Origin IGS: tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatattcggttagtatttacgtttttgggcttcatctcatttctatgcggtgaagcctcattcatatataaaatttcgtatttaattttaaataagaaatcgtcaaggaaataata Mask Tandem Repeat Region ================================================ tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta Find is-nt database================================================ Query_seq: AA00564:AA00565|AA00564:AA00565:elongation factor G:30S ribosomal protein S7:->->:389995..390111 117 tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00564:AA00565|AA00564:AA00565:elongation factor G:30S ribosomal protein S7:->->:389995..390111 117 tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00564:AA00565|AA00564:AA00565:elongation factor G:30S ribosomal protein S7:->->:389995..390111 117 tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 6 End: 113 ..... * K R S S K K N L I L Y S I K Y I F S A E G C L F S I F G L F T F V L R M .... tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta 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: 81 Start: 2 End: 31 .TTTTAAATAAGAAATCGTCAAGGAAATAAT...................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 74 HP_score: -8.7 Tail_Score: -3.32765 Start: 57 End: 91 Full_Region: tagtatttacgtttt tgggcttcatctcat ttct atgcggtgaagcctca ttcatatataaaatt ........................................................tgggcttcatctcatttctatgcggtgaagcctca.......................... Find igs database================================================ Query_seq: AA00564:AA00565|AA00564:AA00565:elongation factor G:30S ribosomal protein S7:->->:389995..390111 117 tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta Intra-Species Hit: Count: 1 Min: 1 Max: 117 Len: 117 Subject: aact_AA00564_AA00565|elongation factor G:30S ribosomal protein S7|POSITIVE:POSITIVE|[389995,390111]|117 HSP 1 e-value: 2.0E-60 bit: 232.0 Len: 117 Query Start:1 Query End:117 Subject Strand: POSITIVE Subject Start: 1 Subject End: 117 tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta tattatttccttgacgatttcttatttaaaattaaatacgaaattttatatatgaatgaggcttcaccgcatagaaatgagatgaagcccaaaaacgtaaatactaaccgaatatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUUAUUUCCUUGACGAUUUCUUAUUUAAAAUUAAAUACGAAAUUUUAUAUAUGAAUGAGGCUUCACCGCAUAGAAAUGAGAUGAAGCCCAAAAACGUAAAUACUAACCGAAUAUUA ...(((((.......((((((.((((((....)))))).)))))).(((.((((..((.(((((((.(.(((....))).).)))))))))....)))).)))......)))))... (-19.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUUCGGUUAGUAUUUACGUUUUUGGGCUUCAUCUCAUUUCUAUGCGGUGAAGCCUCAUUCAUAUAUAAAAUUUCGUAUUUAAUUUUAAAUAAGAAAUCGUCAAGGAAAUAAUA .........((((...((((((.....((((((((((.(((....))).))))))))))..(((.(((.(((((((........))))))).))).)))..))).)))....)))). (-24.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 269 89 50 70 37 aact:AA00564|5end_elongation_factor_G_387755..387985_POSITIVE 269 97 53 157 110 aact:AA00368|5end_50S_ribosomal_protein_L4_247356..247586_POSITIVE 261 110 61 201 144 aact:AA01715|5end_conserved_hypothetical_protein_1160480..1160710_POSITIVE 256 97 59 73 24 aact:AA00796|5end_iron(III)_dicitrate_transport_system_permease_protein_545686..545916_POSITIVE 255 98 52 68 26 aact:AA00601|5end_hypothetical_protein_408863..409093_POSITIVE 251 98 57 170 115 aact:AA02687|5end_hydrogenase-4_component_D_1872521..1872751_POSITIVE 250 93 60 68 17 aact:AA02714|5end_paraquat-inducible_protein_PqiA_homolog_1895807..1896037_POSITIVE 244 88 48 142 97 aact:AA01879|5end_glutamyl-tRNA_reductase_1265717..1265947_POSITIVE 244 98 58 189 154 aact:AA00568|5end_hypothetical_protein_390957..391187_POSITIVE 242 110 63 156 98 aact:AA00971|5end_conserved_hypothetical_protein_677208..677438_POSITIVE 241 79 60 61 44 aact:AA01024|5end_thiamine_biosynthesis_lipoprotein_precursor_716437..716667_POSITIVE 233 90 52 70 33 aact:AA02952|5end_lipoprotein_signal_peptidase_2065116..2065346_POSITIVE 233 90 56 203 163 aact:AA02387|5end_integral_membrane_transport_protein_1634813..1635043_POSITIVE 226 97 53 196 145 aact:AA01203|5end_diaminopimelate_epimerase_824140..824370_POSITIVE 221 87 57 62 34 aact:AA00501|5end_hypothetical_protein_347293..347523_POSITIVE 219 110 61 177 129 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 217 89 59 135 100 aact:AA02407|5end_thymidine_kinase_1652666..1652896_POSITIVE 217 90 48 150 108 aact:AA01305|5end_conserved_hypothetical_protein_885598..885828_POSITIVE 217 100 53 210 168 aact:AA01209|5end_conserved_hypothetical_protein_826430..826660_POSITIVE 217 100 53 68 26 aact:AA01207|5end_hypothetical_protein_826288..826518_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 261 110 61 143 86 aact:AA01711|3end_conserved_hypothetical_protein_1160502..1160652_POSITIVE 256 97 59 70 21 aact:AA00795|3end_iron(III)_dicitrate-binding_periplasmic_protein_precursor_545763..545913_POSITIVE 255 98 52 64 22 aact:AA00600|3end_ribosome_recycling_factor_(ribosome_releasing_factor)_408939..409089_POSITIVE 248 100 56 146 88 aact:AA02531|3end_conserved_hypothetical_protein_1759341..1759491_POSITIVE 242 110 63 135 77 aact:AA00970|3end_uroporphyrinogen_decarboxylase_(uroporphyrinogen_III_decarboxylase)_677267..677417_POSITIVE 222 94 53 63 25 aact:AA00562|3end_hypothetical_protein_385460..385610_POSITIVE 221 97 57 145 99 aact:AA02686|3end_hydrogenase_4_component_C_1872585..1872735_POSITIVE 221 87 57 45 17 aact:AA00500|3end_hypothetical_protein_347356..347506_POSITIVE 220 90 57 40 1 aact:AA02386|3end_hypothetical_protein_1634730..1634880_POSITIVE 220 92 53 151 110 aact:AA00367|3end_50S_ribosomal_protein_L23_247436..247586_POSITIVE 219 98 52 146 91 aact:AA02398|3end_DNA_primase_1650855..1651005_POSITIVE 219 110 61 143 95 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 217 89 59 129 94 aact:AA02405|3end_conserved_hypothetical_protein_1652740..1652890_POSITIVE 217 89 59 125 90 aact:AA02404|3end_hypothetical_protein_1652736..1652886_POSITIVE 217 90 48 52 10 aact:AA01304|3end_penicillin-binding_protein_1A_885580..885730_POSITIVE 216 90 61 60 30 aact:AA01886|3end_UDP-glucose-4-epimerase_1272557..1272707_POSITIVE 216 89 57 135 109 aact:AA01199|3end_conserved_hypothetical_protein_822486..822636_POSITIVE 216 71 44 111 82 aact:AA00711|3end_conserved_hypothetical_protein_488293..488443_POSITIVE 215 74 39 58 19 aact:AA00162|3end_pilin_C_biogenesis_protein/protein_transport_protein_116086..116236_POSITIVE 213 110 63 115 56 aact:AA01991|3end_conserved_hypothetical_protein_(possible_nitroreductase)_1353003..1353153_POSITIVE