Origin IGS: ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac .........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 gtaaaatctcctttaagtctaagtacattctaacattatatacctttttttgcaaataaactaggtattataccgtaaatttttaaccttttcaaataaggagaatcgcttattttataacttaaaggtaatagcccttgtgtatttaaagaatatgtaatatatttaatattataaagatataaggagactttaa Mask Tandem Repeat Region ================================================ ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac Find is-nt database================================================ Query_seq: TDE0186:TDE0187|TDE0186:TDE0187:hypothetical protein:carboxylesterase, putative:<-->:223789..223984 196 ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0186:TDE0187|TDE0186:TDE0187:hypothetical protein:carboxylesterase, putative:<-->:223789..223984 196 ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0186:TDE0187|TDE0186:TDE0187:hypothetical protein:carboxylesterase, putative:<-->:223789..223984 196 ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 27 End: 158 .......................... M K Y I T Y S L N T Q G L L P L S Y K I S D S P Y L K R L K I Y G I I P S L F A K K G I ...................................... ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac 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: 90 Start: 101 End: 130 ....................................................................................................TTTGAAAAGGTTAAAAATTTACGGTATAAT.................................................................. PromScan Matrix: RpoD-17 Strand: + Score: 87 Start: 141 End: 170 ............................................................................................................................................TTTGCAAAAAAAGGTATATAATGTTAGAAT.......................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0186:TDE0187|TDE0186:TDE0187:hypothetical protein:carboxylesterase, putative:<-->:223789..223984 196 ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac Intra-Species Hit: Count: 1 Min: 1 Max: 196 Len: 196 Subject: NC_002967_TDE0186_TDE0187|hypothetical protein:carboxylesterase, putative|NEGATIVE:POSITIVE|[223789,223984]|196 HSP 1 e-value: 9.0E-95 bit: 347.0 Len: 196 Query Start:1 Query End:196 Subject Strand: POSITIVE Subject Start: 1 Subject End: 196 ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcnnnnnnnggtatataatgttagaatgtacttagacttaaaggagattttac ttaaagtctccttatatctttataatattaaatatattacatattctttaaatacacaagggctattacctttaagttataaaataagcgattctccttatttgaaaaggttaaaaatttacggtataatacctagtttatttgcaaaaaaaggtatataatgttagaatgtacttagacttaaaggagattttac Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAAGUCUCCUUAUAUCUUUAUAAUAUUAAAUAUAUUACAUAUUCUUUAAAUACACAAGGGCUAUUACCUUUAAGUUAUAAAAUAAGCGAUUCUCCUUAUUUGAAAAGGUUAAAAAUUUACGGUAUAAUACCUAGUUUAUUUGCAAAAAAAGGUAUAUAAUGUUAGAAUGUACUUAGACUUAAAGGAGAUUUUAC .((((((((((((.((..((((..(((((....((((((.((((..((((((((.((.(((.....(((((((((.((...(((((((.(.....))))))))....)).))))).......)))).....))).)).)))))).....))..)))).))))))...)))))...))))..)))))))))))))). (-37.21) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUAAAAUCUCCUUUAAGUCUAAGUACAUUCUAACAUUAUAUACCUUUUUUUGCAAAUAAACUAGGUAUUAUACCGUAAAUUUUUAACCUUUUCAAAUAAGGAGAAUCGCUUAUUUUAUAACUUAAAGGUAAUAGCCCUUGUGUAUUUAAAGAAUAUGUAAUAUAUUUAAUAUUAUAAAGAUAUAAGGAGACUUUAA .((((.(((((((...((((((((((((.......((((.(((((((......((((((.(..((((...))))............((((.......))))......).))))))........))))))))))).....))))))))........((((((((.....)))))))).))))