Origin IGS: aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttattcctcctaatatttaatatctaagctaagtaatacattggctagttgcaaaactgagcttaaattacttaattattttagcaaaaatatcaaaaactgtcaatagtt Mask Tandem Repeat Region ================================================ aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa Find is-nt database================================================ Query_seq: FN1978:FN1979|FN1978:FN1979:Cell division protein ftsH:SSU ribosomal protein S15P:->->:481764..481875 112 aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1978:FN1979|FN1978:FN1979:Cell division protein ftsH:SSU ribosomal protein S15P:->->:481764..481875 112 aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1978:FN1979|FN1978:FN1979:Cell division protein ftsH:SSU ribosomal protein S15P:->->:481764..481875 112 aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 6 End: 92 ..... * Q C N K I N K S F Y N L L K L E T K C S A L T N S L K S M .................... aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa 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: 93 Start: 5 End: 34 ....ATTGACAGTTTTTGATATTTTTGCTAAAAT.............................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1978:FN1979|FN1978:FN1979:Cell division protein ftsH:SSU ribosomal protein S15P:->->:481764..481875 112 aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa Intra-Species Hit: Count: 1 Min: 1 Max: 112 Len: 112 Subject: NC_003454_FN1978_FN1979|Cell division protein ftsH:SSU ribosomal protein S15P|POSITIVE:POSITIVE|[481764,481875]|112 HSP 1 e-value: 2.0E-57 bit: 222.0 Len: 112 Query Start:1 Query End:112 Subject Strand: POSITIVE Subject Start: 1 Subject End: 112 aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa aactattgacagtttttgatatttttgctaaaataattaagtaatttaagctcagttttgcaactagccaatgtattacttagcttagatattaaatattaggaggaataaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUAUUGACAGUUUUUGAUAUUUUUGCUAAAAUAAUUAAGUAAUUUAAGCUCAGUUUUGCAACUAGCCAAUGUAUUACUUAGCUUAGAUAUUAAAUAUUAGGAGGAAUAAA ...................(((((((.(((..(((.((((...(((((((((.(((..((((.........))))..))).))))))))).)))).)))))).))))))).. (-21.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAUUCCUCCUAAUAUUUAAUAUCUAAGCUAAGUAAUACAUUGGCUAGUUGCAAAACUGAGCUUAAAUUACUUAAUUAUUUUAGCAAAAAUAUCAAAAACUGUCAAUAGUU ............................((((((((((.....((((((((....)))).))))...)))))).........))))............(((((....))))) (-13.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 204 41 3 115 82 NC_003454:FN0825|5end_Hypothetical_cytosolic_protein_1485124..1485354_POSITIVE 186 86 54 39 15 NC_003454:FN0007|5end_glucose-inhibited_division_protein_A_645938..646168_POSITIVE 185 105 66 207 166 NC_003454:FN0300|5end_Iron(III)_dicitrate-binding_protein_934679..934909_POSITIVE 185 96 52 83 39 NC_003454:FN0063|5end_hypothetical_protein_698982..699212_POSITIVE 185 78 38 60 23 NC_003454:FN1806|5end_Integral_membrane_protein_287724..287954_POSITIVE 184 107 61 190 144 NC_003454:FN1501|5end_Nickel_transport_ATP-binding_protein_nikD_6710..6940_NEGATIVE 181 106 72 215 176 NC_003454:FN1263|5end_Cobalt_chelatase_1920576..1920806_NEGATIVE 181 78 47 175 138 