Origin IGS: taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat .........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 atcttaaatgtttgtcttgttaaatgttatacttcttcaaatgaagataaaatatttatcatctttgagattttgcaggtaaatgcaaaatgggatggtcaacctttagcaggattacccaacactgagattgaccaaccacatttgtatttcatcttctttctaaagaaatatcttccactttctaagaaaaagattta Mask Tandem Repeat Region ================================================ taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat Find is-nt database================================================ Query_seq: PI0480:PI0481|PI0480:PI0481:preprotein translocase, SecY subunit:translation initiation factor IF-1:->->:443054..443253 200 taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0480:PI0481|PI0480:PI0481:preprotein translocase, SecY subunit:translation initiation factor IF-1:->->:443054..443253 200 taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0480:PI0481|PI0480:PI0481:preprotein translocase, SecY subunit:translation initiation factor IF-1:->->:443054..443253 200 taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 4 End: 99 ... M F F L E S G R Y F F R K K M K Y K C G W S I S V L G N P A K G ..................................................................................................... Protein_Len: 60 Strand: - Start: 3 End: 200 .. P L Y K K L F F I F Y L H P Q D I E T N P L G A L P Q G D W K A N V Q L I E F I I F I K D E N S S T Y C K V L C V N L M taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat 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================================================ taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0480:PI0481|PI0480:PI0481:preprotein translocase, SecY subunit:translation initiation factor IF-1:->->:443054..443253 200 taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat Intra-Species Hit: Count: 1 Min: 1 Max: 200 Len: 200 Subject: pint_PI0480_PI0481|preprotein translocase, SecY subunit:translation initiation factor IF-1|POSITIVE:POSITIVE|[443054,443253]|200 HSP 1 e-value: 1.0E-109 bit: 396.0 Len: 200 Query Start:1 Query End:200 Subject Strand: POSITIVE Subject Start: 1 Subject End: 200 taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat taaatctttttcttagaaagtggaagatatttctttagaaagaagatgaaatacaaatgtggttggtcaatctcagtgttgggtaatcctgctaaaggttgaccatcccattttgcatttacctgcaaaatctcaaagatgataaatattttatcttcatttgaagaagtataacatttaacaagacaaacatttaagat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUCUUUUUCUUAGAAAGUGGAAGAUAUUUCUUUAGAAAGAAGAUGAAAUACAAAUGUGGUUGGUCAAUCUCAGUGUUGGGUAAUCCUGCUAAAGGUUGACCAUCCCAUUUUGCAUUUACCUGCAAAAUCUCAAAGAUGAUAAAUAUUUUAUCUUCAUUUGAAGAAGUAUAACAUUUAACAAGACAAACAUUUAAGAU (((((.(((.((((...(((((....(((((((((((((..((((((((((((...(((.((.((((((((((.(((...(((....))))))..)))))))))).)))))((((((......)))))).................)))))))))))).)))))))))))))..)))))...)))).))).))))).... (-56.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUUAAAUGUUUGUCUUGUUAAAUGUUAUACUUCUUCAAAUGAAGAUAAAAUAUUUAUCAUCUUUGAGAUUUUGCAGGUAAAUGCAAAAUGGGAUGGUCAACCUUUAGCAGGAUUACCCAACACUGAGAUUGACCAACCACAUUUGUAUUUCAUCUUCUUUCUAAAGAAAUAUCUUCCACUUUCUAAGAAAAAGAUUUA ....(((((.(((.(((((.((((((((.....(((((....)))))...))))))))...(((((.(((....(.(((((((((((((.((((.(((((((.(((.....((.....))......))).))))))).)).))))))))))).)))).)..))))))))................))))).))).))))) (-44.