Origin IGS: tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattttcctcctagttattttctatgatttttttaatctttacttataatatagtatatcatttaatttctttgtcaataaataaaattaatgttatacttcttttaaacaaataaattttattagggggacta Mask Tandem Repeat Region ================================================ tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt Find is-nt database================================================ Query_seq: FN0319:FN0320|FN0319:FN0320:Citrate (pro-3S)-lyase ligase:Hypothetical cytosolic protein:<-->:956946..957079 134 tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: FN0319:FN0320|FN0319:FN0320:Citrate (pro-3S)-lyase ligase:Hypothetical cytosolic protein:<-->:956946..957079 134 tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: FN0319:FN0320|FN0319:FN0320:Citrate (pro-3S)-lyase ligase:Hypothetical cytosolic protein:<-->:956946..957079 134 tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 22 End: 111 ..................... K N L L L I V N I K N I S L S I L H Y V I N Y T F I L F I M ....................... tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt 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: 88 Start: 35 End: 64 ..................................TTTGTCAATAAATAAAATTAATGTTATACT...................................................................... PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 68 End: 97 ...................................................................CTTTACTTATAATATAGTATATCATTTAAT..................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: FN0319:FN0320|FN0319:FN0320:Citrate (pro-3S)-lyase ligase:Hypothetical cytosolic protein:<-->:956946..957079 134 tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 134 Len: 134 Subject: NC_003454_FN0319_FN0320|Citrate (pro-3S)-lyase ligase:Hypothetical cytosolic protein|NEGATIVE:POSITIVE|[956946,957079]|134 HSP 1 e-value: 6.0E-58 bit: 224.0 Len: 134 Query Start:1 Query End:134 Subject Strand: POSITIVE Subject Start: 1 Subject End: 134 tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattnnnnnnntcatagaaaataactaggaggaaaatt tagtccccctaataaaatttatttgtttaaaagaagtataacattaattttatttattgacaaagaaattaaatgatatactatattataagtaaagattaaaaaaatcatagaaaataactaggaggaaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUCCCCCUAAUAAAAUUUAUUUGUUUAAAAGAAGUAUAACAUUAAUUUUAUUUAUUGACAAAGAAAUUAAAUGAUAUACUAUAUUAUAAGUAAAGAUUAAAAAAAUCAUAGAAAAUAACUAGGAGGAAAAUU ...(((.((((......(((((((((........((((((.((((((((((.............)))))).)))).)))))).....)))))))))((((.....))))............)))).)))..... (-19.94) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUCCUCCUAGUUAUUUUCUAUGAUUUUUUUAAUCUUUACUUAUAAUAUAGUAUAUCAUUUAAUUUCUUUGUCAAUAAAUAAAAUUAAUGUUAUACUUCUUUUAAACAAAUAAAUUUUAUUAGGGGGACUA .....((((((((((.((((.....((((.....))))........(((...((((((.((((.(((((..((.......))..))))))))).))))))....))).......))))...))))))))))... (-22.