Origin IGS: tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa .........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 tttttattcacctctaacttaaaaaatagtatatcttattttttacaagaatgtctatatgtaagtcttgcacaaaatcatattatgttataacatagtagatataagataacataacaatcttatcttgtttaaactaacacaagtctagaacaaaccggaataagaatagttacttatacaagtaaatggaggaaaaa Mask Tandem Repeat Region ================================================ tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa Find is-nt database================================================ Query_seq: TDE0013:TDE0014|TDE0013:TDE0014:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:hypothetical protein:<-->:18730..18929 200 tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0013:TDE0014|TDE0013:TDE0014:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:hypothetical protein:<-->:18730..18929 200 tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0013:TDE0014|TDE0013:TDE0014:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:hypothetical protein:<-->:18730..18929 200 tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa Predict ORF larger than 30AA ================================================ tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa 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================================================ tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0013:TDE0014|TDE0013:TDE0014:methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:hypothetical protein:<-->:18730..18929 200 tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 200 Len: 200 Subject: NC_002967_TDE0013_TDE0014|methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase:hypothetical protein|NEGATIVE:POSITIVE|[18730,18929]|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 tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa tttttcctccatttacttgtataagtaactattcttattccggtttgttctagacttgtgttagtttaaacaagataagattgttatgttatcttatatctactatgttataacataatatgattttgtgcaagacttacatatagacattcttgtaaaaaataagatatactattttttaagttagaggtgaataaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUCCUCCAUUUACUUGUAUAAGUAACUAUUCUUAUUCCGGUUUGUUCUAGACUUGUGUUAGUUUAAACAAGAUAAGAUUGUUAUGUUAUCUUAUAUCUACUAUGUUAUAACAUAAUAUGAUUUUGUGCAAGACUUACAUAUAGACAUUCUUGUAAAAAAUAAGAUAUACUAUUUUUUAAGUUAGAGGUGAAUAAAAA .(((.((((......((((((((((.......(((((((...(((((..((.(((....)))))..)))))..))))))).(((((((((((..((((.....))))..)))))))))))....))))))))))(((((...((((....((((((.....))))))....))))....)))))..)))).)))...... (-43.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUAUUCACCUCUAACUUAAAAAAUAGUAUAUCUUAUUUUUUACAAGAAUGUCUAUAUGUAAGUCUUGCACAAAAUCAUAUUAUGUUAUAACAUAGUAGAUAUAAGAUAACAUAACAAUCUUAUCUUGUUUAAACUAACACAAGUCUAGAACAAACCGGAAUAAGAAUAGUUACUUAUACAAGUAAAUGGAGGAAAAA ..........((((((.................(((((((((....((((.(((...(((((..((((((......(((.((((((((....))))))))))).)))))).)))))))).))))...((((((..(((......)))...))))))...)))))))))....((((((....)))))).))))))..... (-36.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 758 60 11 151 102 NC_002967:TDE0013|5end_methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase_18639..18869_NEGATIVE 282 49 1 133 95 NC_002967:TDE1521|5end_fumarate_hydratase_1567211..1567441_POSITIVE 251 133 94 127 88 NC_002967:TDE1298|5end_cyclic_nucleotide_binding_domain_protein_1335315..1335545_NEGATIVE 236 65 29 79 40 NC_002967:TDE0453|5end_hypothetical_protein_510364..510594_NEGATIVE 232 152 120 147 114 NC_002967:TDE1551|5end_lipoyltransferase_and_lipoate-protein_ligase_family_protein_1595533..1595763_NEGATIVE 