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 326 116 73 160 112 pint:PI1769|5end_hypothetical_protein_1696507..1696737_POSITIVE 304 127 82 192 150 pint:PI2135|5end_conserved_hypothetical_protein_2082754..2082984_POSITIVE 304 127 82 43 1 pint:PI2136|5end_hypothetical_protein_2082605..2082835_POSITIVE 292 110 63 215 155 pint:PI0233|5end_membrane_protein,_possible_exporter_231844..232074_POSITIVE 289 128 87 203 147 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 276 108 65 41 4 pint:PI2118|5end_fumarate_reductase/succinate_dehydrogenase_flavoprotein_subunit,_N-terminal_2066466..2066696_POSITIVE 274 108 61 59 8 pint:PI1651|5end_hypothetical_protein_1563845..1564075_POSITIVE 271 129 81 110 72 pint:PI0612|5end_lysyl-tRNA_synthetase_560461..560691_POSITIVE 270 127 87 180 134 pint:PI0261|5end_conjugative_transposon_protein,_TraK_254065..254295_POSITIVE 269 93 60 121 72 pint:PI0341|5end_conserved_hypothetical_protein_317038..317268_POSITIVE 268 99 53 69 9 pint:PI1452|5end_possible_nicotinamide_mononucleotide_transporter_1375353..1375583_POSITIVE 268 129 89 76 37 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 263 108 61 59 8 pint:PI0356|5end_hypothetical_protein_326642..326872_POSITIVE 253 106 62 231 172 pint:PI0672|5end_conserved_hypothetical_protein_611746..611976_POSITIVE 253 92 51 59 12 pint:PI0137|5end_lectin-like_adhesin_precursor_128865..129095_POSITIVE 252 91 56 146 110 pint:PI2168|5end_hypothetical_protein_2111286..2111516_POSITIVE 251 107 69 117 81 pint:PI0052|5end_hypothetical_protein_52312..52542_POSITIVE 249 116 71 149 110 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 244 127 81 90 42 pint:PI0304|5end_hypothetical_protein_288582..288812_POSITIVE 243 100 58 145 94 pint:PI1313|5end_possible_POT_family_(proton-dependent_oligopeptide_transport_family)_1229710..1229940_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 274 100 58 136 72 pint:PI0570|3end_exsB_protein;_possible_aluminum_resistance_protein_515395..515545_POSITIVE 256 127 81 85 45 pint:PI0805|3end_conserved_hypothetical_protein_743807..743957_POSITIVE 252 78 41 148 111 pint:PI1916|3end_conserved_hypothetical_protein_1860740..1860890_POSITIVE 245 113 76 137 94 pint:PI0876|3end_hypothetical_protein_811035..811185_POSITIVE 244 139 91 102 53 pint:PI0183|3end_hypothetical_protein_174810..174960_POSITIVE 240 100 54 69 19 pint:PI1267|3end_probable_integrase_1186475..1186625_POSITIVE 238 82 41 80 38 pint:PI2119|3end_conserved_hypothetical_protein;_possible_cytochrome_B_subunit_2068758..2068908_POSITIVE 235 100 58 134 92 pint:PI0612|3end_lysyl-tRNA_synthetase_562202..562352_POSITIVE 234 116 71 91 45 pint:PI0962|3end_phosphoglycerate_mutase_892702..892852_POSITIVE 233 114 76 67 29 pint:PI1524|3end_phosphatidylserine_decarboxylase_1446657..1446807_POSITIVE 232 85 46 128 82 pint:PI2073|3end_mobilization_protein_2033487..2033637_POSITIVE 232 92 60 126 88 pint:PI1507|3end_tRNA_pseudouridine_synthase_B_1427440..1427590_POSITIVE 230 126 81 103 61 pint:PI0222|3end_conserved_hypothetical_protein_218442..218592_POSITIVE 224 116 75 36 2 pint:PI1756|3end_conserved_hypothetical_protein_1683150..1683300_POSITIVE 221 81 58 149 123 pint:PI0948|3end_hypothetical_protein_881978..882128_POSITIVE 220 106 71 41 2 pint:PI1014|3end_prismane_protein,_hybrid-cluster_protein_936132..936282_POSITIVE 219 109 66 69 13 pint:PI0052|3end_hypothetical_protein_52715..52865_POSITIVE 217 58 11 79 12 pint:PI1701|3end_sensor_histidine_kinase_1620558..1620708_POSITIVE 217 84 41 110 66 pint:PI1474|3end_conserved_hypothetical_protein_1396969..1397119_POSITIVE 217 117 75 95 47 pint:PI1467|3end_conserved_hypothetical_protein_1393909..1394059_POSITIVE