Origin IGS: aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ataacgggccacttcttcaatagttaaaatttcgcttgacaaaaatttacctcactaaatatttaagctcgctcgagtaaacatacaaacaaaaaaaatgagctcaagtattttgcataaaatgtaagaatatgtcaagatatagcaaagattt Mask Tandem Repeat Region ================================================ aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat Find is-nt database================================================ Query_seq: TDE1078:TDE1079|TDE1078:TDE1079:metallo-beta-lactamase family protein:DNA-binding protein/PTS system, IIA component:->->:1111106..1111259 154 aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE1078:TDE1079|TDE1078:TDE1079:metallo-beta-lactamase family protein:DNA-binding protein/PTS system, IIA component:->->:1111106..1111259 154 aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE1078:TDE1079|TDE1078:TDE1079:metallo-beta-lactamase family protein:DNA-binding protein/PTS system, IIA component:->->:1111106..1111259 154 aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat Predict ORF larger than 30AA ================================================ aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat 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: 87 Start: 16 End: 45 ...............CTTGACATATTCTTACATTTTATGCAAAAT............................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE1078:TDE1079|TDE1078:TDE1079:metallo-beta-lactamase family protein:DNA-binding protein/PTS system, IIA component:->->:1111106..1111259 154 aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat Intra-Species Hit: Count: 1 Min: 1 Max: 154 Len: 154 Subject: NC_002967_TDE1078_TDE1079|metallo-beta-lactamase family protein:DNA-binding protein/PTS system, IIA component|POSITIVE:POSITIVE|[1111106,1111259]|154 HSP 1 e-value: 5.0E-68 bit: 258.0 Len: 154 Query Start:1 Query End:154 Subject Strand: POSITIVE Subject Start: 1 Subject End: 154 aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcannnnnnnngtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat aaatctttgctatatcttgacatattcttacattttatgcaaaatacttgagctcattttttttgtttgtatgtttactcgagcgagcttaaatatttagtgaggtaaatttttgtcaagcgaaattttaactattgaagaagtggcccgttat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUCUUUGCUAUAUCUUGACAUAUUCUUACAUUUUAUGCAAAAUACUUGAGCUCAUUUUUUUUGUUUGUAUGUUUACUCGAGCGAGCUUAAAUAUUUAGUGAGGUAAAUUUUUGUCAAGCGAAAUUUUAACUAUUGAAGAAGUGGCCCGUUAU ........(((((..(((((((.....((((...((((...(((((.((((((((.........(((((..........))))))))))))).))))).)))).)))).....))))))).....(((((.....)))))..)))))....... (-27.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAACGGGCCACUUCUUCAAUAGUUAAAAUUUCGCUUGACAAAAAUUUACCUCACUAAAUAUUUAAGCUCGCUCGAGUAAACAUACAAACAAAAAAAAUGAGCUCAAGUAUUUUGCAUAAAAUGUAAGAAUAUGUCAAGAUAUAGCAAAGAUUU ....(((((.(((........))).........((((((.....(((((......)))))..))))))..)))))..........................(((...((((((((((((...........)))).)))))))))))........ (-20.