Origin IGS: tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agaacatcctctttttaatgatgaagtcccggttattgctaatcattctaaacaccaggaatttttatgcgaagaataaaaaatttttatcgatcacggaaggaatttcaatttagcagaaaaatcgggcgactgctagggaaacgcataaaaatttcatccggtcta Mask Tandem Repeat Region ================================================ tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct Find is-nt database================================================ Query_seq: AA00993:AA00994|AA00993:AA00994:possible D-tyrosyl-tRNA(Tyr) deacylase:sodium/glutamate symport carrier protein (glutamate permease):->->:695060..695227 168 tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00993:AA00994|AA00993:AA00994:possible D-tyrosyl-tRNA(Tyr) deacylase:sodium/glutamate symport carrier protein (glutamate permease):->->:695060..695227 168 tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00993:AA00994|AA00993:AA00994:possible D-tyrosyl-tRNA(Tyr) deacylase:sodium/glutamate symport carrier protein (glutamate permease):->->:695060..695227 168 tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: - Start: 56 End: 163 ....................................................... I S I G E T I S L F K K N K A Y F N R T N L I I L L L R S K M M L F L M ..... Protein_Len: 36 Strand: - Start: 1 End: 108 L G S S I K I R K G L L R G I K R S F Q F E K R S R Y F N K I R R M F M ............................................................ tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct 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: 81 Start: 95 End: 124 ..............................................................................................CTTCGCATAAAAATTCCTGGTGTTTAGAAT............................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00993:AA00994|AA00993:AA00994:possible D-tyrosyl-tRNA(Tyr) deacylase:sodium/glutamate symport carrier protein (glutamate permease):->->:695060..695227 168 tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct Intra-Species Hit: Count: 1 Min: 1 Max: 168 Len: 168 Subject: aact_AA00993_AA00994|possible D-tyrosyl-tRNA(Tyr) deacylase:sodium/glutamate symport carrier protein (glutamate permease)|POSITIVE:POSITIVE|[695060,695227]|168 HSP 1 e-value: 1.0E-90 bit: 333.0 Len: 168 Query Start:1 Query End:168 Subject Strand: POSITIVE Subject Start: 1 Subject End: 168 tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct tagaccggatgaaatttttatgcgtttccctagcagtcgcccgatttttctgctaaattgaaattccttccgtgatcgataaaaattttttattcttcgcataaaaattcctggtgtttagaatgattagcaataaccgggacttcatcattaaaaagaggatgttct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGACCGGAUGAAAUUUUUAUGCGUUUCCCUAGCAGUCGCCCGAUUUUUCUGCUAAAUUGAAAUUCCUUCCGUGAUCGAUAAAAAUUUUUUAUUCUUCGCAUAAAAAUUCCUGGUGUUUAGAAUGAUUAGCAAUAACCGGGACUUCAUCAUUAAAAAGAGGAUGUUCU .......((((((.((((((((((......((((((.............))))))......................((((((.....))))))...)))))))))).(((((((....................))))))).))))))................... (-31.47) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAACAUCCUCUUUUUAAUGAUGAAGUCCCGGUUAUUGCUAAUCAUUCUAAACACCAGGAAUUUUUAUGCGAAGAAUAAAAAAUUUUUAUCGAUCACGGAAGGAAUUUCAAUUUAGCAGAAAAAUCGGGCGACUGCUAGGGAAACGCAUAAAAAUUUCAUCCGGUCUA ....((((...........)))).((.((.(((((....))))).............((((((((((((((.........((((((((.(((....))).))))))))...((((((((.............))))))))....))))))))))))))