Origin IGS: aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaataaattaatgcaatagcaattattccaactatatatttaataatttttttcatctaaaatttacctctctaagttaagattttgccattaaaatcagtttcataataataaaagttccaaaaaaagctagtaaaaaaactccaactactttaattattattcccattatatctt Mask Tandem Repeat Region ================================================ aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta Find is-nt database================================================ Query_seq: FN1114:FN1115|FN1114:FN1115:hypothetical protein:Hypothetical membrane-spanning protein:->->:1758747..1758924 178 aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN1114:FN1115|FN1114:FN1115:hypothetical protein:Hypothetical membrane-spanning protein:->->:1758747..1758924 178 aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN1114:FN1115|FN1114:FN1115:hypothetical protein:Hypothetical membrane-spanning protein:->->:1758747..1758924 178 aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 6 End: 98 ..... M M G I I I K V V G V F L L A F F G T F I I M K L I L M A K S ................................................................................ aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta 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================================================ aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN1114:FN1115|FN1114:FN1115:hypothetical protein:Hypothetical membrane-spanning protein:->->:1758747..1758924 178 aagatataatgggaataataattaaagtagttggagtttttttactagctttttttggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta Intra-Species Hit: Count: 1 Min: 1 Max: 178 Len: 178 Subject: NC_003454_FN1114_FN1115|hypothetical protein:Hypothetical membrane-spanning protein|POSITIVE:POSITIVE|[1758747,1758924]|178 HSP 1 e-value: 1.0E-50 bit: 200.0 Len: 122 Query Start:57 Query End:178 Subject Strand: POSITIVE Subject Start: 57 Subject End: 178 ........................................................ggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgnnnnnnnttattaaatatatagttggaataattgctattgcattaatttattta ........................................................ggaacttttattattatgaaactgattttaatggcaaaatcttaacttagagaggtaaattttagatgaaaaaaattattaaatatatagttggaataattgctattgcattaatttattta HSP 2 e-value: 7.0E-12 bit: 71.9 Len: 36 Query Start:1 Query End:36 Subject Strand: POSITIVE Subject Start: 1 Subject End: 36 aagatataatgggaataataattaaagtagttggag.............................................................................................................................................. aagatataatgggaataataattaaagtagttggag.............................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGAUAUAAUGGGAAUAAUAAUUAAAGUAGUUGGAGUUUUUUUACUAGCUUUUUUUGGAACUUUUAUUAUUAUGAAACUGAUUUUAAUGGCAAAAUCUUAACUUAGAGAGGUAAAUUUUAGAUGAAAAAAAUUAUUAAAUAUAUAGUUGGAAUAAUUGCUAUUGCAUUAAUUUAUUUA ......(((((...((((((((.(((((((..((((((........))))))..))...))))).))))))))...........(((((((((..((((......))))....................((((((.......)))))).......))))))))))))))......... (-23.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUAAAUUAAUGCAAUAGCAAUUAUUCCAACUAUAUAUUUAAUAAUUUUUUUCAUCUAAAAUUUACCUCUCUAAGUUAAGAUUUUGCCAUUAAAAUCAGUUUCAUAAUAAUAAAAGUUCCAAAAAAAGCUAGUAAAAAAACUCCAACUACUUUAAUUAUUAUUCCCAUUAUAUCUU ........((((((.....((((..(((..((((...........((((((........))))))..........))))..))).))))))))))..........((((((((.