Origin IGS: aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta .........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.........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 taggcaggaattaccagcctaccaaatgtccattactaaaatacgagaggttttcagcctaccaaatgtccattacgccgaaattgctgctttttaacaaaattatctttacaaaatcaaagtgttttttgtcattttcctaaagcaagtaaaaggaaagcaactccttctgtaaatatcaactattgagtaattgcgatattagcaaggcaaagctgcatgaacgtagtattgctgtaattgactttctttttataatctgtcggtaagtatgagtatgaaatgggaaatattttcgtagtaagcaaggaagaaaacaaccacttattcttcttttaaatgaaaagattttttgaaattaattcattatttgtgctttctgaaaaataattcgataactctctttgtattatagaaaattttattaactttgtgccaaatttaaatactacgatttatacaaacaaggcgaagtaatt Mask Tandem Repeat Region ================================================ aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta Find is-nt database================================================ Query_seq: PI1291:PI1292|PI1291:PI1292:6-phosphofructokinase:conserved hypothetical protein:->->:1205767..1206245 479 aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1291:PI1292|PI1291:PI1292:6-phosphofructokinase:conserved hypothetical protein:->->:1205767..1206245 479 aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1291:PI1292|PI1291:PI1292:6-phosphofructokinase:conserved hypothetical protein:->->:1205767..1206245 479 aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 25 End: 141 ........................ M V V F K F G T K L I K F S I I Q R E L S N Y F S E S T N N E L I S K N L F I .................................................................................................................................................................................................................................................................................................................................................. Protein_Len: 45 Strand: + Start: 160 End: 294 ............................................................................................................................................................... M F S S L L T T K I F P I S Y S Y L P T D Y K K K V N Y S N T T F M Q L C L A N I A I T Q ......................................................................................................................................................................................... Protein_Len: 56 Strand: + Start: 131 End: 298 .................................................................................................................................. M F S F K R R I S G C F L P C L L R K Y F P F H T H T Y R Q I I K R K S I T A I L R S C S F A L L I S Q L L N S ..................................................................................................................................................................................... aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta 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================================================ aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 70 HP_score: -3.8 Tail_Score: -5.10029 Start: 132 End: 148 Full_Region: acaaccacttattct tctttt aaatg aaaaga ttttttgaaattaat ...................................................................................................................................tcttttaaatgaaaaga........................................................................................................................