..))))))).)))). (-34.64) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 771 100 51 191 142 NC_002967:TDE0186|5end_hypothetical_protein_223698..223928_NEGATIVE 272 97 60 173 136 NC_002967:TDE2412|5end_acetyltransferase,_GNAT_family_2440262..2440492_NEGATIVE 238 100 60 83 40 NC_002967:TDE0589|5end_acetyl-CoA_carboxylase,_carboxyl_transferase,_alpha_subunit_629044..629274_NEGATIVE 236 99 56 185 148 NC_002967:TDE2118|5end_DNA_topoisomerase_IV_subunit_A_2151265..2151495_NEGATIVE 225 139 92 187 148 NC_002967:TDE1281|5end_hypothetical_protein_1316500..1316730_POSITIVE 220 99 55 212 172 NC_002967:TDE0612|5end_hypothetical_protein_647471..647701_NEGATIVE 216 119 74 131 82 NC_002967:TDE0705|5end_SPFH_domain/Band_7_family_protein_740268..740498_NEGATIVE 215 146 107 80 42 NC_002967:TDE2160|5end_hypothetical_protein_2193968..2194198_NEGATIVE 214 108 61 61 18 NC_002967:TDE0942|5end_long-chain-fatty-acid--CoA_ligase,_putative_964132..964362_POSITIVE 208 180 131 87 32 NC_002967:TDE1394|5end_hypothetical_protein_1433084..1433314_POSITIVE 208 99 53 49 8 NC_002967:TDE0449|5end_ferritin,_putative_507031..507261_NEGATIVE 206 100 57 209 166 NC_002967:TDE1380|5end_hypothetical_protein_1421284..1421514_NEGATIVE 205 62 30 144 112 NC_002967:TDE1854|5end_nucleotidyltransferase_family_protein_1882715..1882945_NEGATIVE 198 143 111 140 110 NC_002967:TDE1448|5end_glutamate_racemase,_putative_1493535..1493765_POSITIVE 196 108 69 61 12 NC_002967:TDE1450|5end_MutS2_family_protein_1495320..1495550_POSITIVE 192 103 69 112 69 NC_002967:TDE1217|5end_flagellar_assembly_protein_1249511..1249741_POSITIVE 188 124 81 131 93 NC_002967:TDE0010|5end_MutT/nudix_family_protein_14580..14810_POSITIVE 187 170 122 125 74 NC_002967:TDE1434|5end_hypothetical_protein_1478462..1478692_NEGATIVE 186 79 44 117 73 NC_002967:TDE1079|5end_DNA-binding_protein/PTS_system,_IIA_component_1111120..1111350_POSITIVE 184 78 40 51 13 NC_002967:TDE0601|5end_malonyl_CoA-acyl_carrier_protein_transacylase,_putative_639811..640041_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 272 97 60 112 75 NC_002967:TDE2413|3end_hypothetical_protein_2440323..2440473_NEGATIVE 238 100 60 62 19 NC_002967:TDE0590|3end_acetyl-CoA_carboxylase,_carboxyl_transferase,_beta_subunit_629065..629215_NEGATIVE 236 99 56 52 15 NC_002967:TDE2119|3end_glycine_reductase_complex_selenoprotein_GrdB2_2151398..2151548_NEGATIVE 220 99 55 109 69 NC_002967:TDE0613|3end_hypothetical_protein_647574..647724_NEGATIVE 208 180 131 90 35 NC_002967:TDE1393|3end_hypothetical_protein_1433167..1433317_POSITIVE 198 143 111 113 83 NC_002967:TDE1447|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase_1493588..1493738_POSITIVE 192 103 69 91 48 NC_002967:TDE1216|3end_flagellar_motor_protein_1249570..1249720_POSITIVE 184 100 57 48 13 NC_002967:TDE2436|3end_hypothetical_protein_2467446..2467596_POSITIVE 182 89 42 149 99 NC_002967:TDE0196|3end_hypothetical_protein_232845..232995_POSITIVE 180 134 92 107 61 NC_002967:TDE2437|3end_cyclic_nucleotide_binding_domain_protein_2467418..2467568_NEGATIVE 177 97 56 109 66 NC_002967:TDE1834|3end_hypothetical_protein_1866783..1866933_NEGATIVE 177 97 56 109 66 NC_002967:TDE1778|3end_hypothetical_protein_1820462..1820612_NEGATIVE 177 84 56 74 45 NC_002967:TDE0385|3end_ABC_transporter,_ATP-binding/permease_protein_437287..437437_POSITIVE 175 173 132 54 16 NC_002967:TDE2230|3end_hypothetical_protein_2269453..2269603_POSITIVE 175 149 106 109 76 NC_002967:TDE1013|3end_hemerythrin-related_protein_1043977..1044127_NEGATIVE 174 96 56 123 85 NC_002967:TDE1538|3end_DNA_ligase,_NAD-dependent_1583585..1583735_POSITIVE 173 98 57 139 105 NC_002967:TDE1964|3end_Na/Pi_cotransporter_family_protein_1977131..1977281_NEGATIVE 173 97 55 107 49 NC_002967:TDE0693|3end_phosphomethylpyrimidine_kinase_730831..730981_POSITIVE 172 35 3 57 26 NC_002967:TDE1669|3end_hemolysin_1723878..1724028_POSITIVE 171 98 58 137 101 NC_002967:TDE0779|3end_ribosomal_protein_L5_812432..812582_POSITIVE