(((((...............................))))).)))))))).............. (-12.38) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 237 47 4 188 148 NC_003454:FN1649|5end_Oligopeptide_transport_ATP-binding_protein_oppD_144115..144345_NEGATIVE 229 113 78 162 115 NC_003454:FN1227|5end_hypothetical_protein_1885707..1885937_NEGATIVE 212 59 26 199 157 NC_003454:FN1533|5end_Electron_transfer_flavoprotein_alpha-subunit_46321..46551_NEGATIVE 210 169 129 137 93 NC_003454:FN0255|5end_Hypothetical_cytosolic_protein_881870..882100_POSITIVE 197 57 22 42 7 NC_003454:FN0276|5end_Sodium-dependent_phosphate_transporter_903323..903553_NEGATIVE 188 55 24 152 125 NC_003454:FN0397|5end_Dipeptide_transport_system_permease_protein_dppB_1035822..1036052_POSITIVE 186 42 1 179 133 NC_003454:FN0253|5end_Outer_membrane_protein_874510..874740_POSITIVE 186 42 1 179 133 NC_003454:FN2059|5end_Outer_membrane_protein_573332..573562_NEGATIVE 186 42 1 179 133 NC_003454:FN2048|5end_Outer_membrane_protein_559256..559486_NEGATIVE 185 58 26 229 190 NC_003454:FN1553|5end_Transporter_68538..68768_NEGATIVE 184 67 28 133 82 NC_003454:FN0412|5end_Recombination_protein_recR_1048549..1048779_POSITIVE 183 71 31 74 33 NC_003454:FN0896|5end_hypothetical_protein_1555780..1556010_NEGATIVE 183 150 104 166 130 NC_003454:FN1904|5end_Transcriptional_regulator,_MarR_family_393107..393337_POSITIVE 183 69 33 173 133 NC_003454:FN1629|5end_50S_ribosomal_protein_L6_134508..134738_NEGATIVE 181 122 87 148 113 NC_003454:FN1034|5end_Transcriptional_regulator,_TetR_family_1687648..1687878_POSITIVE 181 65 31 195 159 NC_003454:FN0356|5end_Lactoylglutathione_lyase_987852..988082_NEGATIVE 178 65 22 175 129 NC_003454:FN0505|5end_Anthranilate_synthase_component_II_1155775..1156005_NEGATIVE 174 57 39 51 33 NC_003454:FN0161|5end_RNA-directed_DNA_polymerase_788763..788993_POSITIVE 173 89 44 113 71 NC_003454:FN0981|5end_phosphoribosylamine--glycine_ligase_1634120..1634350_NEGATIVE 173 59 27 216 181 NC_003454:FN0492|5end_hypothetical_protein_1137651..1137881_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 207 65 31 148 114 NC_003454:FN1800|3end_Peptidyl-prolyl_cis-trans_isomerase_282534..282684_POSITIVE 199 37 2 129 93 NC_003454:FN1008|3end_hypothetical_protein_1662528..1662678_NEGATIVE 189 68 29 95 55 NC_003454:FN0048|3end_4-nitrophenylphosphatase_685285..685435_NEGATIVE 188 55 24 68 41 NC_003454:FN0396|3end_Dipeptide-binding_protein_1035818..1035968_POSITIVE 186 42 1 110 64 NC_003454:FN0252|3end_hypothetical_protein_874521..874671_POSITIVE 186 42 1 110 64 NC_003454:FN2060|3end_hypothetical_protein_573401..573551_NEGATIVE 186 42 1 110 64 NC_003454:FN2049|3end_hypothetical_protein_559325..559475_NEGATIVE 185 58 26 48 9 NC_003454:FN1554|3end_Fusobacterium_outer_membrane_protein_family_68719..68869_NEGATIVE 184 67 28 120 69 NC_003454:FN0411|3end_hypothetical_protein_1048616..1048766_POSITIVE 183 69 33 148 108 NC_003454:FN1630|3end_SSU_ribosomal_protein_S8P_134533..134683_NEGATIVE 178 65 22 148 102 NC_003454:FN0506|3end_Arginyl-tRNA_synthetase_1155802..1155952_NEGATIVE 176 70 24 102 50 NC_003454:FN0430|3end_50S_ribosomal_protein_L19_1071791..1071941_POSITIVE 173 89 44 96 54 NC_003454:FN0982|3end_bifunctional_phosphoribosylaminoimidazolecarboxamide_formyltransferase/IMP_cyclohydrolase_1634137..1634287_NEGATIVE 171 56 11 90 52 NC_003454:FN0099|3end_Inorganic_pyrophosphatase_735115..735265_POSITIVE 169 70 24 61 14 NC_003454:FN1599|3end_hypothetical_protein_108277..108427_NEGATIVE 167 75 37 71 19 NC_003454:FN0522|3end_Exonuclease_SBCC_1172965..1173115_NEGATIVE 167 65 26 151 103 NC_003454:FN2059|3end_Outer_membrane_protein_572877..573027_NEGATIVE 167 65 26 151 103 NC_003454:FN2048|3end_Outer_membrane_protein_558801..558951_NEGATIVE 167 69 26 93 44 NC_003454:FN1638|3end_50S_ribosomal_protein_L16_137070..137220_NEGATIVE 165 95 59 118 81 NC_003454:FN1091|3end_Sigma_factor_sigB_regulation_protein_rsbU_1737338..1737488_POSITIVE