Origin IGS: tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaatctcatttgacgagcatcgaatttatgattacaattccgctccctatttttcaacaatctttgtttattaaatgtttttgaaacgtttaaaatagaaacagttaaactaattttgacttaggtacattaca Mask Tandem Repeat Region ================================================ tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca Find is-nt database================================================ Query_seq: AA03014:AA03015|AA03014:AA03015:conserved hypothetical protein:hypothetical protein:->->:2105087..2105221 135 tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA03014:AA03015|AA03014:AA03015:conserved hypothetical protein:hypothetical protein:->->:2105087..2105221 135 tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA03014:AA03015|AA03014:AA03015:conserved hypothetical protein:hypothetical protein:->->:2105087..2105221 135 tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 21 End: 134 .................... M S L T V S I L N V S K T F N K Q R L L K N R E R N C N H K F D A R Q M R F . tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca 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: 86 Start: 97 End: 126 ................................................................................................TTTGACGAGCATCGAATTTATGATTACAAT......... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 39 End: 68 ......................................TTTATTAAATGTTTTTGAAACGTTTAAAAT................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA03014:AA03015|AA03014:AA03015:conserved hypothetical protein:hypothetical protein:->->:2105087..2105221 135 tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca Intra-Species Hit: Count: 1 Min: 1 Max: 135 Len: 135 Subject: aact_AA03014_AA03015|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2105087,2105221]|135 HSP 1 e-value: 4.0E-71 bit: 268.0 Len: 135 Query Start:1 Query End:135 Subject Strand: POSITIVE Subject Start: 1 Subject End: 135 tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca tgtaatgtacctaagtcaaaattagtttaactgtttctattttaaacgtttcaaaaacatttaataaacaaagattgttgaaaaatagggagcggaattgtaatcataaattcgatgctcgtcaaatgagattca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUAAUGUACCUAAGUCAAAAUUAGUUUAACUGUUUCUAUUUUAAACGUUUCAAAAACAUUUAAUAAACAAAGAUUGUUGAAAAAUAGGGAGCGGAAUUGUAAUCAUAAAUUCGAUGCUCGUCAAAUGAGAUUCA .........((((..((((...((((((...(((((.....(((((.(((.....))).))))).))))).))))))))))....))))((((((((((.........)))))..)))))............... (-16.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUCUCAUUUGACGAGCAUCGAAUUUAUGAUUACAAUUCCGCUCCCUAUUUUUCAACAAUCUUUGUUUAUUAAAUGUUUUUGAAACGUUUAAAAUAGAAACAGUUAAACUAAUUUUGACUUAGGUACAUUACA ...............((((...(((((((....)).))))).))))((((.............(((((((..((((((((.....)))))))))))))))...(((((((.....)))))))))))......... (-16.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 288 125 85 228 189 aact:AA01116|5end_hypothetical_protein_767629..767859_POSITIVE 278 123 84 172 131 aact:AA00595|5end_hypothetical_protein_407194..407424_POSITIVE 255 125 88 215 178 aact:AA02569|5end_hypothetical_protein_1789012..1789242_POSITIVE 246 122 84 160 116 aact:AA02220|5end_ABC_transport_system_permease_protein_1511155..1511385_POSITIVE 244 130 93 203 161 aact:AA00785|5end_conserved_hypothetical_protein_(possible_integrase)_539221..539451_POSITIVE 234 129 84 96 54 aact:AA02758|5end_3-phosphoshikimate_1-carboxyvinyltransferase_1931802..1932032_POSITIVE 234 130 88 208 168 aact:AA01159|5end_phosphatase_792828..793058_POSITIVE 234 124 89 123 82 aact:AA00649|5end_peptide_chain_release_factor_1_(RF-1)_443277..443507_POSITIVE 233 119 76 172 138 aact:AA00083|5end_hypothetical_protein_60664..60894_POSITIVE 227 106 69 154 110 aact:AA01131|5end_conserved_hypothetical_protein_775275..775505_POSITIVE 220 128 86 182 138 aact:AA00841|5end_UDP-MurNAc-tripeptide_synthetase_581318..581548_POSITIVE 219 130 83 65 10 aact:AA01908|5end_conserved_hypothetical_protein_1287068..1287298_POSITIVE 219 123 88 152 114 aact:AA01724|5end_valyl-tRNA_synthetase_1164446..1164676_POSITIVE 216 118 84 178 144 aact:AA01507|5end_conserved_hypothetical_protein_1012433..1012663_POSITIVE 216 125 85 67 17 aact:AA01451|5end_D-xylulokinase_971935..972165_POSITIVE 213 126 82 212 174 aact:AA00251|5end_lipoate_biosynthesis_protein_B_176523..176753_POSITIVE 212 124 85 132 102 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 212 94 67 51 23 aact:AA00743|5end_conserved_hypothetical_protein_(possible_membrane_protein)_508371..508601_POSITIVE 212 128 89 60 22 aact:AA00488|5end_purine_nucleoside_phosphorylase_338075..338305_POSITIVE 211 128 92 162 113 aact:AA01019|5end_conserved_hypothetical_protein_712223..712453_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 255 120 79 149 111 aact:AA01953|3end_hypothetical_protein_1320349..1320499_POSITIVE 246 122 84 132 88 aact:AA02219|3end_LACI-type_transcriptional_regulator_1511207..1511357_POSITIVE 234 124 89 80 39 aact:AA00647|3end_protoporphyrinogen_oxidase_443314..443464_POSITIVE 228 117 73 88 40 aact:AA02623|3end_dTDP-D-glucose_4,6-dehydratase_1827979..1828129_POSITIVE 216 125 85 84 34 aact:AA01450|3end_hypothetical_protein_972032..972182_POSITIVE 216 117 72 151 113 aact:AA00840|3end_UDP-MurNAc-pentapeptide_synthetase_581388..581538_POSITIVE 213 126 82 144 106 aact:AA00250|3end_lipoate_biosynthesis_protein_A_176535..176685_POSITIVE 212 123 88 126 82 aact:AA01611|3end_anthranilate_synthase_component_II_1089619..1089769_POSITIVE 212 94 67 29 1 aact:AA00742|3end_hypothetical_protein_508429..508579_POSITIVE 209 109 69 57 15 aact:AA02841|3end_cytochrome_D_ubiquinol_oxidase,_subunit_I_1996202..1996352_POSITIVE 209 116 73 65 20 aact:AA00784|3end_hypothetical_protein_539311..539461_POSITIVE 208 120 72 117 67 aact:AA02019|3end_hypothetical_protein_1373925..1374075_POSITIVE 205 129 85 136 101 aact:AA02867|3end_ribonuclease_T_2013848..2013998_POSITIVE 205 128 87 81 43 aact:AA01444|3end_ISRS011/IS150_related_transposase,_orfB_969853..970003_POSITIVE 203 118 77 45 8 aact:AA00574|3end_regulatory_protein_392381..392531_POSITIVE 200 129 88 95 55 aact:AA02350|3end_possible_lipoprotein_1609179..1609329_POSITIVE 198 126 85 120 77 aact:AA02700|3end_succinyl-CoA_synthase,_alpha_subunit_1884205..1884355_POSITIVE 196 129 91 151 99 aact:AA02658|3end_conserved_hypothetical_protein_1852591..1852741_POSITIVE 196 124 88 124 93 aact:AA00363|3end_50S_ribosomal_protein_L22_245980..246130_POSITIVE 195 122 89 148 122 aact:AA00930|3end_pantothenate_kinase_641266..641416_POSITIVE