Origin IGS: caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaagtcctccgtttataactttataattatatcacagttcagaggtttcctgcaagggtgcgaaaattcttgacaagcttataataagtacttcagtaaatctgctttattacttggattg Mask Tandem Repeat Region ================================================ caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt Find is-nt database================================================ Query_seq: TDE1997:TDE1998|TDE1997:TDE1998:hypothetical protein:phosphohexose mutase family protein:->->:2015317..2015439 123 caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1997:TDE1998|TDE1997:TDE1998:hypothetical protein:phosphohexose mutase family protein:->->:2015317..2015439 123 caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1997:TDE1998|TDE1997:TDE1998:hypothetical protein:phosphohexose mutase family protein:->->:2015317..2015439 123 caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt Predict ORF larger than 30AA ================================================ caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt 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================================================ caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1997:TDE1998|TDE1997:TDE1998:hypothetical protein:phosphohexose mutase family protein:->->:2015317..2015439 123 caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt Intra-Species Hit: Count: 1 Min: 1 Max: 123 Len: 123 Subject: NC_002967_TDE1997_TDE1998|hypothetical protein:phosphohexose mutase family protein|POSITIVE:POSITIVE|[2015317,2015439]|123 HSP 1 e-value: 6.0E-64 bit: 244.0 Len: 123 Query Start:1 Query End:123 Subject Strand: POSITIVE Subject Start: 1 Subject End: 123 caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt caatccaagtaataaagcagatttactgaagtacttattataagcttgtcaagaattttcgcacccttgcaggaaacctctgaactgtgatataattataaagttataaacggaggacttttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAUCCAAGUAAUAAAGCAGAUUUACUGAAGUACUUAUUAUAAGCUUGUCAAGAAUUUUCGCACCCUUGCAGGAAACCUCUGAACUGUGAUAUAAUUAUAAAGUUAUAAACGGAGGACUUUUU ......(((((......(((.....)))...)))))........((((.((((............))))))))...((((((((((...(((....)))..)))).....))))))....... (-19.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAGUCCUCCGUUUAUAACUUUAUAAUUAUAUCACAGUUCAGAGGUUUCCUGCAAGGGUGCGAAAAUUCUUGACAAGCUUAUAAUAAGUACUUCAGUAAAUCUGCUUUAUUACUUGGAUUG ....(((((.....(((((....))))).........(((..((((((((.((((((((((......)))))))....(((((...)))))....))).)))))).))..)))....))))). (-17.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 283 79 31 166 126 NC_002967:TDE0407|5end_glutamate_synthase_(NADPH),_homotetrameric_460522..460752_NEGATIVE 280 87 43 132 82 NC_002967:TDE0649|5end_hypothetical_protein_684363..684593_NEGATIVE 279 90 43 61 15 NC_002967:TDE0438|5end_queuine_tRNA-ribosyltransferase_494811..495041_NEGATIVE 277 73 37 189 150 NC_002967:TDE2169|5end_hypothetical_protein_2201037..2201267_POSITIVE 272 84 41 166 115 NC_002967:TDE0845|5end_conserved_hypothetical_protein_TIGR00266_867795..868025_POSITIVE 263 90 44 54 12 NC_002967:TDE0135|5end_pyridine_nucleotide-disulphide_oxidoreductase_family_protein_154927..155157_POSITIVE 252 82 41 184 125 