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 650 130 81 221 172 NC_003454:FN0319|5end_Citrate_(pro-3S)-lyase_ligase_956855..957085_NEGATIVE 213 24 1 119 96 NC_003454:FN0819|5end_Tetratricopeptide_repeat_family_protein_1477248..1477478_POSITIVE 201 96 51 156 115 NC_003454:FN0837|5end_Integrase/recombinase_1499125..1499355_POSITIVE 179 23 2 120 93 NC_003454:FN0829|5end_hypothetical_protein_1489873..1490103_NEGATIVE 174 109 63 129 82 NC_003454:FN2031|5end_Thiamine_biosynthesis_lipoprotein_apbE_537083..537313_NEGATIVE 172 38 3 134 99 NC_003454:FN1706|5end_Transporter_201433..201663_POSITIVE 168 34 4 127 100 NC_003454:FN1548|5end_hypothetical_protein_63454..63684_POSITIVE 167 128 87 55 5 NC_003454:FN1356|5end_hypothetical_protein_2007922..2008152_POSITIVE 167 128 87 55 5 NC_003454:FN0510|5end_hypothetical_protein_1160326..1160556_NEGATIVE 163 35 4 126 98 NC_003454:FN1052|5end_hypothetical_protein_1700520..1700750_POSITIVE 163 55 21 186 153 NC_003454:FN0609|5end_SsrA-binding_protein_1264261..1264491_POSITIVE 161 63 21 151 109 NC_003454:FN1837|5end_putative_nucleotide-binding_protein_327255..327485_NEGATIVE 159 128 83 199 164 NC_003454:FN1418|5end_AMINOTRANSFERASE_CLASS-I_2080500..2080730_NEGATIVE 159 28 4 128 99 NC_003454:FN1721|5end_hypothetical_protein_219945..220175_NEGATIVE 158 99 62 50 18 NC_003454:FN1054|5end_hypothetical_protein_1701595..1701825_POSITIVE 157 68 37 160 128 NC_003454:FN1732|5end_hypothetical_protein_232078..232308_NEGATIVE 156 55 26 181 152 NC_003454:FN1643|5end_LSU_ribosomal_protein_L23P_140017..140247_NEGATIVE 155 30 1 122 96 NC_003454:FN1053|5end_hypothetical_protein_1701023..1701253_POSITIVE 154 29 1 126 91 NC_003454:FN0810|5end_Low-specificity_threonine_aldolase_1469038..1469268_POSITIVE 149 39 6 57 25 NC_003454:FN0071|5end_GTP_cyclohydrolase_I_710962..711192_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 201 96 51 129 88 NC_003454:FN0836|3end_hypothetical_protein_1499178..1499328_POSITIVE 174 109 63 91 44 NC_003454:FN2032|3end_DNA-directed_RNA_polymerase_omega_chain_537121..537271_NEGATIVE 172 38 3 118 83 NC_003454:FN1704|3end_Serine_protease_201497..201647_POSITIVE 163 35 4 106 78 NC_003454:FN1051|3end_hypothetical_protein_1700580..1700730_POSITIVE 155 30 1 86 60 NC_003454:FN1052|3end_hypothetical_protein_1701067..1701217_POSITIVE 154 29 1 115 80 NC_003454:FN0809|3end_23S_rRNA_methyltransferase_1469107..1469257_POSITIVE 153 128 81 117 61 NC_003454:FN0141|3end_hypothetical_protein_773203..773353_NEGATIVE 151 47 13 67 33 NC_003454:FN1380|3end_Citrate_lyase_beta_chain_2028878..2029028_POSITIVE 149 39 6 57 25 NC_003454:FN0070|3end_Glycyl-tRNA_synthetase_beta_chain_711042..711192_POSITIVE 149 120 72 55 2 NC_003454:FN1798|3end_Spermidine/putrescine_transport_system_permease_protein_potB_280872..281022_POSITIVE 148 30 1 37 1 NC_003454:FN1171|3end_Acetate_kinase_1832365..1832515_NEGATIVE 148 30 4 98 73 NC_003454:FN0519|3end_Hypothetical_exported_24-amino_acid_repeat_protein_1170638..1170788_NEGATIVE 148 50 16 141 104 NC_003454:FN0328|3end_Na(+)-linked_D-alanine_glycine_permease_962335..962485_NEGATIVE 145 28 5 110 87 NC_003454:FN0253|3end_Outer_membrane_protein_875063..875213_POSITIVE 143 28 5 29 1 NC_003454:FN1722|3end_Glucose_inhibited_division_protein_B_220044..220194_NEGATIVE 139 49 16 33 3 NC_003454:FN1336|3end_hypothetical_protein_1989936..1990086_NEGATIVE 139 23 4 105 86 NC_003454:FN1724|3end_Potassium_uptake_protein_KtrA_222654..222804_NEGATIVE 134 74 41 96 58 NC_003454:FN1000|3end_biotin_synthase_1656101..1656251_POSITIVE 134 75 32 59 13 NC_003454:FN1653|3end_Na+_driven_multidrug_efflux_pump_147652..147802_NEGATIVE 132 22 1 83 62 NC_003454:FN1297|3end_Methionine_aminopeptidase_1954217..1954367_NEGATIVE