Origin IGS: ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaatcatctccttataattgtatttctcttgcaatacaattatatcataaaaatatttttatctcaataaaaaaggattaacttctaattacagaaactaatccttttaaacttttaattatttatttttaa Mask Tandem Repeat Region ================================================ ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt Find is-nt database================================================ Query_seq: FN0495:FN0496|FN0495:FN0496:Acetyl-CoA acetyltransferase:hypothetical protein:->->:1140916..1141049 134 ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0495:FN0496|FN0495:FN0496:Acetyl-CoA acetyltransferase:hypothetical protein:->->:1140916..1141049 134 ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0495:FN0496|FN0495:FN0496:Acetyl-CoA acetyltransferase:hypothetical protein:->->:1140916..1141049 134 ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt Predict ORF larger than 30AA ================================================ ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt 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: 89 Start: 65 End: 94 ................................................................ATTGAGATAAAAATATTTTTATGATATAAT........................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 47 HP_score: -2.2 Tail_Score: -4.28651 Start: 29 End: 58 Full_Region: tatctcaataaaaaa ggattaacttct aattac agaaactaatcc ttttaaacttttaat ............................ggattaacttctaattacagaaactaatcc............................................................................ Find igs database================================================ Query_seq: FN0495:FN0496|FN0495:FN0496:Acetyl-CoA acetyltransferase:hypothetical protein:->->:1140916..1141049 134 ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: NC_003454_FN0495_FN0496|Acetyl-CoA acetyltransferase:hypothetical protein|POSITIVE:POSITIVE|[1140916,1141049]|134 HSP 1 e-value: 2.0E-70 bit: 266.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt ttaaaaataaataattaaaagtttaaaaggattagtttctgtaattagaagttaatccttttttattgagataaaaatatttttatgatataattgtattgcaagagaaatacaattataaggagatgattttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAAAAUAAAUAAUUAAAAGUUUAAAAGGAUUAGUUUCUGUAAUUAGAAGUUAAUCCUUUUUUAUUGAGAUAAAAAUAUUUUUAUGAUAUAAUUGUAUUGCAAGAGAAAUACAAUUAUAAGGAGAUGAUUUUU .((((((((..........(((..((((((((((..(((((....)))))..))))))))))..)))..........))))))))...((((((((((((........)))))))))))).............. (-31.35) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAUCAUCUCCUUAUAAUUGUAUUUCUCUUGCAAUACAAUUAUAUCAUAAAAAUAUUUUUAUCUCAAUAAAAAAGGAUUAACUUCUAAUUACAGAAACUAAUCCUUUUAAACUUUUAAUUAUUUAUUUUUAA ..............((((((((((((.(....).))))))))))))...((((((((...............((((((((((..((((......))))..))))))))))