Origin IGS: atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 caggcaatgaagctaagaaaccgctaagaacgccgagagcacaaagaaatttaaagaatgagttataaagactccctaaatattctttgcggtcattgcgatctctgcggttaaattaaacaagaaacagttctggaggtatgat Mask Tandem Repeat Region ================================================ atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg Find is-nt database================================================ Query_seq: TDE0597:TDE0598|TDE0597:TDE0598:hypothetical protein:3-oxoacyl-(acyl-carrier-protein) reductase:<-<-:637303..637447 145 atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0597:TDE0598|TDE0597:TDE0598:hypothetical protein:3-oxoacyl-(acyl-carrier-protein) reductase:<-<-:637303..637447 145 atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0597:TDE0598|TDE0597:TDE0598:hypothetical protein:3-oxoacyl-(acyl-carrier-protein) reductase:<-<-:637303..637447 145 atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg Predict ORF larger than 30AA ================================================ atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg 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================================================ atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0597:TDE0598|TDE0597:TDE0598:hypothetical protein:3-oxoacyl-(acyl-carrier-protein) reductase:<-<-:637303..637447 145 atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg Intra-Species Hit: Count: 1 Min: 1 Max: 145 Len: 145 Subject: NC_002967_TDE0597_TDE0598|hypothetical protein:3-oxoacyl-(acyl-carrier-protein) reductase|NEGATIVE:NEGATIVE|[637303,637447]|145 HSP 1 e-value: 5.0E-77 bit: 287.0 Len: 145 Query Start:1 Query End:145 Subject Strand: POSITIVE Subject Start: 1 Subject End: 145 atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg atcatacctccagaactgtttcttgtttaatttaaccgcagagatcgcaatgaccgcaaagaatatttagggagtctttataactcattctttaaatttctttgtgctctcggcgttcttagcggtttcttagcttcattgcctg Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCAUACCUCCAGAACUGUUUCUUGUUUAAUUUAACCGCAGAGAUCGCAAUGACCGCAAAGAAUAUUUAGGGAGUCUUUAUAACUCAUUCUUUAAAUUUCUUUGUGCUCUCGGCGUUCUUAGCGGUUUCUUAGCUUCAUUGCCUG ............((((........)))).....((((((.((((.(((...((.(((((((((.(((((((((((...........)))))))))))))))))))).))...))).)))).)))))).....((......))... (-40.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGGCAAUGAAGCUAAGAAACCGCUAAGAACGCCGAGAGCACAAAGAAAUUUAAAGAAUGAGUUAUAAAGACUCCCUAAAUAUUCUUUGCGGUCAUUGCGAUCUCUGCGGUUAAAUUAAACAAGAAACAGUUCUGGAGGUAUGAU ..(((......)))....((((((..(((.(((...((.(.((((((((((((......(((((.....)))))..))))).))))))).).))...))).)))..))))))..((((.((.((((....))))....)).)))) (-35.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 881 80 31 171 122 NC_002967:TDE0597|5end_hypothetical_protein_637212..637442_NEGATIVE 452 79 31 159 111 NC_002967:TDE0944|5end_hypothetical_protein_966247..966477_POSITIVE 431 79 31 231 183 NC_002967:TDE1345|5end_DNA_primase_1383439..1383669_POSITIVE 420 62 30 33 1 NC_002967:TDE1905|5end_hypothetical_protein_1923877..1924107_NEGATIVE 405 79 31 169 121 NC_002967:TDE0977|5end_hypothetical_protein_1000415..1000645_POSITIVE 384 64 29 198 163 NC_002967:TDE2435|5end_hypothetical_protein_2466462..2466692_NEGATIVE 