Origin IGS: cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttcaactcccataatttttttaaaaagagaaaaaattttccccttttcataaatattatagaaattgcttgtaataaatagtaaaatttaaaatattaagtctataatttgataaatattcagtaagcaatagttgacattatttaaaatctgtgcttaaataggtttatg Mask Tandem Repeat Region ================================================ cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Find is-nt database================================================ Query_seq: TDE0164:TDE0165|TDE0164:TDE0165:hypothetical protein:hypothetical protein:<-->:194089..194261 173 cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0164:TDE0165|TDE0164:TDE0165:hypothetical protein:hypothetical protein:<-->:194089..194261 173 cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0164:TDE0165|TDE0164:TDE0165:hypothetical protein:hypothetical protein:<-->:194089..194261 173 cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Predict ORF larger than 30AA ================================================ cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 86 Start: 10 End: 39 .........GTTGACATTATTTAAAATCTGTGCTTAAAT...................................................................................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 85 End: 114 ....................................................................................ATAGAAATTGCTTGTAATAAATAGTAAAAT........................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0164:TDE0165|TDE0164:TDE0165:hypothetical protein:hypothetical protein:<-->:194089..194261 173 cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 173 Len: 173 Subject: NC_002967_TDE0164_TDE0165|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[194089,194261]|173 HSP 1 e-value: 4.0E-81 bit: 301.0 Len: 173 Query Start:1 Query End:173 Subject Strand: POSITIVE Subject Start: 1 Subject End: 173 cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttnnnnnnnttatgggagttgaaaa cataaacctatttaagcacagattttaaataatgtcaactattgcttactgaatatttatcaaattatagacttaatattttaaattttactatttattacaagcaatttctataatatttatgaaaaggggaaaattttttctctttttaaaaaaattatgggagttgaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUAAACCUAUUUAAGCACAGAUUUUAAAUAAUGUCAACUAUUGCUUACUGAAUAUUUAUCAAAUUAUAGACUUAAUAUUUUAAAUUUUACUAUUUAUUACAAGCAAUUUCUAUAAUAUUUAUGAAAAGGGGAAAAUUUUUUCUCUUUUUAAAAAAAUUAUGGGAGUUGAAAA ........((((((((.......))))))))...(((((.(((((((...(((((((..((........))...)))))))(((((......)))))....)))))))(((((((((.(((.((((((((((((.....)))))))))))).))).))))))))))))))... (-30.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCAACUCCCAUAAUUUUUUUAAAAAGAGAAAAAAUUUUCCCCUUUUCAUAAAUAUUAUAGAAAUUGCUUGUAAUAAAUAGUAAAAUUUAAAAUAUUAAGUCUAUAAUUUGAUAAAUAUUCAGUAAGCAAUAGUUGACAUUAUUUAAAAUCUGUGCUUAAAUAGGUUUAUG ...(((((....(((((.(((...(((((.((((....))))..)))))...))).)))))....((((((((...(((((......)))))...((((((((.....)))))))).........)))))))).))))).........((((((((......))))))))... (-25.