Origin IGS: tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttatatgcaaaaaagttagaagaattagaagcaaaatctcctggttcttattcacctcttagtcctgaagaaataaaagaaagaagtaaagatcctaatattgtttattataaatatgctattactgctgatatagtaaatttagatgaagatttaaaaagacttcatcctaaa Mask Tandem Repeat Region ================================================ tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa Find is-nt database================================================ Query_seq: FN0860:FN0861|FN0860:FN0861:hypothetical protein:hypothetical protein:<-<-:1521654..1521827 174 tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0860:FN0861|FN0860:FN0861:hypothetical protein:hypothetical protein:<-<-:1521654..1521827 174 tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0860:FN0861|FN0860:FN0861:hypothetical protein:hypothetical protein:<-<-:1521654..1521827 174 tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: - Start: 1 End: 102 K P H L R K L D E D L N V I D A T I A Y K Y Y V I N P D K S R E K M ........................................................................ tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa 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================================================ tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0860:FN0861|FN0860:FN0861:hypothetical protein:hypothetical protein:<-<-:1521654..1521827 174 tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa Intra-Species Hit: Count: 1 Min: 1 Max: 174 Len: 174 Subject: NC_003454_FN0860_FN0861|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[1521654,1521827]|174 HSP 1 e-value: 3.0E-94 bit: 345.0 Len: 174 Query Start:1 Query End:174 Subject Strand: POSITIVE Subject Start: 1 Subject End: 174 tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa tttaggatgaagtctttttaaatcttcatctaaatttactatatcagcagtaatagcatatttataataaacaatattaggatctttacttctttcttttatttcttcaggactaagaggtgaataagaaccaggagattttgcttctaattcttctaacttttttgcatataa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUAGGAUGAAGUCUUUUUAAAUCUUCAUCUAAAUUUACUAUAUCAGCAGUAAUAGCAUAUUUAUAAUAAACAAUAUUAGGAUCUUUACUUCUUUCUUUUAUUUCUUCAGGACUAAGAGGUGAAUAAGAACCAGGAGAUUUUGCUUCUAAUUCUUCUAACUUUUUUGCAUAUAA ....((((((((...........))))))))....(((((........)))))..(((.....................((.((((((((((((..((((........))))..)))))))))...))).)).(((((.((.......)).))))).........)))...... (-28.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUAUGCAAAAAAGUUAGAAGAAUUAGAAGCAAAAUCUCCUGGUUCUUAUUCACCUCUUAGUCCUGAAGAAAUAAAAGAAAGAAGUAAAGAUCCUAAUAUUGUUUAUUAUAAAUAUGCUAUUACUGCUGAUAUAGUAAAUUUAGAUGAAGAUUUAAAAAGACUUCAUCCUAAA ..............(((((..((((.((((.((........)).)))).))))...((((.......)))).......................)))))...((((((((((.....((.......))...))))))))))...(((((((.(((....))))))))))..... (-24.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 808 140 91 231 182 NC_003454:FN0860|5end_hypothetical_protein_1521563..1521793_NEGATIVE 347 53 13 45 2 NC_003454:FN1684|5end_N-acetylneuraminate_synthase_180138..180368_NEGATIVE 282 107 61 81 35 NC_003454:FN1637|5end_LSU_ribosomal_protein_L29P_137070..137300_NEGATIVE 241 119 71 198 148 NC_003454:FN0200|5end_Biotin_carboxyl_carrier_protein_of_glutaconyl-COA_decarboxylase_826123..826353_POSITIVE 239 159 114 227 182 NC_003454:FN0362|5end_ATP_synthase_B_chain,_sodium_ion_specific_993393..993623_NEGATIVE 237 120 71 58 9 NC_003454:FN1736|5end_V-type_sodium_ATP_synthase_subunit_A_236021..236251_NEGATIVE 