Origin IGS: aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt .........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 aagtaatttcctcctgttatttagtttttgattatgttaattatatcacaaactcaaacaaataggaaacgtttacaatttcaagtaaaagtaacctttaaaactatgatactgcggataagcttctatttttaaagcttttgagcatgattgaggtcgagagaagacaaataagaaaagacaaactctcaaacagagtttgcctaattgtctactt Mask Tandem Repeat Region ================================================ aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt Find is-nt database================================================ Query_seq: SSA_1916:SSA_1917|SSA_1916:SSA_1917:hypothetical protein:Alcohol dehydrogenase, propanol-preferring, putative:->->:1906440..1906656 217 aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1916:SSA_1917|SSA_1916:SSA_1917:hypothetical protein:Alcohol dehydrogenase, propanol-preferring, putative:->->:1906440..1906656 217 aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1916:SSA_1917|SSA_1916:SSA_1917:hypothetical protein:Alcohol dehydrogenase, propanol-preferring, putative:->->:1906440..1906656 217 aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 10 End: 111 ......... M R Q T L F E S L S F L I C L L S T S I M L K S F K N R S L S A V S .......................................................................................................... Protein_Len: 39 Strand: + Start: 26 End: 142 ......................... M R V C L F L F V F S R P Q S C S K A L K I E A Y P Q Y H S F K G Y F Y L K L ........................................................................... Protein_Len: 35 Strand: - Start: 86 End: 190 ..................................................................................... F Y F S I R L I M T K F T V K V Q F Q L R K R N T Q T Q S I I L M I M ........................... aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt 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: 149 End: 178 ....................................................................................................................................................TTTCCTATTTGTTTGAGTTTGTGATATAAT....................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1916:SSA_1917|SSA_1916:SSA_1917:hypothetical protein:Alcohol dehydrogenase, propanol-preferring, putative:->->:1906440..1906656 217 aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt Intra-Species Hit: Count: 1 Min: 1 Max: 217 Len: 217 Subject: NC_009009_SSA_1916_SSA_1917|hypothetical protein:Alcohol dehydrogenase, propanol-preferring, putative|POSITIVE:POSITIVE|[1906440,1906656]|217 HSP 1 e-value: 1.0E-120 bit: 430.0 Len: 217 Query Start:1 Query End:217 Subject Strand: POSITIVE Subject Start: 1 Subject End: 217 aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt aagtagacaattaggcaaactctgtttgagagtttgtcttttcttatttgtcttctctcgacctcaatcatgctcaaaagctttaaaaatagaagcttatccgcagtatcatagttttaaaggttacttttacttgaaattgtaaacgtttcctatttgtttgagtttgtgatataattaacataatcaaaaactaaataacaggaggaaattactt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUAGACAAUUAGGCAAACUCUGUUUGAGAGUUUGUCUUUUCUUAUUUGUCUUCUCUCGACCUCAAUCAUGCUCAAAAGCUUUAAAAAUAGAAGCUUAUCCGCAGUAUCAUAGUUUUAAAGGUUACUUUUACUUGAAAUUGUAAACGUUUCCUAUUUGUUUGAGUUUGUGAUAUAAUUAACAUAAUCAAAAACUAAAUAACAGGAGGAAAUUACUU .((.((((((..(((((((((((.....)))))))))))........)))))).)).....................(((((((.......)))))))....(((((.(((.(((...((((....)))).)))))).)))))....(((((((.((((((..(((((.((((............)))).)))))....)))))))))))))..... (-50.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUAAUUUCCUCCUGUUAUUUAGUUUUUGAUUAUGUUAAUUAUAUCACAAACUCAAACAAAUAGGAAACGUUUACAAUUUCAAGUAAAAGUAACCUUUAAAACUAUGAUACUGCGGAUAAGCUUCUAUUUUUAAAGCUUUUGAGCAUGAUUGAGGUCGAGAGAAGACAAAUAAGAAAAGACAAACUCUCAAACAGAGUUUGCCUAAUUGUCUACUU ..((((.....(((((((.((((((((.((((.(((.....))))))).))))).)))..))))))).....))))......(((((...((...((((...(((.((((..(((....((((((.((....))))))))....)))..)))).)))..))))...))..........((.((((((((.....)))))))).)).......))))) (-40.