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 44 HP_score: -2.1 Tail_Score: -3.30638 Start: 310 End: 324 Full_Region: TAGTTGATATTTACA GAAGG AGTTG CTTTC CTTTTACTTGCTTTA .....................................................................................................................................................................................................................................................................................................................GAAGGAGTTGCTTTC........................................................................................................................................................... Find igs database================================================ Query_seq: PI1291:PI1292|PI1291:PI1292:6-phosphofructokinase:conserved hypothetical protein:->->:1205767..1206245 479 aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta Intra-Species Hit: Count: 1 Min: 1 Max: 479 Len: 479 Subject: pint_PI1291_PI1292|6-phosphofructokinase:conserved hypothetical protein|POSITIVE:POSITIVE|[1205767,1206245]|479 HSP 1 e-value: 0.0 bit: 950.0 Len: 479 Query Start:1 Query End:479 Subject Strand: POSITIVE Subject Start: 1 Subject End: 479 aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta aattacttcgccttgtttgtataaatcgtagtatttaaatttggcacaaagttaataaaattttctataatacaaagagagttatcgaattatttttcagaaagcacaaataatgaattaatttcaaaaaatcttttcatttaaaagaagaataagtggttgttttcttccttgcttactacgaaaatatttcccatttcatactcatacttaccgacagattataaaaagaaagtcaattacagcaatactacgttcatgcagctttgccttgctaatatcgcaattactcaatagttgatatttacagaaggagttgctttccttttacttgctttaggaaaatgacaaaaaacactttgattttgtaaagataattttgttaaaaagcagcaatttcggcgtaatggacatttggtaggctgaaaacctctcgtattttagtaatggacatttggtaggctggtaattcctgccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUACUUCGCCUUGUUUGUAUAAAUCGUAGUAUUUAAAUUUGGCACAAAGUUAAUAAAAUUUUCUAUAAUACAAAGAGAGUUAUCGAAUUAUUUUUCAGAAAGCACAAAUAAUGAAUUAAUUUCAAAAAAUCUUUUCAUUUAAAAGAAGAAUAAGUGGUUGUUUUCUUCCUUGCUUACUACGAAAAUAUUUCCCAUUUCAUACUCAUACUUACCGACAGAUUAUAAAAAGAAAGUCAAUUACAGCAAUACUACGUUCAUGCAGCUUUGCCUUGCUAAUAUCGCAAUUACUCAAUAGUUGAUAUUUACAGAAGGAGUUGCUUUCCUUUUACUUGCUUUAGGAAAAUGACAAAAAACACUUUGAUUUUGUAAAGAUAAUUUUGUUAAAAAGCAGCAAUUUCGGCGUAAUGGACAUUUGGUAGGCUGAAAACCUCUCGUAUUUUAGUAAUGGACAUUUGGUAGGCUGGUAAUUCCUGCCUA .........(((..(((((.(((........))).)))))..))).(((((((......(((..(((.(((((...(((((.....(((.(((((((.((.(((((.....((((((...((((....))))...)))))).....((((((............))))))..))))).))..))))))).)))...........(((..((((((((....((.......))..(((.(((((.((........((..(((((((((((..((((.......)))).....))).))))).)))..)).((((..(((((((((((............))))...((((((((....(((((......)))))....))))))))..)))))))..)))).))))))).)))..)))))))).)))....)))))))))).))).))).))).)))).(((((.((.....)).))))) (-90.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGCAGGAAUUACCAGCCUACCAAAUGUCCAUUACUAAAAUACGAGAGGUUUUCAGCCUACCAAAUGUCCAUUACGCCGAAAUUGCUGCUUUUUAACAAAAUUAUCUUUACAAAAUCAAAGUGUUUUUUGUCAUUUUCCUAAAGCAAGUAAAAGGAAAGCAACUCCUUCUGUAAAUAUCAACUAUUGAGUAAUUGCGAUAUUAGCAAGGCAAAGCUGCAUGAACGUAGUAUUGCUGUAAUUGACUUUCUUUUUAUAAUCUGUCGGUAAGUAUGAGUAUGAAAUGGGAAAUAUUUUCGUAGUAAGCAAGGAAGAAAACAACCACUUAUUCUUCUUUUAAAUGAAAAGAUUUUUUGAAAUUAAUUCAUUAUUUGUGCUUUCUGAAAAAUAAUUCGAUAACUCUCUUUGUAUUAUAGAAAAUUUUAUUAACUUUGUGCCAAAUUUAAAUACUACGAUUUAUACAAACAAGGCGAAGUAAUU (((((.((.....)).)))))..............(((.(((((((((((((.((..((((....(((..(((...(((((......((((((...((((((....((((........))))....)))))).........)))))).(((((((((((((((.......(((.((((((.................)))))).))).(((((.(((((......))))).)))))....))).))))))))))))......)))))....)))..)))....))))...((((((..(((.(((((.(((((((............)))))))....((((((..(((((....)))))..)))))).....))))).))).))))))....)).))).))).))))))).)))............(((((((........(((((......)))))..........))))))).... (-95.