Origin IGS: gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttttctctctaaatattctttcaataaaaaatctcttgcaaaatacaagactgtaacaactataacaataaaaagtaataatattcctataaactttttcatttgatcctcac Mask Tandem Repeat Region ================================================ gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa Find is-nt database================================================ Query_seq: FN0172:FN0173|FN0172:FN0173:RNA binding protein:hypothetical protein:->->:797866..797978 113 gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0172:FN0173|FN0172:FN0173:RNA binding protein:hypothetical protein:->->:797866..797978 113 gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0172:FN0173|FN0172:FN0173:RNA binding protein:hypothetical protein:->->:797866..797978 113 gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 12 End: 113 ........... M K K F I G I L L L F I V I V V T V L Y F A R D F L L K E Y L E R K gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa 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================================================ gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0172:FN0173|FN0172:FN0173:RNA binding protein:hypothetical protein:->->:797866..797978 113 gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: NC_003454_FN0172_FN0173|RNA binding protein:hypothetical protein|POSITIVE:POSITIVE|[797866,797978]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa gtgaggatcaaatgaaaaagtttataggaatattattactttttattgttatagttgttacagtcttgtattttgcaagagattttttattgaaagaatatttagagagaaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUGAGGAUCAAAUGAAAAAGUUUAUAGGAAUAUUAUUACUUUUUAUUGUUAUAGUUGUUACAGUCUUGUAUUUUGCAAGAGAUUUUUUAUUGAAAGAAUAUUUAGAGAGAAAA ((((.(((..(((.(((((((..((((.....)))).)))))))...)))...))).))))..((((((.....))))))..((((((.(((((......))))).)))))). (-16.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUCUCUCUAAAUAUUCUUUCAAUAAAAAAUCUCUUGCAAAAUACAAGACUGUAACAACUAUAACAAUAAAAAGUAAUAAUAUUCCUAUAAACUUUUUCAUUUGAUCCUCAC .................................(((((.......)))))...............(((.(((((((................)))))))...)))........ ( -5.39) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 263 99 51 161 111 NC_003454:FN0014|5end_Transporter_652565..652795_POSITIVE 261 69 21 140 87 NC_003454:FN0901|5end_DNA_polymerase,_bacteriophage-type_1559972..1560202_POSITIVE 250 90 41 191 138 NC_003454:FN2021|5end_ABC1_family_protein_525079..525309_NEGATIVE 220 88 41 149 111 NC_003454:FN0453|5end_Xaa-Pro_aminopeptidase_1097547..1097777_POSITIVE 206 74 31 119 67 NC_003454:FN1342|5end_Holo-[acyl-carrier_protein]_synthase_1996459..1996689_NEGATIVE 204 80 31 116 61 NC_003454:FN0773|5end_hypothetical_protein_1429274..1429504_POSITIVE 197 70 21 173 113 NC_003454:FN0783|5end_Acyl-CoA_dehydrogenase_1439166..1439396_POSITIVE 192 77 31 59 14 NC_003454:FN1893|5end_Fusobacterium_outer_membrane_protein_family_378497..378727_NEGATIVE 189 77 34 171 132 NC_003454:FN1764|5end_Enolase_257997..258227_NEGATIVE 182 89 47 202 157 NC_003454:FN0663|5end_hypothetical_protein_1319286..1319516_POSITIVE 182 77 32 65 22 NC_003454:FN0648|5end_Exoenzyme_regulatory_protein_aepA_precursor_1306061..1306291_NEGATIVE 176 70 21 200 143 NC_003454:FN1112|5end_Dipeptide_transport_system_permease_protein_dppC_1756977..1757207_NEGATIVE 176 110 61 143 94 NC_003454:FN1894|5end_BAX_protein_382342..382572_NEGATIVE 174 99 56 215 165 NC_003454:FN0936|5end_CapC_protein_1589107..1589337_NEGATIVE 173 86 42 160 109 NC_003454:FN0291|5end_Hemolysin_924999..925229_NEGATIVE 173 80 31 179 122 NC_003454:FN0127|5end_Fe-S_oxidoreductase_756312..756542_NEGATIVE 172 52 25 31 1 NC_003454:FN0872|5end_hypothetical_protein_1532647..1532877_NEGATIVE 172 69 23 53 11 NC_003454:FN0293|5end_Hemolysin_activator_protein_precursor_926559..926789_NEGATIVE 169 60 13 148 107 NC_003454:FN0653|5end_hypothetical_protein_1311448..1311678_POSITIVE 167 100 57 116 74 NC_003454:FN1180|5end_hypothetical_protein_1842588..1842818_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 69 21 130 77 NC_003454:FN0900|3end_Metal_dependent_hydrolase_1560042..1560192_POSITIVE 239 90 50 143 104 NC_003454:FN0013|3end_Transporter_652639..652789_POSITIVE 220 88 41 124 86 NC_003454:FN0452|3end_Glucosamine--fructose-6-phosphate_aminotransferase_[isomerizing]_1097602..1097752_POSITIVE 206 74 31 122 70 NC_003454:FN1343|3end_seC-independent_protein_TATD_1996456..1996606_NEGATIVE 189 77 34 145 106 NC_003454:FN1765|3end_pyruvate_kinase_258023..258173_NEGATIVE 180 77 38 37 5 NC_003454:FN0649|3end_Exoenzyme_regulatory_protein_aepA_precursor_1306089..1306239_NEGATIVE 179 95 52 140 92 NC_003454:FN1137|3end_Phosphonates_transport_system_permease_protein_phnE_1785417..1785567_POSITIVE 179 78 33 146 101 NC_003454:FN1498|3end_Integral_membrane_protein_3542..3692_POSITIVE 173 89 53 88 50 NC_003454:FN1006|3end_Acetyltransferase_1660998..1661148_NEGATIVE 173 86 42 148 97 NC_003454:FN0292|3end_Hemolysin_activator_protein_precursor_925011..925161_NEGATIVE 171 110 75 38 9 NC_003454:FN2007|3end_Glutathione_peroxidase_506877..507027_NEGATIVE 169 60 13 69 28 NC_003454:FN0652|3end_Glyceraldehyde_3-phosphate_dehydrogenase_1311449..1311599_POSITIVE 164 100 77 31 6 NC_003454:FN1253|3end_hypothetical_protein_1910229..1910379_NEGATIVE 164 88 49 117 74 NC_003454:FN0318|3end_CITX_protein_955285..955435_NEGATIVE 163 46 3 55 7 NC_003454:FN1475|3end_N-acetylneuraminate_lyase_2158737..2158887_POSITIVE 162 50 5 68 26 NC_003454:FN1674|3end_hypothetical_protein_172225..172375_POSITIVE 161 103 64 63 21 NC_003454:FN2045|3end_Ferric_uptake_regulation_protein_550374..550524_NEGATIVE 160 100 54 81 30 NC_003454:FN0252|3end_hypothetical_protein_874521..874671_POSITIVE 160 100 54 81 30 NC_003454:FN2060|3end_hypothetical_protein_573401..573551_NEGATIVE 160 100 54 81 30 NC_003454:FN2049|3end_hypothetical_protein_559325..559475_NEGATIVE