Origin IGS: aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt .........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 aactctactcactttcttatttgcttgttcatttacttatattataacttattctgtaaaccttttcttataaaatactgtgacatactgatactattctactatttaagtttatcagattgttttttaaaaaattatcctctagaaaaagtaaatagcctcccctgaaacaaaaaagaagactgaaaactagtctcctctgttcctt Mask Tandem Repeat Region ================================================ aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt Find is-nt database================================================ Query_seq: SMT_459:SMT_460|SMT_459:SMT_460:hypothetical protein:6-phospho-beta-glucosidase:->->:397751..397958 208 aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_459:SMT_460|SMT_459:SMT_460:hypothetical protein:6-phospho-beta-glucosidase:->->:397751..397958 208 aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_459:SMT_460|SMT_459:SMT_460:hypothetical protein:6-phospho-beta-glucosidase:->->:397751..397958 208 aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: - Start: 44 End: 190 ........................................... P L S N V K E L P Y N K L F C D S L S L Y Y F L I L I D C Y K I L F P K C F L N Y Y L Y I F L C M .................. aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt 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================================================ aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_459:SMT_460|SMT_459:SMT_460:hypothetical protein:6-phospho-beta-glucosidase:->->:397751..397958 208 aaggaacagaggagactagttttcagtcttcttttttgtttcaggggaggctatttactttttctagaggataattttttaaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt Intra-Species Hit: Count: 1 Min: 81 Max: 208 Len: 128 Subject: smit_SMT_459_SMT_460|hypothetical protein:6-phospho-beta- glucosidase|POSITIVE:POSITIVE|[397751,397958]|208 HSP 1 e-value: 1.0E-66 bit: 254.0 Len: 128 Query Start:81 Query End:208 Subject Strand: POSITIVE Subject Start: 81 Subject End: 208 ................................................................................aaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt ................................................................................aaaaaacaatctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtagagtt Inter-species Hit: Count: 1 Min: 89 Max: 205 Len: 117 Subject: NC_009009_SSA_0394_SSA_0395|hypothetical protein:6-phospho-beta-glucosidase, putative|POSITIVE:POSITIVE|[390992,391200]|209 HSP 1 e-value: 2.0E-43 bit: 176.0 Len: 117 Query Start:89 Query End:205 Subject Strand: POSITIVE Subject Start: 90 Subject End: 206 ........................................................................................atctgataaacttaaatagtagaatagtatcagtatgtcacagtattttataagaaaaggtttacagaataagttataatataagtaaatgaacaagcaaataagaaagtgagtaga... ........................................................................................atctgatcaacttaaatagtagaatagtatcagtatgtaacaatattttataagaaaaggtttacataatgagctataatataagtaaatgaacaagcaaataagaaagcgagtaga... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUCUGAUAAACUUAAAUAGUAGAAUAGUAUCAGUAUGUCACAGUAUUUUAUAAGAAAAGGUUUACAGAAUAAGUUAUAAUAUAAGUAAAUGAACAAGCAAAUAAGAAAGUGAGUAGA .((((.(((((((.....((((((((((..(.....)..))..))))))))......)))))))))))................................................. (-11.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCUACUCACUUUCUUAUUUGCUUGUUCAUUUACUUAUAUUAUAACUUAUUCUGUAAACCUUUUCUUAUAAAAUACUGUGACAUACUGAUACUAUUCUACUAUUUAAGUUUAUCAGAU .....((((.....(((((.........(((((..(((........)))...)))))............)))))..))))....((((((.....((........))..)))))).. ( -7.