...............)))))))). (-24.91) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 70 25 167 119 NC_003454:FN1997|5end_Transcriptional_regulator_499758..499988_POSITIVE 296 60 23 159 119 NC_003454:FN1343|5end_seC-independent_protein_TATD_1997232..1997462_NEGATIVE 242 60 15 204 156 NC_003454:FN0864|5end_hypothetical_protein_1522900..1523130_NEGATIVE 199 69 25 157 118 NC_003454:FN1103|5end_Excinuclease_ABC_subunit_A_1746559..1746789_POSITIVE 199 78 31 176 136 NC_003454:FN1515|5end_Phophatidylinositol-4-phosphate_5-kinase_18905..19135_POSITIVE 195 65 25 207 168 NC_003454:FN0733|5end_peptidase_T_1389564..1389794_POSITIVE 195 70 28 57 2 NC_003454:FN1645|5end_LSU_ribosomal_protein_L3P_141301..141531_NEGATIVE 191 86 49 97 55 NC_003454:FN0975|5end_CbiB_protein_1628126..1628356_NEGATIVE 189 71 35 230 196 NC_003454:FN1398|5end_Amino_acid_carrier_protein_alsT_2052808..2053038_POSITIVE 186 129 90 207 170 NC_003454:FN0979|5end_hypothetical_protein_1632096..1632326_POSITIVE 185 127 91 88 50 NC_003454:FN0018|5end_hypothetical_protein_656448..656678_NEGATIVE 182 65 22 231 191 NC_003454:FN1763|5end_Hypothetical_cytosolic_protein_256562..256792_NEGATIVE 176 67 39 83 53 NC_003454:FN1413|5end_translation_initiation_factor_IF-2B_subunit_alpha_2074270..2074500_NEGATIVE 176 99 56 56 8 NC_003454:FN1402|5end_Hypothetical_membrane-spanning_protein_2060436..2060666_POSITIVE 176 73 32 211 173 NC_003454:FN0233|5end_hypothetical_protein_859020..859250_NEGATIVE 174 68 21 84 29 NC_003454:FN1820|5end_Export_ABC_transporter_309245..309475_POSITIVE 163 70 34 74 32 NC_003454:FN0071|5end_GTP_cyclohydrolase_I_710962..711192_POSITIVE 163 60 18 165 133 NC_003454:FN2058|5end_Fusobacterium_outer_membrane_protein_family_571095..571325_NEGATIVE 162 107 87 21 1 NC_003454:FN1419|5end_methionine_gamma-lyase_2080565..2080795_POSITIVE 162 70 25 219 175 NC_003454:FN0222|5end_Melibiose_carrier_protein_846812..847042_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 351 63 23 61 18 NC_003454:FN1801|3end_Sodium/glutamate_symport_carrier_protein_282636..282786_NEGATIVE 335 70 25 71 23 NC_003454:FN1996|3end_Transporter_499742..499892_POSITIVE 327 63 25 78 41 NC_003454:FN0723|3end_hypothetical_protein_1383464..1383614_POSITIVE 315 62 23 79 37 NC_003454:FN1235|3end_Ankyrin_repeat_proteins_1892428..1892578_POSITIVE 301 62 25 66 29 NC_003454:FN0495|3end_Acetyl-CoA_acetyltransferase_1140855..1141005_POSITIVE 262 60 17 59 12 NC_003454:FN2105|3end_Integral_membrane_protein_616265..616415_POSITIVE 259 70 29 44 1 NC_003454:FN0209|3end_Hypothetical_cytosolic_protein_836800..836950_POSITIVE 252 62 25 70 34 NC_003454:FN0472|3end_flavodoxin_1117662..1117812_NEGATIVE 245 60 17 81 39 NC_003454:FN0471|3end_Cell_surface_protein_1117627..1117777_POSITIVE 244 62 27 142 104 NC_003454:FN1442|3end_Transposase_2110155..2110305_NEGATIVE 244 62 27 142 104 NC_003454:FN0787|3end_Transposase_1443908..1444058_POSITIVE 242 60 15 64 16 NC_003454:FN0865|3end_hypothetical_protein_1523040..1523190_NEGATIVE 230 62 27 142 104 NC_003454:FN1447|3end_Transposase_2117342..2117492_POSITIVE 230 62 27 142 104 NC_003454:FN0841|3end_Transposase_1502804..1502954_POSITIVE 230 62 27 142 104 NC_003454:FN0486|3end_Transposase_1131710..1131860_POSITIVE 230 62 27 142 104 NC_003454:FN0139|3end_Transposase_771640..771790_POSITIVE 230 62 27 142 104 NC_003454:FN1889|3end_Transposase_373027..373177_POSITIVE 212 73 33 146 111 NC_003454:FN1780|3end_hypothetical_protein_260921..261071_NEGATIVE 199 69 25 89 50 NC_003454:FN1102|3end_tRNA_2'phosphotransferase_1746571..1746721_POSITIVE 195 128 95 75 44 NC_003454:FN1194|3end_hypothetical_protein_1855668..1855818_POSITIVE