Origin IGS: acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc .........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 ggcagtaagggcagtatatctgcagaataatacggagcaaatattatgtttaaaactcttatggatgcctcttttattaaaaaaatattacaaaattgatttccgtgataattcagtgtcccctattgacaatatccgttattgagtatatgtttttatactcaagatccccgcttgtggagtaagtgt Mask Tandem Repeat Region ================================================ acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc Find is-nt database================================================ Query_seq: TDE0155:TDE0156|TDE0155:TDE0156:adenylate/guanylate cyclase catalytic domain protein:adenylate/guanylate cyclase catalytic domain protein:<-<-:180245..180433 189 acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0155:TDE0156|TDE0155:TDE0156:adenylate/guanylate cyclase catalytic domain protein:adenylate/guanylate cyclase catalytic domain protein:<-<-:180245..180433 189 acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0155:TDE0156|TDE0155:TDE0156:adenylate/guanylate cyclase catalytic domain protein:adenylate/guanylate cyclase catalytic domain protein:<-<-:180245..180433 189 acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 74 End: 187 ......................................................................... M N Y H G N Q F C N I F L I K E A S I R V L N I I F A P Y Y S A D I L P L L .. Protein_Len: 41 Strand: - Start: 48 End: 170 ............................................... Y R I N D I P S V S N D R F D I K Y Y K K L L L P M W L L K L C L I Q E T N N Q M ................... Protein_Len: 32 Strand: - Start: 8 End: 103 ....... E V L P S R S Y L F M Y E I V S I T L L P C Q I I V S I L K T M ...................................................................................... acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc 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: 85 Start: 36 End: 65 ...................................ATTGACAATATCCGTTATTGAGTATATGTT............................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0155:TDE0156|TDE0155:TDE0156:adenylate/guanylate cyclase catalytic domain protein:adenylate/guanylate cyclase catalytic domain protein:<-<-:180245..180433 189 acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc Intra-Species Hit: Count: 1 Min: 1 Max: 189 Len: 189 Subject: NC_002967_TDE0155_TDE0156|adenylate/guanylate cyclase catalytic domain protein:adenylate/guanylate cyclase catalytic domain protein|NEGATIVE:NEGATIVE|[180245,180433]|189 HSP 1 e-value: 1.0E-90 bit: 333.0 Len: 189 Query Start:1 Query End:189 Subject Strand: POSITIVE Subject Start: 1 Subject End: 189 acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatannnnnnnaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc acacttactccacaagcggggatcttgagtataaaaacatatactcaataacggatattgtcaataggggacactgaattatcacggaaatcaattttgtaatatttttttaataaaagaggcatccataagagttttaaacataatatttgctccgtattattctgcagatatactgcccttactgcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACACUUACUCCACAAGCGGGGAUCUUGAGUAUAAAAACAUAUACUCAAUAACGGAUAUUGUCAAUAGGGGACACUGAAUUAUCACGGAAAUCAAUUUUGUAAUAUUUUUUUAAUAAAAGAGGCAUCCAUAAGAGUUUUAAACAUAAUAUUUGCUCCGUAUUAUUCUGCAGAUAUACUGCCCUUACUGCC ...............((((.(((.(((((((((......)))))))))...((((((...(((...(....)..)))..)))).))...)))........................(((.((((.........((.....))...((((((((.............))))))))..))))))).)))). (-34.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGCAGUAAGGGCAGUAUAUCUGCAGAAUAAUACGGAGCAAAUAUUAUGUUUAAAACUCUUAUGGAUGCCUCUUUUAUUAAAAAAAUAUUACAAAAUUGAUUUCCGUGAUAAUUCAGUGUCCCCUAUUGACAAUAUCCGUUAUUGAGUAUAUGUUUUUAUACUCAAGAUCCCCGCUUGUGGAGUAAGUGU (((((((((.((((.....))))...........(((((.......)))))......)))))...))))..................((((............((.((((..((((((.....))))))...))))))...(((((((((......))))))))).....(((....))).)))).... (-34.