Origin IGS: taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tttacctattattttatattcctaatttgttcattttataccggttaaattttatttgaaaaaatactgttttattttattggcaaagtccattggtcatgccaattatacatgtattatttttatgatta Mask Tandem Repeat Region ================================================ taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa Find is-nt database================================================ Query_seq: TF2479:TF2480|TF2479:TF2480:conserved hypothetical protein:hypothetical protein:->->:2657104..2657234 131 taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2479:TF2480|TF2479:TF2480:conserved hypothetical protein:hypothetical protein:->->:2657104..2657234 131 taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2479:TF2480|TF2479:TF2480:conserved hypothetical protein:hypothetical protein:->->:2657104..2657234 131 taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: - Start: 2 End: 94 . I M F I I C T Y N A H G I S K A L L I F C Y K K L Y F K V P M ..................................... taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa 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================================================ taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2479:TF2480|TF2479:TF2480:conserved hypothetical protein:hypothetical protein:->->:2657104..2657234 131 taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa Intra-Species Hit: Count: 1 Min: 1 Max: 131 Len: 131 Subject: tfor_TF2479_TF2480|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2657104,2657234]|131 HSP 1 e-value: 1.0E-68 bit: 260.0 Len: 131 Query Start:1 Query End:131 Subject Strand: POSITIVE Subject Start: 1 Subject End: 131 taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa taatcataaaaataatacatgtataattggcatgaccaatggactttgccaataaaataaaacagtattttttcaaataaaatttaaccggtataaaatgaacaaattaggaatataaaataataggtaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCAUAAAAAUAAUACAUGUAUAAUUGGCAUGACCAAUGGACUUUGCCAAUAAAAUAAAACAGUAUUUUUUCAAAUAAAAUUUAACCGGUAUAAAAUGAACAAAUUAGGAAUAUAAAAUAAUAGGUAAA ...............(((.(((...(((((((...((...))....)))))))...........((((((((.........((((..........)))).........))))))))......))).))).. (-11.37) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUACCUAUUAUUUUAUAUUCCUAAUUUGUUCAUUUUAUACCGGUUAAAUUUUAUUUGAAAAAAUACUGUUUUAUUUUAUUGGCAAAGUCCAUUGGUCAUGCCAAUUAUACAUGUAUUAUUUUUAUGAUUA ......................((((..((.........))..)))).........((((((((((((((........(((((((..(.((...)).).)))))))...))).))))).))))))...... (-13.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 235 51 27 45 20 tfor:TF2730|5end_thiol:disulfide_interchange_protein_2909727..2909957_POSITIVE 233 52 14 70 30 tfor:TF2365|5end_conserved_hypothetical_protein_2530658..2530888_POSITIVE 233 53 27 144 112 tfor:TF0765|5end_conserved_hypothetical_protein_811302..811532_POSITIVE 219 55 26 75 47 tfor:TF2139|5end_hypothetical_protein_2315661..2315891_POSITIVE 217 90 47 57 13 tfor:TF2346|5end_hypothetical_protein_2509669..2509899_POSITIVE 211 50 26 206 180 tfor:TF1724|5end_nitroreductase_family_protein_1851290..1851520_POSITIVE 208 50 28 111 92 tfor:TF1854|5end_competence-damage_protein_CinA_2007469..2007699_POSITIVE 207 52 16 161 124 tfor:TF2437|5end_elongation_factor_P_2615104..2615334_POSITIVE 202 50 17 228 190 tfor:TF0697|5end_glycerol-3-phosphate_cytidyltransferase_740667..740897_POSITIVE 201 70 21 181 126 tfor:TF1260|5end_chaperone_protein_DnaJ_1345325..1345555_POSITIVE 200 130 90 102 65 tfor:TF0938|5end_possible_transcriptional_regulator_979345..979575_POSITIVE 198 51 26 153 122 tfor:TF0880|5end_conserved_hypothetical_protein_934010..934240_POSITIVE 193 50 27 52 29 tfor:TF1170|5end_conserved_hypothetical_protein_1251862..1252092_POSITIVE 193 50 27 40 17 tfor:TF1171|5end_ABC_transporter,_ATP-binding_protein_1251850..1252080_POSITIVE 193 79 34 94 44 tfor:TF0448|5end_hypothetical_protein_467664..467894_POSITIVE 192 54 15 183 146 tfor:TF2770|5end_conserved_hypothetical_protein_2956308..2956538_POSITIVE 190 52 18 207 169 tfor:TF1467|5end_conserved_hypothetical_protein_1557011..1557241_POSITIVE 189 49 18 120 89 tfor:TF2645|5end_conserved_hypothetical_protein_2813799..2814029_POSITIVE 188 50 8 48 8 tfor:TF0260|5end_conserved_hypothetical_protein_291116..291346_POSITIVE 186 50 26 187 156 tfor:TF0617|5end_alpha-1,2-mannosidase_650862..651092_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 233 52 14 79 39 tfor:TF2364|3end_conserved_hypothetical_protein;_possible_DNA_binding_protein,_excisionase_family_2530747..2530897_POSITIVE 233 53 27 133 101 tfor:TF0764|3end_conserved_hypothetical_protein;_possible_exopolyphosphatase-related_protein_811371..811521_POSITIVE 217 90 47 82 38 tfor:TF2345|3end_dGTP_triphosphohydrolase_2509774..2509924_POSITIVE 210 50 2 132 73 tfor:TF0311|3end_conserved_hypothetical_protein_336383..336533_POSITIVE 208 76 31 62 6 tfor:TF2954|3end_outer_membrane_protein,_TonB_dependent_receptor_3162121..3162271_POSITIVE 208 50 28 56 37 tfor:TF1853|3end_homoserine_O-succinyltransferase_2007494..2007644_POSITIVE 207 52 16 113 76 tfor:TF2435|3end_DNA_repair_protein_radC_2615136..2615286_POSITIVE 200 130 90 97 60 tfor:TF0937|3end_ATPase,__AAA+_class_979420..979570_POSITIVE 198 51 26 148 117 tfor:TF0879|3end_TraG_family_protein_934085..934235_POSITIVE 184 50 17 146 112 tfor:TF0372|3end_transcriptional_regulator_391118..391268_POSITIVE 183 51 29 46 28 tfor:TF0717|3end_signal_recognition_particle_769059..769209_POSITIVE 181 50 8 66 28 tfor:TF2776|3end_hypothetical_protein_2961813..2961963_POSITIVE 177 53 14 65 22 tfor:TF2479|3end_conserved_hypothetical_protein_2657043..2657193_POSITIVE 175 54 15 72 37 tfor:TF1905|3end_conserved_hypothetical_protein_2060332..2060482_POSITIVE 173 50 27 124 100 tfor:TF3022|3end_chorismate_synthase_3247301..3247451_POSITIVE 173 50 26 146 117 tfor:TF2407|3end_glycosyltransferase_2582595..2582745_POSITIVE 173 42 17 142 117 tfor:TF1427|3end_penicillin-binding_protein_2_1513612..1513762_POSITIVE 173 57 15 146 83 tfor:TF0437|3end_conserved_hypothetical_protein_461446..461596_POSITIVE 171 51 21 112 83 tfor:TF0519|3end_thiamine_monophosphate_kinase_544814..544964_POSITIVE 170 50 29 28 8 tfor:TF2344|3end_ATP/GTP_binding_protein_2508434..2508584_POSITIVE