229 138 97 160 121 NC_003454:FN0534|5end_hypothetical_protein_1188858..1189088_POSITIVE 226 130 97 137 106 NC_003454:FN1290|5end_hypothetical_protein_1947466..1947696_NEGATIVE 223 118 82 125 83 NC_003454:FN0887|5end_Oligoendopeptidase_F_1549711..1549941_NEGATIVE 221 149 109 194 162 NC_003454:FN0327|5end_Bacterial_Protein_Translation_Initiation_Factor_3_(IF-3)_962149..962379_NEGATIVE 216 150 106 150 112 NC_003454:FN1753|5end_thiamine_biosynthesis_protein_ThiH_250344..250574_NEGATIVE 216 110 84 126 97 NC_003454:FN1632|5end_LSU_ribosomal_protein_L5P_135819..136049_NEGATIVE 215 49 5 217 170 NC_003454:FN0259|5end_Zinc-transporting_ATPase_886258..886488_NEGATIVE 213 123 83 73 29 NC_003454:FN1625|5end_LSU_ribosomal_protein_L15P_132864..133094_NEGATIVE 212 166 140 97 66 NC_003454:FN0314|5end_Caffeoyl-CoA_O-methyltransferase_951204..951434_POSITIVE 211 168 132 177 144 NC_003454:FN1867|5end_Zn-dependent_alcohol_dehydrogenase_and_related_dehydrogenase_359597..359827_NEGATIVE 209 150 103 109 64 NC_003454:FN1331|5end_Methyltransferase_1985979..1986209_NEGATIVE 209 166 132 210 171 NC_003454:FN2018|5end_Single-stranded-DNA-specific_exonuclease_recJ_521927..522157_NEGATIVE 208 144 102 197 154 NC_003454:FN0984|5end_Tetracenomycin_polyketide_synthesis_O-methyltransferase_tcmP_1637295..1637525_NEGATIVE 207 170 130 217 182 NC_003454:FN0208|5end_(R)-2-hydroxyglutaryl-CoA_dehydratase_beta-subunit_834968..835198_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 347 53 13 48 5 NC_003454:FN1685|3end_dTDP-4-dehydrorhamnose_reductase_180135..180285_NEGATIVE 282 107 61 81 35 NC_003454:FN1638|3end_50S_ribosomal_protein_L16_137070..137220_NEGATIVE 267 149 102 93 40 NC_003454:FN0747|3end_Phosphohydrolase_(MUTT/NUDIX_family_protein)_1405739..1405889_NEGATIVE 228 109 70 148 109 NC_003454:FN0199|3end_hypothetical_protein_826165..826315_POSITIVE 226 127 83 133 85 NC_003454:FN1023|3end_5-Nitroimidazole_antibiotic_resistance_protein_1677560..1677710_NEGATIVE 223 118 82 110 68 NC_003454:FN0888|3end_Uracil_permease_1549726..1549876_NEGATIVE 220 120 80 59 2 NC_003454:FN1735|3end_V-type_ATP_synthase_subunit_A_234251..234401_NEGATIVE 216 150 106 150 112 NC_003454:FN1754|3end_thiazole_synthase_250344..250494_NEGATIVE 216 110 84 107 78 NC_003454:FN1633|3end_LSU_ribosomal_protein_L24P_135838..135988_NEGATIVE 213 123 83 73 29 NC_003454:FN1626|3end_LSU_ribosomal_protein_L30P_132864..133014_NEGATIVE 212 166 140 103 72 NC_003454:FN0313|3end_16S_rRNA_m(5)C_967_methyltransferase_951290..951440_POSITIVE 211 116 72 56 5 NC_003454:FN0237|3end_ABC_transporter_permease_protein_861403..861553_NEGATIVE 211 169 124 115 68 NC_003454:FN1944|3end_Sodium-dependent_tryptophan_transporter_448026..448176_POSITIVE 208 110 61 110 57 NC_003454:FN0221|3end_Carbon_starvation_protein_A_846713..846863_POSITIVE 204 124 89 47 10 NC_003454:FN1737|3end_V-type_ATP_synthase_subunit_F_236039..236189_NEGATIVE 203 87 41 55 9 NC_003454:FN1748|3end_Pyruvate-flavodoxin_oxidoreductase_247559..247709_POSITIVE 202 51 13 150 113 NC_003454:FN1096|3end_hypothetical_protein_1741911..1742061_POSITIVE 200 132 91 141 83 NC_003454:FN0968|3end_hypothetical_protein_1621066..1621216_NEGATIVE 199 119 72 144 97 NC_003454:FN0697|3end_Alanyl-tRNA_synthetase_1356675..1356825_POSITIVE 194 109 77 83 46 NC_003454:FN2124|3end_Hypothetical_protein_with_Metallo-phosphoesterase_motif_633251..633401_NEGATIVE