375 129 86 214 170 NC_002967:TDE2734|5end_hypothetical_protein_2789071..2789301_POSITIVE 367 73 31 197 156 NC_002967:TDE0975|5end_hypothetical_protein_998921..999151_POSITIVE 352 64 30 224 190 NC_002967:TDE0438|5end_queuine_tRNA-ribosyltransferase_494811..495041_NEGATIVE 348 75 33 45 4 NC_002967:TDE1985|5end_hypothetical_protein_2000329..2000559_NEGATIVE 344 135 93 214 161 NC_002967:TDE1288|5end_CAAX_amino_terminal_protease_family_protein_1326317..1326547_POSITIVE 339 66 31 200 163 NC_002967:TDE0162|5end_hypothetical_protein_187898..188128_POSITIVE 337 73 34 147 108 NC_002967:TDE2480|5end_heat_shock_protein_90_2505288..2505518_NEGATIVE 330 73 34 46 7 NC_002967:TDE2160|5end_hypothetical_protein_2193968..2194198_NEGATIVE 329 62 28 230 196 NC_002967:TDE1061|5end_ABC_transporter,_ATP-binding/permease_protein,_HlyB_family_1086646..1086876_POSITIVE 329 62 28 103 69 NC_002967:TDE1060|5end_hypothetical_protein_1086519..1086749_POSITIVE 316 137 99 149 107 NC_002967:TDE0161|5end_hypothetical_protein_187829..188059_NEGATIVE 306 69 24 193 147 NC_002967:TDE2264|5end_ABC_transporter,_ATP-binding/permease_protein_2302033..2302263_NEGATIVE 306 77 37 100 48 NC_002967:TDE0137|5end_carbohydrate_kinase,_FGGY_family_156640..156870_POSITIVE 296 137 99 199 164 NC_002967:TDE1300|5end_hypothetical_protein_1337419..1337649_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 452 79 31 104 56 NC_002967:TDE0943|3end_hypothetical_protein_966272..966422_POSITIVE 431 79 31 62 14 NC_002967:TDE1344|3end_hypothetical_protein_1383350..1383500_POSITIVE 375 128 89 52 12 NC_002967:TDE2159|3end_hypothetical_protein_2193874..2194024_POSITIVE 367 73 31 71 30 NC_002967:TDE0974|3end_hypothetical_protein_998875..999025_POSITIVE 348 75 33 91 50 NC_002967:TDE1986|3end_adenylate_cyclase,_putative_2000283..2000433_NEGATIVE 344 135 93 102 49 NC_002967:TDE1287|3end_transcription-repair_coupling_factor_1326285..1326435_POSITIVE 337 73 34 83 44 NC_002967:TDE2481|3end_hypothetical_protein_2505352..2505502_NEGATIVE 330 73 34 141 102 NC_002967:TDE2160|3end_hypothetical_protein_2193873..2194023_NEGATIVE 324 128 81 115 75 NC_002967:TDE2261|3end_hypothetical_protein_2297915..2298065_NEGATIVE 306 77 37 103 51 NC_002967:TDE0136|3end_hypothetical_protein_156723..156873_POSITIVE 302 59 17 118 69 NC_002967:TDE2733|3end_hypothetical_protein_2789126..2789276_POSITIVE 295 79 31 79 39 NC_002967:TDE2707|3end_hypothetical_protein_2754929..2755079_POSITIVE 293 126 103 64 32 NC_002967:TDE1892|3end_hypothetical_protein_1912237..1912387_POSITIVE 286 79 35 57 7 NC_002967:TDE0618|3end_hypothetical_protein_650242..650392_NEGATIVE 277 139 109 72 39 NC_002967:TDE2025|3end_hypothetical_protein_2051075..2051225_NEGATIVE 276 48 2 141 91 NC_002967:TDE0976|3end_hypothetical_protein_1000498..1000648_POSITIVE 273 80 44 52 21 NC_002967:TDE0751|3end_magnesium_chelatase,_subunit_D/I_family_790122..790272_NEGATIVE 272 139 100 72 30 NC_002967:TDE2377|3end_hypothetical_protein_2407530..2407680_NEGATIVE 272 137 93 86 31 NC_002967:TDE1123|3end_sigma_factor_regulatory_protein,_putative_1153737..1153887_NEGATIVE 266 129 87 131 86 NC_002967:TDE1047|3end_30S_ribosomal_protein_S12_1074551..1074701_POSITIVE