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 250 55 15 125 83 NC_002967:TDE0782|5end_50S_ribosomal_protein_L6_812970..813200_POSITIVE 242 90 43 223 163 NC_002967:TDE0410|5end_peptidase,_M48_family_462053..462283_POSITIVE 238 87 47 145 100 NC_002967:TDE0932|5end_adenylate/guanylate_cyclase_catalytic_domain_protein_957944..958174_NEGATIVE 234 117 71 177 125 NC_002967:TDE2497|5end_hypothetical_protein_2522083..2522313_NEGATIVE 234 117 71 155 103 NC_002967:TDE2394|5end_hypothetical_protein_2422612..2422842_NEGATIVE 226 120 78 153 104 NC_002967:TDE1662|5end_replicative_DNA_helicase_1715898..1716128_POSITIVE 226 117 77 77 43 NC_002967:TDE0692|5end_hypothetical_protein_729712..729942_POSITIVE 225 90 43 133 78 NC_002967:TDE0118|5end_hypothetical_protein_137047..137277_NEGATIVE 224 117 77 178 144 NC_002967:TDE2224|5end_hypothetical_protein_2264743..2264973_POSITIVE 224 117 77 77 43 NC_002967:TDE2223|5end_hypothetical_protein_2264642..2264872_POSITIVE 224 117 77 53 19 NC_002967:TDE1972|5end_hypothetical_protein_1987224..1987454_NEGATIVE 223 147 113 34 1 NC_002967:TDE0181|5end_methyl-accepting_chemotaxis_protein_215077..215307_NEGATIVE 222 90 43 207 170 NC_002967:TDE1659|5end_alanyl-tRNA_synthetase_1710633..1710863_NEGATIVE 221 117 77 168 135 NC_002967:TDE0466|5end_hypothetical_protein_518854..519084_NEGATIVE 218 87 51 137 99 NC_002967:TDE0905|5end_hypothetical_protein_922432..922662_POSITIVE 217 89 49 194 158 NC_002967:TDE2187|5end_ParB-like_nuclease_domain_protein_2221548..2221778_NEGATIVE 215 86 52 67 22 NC_002967:TDE2626|5end_ABC_transporter,_ATP-binding/permease_protein_2668402..2668632_NEGATIVE 215 40 3 106 72 NC_002967:TDE0160|5end_hypothetical_protein_187696..187926_NEGATIVE 214 123 83 154 116 NC_002967:TDE2341|5end_membrane-associated_zinc_metalloprotease,_putative_2379218..2379448_NEGATIVE 214 150 102 206 143 NC_002967:TDE0133|5end_transcriptional_regulator,_GntR_family_152373..152603_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 115 79 145 110 NC_002967:TDE2437|3end_cyclic_nucleotide_binding_domain_protein_2467418..2467568_NEGATIVE 250 55 15 114 72 NC_002967:TDE0781|3end_30S_ribosomal_protein_S8_813039..813189_POSITIVE 234 117 71 66 14 NC_002967:TDE2498|3end_metallo-beta-lactamase_family_protein_2522194..2522344_NEGATIVE 234 117 71 60 8 NC_002967:TDE1901|3end_ABC_transporter,_ATP-binding_protein_1922319..1922469_POSITIVE 233 117 77 49 16 NC_002967:TDE2396|3end_putative_inner_membrane_protein_translocase_component_YidC_2423650..2423800_NEGATIVE 231 121 83 67 26 NC_002967:TDE1916|3end_glycerol_kinase_1933277..1933427_NEGATIVE 229 88 49 66 13 NC_002967:TDE0202|3end_hypothetical_protein_235870..236020_NEGATIVE 226 120 78 85 36 NC_002967:TDE1661|3end_hypothetical_protein_1715910..1716060_POSITIVE 225 107 62 110 66 NC_002967:TDE1386|3end_methyl-accepting_chemotaxis_protein_1426856..1427006_POSITIVE 225 90 43 122 67 NC_002967:TDE0119|3end_flagellar_protein_FliS_137058..137208_NEGATIVE 224 117 77 57 23 NC_002967:TDE2222|3end_hypothetical_protein_2264702..2264852_POSITIVE 224 117 77 38 4 NC_002967:TDE1973|3end_CvpA_family_protein_1987239..1987389_NEGATIVE 222 90 43 130 93 NC_002967:TDE1660|3end_leucine_Rich_Repeat_domain_protein_1710710..1710860_NEGATIVE 215 40 3 77 43 NC_002967:TDE0161|3end_hypothetical_protein_187725..187875_NEGATIVE 214 123 83 134 96 NC_002967:TDE2342|3end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_2379238..2379388_NEGATIVE 213 125 84 47 4 NC_002967:TDE0194|3end_hypothetical_protein_230739..230889_NEGATIVE 212 150 101 148 82 NC_002967:TDE2403|3end_metallo-beta-lactamase_family_protein_2428641..2428791_NEGATIVE 212 148 101 67 27 NC_002967:TDE0679|3end_aminotransferase,_class_V_717573..717723_POSITIVE 207 120 71 107 51 NC_002967:TDE0496|3end_DNA-binding_protein,_putative_550971..551121_NEGATIVE 206 147 110 78 36 NC_002967:TDE0114|3end_iron-dependent_transcriptional_regulator_133581..133731_NEGATIVE