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 234 67 24 111 60 smit:SMT_862|5end_hypothetical_protein_predicted_by_Glimmer/Critica_808587..808817_POSITIVE 197 66 26 194 149 smit:SMT_1286|5end_hypothetical_protein_1248388..1248618_POSITIVE 197 69 36 219 185 smit:SMT_459|5end_hypothetical_protein_397350..397580_POSITIVE 196 67 21 60 15 smit:SMT_807|5end_hypothetical_protein_predicted_by_Glimmer/Critica_716815..717045_NEGATIVE 194 50 20 141 113 smit:SMT_696|5end_K03744_LemA_protein_607445..607675_NEGATIVE 191 45 5 54 6 smit:SMT_1495|5end_hypothetical_protein_1480271..1480501_POSITIVE 187 100 58 161 121 smit:SMT_1770|5end_hypothetical_protein_1746505..1746735_NEGATIVE 185 66 24 182 136 smit:SMT_1185|5end_beta-galactosidase_1143821..1144051_NEGATIVE 184 49 15 214 171 smit:SMT_317|5end_K03625_N_utilization_substance_protein_B_257900..258130_NEGATIVE 179 50 3 226 175 smit:SMT_2019|5end_dTDP-glucose_4,6-dehydratase_1937054..1937284_POSITIVE 177 60 37 33 15 smit:SMT_369|5end_hypothetical_cytosolic_protein_304012..304242_POSITIVE 171 38 18 222 200 smit:SMT_354|5end_hypothetical_protein_291343..291573_POSITIVE 169 70 29 70 20 smit:SMT_2040|5end_transcription-repair_coupling_factor_1951395..1951625_NEGATIVE 168 68 21 215 168 smit:SMT_650|5end_pullulanase_559832..560062_NEGATIVE 168 43 10 142 109 smit:SMT_380|5end_hypothetical_protein_316376..316606_POSITIVE 168 43 10 142 109 smit:SMT_371|5end_hypothetical_protein_305248..305478_POSITIVE 168 70 24 169 123 smit:SMT_209|5end_acetyltransferase,_GNAT_family_142673..142903_POSITIVE 159 40 4 201 168 smit:SMT_1479|5end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1461975..1462205_NEGATIVE 159 44 4 189 153 smit:SMT_351|5end_hypothetical_protein_290289..290519_POSITIVE 155 45 3 114 66 smit:SMT_826|5end_hypothetical_protein_750022..750252_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 197 66 26 58 13 smit:SMT_1285|3end_ribosomal_subunit_interface_protein_1248332..1248482_POSITIVE 186 72 36 61 24 smit:SMT_832|3end_hypothetical_protein_774376..774526_NEGATIVE 168 68 21 61 14 smit:SMT_651|3end_DNA_ligase_559986..560136_NEGATIVE 168 43 10 142 109 smit:SMT_379|3end_acetyltransferase,_GNAT_family_316456..316606_POSITIVE 168 43 10 142 109 smit:SMT_370|3end_acetyltransferase,_GNAT_family_305328..305478_POSITIVE 163 43 20 146 121 smit:SMT_807|3end_hypothetical_protein_predicted_by_Glimmer/Critica_716708..716858_NEGATIVE 163 67 27 120 80 smit:SMT_120|3end_hypothetical_protein_72943..73093_POSITIVE 160 73 41 59 27 smit:SMT_687|3end_carbamoyl-phosphate_synthase,_large_subunit_596088..596238_NEGATIVE 155 45 25 151 130 smit:SMT_1681|3end_D-alanine-activating_enzyme_1665052..1665202_POSITIVE 149 44 25 127 108 smit:SMT_733|3end_hypothetical_protein_639412..639562_NEGATIVE 144 51 19 49 19 smit:SMT_2018|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1936956..1937106_POSITIVE 143 72 42 63 37 smit:SMT_1834|3end_cell_division_protein_1802502..1802652_NEGATIVE 143 76 31 50 11 smit:SMT_564|3end_23S_rRNA_Gm2251_methyltransferase_481989..482139_NEGATIVE 140 63 27 127 88 smit:SMT_82|3end_transcriptional_regulator,_TetR_family_14330..14480_POSITIVE 138 43 17 119 92 smit:SMT_1841|3end_hypothetical_protein_1806361..1806511_NEGATIVE 138 43 17 119 92 smit:SMT_303|3end_hypothetical_protein_245758..245908_POSITIVE 137 63 25 89 55 smit:SMT_1804|3end_hypothetical_protein_1780314..1780464_POSITIVE 137 78 37 124 74 smit:SMT_1754|3end_leader_peptidase_(prepilin_peptidase)_/_N-methyltransferase_1732363..1732513_NEGATIVE 137 67 30 62 31 smit:SMT_1097|3end_alcohol_dehydrogenase_/_acetaldehyde_dehydrogenase_1038697..1038847_NEGATIVE 136 67 42 41 9 smit:SMT_449|3end_hypothetical_protein_388219..388369_POSITIVE