NC_002967:TDE2738|5end_oligoendopeptidase_F,_putative_2792763..2792993_POSITIVE 249 82 41 96 58 NC_002967:TDE1362|5end_hypothetical_protein_1400992..1401222_POSITIVE 245 82 41 230 177 NC_002967:TDE0220|5end_hypothetical_protein_254005..254235_NEGATIVE 244 81 44 186 141 NC_002967:TDE0773|5end_30S_ribosomal_protein_S3_809443..809673_POSITIVE 235 83 44 149 101 NC_002967:TDE2623|5end_hypothetical_protein_2664324..2664554_NEGATIVE 235 89 45 193 133 NC_002967:TDE2537|5end_hypothetical_protein_2563266..2563496_POSITIVE 234 90 44 54 12 NC_002967:TDE1960|5end_hypothetical_protein_1974298..1974528_POSITIVE 234 83 42 115 70 NC_002967:TDE0916|5end_ABC_transporter,_ATP-binding/permease_protein_933359..933589_POSITIVE 234 86 44 121 84 NC_002967:TDE0402|5end_hypothetical_protein_454352..454582_NEGATIVE 233 79 34 216 177 NC_002967:TDE1627|5end_glycine_cleavage_system_T_protein_1676411..1676641_NEGATIVE 233 89 44 225 183 NC_002967:TDE0946|5end_hypothetical_protein_968212..968442_POSITIVE 232 71 46 47 25 NC_002967:TDE2717|5end_phosphatidate_cytidylyltransferase,_putative_2774547..2774777_NEGATIVE 229 86 43 171 129 NC_002967:TDE0644|5end_ABC_transporter,_ATP-binding_protein_680576..680806_NEGATIVE 228 86 42 86 40 NC_002967:TDE1726|5end_polyA_polymerase_family_protein_1779546..1779776_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 84 41 64 13 NC_002967:TDE0844|3end_pyruvate_phosphate_dikinase,_putative_867773..867923_POSITIVE 264 78 31 151 112 NC_002967:TDE0408|3end_oxidoreductase,_NAD-binding_460536..460686_NEGATIVE 263 90 44 57 15 NC_002967:TDE0134|3end_oxidoreductase,_FAD-dependent_155010..155160_POSITIVE 249 82 41 130 92 NC_002967:TDE1361|3end_hypothetical_protein_1401106..1401256_POSITIVE 239 105 65 49 11 NC_002967:TDE2487|3end_acetyltransferase,_GNAT_family_2510393..2510543_POSITIVE 233 79 34 148 109 NC_002967:TDE1628|3end_hypothetical_protein_1676479..1676629_NEGATIVE 232 71 46 42 20 NC_002967:TDE2718|3end_magnesium_transporter_2774552..2774702_NEGATIVE 227 90 61 33 3 NC_002967:TDE2643|3end_oxidoreductase,_FAD-dependent_2683734..2683884_POSITIVE 226 89 43 61 12 NC_002967:TDE0950|3end_hypothetical_protein_974166..974316_NEGATIVE 225 79 34 59 22 NC_002967:TDE2571|3end_hypothetical_protein_2597922..2598072_NEGATIVE 225 108 61 112 68 NC_002967:TDE1059|3end_hypothetical_protein_1086498..1086648_NEGATIVE 224 84 64 27 5 NC_002967:TDE0794|3end_hypothetical_protein_819224..819374_NEGATIVE 222 108 61 88 45 NC_002967:TDE2647|3end_lipoyltransferase_and_lipoate-protein_ligase_family_protein_2686002..2686152_NEGATIVE 221 80 31 120 78 NC_002967:TDE1622|3end_hypothetical_protein_1670820..1670970_NEGATIVE 221 90 44 54 10 NC_002967:TDE1488|3end_glyceraldehyde-3-phosphate_dehydrogenase,_type_I_1531604..1531754_NEGATIVE 221 90 45 45 1 NC_002967:TDE0452|3end_hypothetical_protein_509949..510099_NEGATIVE 220 84 44 68 33 NC_002967:TDE1963|3end_selenocysteine-specific_translation_elongation_factor_1977141..1977291_POSITIVE 219 82 44 151 104 NC_002967:TDE2624|3end_hypothetical_protein_2664321..2664471_NEGATIVE 219 93 52 63 13 NC_002967:TDE1708|3end_apolipoprotein_N-acyltransferase_1763188..1763338_NEGATIVE 218 78 44 151 108 NC_002967:TDE1334|3end_hypothetical_protein_1370874..1371024_POSITIVE