230 46 1 146 91 NC_002967:TDE0320|5end_CBS_domain_protein_353778..354008_NEGATIVE 224 65 29 231 191 NC_002967:TDE0523|5end_hypothetical_protein_569831..570061_NEGATIVE 222 55 25 186 153 NC_002967:TDE0239|5end_glycine_reductase_complex_protein_GrdD_272982..273212_NEGATIVE 217 69 29 146 109 NC_002967:TDE1087|5end_cytidylate_kinase_1118670..1118900_POSITIVE 215 50 1 103 45 NC_002967:TDE1105|5end_ribosome-binding_factor_A_1138199..1138429_NEGATIVE 211 80 35 146 105 NC_002967:TDE2079|5end_sigma-54_dependent_transcriptional_regulator,_putative_2109035..2109265_NEGATIVE 207 26 4 205 184 NC_002967:TDE0472|5end_hypothetical_protein_528376..528606_POSITIVE 204 43 1 140 95 NC_002967:TDE1286|5end_TPR_domain_protein_1322057..1322287_POSITIVE 203 139 91 226 178 NC_002967:TDE0760|5end_hypothetical_protein_799436..799666_POSITIVE 201 67 28 39 3 NC_002967:TDE0859|5end_hypothetical_protein_880100..880330_POSITIVE 199 74 34 154 121 NC_002967:TDE0883|5end_16S_rRNA_processing_protein_RimM_901685..901915_POSITIVE 198 60 20 65 20 NC_002967:TDE0313|5end_TrkA_domain_protein_345374..345604_POSITIVE 197 60 30 136 91 NC_002967:TDE1004|5end_flagellar_filament_core_protein_1030136..1030366_NEGATIVE 195 80 37 81 21 NC_002967:TDE2430|5end_bacteriocin_ABC_transporter,_bacteriocin-binding_protein,_putative_2459173..2459403_NEGATIVE 195 78 33 62 10 NC_002967:TDE2381|5end_histidine_kinase-related_ATPase,_putative_2411069..2411299_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 282 49 1 118 80 NC_002967:TDE1520|3end_fumarate_hydratase_1567276..1567426_POSITIVE 237 61 32 30 1 NC_002967:TDE2631|3end_peptide_ABC_transporter,_permease_protein,_putative_2672733..2672883_POSITIVE 230 46 1 149 94 NC_002967:TDE0321|3end_CBS_domain_protein_353775..353925_NEGATIVE 217 118 73 112 56 NC_002967:TDE2744|3end_type_I_restriction-modification_system,_S_subunit_2798255..2798405_NEGATIVE 217 69 29 128 91 NC_002967:TDE1086|3end_conserved_hypothetical_protein_TIGR00255_1118732..1118882_POSITIVE 215 50 1 110 52 NC_002967:TDE1106|3end_translation_initiation_factor_IF-2_1138192..1138342_NEGATIVE 211 80 35 132 91 NC_002967:TDE2080|3end_cytidylate_kinase/ribosomal_protein_S1_2109049..2109199_NEGATIVE 204 43 1 74 29 NC_002967:TDE1285|3end_flagellar_motor_switch_protein_FliG_,_putative_1322071..1322221_POSITIVE 201 58 11 137 89 NC_002967:TDE0448|3end_deoxyribose-phosphate_aldolase_506526..506676_POSITIVE 201 60 21 95 51 NC_002967:TDE0319|3end_hypothetical_protein_352547..352697_POSITIVE 200 67 35 33 2 NC_002967:TDE0648|3end_protein-glutamate_methylesterase_683998..684148_POSITIVE 199 74 34 151 118 NC_002967:TDE0882|3end_hypothetical_protein_901762..901912_POSITIVE 198 60 20 50 5 NC_002967:TDE0312|3end_potassium_uptake_protein,_TrkH_family_345439..345589_POSITIVE 195 80 37 84 24 NC_002967:TDE2431|3end_bacteriocin_ABC_transporter,_ATP-binding/permease_protein,_putative_2459170..2459320_NEGATIVE 195 52 29 24 1 NC_002967:TDE1396|3end_hypothetical_protein_1436127..1436277_POSITIVE 194 50 10 130 88 NC_002967:TDE2528|3end_hypothetical_protein_2556220..2556370_NEGATIVE 194 42 4 143 107 NC_002967:TDE1953|3end_transcriptional_regulator,_TetR_family_1969030..1969180_NEGATIVE 193 79 36 98 52 NC_002967:TDE1648|3end_hypothetical_protein_1696486..1696636_NEGATIVE 192 45 4 109 69 NC_002967:TDE1415|3end_nucleotidyl_transferase/aminotransferase,_class_V_1459871..1460021_POSITIVE 190 60 14 115 69 NC_002967:TDE0119|3end_flagellar_protein_FliS_137058..137208_NEGATIVE