NC_003454:FN0428|5end_hypothetical_protein_1070037..1070267_POSITIVE 180 93 51 57 20 NC_003454:FN0430|5end_50S_ribosomal_protein_L19_1071361..1071591_POSITIVE 178 70 22 90 45 NC_003454:FN0384|5end_hypothetical_protein_1015571..1015801_POSITIVE 177 81 50 84 51 NC_003454:FN1903|5end_Coenzyme_A_disulfide_reductase/_disulfide_bond_regulator_domain_393104..393334_NEGATIVE 176 70 44 42 12 NC_003454:FN1406|5end_histidine_ammonia-lyase_2064877..2065107_POSITIVE 176 87 44 65 11 NC_003454:FN0299|5end_Aspartyl-tRNA_synthetase_932393..932623_POSITIVE 175 103 70 166 133 NC_003454:FN1029|5end_Zinc_protease_1683611..1683841_NEGATIVE 172 43 3 202 164 NC_003454:FN1523|5end_Dipeptide-binding_protein_28207..28437_POSITIVE 171 110 68 220 183 NC_003454:FN1421|5end_Pyruvate-flavodoxin_oxidoreductase_2083305..2083535_POSITIVE 170 73 49 24 2 NC_003454:FN1625|5end_LSU_ribosomal_protein_L15P_132864..133094_NEGATIVE 169 54 12 50 3 NC_003454:FN2022|5end_transcription_elongation_factor_NusA_526145..526375_NEGATIVE 167 81 50 103 67 NC_003454:FN0659|5end_ABC_transporter_permease_protein_1316391..1316621_NEGATIVE 167 68 24 156 116 NC_003454:FN0595|5end_UDP-N-acetylglucosamine_acyltransferase_1249228..1249458_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 258 97 52 84 45 NC_003454:FN0371|3end_hypothetical_protein_1000840..1000990_POSITIVE 204 60 11 82 27 NC_003454:FN1231|3end_Inosine-5'-monophosphate_dehydrogenase_1887443..1887593_NEGATIVE 197 90 44 47 1 NC_003454:FN1978|3end_Cell_division_protein_ftsH_481703..481853_POSITIVE 184 68 39 83 49 NC_003454:FN1277|3end_Aminoacyl-histidine_dipeptidase_1935294..1935444_NEGATIVE 179 68 21 75 27 NC_003454:FN1307|3end_CDP-diacylglycerol--glycerol-3-phosphate_3-phosphatidyltransferase_1964056..1964206_POSITIVE 179 109 65 80 35 NC_003454:FN0500|3end_hypothetical_protein_1149592..1149742_POSITIVE 178 70 22 88 43 NC_003454:FN0383|3end_Lipopolysaccharide_N-acetylglucosaminyltransferase_1015649..1015799_POSITIVE 175 103 70 147 114 NC_003454:FN1030|3end_Hypothetical_membrane-spanning_protein_1683630..1683780_NEGATIVE 173 81 47 91 61 NC_003454:FN1141|3end_Formate_transporter_1790493..1790643_NEGATIVE 171 110 68 151 114 NC_003454:FN1420|3end_NA+/H+_antiporter_NHAC_2083316..2083466_POSITIVE 170 73 49 24 2 NC_003454:FN1626|3end_LSU_ribosomal_protein_L30P_132864..133014_NEGATIVE 167 81 50 113 77 NC_003454:FN0660|3end_ABC_transporter_ATP-binding_protein_1316381..1316531_NEGATIVE 167 68 24 138 98 NC_003454:FN0594|3end_(3R)-hydroxymyristoyl-[acyl_carrier_protein]_dehydratase_1249290..1249440_POSITIVE 167 86 48 85 26 NC_003454:FN0008|3end_quinolinate_synthetase_648986..649136_POSITIVE 166 94 54 71 36 NC_003454:FN1270|3end_Hypothetical_cytosolic_protein_1926326..1926476_NEGATIVE 166 89 49 115 74 NC_003454:FN0254|3end_Fusobacterium_outer_membrane_protein_family_881390..881540_POSITIVE 165 90 47 101 62 NC_003454:FN1080|3end_Export_ABC_transporter_1727308..1727458_POSITIVE 165 100 52 89 49 NC_003454:FN0986|3end_phosphoribosylaminoimidazole_synthetase_1637845..1637995_NEGATIVE 165 59 13 151 108 NC_003454:FN0887|3end_Oligoendopeptidase_F_1547909..1548059_NEGATIVE 165 107 63 88 42 NC_003454:FN0478|3end_GcpE_protein_1127027..1127177_POSITIVE