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 306 74 31 162 119 NC_009009:SSA_2218|5end_Glycosyltransferase_(cell_wall_biogenesis)_Cps9G,_putative_2219941..2220171_NEGATIVE 304 84 44 127 88 NC_009009:SSA_0993|5end_hypothetical_protein_994064..994294_POSITIVE 286 53 20 159 125 NC_009009:SSA_0677|5end_rRNA_methylase,_putative_659466..659696_POSITIVE 282 57 15 105 49 NC_009009:SSA_1805|5end_Primosomal_protein_DnaI,_putative_1789564..1789794_NEGATIVE 272 82 50 155 124 NC_009009:SSA_1764|5end_hypothetical_protein_1750868..1751098_POSITIVE 266 86 47 75 29 NC_009009:SSA_0199|5end_GTP_cyclohydrolase_I,_putative_198276..198506_POSITIVE 263 75 36 123 77 NC_009009:SSA_2176|5end_hypothetical_protein_2175159..2175389_NEGATIVE 262 65 21 100 52 NC_009009:SSA_0239|5end_7,8-dihydro-8-oxoguanine-triphosphatase,_putative_232961..233191_POSITIVE 260 59 14 99 45 NC_009009:SSA_2102|5end_Conserved_uncharacterized_protein_2106410..2106640_NEGATIVE 257 63 21 77 34 NC_009009:SSA_1613|5end_hypothetical_protein_1616975..1617205_NEGATIVE 257 44 8 176 136 NC_009009:SSA_0596|5end_hypothetical_protein_586913..587143_POSITIVE 256 85 50 170 137 NC_009009:SSA_1069|5end_Lipoprotein_signal_peptidase,_putative_1088291..1088521_POSITIVE 253 70 22 109 57 NC_009009:SSA_0539|5end_PduO_protein,_putative_534233..534463_POSITIVE 253 90 47 95 58 NC_009009:SSA_0512|5end_Nicotinate-nucleotide--dimethylbenzimidazole_phosphoribosyltransferase,_putative_510439..510669_POSITIVE 253 83 45 56 19 NC_009009:SSA_0226|5end_60_kDa_chaperonin_218947..219177_POSITIVE 252 59 15 102 51 NC_009009:SSA_0615|5end_RggD,_putative_609195..609425_NEGATIVE 251 150 102 183 126 NC_009009:SSA_0075|5end_ABC_sugar_transporter,_permease_protein,_putative_78963..79193_POSITIVE 247 69 23 220 169 NC_009009:SSA_1144|5end_Beta-N-acetylhexosaminidase,_putative_1175610..1175840_NEGATIVE 247 56 13 180 132 NC_009009:SSA_1130|5end_Iron-dependent_peroxidase,_putative_1155802..1156032_POSITIVE 242 53 19 120 84 NC_009009:SSA_1756|5end_Conserved_uncharacterized_protein_1745291..1745521_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 306 74 31 136 93 NC_009009:SSA_2219|3end_UDP-glucose_4-epimerase,_putative_2219967..2220117_NEGATIVE 304 84 44 130 91 NC_009009:SSA_0992|3end_hypothetical_protein_994147..994297_POSITIVE 296 80 35 131 76 NC_009009:SSA_1769|3end_hypothetical_protein_1756939..1757089_NEGATIVE 294 70 21 151 95 NC_009009:SSA_1302|3end_tRNA_(Guanine-N(1)-)-methyltransferase,_putative_1321762..1321912_NEGATIVE 282 57 15 104 48 NC_009009:SSA_1806|3end_Replication_initiation/membrane_attachment_protein_DnaB,_putative_1789565..1789715_NEGATIVE 266 86 47 94 48 NC_009009:SSA_0198|3end_Dihydrofolate_synthetase,_putative_198375..198525_POSITIVE 263 75 36 50 4 NC_009009:SSA_2177|3end_hypothetical_protein_2175232..2175382_NEGATIVE 263 52 16 85 53 NC_009009:SSA_1173|3end_Lipoate_protein_ligase_A,_putative_1200092..1200242_NEGATIVE 262 65 21 90 42 NC_009009:SSA_0238|3end_hypothetical_protein_233031..233181_POSITIVE 257 75 50 150 127 NC_009009:SSA_1763|3end_ABC-type_molybdenum_transport_system,_ATPase_component,_putative_1750951..1751101_POSITIVE 254 39 2 78 35 NC_009009:SSA_1916|3end_hypothetical_protein_1906379..1906529_POSITIVE 253 90 47 132 95 NC_009009:SSA_0511|3end_Propanediol_utilization_kinase,_putative_510556..510706_POSITIVE 251 150 102 115 58 NC_009009:SSA_0074|3end_ABC_transporter_substrate-binding_protein-sugar_transport,_putative_78975..79125_POSITIVE 247 69 23 136 85 NC_009009:SSA_1145|3end_hypothetical_protein_1175694..1175844_NEGATIVE 244 81 44 134 91 NC_009009:SSA_1245|3end_Transcriptional_regulator,_LysR_family,_putative_1269710..1269860_POSITIVE 242 53 19 129 93 NC_009009:SSA_1757|3end_hypothetical_protein_1745282..1745432_NEGATIVE 239 77 31 116 72 NC_009009:SSA_1841|3end_Cof_family_protein/peptidyl-prolyl_cis-trans_isomerase,_cyclophilin_type,_putative_1834422..1834572_NEGATIVE 237 67 21 82 23 NC_009009:SSA_2194|3end_Nicotinamide_mononucleotide_transporter,_putative_2194848..2194998_NEGATIVE 236 59 14 84 31 NC_009009:SSA_2111|3end_30S_ribosomal_protein_S12,_putative_2115599..2115749_NEGATIVE 235 129 81 147 102 NC_009009:SSA_1482|3end_Pullulanase,_putative_1486949..1487099_NEGATIVE