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 889 450 401 231 182 pint:PI1534|5end_ATPase/GTPase_1453679..1453909_POSITIVE 889 450 401 159 110 pint:PI0535|5end_hypothetical_protein_489508..489738_POSITIVE 632 435 392 89 45 pint:PI1294|5end_hypothetical_protein_1208490..1208720_POSITIVE 600 435 397 227 187 pint:PI1267|5end_probable_integrase_1186105..1186335_POSITIVE 592 435 401 225 192 pint:PI1269|5end_conserved_hypothetical_protein;_possible_peptidase_1188147..1188377_POSITIVE 566 435 391 155 117 pint:PI1025|5end_tRNA_modification_GTPase_940752..940982_POSITIVE 542 431 392 231 191 pint:PI1295|5end_hypothetical_protein_1208636..1208866_POSITIVE 482 425 392 120 87 pint:PI1960|5end_hypothetical_protein_1918013..1918243_POSITIVE 360 390 347 196 146 pint:PI0056|5end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_54967..55197_POSITIVE 354 405 361 176 127 pint:PI2003|5end_hypothetical_protein_1960823..1961053_POSITIVE 340 300 251 213 149 pint:PI1001|5end_hypothetical_protein_923510..923740_POSITIVE 336 390 352 44 5 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 334 410 361 138 92 pint:PI2111|5end_conserved_hypothetical_protein_2062771..2063001_POSITIVE 332 390 345 208 162 pint:PI1196|5end_hypothetical_protein_1113401..1113631_POSITIVE 331 390 341 228 177 pint:PI1910|5end_hypothetical_protein_1855778..1856008_POSITIVE 321 442 401 103 52 pint:PI2094|5end_hypothetical_protein_2049540..2049770_POSITIVE 307 300 254 231 186 pint:PI1279|5end_RNA_polymerase_sigma_factor/ECF_subfamily_(sigma-70)_1195215..1195445_POSITIVE 303 286 249 63 14 pint:PI0814|5end_conserved_hypothetical_protein_752946..753176_POSITIVE 299 423 388 122 86 pint:PI1763|5end_two-component_system_sensor_histidine_kinase/response_regulator_1685877..1686107_POSITIVE 299 410 363 166 122 pint:PI0842|5end_5-formyltetrahydrofolate_cyclo-ligase_775533..775763_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 889 450 401 61 12 pint:PI1533|3end_conserved_hypothetical_protein;_possible_transposase_1453589..1453739_POSITIVE 889 450 401 61 12 pint:PI0534|3end_conserved_hypothetical_protein;_possible_transposase_489490..489640_POSITIVE 810 450 401 61 12 pint:PI1971|3end_possible_IS1249-related_transposase_1928949..1929099_POSITIVE 566 435 391 55 17 pint:PI1024|3end_conserved_hypothetical_protein;_possible_nitroreductase_family_protein_940732..940882_POSITIVE 377 276 235 42 2 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 342 410 363 108 64 pint:PI0755|3end_hypothetical_protein_686884..687034_POSITIVE 327 405 361 149 100 pint:PI1129|3end_hypothetical_protein_1055603..1055753_POSITIVE 319 436 391 68 17 pint:PI1455|3end_hypothetical_protein_1378963..1379113_POSITIVE 306 390 359 77 46 pint:PI0061|3end_hypothetical_protein_60690..60840_POSITIVE 302 405 364 118 72 pint:PI1905|3end_hypothetical_protein_1847854..1848004_POSITIVE 301 375 331 141 97 pint:PI0851|3end_hypothetical_protein_784524..784674_POSITIVE 299 410 363 134 90 pint:PI0841|3end_hypothetical_protein_775581..775731_POSITIVE 288 405 361 107 58 pint:PI1601|3end_hypothetical_protein_1530454..1530604_POSITIVE 280 337 296 139 104 pint:PI0055|3end_hypothetical_protein_55044..55194_POSITIVE 278 210 161 124 76 pint:PI2050|3end_hypothetical_protein_2007628..2007778_POSITIVE 273 404 361 88 46 pint:PI0004|3end_hypothetical_protein_6389..6539_POSITIVE 269 329 281 88 23 pint:PI0453|3end_conserved_hypothetical_protein_427194..427344_POSITIVE 267 405 364 57 11 pint:PI0759|3end_hypothetical_protein_693998..694148_POSITIVE 267 429 390 69 19 pint:PI0406|3end_hypothetical_protein_373053..373203_POSITIVE 266 290 244 108 56 pint:PI0728|3end_integrase_661508..661658_POSITIVE