E S L D L F I Y L K V T M ......................................................................................................... tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt 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================================================ tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0546:PI0547|PI0546:PI0547:hypothetical protein:fructose-bisphosphate aldolase:->->:498299..498515 217 tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt Intra-Species Hit: Count: 1 Min: 1 Max: 217 Len: 217 Subject: pint_PI0546_PI0547|hypothetical protein:fructose-bisphosphate aldolase|POSITIVE:POSITIVE|[498299,498515]|217 HSP 1 e-value: 1.0E-120 bit: 430.0 Len: 217 Query Start:1 Query End:217 Subject Strand: POSITIVE Subject Start: 1 Subject End: 217 tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt tgaaatatcttttattccaacagaacatatttttccgtgtgtagggctttccattggttttgtgcggcaattcttcgcttaaatcaagaaatatgtataatttaacagtcatacaggttaatcttcccttaaggtttggtgttcacaaaataaaagggtatatttgcaaataaatacttagtattcagtattcacattttaaatatataacaatatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAAUAUCUUUUAUUCCAACAGAACAUAUUUUUCCGUGUGUAGGGCUUUCCAUUGGUUUUGUGCGGCAAUUCUUCGCUUAAAUCAAGAAAUAUGUAUAAUUUAACAGUCAUACAGGUUAAUCUUCCCUUAAGGUUUGGUGUUCACAAAAUAAAAGGGUAUAUUUGCAAAUAAAUACUUAGUAUUCAGUAUUCACAUUUUAAAUAUAUAACAAUAUU ........((((((((......((((((......((...((.((((.......(((((((...((((.......))))..)))))))..(((.(((((.((......)).))))).)))......)))))).))....))))))....)))))))).(((((((((.((((.((((((........))))))...)))))))))))))......... (-35.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUAUUGUUAUAUAUUUAAAAUGUGAAUACUGAAUACUAAGUAUUUAUUUGCAAAUAUACCCUUUUAUUUUGUGAACACCAAACCUUAAGGGAAGAUUAACCUGUAUGACUGUUAAAUUAUACAUAUUUCUUGAUUUAAGCGAAGAAUUGCCGCACAAAACCAAUGGAAAGCCCUACACACGGAAAAAUAUGUUCUGUUGGAAUAAAAGAUAUUUCA ..........(((((((.....(((((((((........)))))))))....)))))))..(((((((((((((..((.....(((((((..((((......(((((((........)))))))....))))..)))))).)......))...)))))).(((((((((..((........)).........))))))))).)))))))........ (-37.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 380 80 32 205 143 pint:PI0334|5end_hypothetical_protein_313234..313464_POSITIVE 337 79 33 92 33 pint:PI1647|5end_hypothetical_protein_1561564..1561794_POSITIVE 335 79 31 73 24 pint:PI1627|5end_hypothetical_protein_1550445..1550675_POSITIVE 331 69 26 84 33 pint:PI0906|5end_hypothetical_protein_835653..835883_POSITIVE 324 78 38 43 2 pint:PI0585|5end_conserved_hypothetical_protein_532660..532890_POSITIVE 323 79 31 229 189 pint:PI0580|5end_Holliday_junction_DNA_helicase_524178..524408_POSITIVE 313 79 37 201 154 pint:PI0208|5end_possible_peptidase,_M23/M37_family_200676..200906_POSITIVE 312 80 35 196 149 pint:PI0546|5end_hypothetical_protein_497799..498029_POSITIVE 308 77 33 53 2 pint:PI0097|5end_aspartate_aminotransferase_93235..93465_POSITIVE 308 77 31 187 138 pint:PI0040|5end_conserved_hypothetical_protein_(possible_integral_membrane_protein)_41010..41240_POSITIVE 300 79 37 112 61 pint:PI1690|5end_transcription_regulator;_possible_Fe2+/Zn2+_uptake_regulation_proteins_1604984..1605214_POSITIVE 300 80 36 77 33 pint:PI0797|5end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735016..735246_POSITIVE 293 69 22 66 15 pint:PI1987|5end_conserved_hypothetical_protein;_possible_outer_outer_membrane_lipoprotein_Omp28_1941556..1941786_POSITIVE 293 67 21 201 151 pint:PI1310|5end_LysM_domain_protein_1227262..1227492_POSITIVE 291 70 24 127 74 pint:PI1844|5end_hypothetical_protein_1790092..1790322_POSITIVE 289 78 31 229 183 pint:PI1931|5end_alpha_glycan_phosphorylase,_maltodextrin_phosphorylase_1875456..1875686_POSITIVE 288 68 21 159 113 pint:PI0733|5end_membrane_protein;_predicted_exporter_664389..664619_POSITIVE 285 77 36 211 172 pint:PI0288|5end_hypothetical_protein_(possible_ISPg3-related_transposase)_272272..272502_POSITIVE 281 79 37 209 166 pint:PI1684|5end_dimethyladenosine_transferase_1601073..1601303_POSITIVE 278 77 31 91 35 pint:PI1832|5end_conserved_hypothetical_protein_1773161..1773391_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 352 79 33 135 83 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 335 79 31 70 21 pint:PI1626|3end_hypothetical_protein_1550522..1550672_POSITIVE 315 78 33 106 52 pint:PI0343|3end_hypothetical_protein_317920..318070_POSITIVE 313 70 21 58 12 pint:PI1395|3end_hypothetical_protein_1314407..1314557_POSITIVE 291 87 43 83 37 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 288 68 21 57 11 pint:PI0732|3end_conserved_hypothetical_protein_664367..664517_POSITIVE 285 80 35 104 39 pint:PI1572|3end_hypothetical_protein_1498215..1498365_POSITIVE 278 85 47 105 70 pint:PI1943|3end_hypothetical_protein_1902206..1902356_POSITIVE 276 79 37 123 81 pint:PI0035|3end_NAD-dependent_protein_deacetylase,_SIR2_family_38642..38792_POSITIVE 274 79 32 80 31 pint:PI0259|3end_conserved_protein_found_in_conjugation,_TraI_253043..253193_POSITIVE 273 79 34 151 92 pint:PI1192|3end_carboxynorspermidine_decarboxylase_1112353..1112503_POSITIVE 273 69 26 123 78 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE 272 80 31 101 57 pint:PI0257|3end_conjugative_transposon_protein,_TraF_249802..249952_POSITIVE 270 66 35 135 98 pint:PI0363|3end_hypothetical_protein_333760..333910_POSITIVE 268 80 31 100 43 pint:PI1649|3end_hypothetical_protein_1563441..1563591_POSITIVE 268 80 38 140 94 pint:PI0337|3end_hypothetical_protein_315402..315552_POSITIVE 267 79 35 65 22 pint:PI0728|3end_integrase_661508..661658_POSITIVE 265 80 39 112 68 pint:PI2145|3end_hypothetical_protein_2092649..2092799_POSITIVE 265 70 21 97 34 pint:PI0348|3end_conserved_hypothetical_protein_323211..323361_POSITIVE 264 78 35 112 61 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE