Origin IGS: gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taataaaagtgaaagaagaggggaattatttagattggaagctaattaaacaatgatagtttatttgattaaatatcaatcataaaattaaataattacaaggctgacgtattgcaagacttgtgaattaaatatgattataggattgatcaagtaaaaattaaaacttaaagtgttaaaatttaaatttcccctcttatc Mask Tandem Repeat Region ================================================ gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta Find is-nt database================================================ Query_seq: TF0066:TF0067|TF0066:TF0067:conserved hypothetical protein:hypothetical protein:->->:73182..73382 201 gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0066:TF0067|TF0066:TF0067:conserved hypothetical protein:hypothetical protein:->->:73182..73382 201 gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0066:TF0067|TF0066:TF0067:conserved hypothetical protein:hypothetical protein:->->:73182..73382 201 gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta Predict ORF larger than 30AA ================================================ gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta 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: 83 Start: 36 End: 65 ...................................TTTTAATTTTTACTTGATCAATCCTATAAT........................................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0066:TF0067|TF0066:TF0067:conserved hypothetical protein:hypothetical protein:->->:73182..73382 201 gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta Intra-Species Hit: Count: 1 Min: 1 Max: 201 Len: 201 Subject: tfor_TF0066_TF0067|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[73182,73382]|201 HSP 1 e-value: 1.0E-110 bit: 398.0 Len: 201 Query Start:1 Query End:201 Subject Strand: POSITIVE Subject Start: 1 Subject End: 201 gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta gataagaggggaaatttaaattttaacactttaagttttaatttttacttgatcaatcctataatcatatttaattcacaagtcttgcaatacgtcagccttgtaattatttaattttatgattgatatttaatcaaataaactatcattgtttaattagcttccaatctaaataattcccctcttctttcacttttatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAGAGGGGAAAUUUAAAUUUUAACACUUUAAGUUUUAAUUUUUACUUGAUCAAUCCUAUAAUCAUAUUUAAUUCACAAGUCUUGCAAUACGUCAGCCUUGUAAUUAUUUAAUUUUAUGAUUGAUAUUUAAUCAAAUAAACUAUCAUUGUUUAAUUAGCUUCCAAUCUAAAUAAUUCCCCUCUUCUUUCACUUUUAUUA ((.((((((((((...((((..((((.((.....)).))))..))))....(((((((..((((...((..(((((.(((((.((.((.....)).)).))))))))))..))...)))))))))))...........(((((.......))))).....................))))))))))...)).......... (-37.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAAAGUGAAAGAAGAGGGGAAUUAUUUAGAUUGGAAGCUAAUUAAACAAUGAUAGUUUAUUUGAUUAAAUAUCAAUCAUAAAAUUAAAUAAUUACAAGGCUGACGUAUUGCAAGACUUGUGAAUUAAAUAUGAUUAUAGGAUUGAUCAAGUAAAAAUUAAAACUUAAAGUGUUAAAAUUUAAAUUUCCCCUCUUAUC ...............((((((((((..(((((((((....(((..((((....((((..(((((((((((((.(((.(((((((...((((....(((((((.((...........)).))))))).)))).))))))))))...))))))))))))).))))....))))))).....)))))))))))))))))))... (-45.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 256 196 151 231 176 tfor:TF2758|5end_hypothetical_protein_2942392..2942622_POSITIVE 247 185 142 158 112 tfor:TF2858|5end_hypothetical_protein_3044324..3044554_POSITIVE 235 195 157 156 122 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 233 100 51 223 177 tfor:TF3006|5end_response_regulator,_transcriptional_regulator_RprY_3226360..3226590_POSITIVE 231 192 158 115 83 tfor:TF0923|5end_tetracycline_resistance_element_mobilization_regulatory_protein_961256..961486_POSITIVE 230 104 82 136 111 tfor:TF2980|5end_possible_alpha-amylase_3193179..3193409_POSITIVE 230 193 153 168 117 tfor:TF2785|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_(sigma-70)_2969277..2969507_POSITIVE 223 104 81 45 14 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 220 197 159 221 184 tfor:TF2294|5end_hypothetical_protein_2448012..2448242_POSITIVE 220 197 159 42 5 tfor:TF2293|5end_hypothetical_protein_2447833..2448063_POSITIVE 218 99 51 160 112 tfor:TF0304|5end_peptidyl-prolyl_cis-trans_isomerase_329567..329797_POSITIVE 216 70 25 200 146 tfor:TF0494|5end_conserved_hypothetical_protein_519174..519404_POSITIVE 215 196 180 32 16 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 212 140 91 117 53 tfor:TF0028|5end_hypothetical_protein_24249..24479_POSITIVE 211 194 151 149 108 tfor:TF1092|5end_glycosyltransferase_1160124..1160354_POSITIVE 208 103 77 180 149 tfor:TF1924|5end_prenyltransferase,_UbiA_family_2072857..2073087_POSITIVE 206 192 163 90 58 tfor:TF2120|5end_holliday_junction_endonuclease_2292108..2292338_POSITIVE 200 89 41 195 137 tfor:TF1703|5end_conserved_hypothetical_protein_1822065..1822295_POSITIVE 199 122 84 117 75 tfor:TF2772|5end_tRNA_pseudouridine_synthase_B_2957383..2957613_POSITIVE 195 100 67 195 155 tfor:TF0403|5end_TPR_repeat_protein_422600..422830_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 194 151 136 86 tfor:TF0058|3end_conserved_hypothetical_protein_60614..60764_POSITIVE 256 196 151 94 39 tfor:TF2757|3end_hypothetical_protein_2942335..2942485_POSITIVE 247 185 142 133 87 tfor:TF2857|3end_conserved_hypothetical_protein_3044379..3044529_POSITIVE 230 104 82 41 16 tfor:TF2979|3end_possible_outer_membrane__protein_3193164..3193314_POSITIVE 230 193 153 108 57 tfor:TF2783|3end_aminotransferase,_PatB_family_2969297..2969447_POSITIVE 223 104 81 40 9 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 218 99 51 124 76 tfor:TF0302|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_329611..329761_POSITIVE 211 194 151 149 108 tfor:TF1091|3end_conserved_hypothetical_protein_1160204..1160354_POSITIVE 210 197 152 141 92 tfor:TF2486|3end_hypothetical_protein_2662731..2662881_POSITIVE 206 192 163 90 58 tfor:TF2119|3end_conserved_hypothetical_protein_2292188..2292338_POSITIVE 205 104 68 128 89 tfor:TF2768|3end_ferredoxin_oxidoreductase,_beta_subunit_2955169..2955319_POSITIVE 200 89 41 125 67 tfor:TF1702|3end_conserved_hypothetical_protein_1822075..1822225_POSITIVE 199 122 84 102 60 tfor:TF2771|3end_undecaprenol_kinase,_bacitracin_resistance_protein_2957448..2957598_POSITIVE 199 200 157 48 12 tfor:TF2744|3end_methionyl-tRNA_formyltransferase_2927378..2927528_POSITIVE 195 100 67 124 84 tfor:TF0402|3end_conserved_hypothetical_protein_422609..422759_POSITIVE 194 106 82 137 118 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 194 106 82 99 80 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 194 107 68 124 89 tfor:TF0037|3end_sialic_acid-specific_9-O-acetylesterase_39991..40141_POSITIVE 190 103 78 151 123 tfor:TF1720|3end_conserved_hypothetical_protein_1844376..1844526_POSITIVE 188 100 55 114 72 tfor:TF2780|3end_hypothetical_protein_2966526..2966676_POSITIVE