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 718 50 1 141 92 NC_002967:TDE0164|5end_hypothetical_protein_193998..194228_NEGATIVE 451 134 91 215 172 NC_002967:TDE0670|5end_ATP-dependent_protease_La_707938..708168_POSITIVE 427 140 91 200 152 NC_002967:TDE0861|5end_tyrosyl-tRNA_synthetase_883098..883328_NEGATIVE 356 140 91 185 136 NC_002967:TDE0402|5end_hypothetical_protein_454352..454582_NEGATIVE 351 127 81 230 182 NC_002967:TDE2718|5end_magnesium_transporter_2775910..2776140_NEGATIVE 348 149 108 136 96 NC_002967:TDE1692|5end_hypothetical_protein_1748293..1748523_POSITIVE 345 148 105 139 96 NC_002967:TDE2719|5end_hypothetical_protein_2776045..2776275_POSITIVE 334 149 101 58 11 NC_002967:TDE2099|5end_hypothetical_protein_2125027..2125257_POSITIVE 333 169 123 160 114 NC_002967:TDE2707|5end_hypothetical_protein_2753947..2754177_POSITIVE 330 116 84 187 155 NC_002967:TDE1990|5end_ATP-dependent_helicase,_DinG_family_2008496..2008726_NEGATIVE 314 169 123 160 115 NC_002967:TDE0862|5end_hypothetical_protein_883192..883422_POSITIVE 278 148 101 138 94 NC_002967:TDE2136|5end_hypothetical_protein_2165659..2165889_NEGATIVE 263 170 126 164 116 NC_002967:TDE1691|5end_hypothetical_protein_1748273..1748503_NEGATIVE 259 110 77 231 194 NC_002967:TDE2706|5end_hypothetical_protein_2753793..2754023_NEGATIVE 257 169 125 161 117 NC_002967:TDE0007|5end_hypothetical_protein_9874..10104_POSITIVE 245 149 101 139 94 NC_002967:TDE2098|5end_hypothetical_protein_2125085..2125315_NEGATIVE 238 170 127 43 1 NC_002967:TDE2302|5end_HD_domain_protein_2341790..2342020_POSITIVE 198 147 101 213 162 NC_002967:TDE0561|5end_hypothetical_protein_594245..594475_POSITIVE 198 147 101 130 79 NC_002967:TDE0560|5end_hypothetical_protein_594162..594392_POSITIVE 196 164 135 120 90 NC_002967:TDE0586|5end_hypothetical_protein_625246..625476_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 330 116 84 49 17 NC_002967:TDE1991|3end_hypothetical_protein_2008634..2008784_NEGATIVE 193 170 128 77 36 NC_002967:TDE2785|3end_hypothetical_protein_2838601..2838751_NEGATIVE 193 139 91 115 69 NC_002967:TDE1785|3end_hypothetical_protein_1825194..1825344_POSITIVE 179 49 1 125 76 NC_002967:TDE1145|3end_hypothetical_protein_1182868..1183018_NEGATIVE 178 169 141 133 106 NC_002967:TDE2438|3end_hypothetical_protein_2467965..2468115_NEGATIVE 178 139 102 76 44 NC_002967:TDE0171|3end_nuclease_SbcCD,_C_subunit,_putative_203137..203287_POSITIVE 175 74 33 98 45 NC_002967:TDE2549|3end_methyl-accepting_chemotaxis_protein_2575464..2575614_POSITIVE 167 77 44 95 61 NC_002967:TDE0693|3end_phosphomethylpyrimidine_kinase_730831..730981_POSITIVE 164 71 32 41 1 NC_002967:TDE2033|3end_ISTde1,_transposase_2060292..2060442_NEGATIVE 162 146 118 139 105 NC_002967:TDE1692|3end_hypothetical_protein_1748471..1748621_POSITIVE 161 170 149 25 6 NC_002967:TDE2301|3end_FlhB_domain_protein_2341852..2342002_POSITIVE 161 51 25 40 7 NC_002967:TDE1828|3end_hypothetical_protein_1860934..1861084_NEGATIVE 161 143 106 88 50 NC_002967:TDE1473|3end_flagellin_FlaG,_putative_1520760..1520910_NEGATIVE 159 167 130 100 65 NC_002967:TDE0828|3end_glucose-inhibited_division_protein_A_848283..848433_NEGATIVE 158 138 95 151 105 NC_002967:TDE2748|3end_acetyltransferase,_GNAT_family_2805646..2805796_POSITIVE 158 106 61 127 76 NC_002967:TDE1356|3end_lipoprotein,_putative_1395674..1395824_NEGATIVE 158 170 130 48 6 NC_002967:TDE0959|3end_hypothetical_protein_982365..982515_POSITIVE 157 75 33 88 55 NC_002967:TDE1923|3end_hypothetical_protein_1941513..1941663_NEGATIVE 154 60 16 132 99 NC_002967:TDE1371|3end_RNB-like_family_protein_1413298..1413448_NEGATIVE 154 95 56 109 72 NC_002967:TDE0372|3end_ABC_transporter,_ATP-binding/permease_protein_424632..424782_NEGATIVE