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 839 50 1 141 92 NC_002967:TDE0155|5end_adenylate/guanylate_cyclase_catalytic_domain_protein_180154..180384_NEGATIVE 463 130 82 201 152 NC_002967:TDE1955|5end_hypothetical_protein_1970900..1971130_NEGATIVE 312 110 83 231 204 NC_002967:TDE0462|5end_metallo-beta-lactamase_family_protein_516987..517217_NEGATIVE 263 100 58 75 37 NC_002967:TDE1460|5end_hypothetical_protein_1511091..1511321_NEGATIVE 254 158 119 201 164 NC_002967:TDE1098|5end_hypothetical_protein_1133678..1133908_NEGATIVE 248 31 8 173 148 NC_002967:TDE2701|5end_hypothetical_protein_2745689..2745919_POSITIVE 248 158 118 105 59 NC_002967:TDE2541|5end_hypothetical_protein_2568165..2568395_POSITIVE 243 93 52 87 49 NC_002967:TDE2579|5end_ATP-dependent_DNA_helicase_RecG_2605324..2605554_NEGATIVE 243 180 131 172 124 NC_002967:TDE1769|5end_hypothetical_protein_1814377..1814607_NEGATIVE 240 93 52 148 105 NC_002967:TDE1314|5end_penicillin-binding_protein_1351174..1351404_POSITIVE 231 160 116 150 102 NC_002967:TDE1791|5end_hypothetical_protein_1828775..1829005_NEGATIVE 230 87 45 177 131 NC_002967:TDE2773|5end_hypothetical_protein_2825963..2826193_NEGATIVE 228 179 143 150 109 NC_002967:TDE1684|5end_adenine_phosphoribosyltransferase_1737327..1737557_NEGATIVE 227 157 116 101 52 NC_002967:TDE2650|5end_transcriptional_regulator,_putative_2689031..2689261_NEGATIVE 225 169 128 168 122 NC_002967:TDE0413|5end_lipoprotein,_putative_466338..466568_POSITIVE 224 157 117 101 52 NC_002967:TDE2614|5end_ApbE_family_protein_2657133..2657363_NEGATIVE 222 99 51 211 158 NC_002967:TDE0821|5end_hypothetical_protein_844378..844608_POSITIVE 222 170 122 108 48 NC_002967:TDE0432|5end_TPR_domain_protein,_truncation_488193..488423_NEGATIVE 219 169 125 119 71 NC_002967:TDE2677|5end_hypothetical_protein_2715604..2715834_POSITIVE 219 55 14 97 52 NC_002967:TDE0446|5end_fibronectin_type_III_domain_protein_501269..501499_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 254 158 119 143 106 NC_002967:TDE1099|3end_acetyltransferase,_GNAT_family_1133736..1133886_NEGATIVE 247 97 53 110 69 NC_002967:TDE0982|3end_dihydroorotate_dehydrogenase/oxidoreductase,_FAD-binding_1008332..1008482_POSITIVE 233 179 133 137 87 NC_002967:TDE1958|3end_surface_protein,_putative_1972309..1972459_NEGATIVE 229 179 131 64 16 NC_002967:TDE1806|3end_hypothetical_protein_1843190..1843340_NEGATIVE 228 179 143 125 84 NC_002967:TDE1685|3end_GGDEF_domain_protein_1737352..1737502_NEGATIVE 226 88 53 118 83 NC_002967:TDE1982|3end_hypothetical_protein_1992511..1992661_NEGATIVE 224 157 117 88 39 NC_002967:TDE2615|3end_signal_peptidase_II_2657146..2657296_NEGATIVE 223 88 42 80 34 NC_002967:TDE1539|3end_hypothetical_protein_1584190..1584340_POSITIVE 219 169 125 113 65 NC_002967:TDE2676|3end_threonine_synthase_2715678..2715828_POSITIVE 217 56 17 69 26 NC_002967:TDE0979|3end_penicillin_binding_protein_1002510..1002660_NEGATIVE 216 70 22 81 25 NC_002967:TDE2308|3end_hypothetical_protein_2346313..2346463_POSITIVE 211 180 137 136 91 NC_002967:TDE2260|3end_hypothetical_protein_2297573..2297723_POSITIVE 211 168 121 137 88 NC_002967:TDE0077|3end_glycine_reductase_complex_proprotein_GrdE1_87422..87572_NEGATIVE 208 32 2 51 20 NC_002967:TDE2467|3end_hypothetical_protein_2489881..2490031_NEGATIVE 207 128 83 47 9 NC_002967:TDE1922|3end_hypothetical_protein_1940913..1941063_NEGATIVE 206 159 120 108 65 NC_002967:TDE1846|3end_hypothetical_protein_1875169..1875319_NEGATIVE 201 154 118 151 118 NC_002967:TDE1132|3end_chorismate_synthase_1164580..1164730_POSITIVE 201 100 52 117 65 NC_002967:TDE1081|3end_hypothetical_protein_1113228..1113378_POSITIVE 201 76 40 53 2 NC_002967:TDE0416|3end_bacteriocin-type_signal_domain_protein_469522..469672_POSITIVE 201 168 125 73 27 NC_002967:TDE0049|3end_hypothetical_protein_58199..58349_NEGATIVE