....)).)). (-34.12) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 316 77 32 135 83 aact:AA00342|5end_hypothetical_protein_229695..229925_POSITIVE 309 45 5 219 176 aact:AA02244|5end_conserved_hypothetical_protein_(probable_DNA-binding_protein;_death-on-curing_family_protein0_1526402..1526632_POSITIVE 299 48 2 57 13 aact:AA00077|5end_conserved_hypothetical_protein_(possible_periplasmic_binding_transport_protein)_56111..56341_POSITIVE 292 148 110 202 163 aact:AA00298|5end_hypothetical_protein_203624..203854_POSITIVE 290 67 23 89 40 aact:AA00541|5end_conserved_hypothetical_protein_370140..370370_POSITIVE 283 52 25 200 175 aact:AA02538|5end_conserved_hypothetical_protein_1765187..1765417_POSITIVE 279 54 21 187 153 aact:AA01390|5end_LexA_repressor_937059..937289_POSITIVE 279 54 21 84 50 aact:AA01389|5end_hypothetical_protein_936956..937186_POSITIVE 277 80 33 211 149 aact:AA01703|5end_L-ribulose-phosphate_4-epimerase_1155389..1155619_POSITIVE 276 71 39 216 180 aact:AA01905|5end_hypothetical_protein_1285306..1285536_POSITIVE 276 44 6 172 129 aact:AA01270|5end_hydrolase_(possible_2-haloalkanoic_acid_dehalogenase_I)_863317..863547_POSITIVE 273 48 5 177 132 aact:AA01070|5end_DNA_repair_protein_740920..741150_POSITIVE 273 70 21 91 47 aact:AA00464|5end_conserved_hypothetical_protein_323912..324142_POSITIVE 272 43 3 133 98 aact:AA02015|5end_phosphoheptose_isomerase_1371059..1371289_POSITIVE 272 78 38 45 13 aact:AA01424|5end_threonine_deaminase_(dehydratase)_957740..957970_POSITIVE 270 44 6 84 42 aact:AA00732|5end_citrate_lyase_ligase_501343..501573_POSITIVE 267 50 5 91 51 aact:AA02081|5end_periplasmic_protein_1414698..1414928_POSITIVE 267 55 15 108 70 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 263 80 38 222 182 aact:AA02407|5end_thymidine_kinase_1652666..1652896_POSITIVE 263 50 23 147 117 aact:AA01295|5end_3-dehydroquinate_synthase_877272..877502_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 309 45 5 148 105 aact:AA02243|3end_conserved_hypothetical_protein_1526411..1526561_POSITIVE 290 67 23 130 81 aact:AA00540|3end_hypothetical_protein_370261..370411_POSITIVE 273 89 41 102 47 aact:AA01705|3end_beta-galactosidase_1157980..1158130_POSITIVE 273 48 6 62 18 aact:AA01467|3end_mannose-specific_phosphotransferase_system_IID_987214..987364_POSITIVE 270 44 6 43 1 aact:AA00730|3end_hypothetical_protein_501382..501532_POSITIVE 267 50 5 107 67 aact:AA02080|3end_ABC_transporter,_ATP-binding/permease_1414794..1414944_POSITIVE 261 47 6 116 78 aact:AA01561|3end_conserved_hypothetical_protein_1046971..1047121_POSITIVE 260 48 6 110 54 aact:AA00531|3end_DNA_polymerase_I_365385..365535_POSITIVE 257 41 8 81 52 aact:AA02237|3end_molybdopterin_biosynthesis_protein_E_chain_1523292..1523442_POSITIVE 254 50 5 142 92 aact:AA02031|3end_type_III_site-specific_deoxyribonuclease_1385155..1385305_POSITIVE 253 68 21 60 8 aact:AA01129|3end_hypothetical_protein_774788..774938_POSITIVE 253 43 2 119 83 aact:AA00809|3end_possible_oxidoreductase_555435..555585_POSITIVE 252 78 35 60 20 aact:AA01555|3end_ABC_transporter,_ATP-binding_protein_1044323..1044473_POSITIVE 249 61 23 149 102 aact:AA00341|3end_hypothetical_protein_229803..229953_POSITIVE 246 78 33 129 64 aact:AA01269|3end_hypothetical_protein_863413..863563_POSITIVE 246 46 4 143 106 aact:AA00937|3end_L-xylulokinase_647525..647675_POSITIVE 246 43 5 138 99 aact:AA00116|3end_conserved_hypothetical_protein_88207..88357_POSITIVE 245 47 6 70 27 aact:AA00528|3end_conserved_hypothetical_protein_361703..361853_POSITIVE 243 78 37 69 22 aact:AA02043|3end_tagatose_6-phosphate_kinase_1391587..1391737_POSITIVE 242 43 2 95 63 aact:AA01336|3end_hypothetical_protein_904315..904465_POSITIVE