Origin IGS: aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaatacgcggaaaaaattgtgcttcttaaataaactatctataatatacagcctttttaatcggtagtgtgcgtatcacattttatttttaacaagtcttaggagagcatt Mask Tandem Repeat Region ================================================ aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta Find is-nt database================================================ Query_seq: AA00406:AA00407|AA00406:AA00407:large-conductance mechanosensitive channel:trk system potassium uptake protein:->->:270884..270995 112 aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00406:AA00407|AA00406:AA00407:large-conductance mechanosensitive channel:trk system potassium uptake protein:->->:270884..270995 112 aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00406:AA00407|AA00406:AA00407:large-conductance mechanosensitive channel:trk system potassium uptake protein:->->:270884..270995 112 aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta Predict ORF larger than 30AA ================================================ aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta 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================================================ aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 72 HP_score: -3.4 Tail_Score: -5.26119 Start: 32 End: 44 Full_Region: ctttttaatcggtag tgtg cgtat caca ttttatttttaacaa ...............................tgtgcgtatcaca.................................................................... Find igs database================================================ Query_seq: AA00406:AA00407|AA00406:AA00407:large-conductance mechanosensitive channel:trk system potassium uptake protein:->->:270884..270995 112 aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta Intra-Species Hit: Count: 1 Min: 1 Max: 112 Len: 112 Subject: aact_AA00406_AA00407|large-conductance mechanosensitive channel:trk system potassium uptake protein|POSITIVE:POSITIVE|[270884,270995]|112 HSP 1 e-value: 2.0E-57 bit: 222.0 Len: 112 Query Start:1 Query End:112 Subject Strand: POSITIVE Subject Start: 1 Subject End: 112 aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta aatgctctcctaagacttgttaaaaataaaatgtgatacgcacactaccgattaaaaaggctgtatattatagatagtttatttaagaagcacaattttttccgcgtattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGCUCUCCUAAGACUUGUUAAAAAUAAAAUGUGAUACGCACACUACCGAUUAAAAAGGCUGUAUAUUAUAGAUAGUUUAUUUAAGAAGCACAAUUUUUUCCGCGUAUUUA ..................................(((((((..........(((((.(((((((.........))))))).)))))((((........)))).))))))).. (-12.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUACGCGGAAAAAAUUGUGCUUCUUAAAUAAACUAUCUAUAAUAUACAGCCUUUUUAAUCGGUAGUGUGCGUAUCACAUUUUAUUUUUAACAAGUCUUAGGAGAGCAUU ...................(((((((((((.....................(((.........))).(((((.....))))).................)))))).))))). (-12.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 219 66 33 155 111 aact:AA00347|5end_50S_ribosomal_protein_L11_232137..232367_POSITIVE 217 50 3 74 26 aact:AA01969|5end_hypothetical_protein_1331969..1332199_POSITIVE 214 80 39 181 143 aact:AA02888|5end_ssrA-binding_protein,_small_protein_B_2024628..2024858_POSITIVE 210 52 14 45 4 aact:AA02282|5end_phosphoglycerate_transport_system_transcriptional_regulatory_protein_1553357..1553587_POSITIVE 210 88 41 119 84 aact:AA01773|5end_hypothetical_protein_1194877..1195107_POSITIVE 208 50 4 141 100 aact:AA00974|5end_glucosamine-fructose-6-phosphate_679215..679445_POSITIVE 207 87 49 80 34 aact:AA01799|5end_polysacharide_biosynthesis_protein_(Orf14_of_cluster)_1212459..1212689_POSITIVE 203 79 32 67 19 aact:AA01379|5end_glycerophosphoryl_diester_phosphodiesterase_(protein_D)_933029..933259_POSITIVE 201 50 6 149 103 aact:AA01496|5end_glucose_inhibited_division_protein_A_1005125..1005355_POSITIVE 201 50 1 167 126 aact:AA00506|5end_ATP-dependent_RNA_helicase_protein_351681..351911_POSITIVE 201 50 1 47 6 aact:AA00505|5end_hypothetical_protein_351561..351791_POSITIVE 200 65 30 173 135 aact:AA01590|5end_hypothetical_protein_1070766..1070996_POSITIVE 200 50 1 177 118 aact:AA01248|5end_conserved_hypothetical_protein_(possible_phosphoesterase)_849734..849964_POSITIVE 200 50 1 107 48 aact:AA01247|5end_hypothetical_protein_849664..849894_POSITIVE 199 40 3 122 94 aact:AA01601|5end_PTS_system,_glucose-specific_IIA_componen_1082269..1082499_POSITIVE 197 105 72 127 89 aact:AA01554|5end_conserved_hypothetical_protein;_hypothetical_membrane_protein_1042061..1042291_POSITIVE 195 107 61 200 151 aact:AA02076|5end_conserved_hypothetical_protein_1409926..1410156_POSITIVE 191 64 34 45 7 aact:AA02003|5end_purine_nucleotide_synthesis_repressor_protein_1360633..1360863_POSITIVE 190 74 34 140 86 aact:AA01551|5end_hypothetical_protein_1038190..1038420_POSITIVE 189 62 29 190 158 aact:AA01889|5end_conserved_hypothetical_protein_(possible_permease)_1273182..1273412_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 223 69 32 98 62 aact:AA00760|3end_conserved_hypothetical_protein_(possible_peptidase)_523815..523965_POSITIVE 214 80 39 107 69 aact:AA02886|3end_OBG-related_GTP-binding_protein_2024634..2024784_POSITIVE 210 52 14 82 41 aact:AA02281|3end_phosphoglycerate_transport_system_activator_protein_1553474..1553624_POSITIVE 210 88 41 104 69 aact:AA01772|3end_shikimate_5-dehydrogenase_protein_1194942..1195092_POSITIVE 208 50 4 83 42 aact:AA00973|3end_transcriptional_regulator,_DeoR_family_679237..679387_POSITIVE 201 50 1 139 98 aact:AA00505|3end_hypothetical_protein_351733..351883_POSITIVE 199 40 3 58 30 aact:AA01600|3end_phosphotransferase_system_enzyme_I_1082285..1082435_POSITIVE 191 110 67 132 94 aact:AA01902|3end_conserved_hypothetical_protein_1283616..1283766_POSITIVE 189 62 29 62 30 aact:AA01887|3end_conserved_hypothetical_protein_(possible_cytochrome_1273134..1273284_POSITIVE 189 85 47 54 16 aact:AA00874|3end_tight_adherence_protein_A_606954..607104_POSITIVE 187 66 28 48 1 aact:AA00582|3end_conserved_hypothetical_protein_398295..398445_POSITIVE 186 51 30 86 62 aact:AA01148|3end_hypothetical_protein_786022..786172_POSITIVE 186 110 85 57 30 aact:AA00234|3end_collagen_adhesin_168641..168791_POSITIVE 183 108 63 130 83 aact:AA01231|3end_30S_ribosomal_protein_S14_840485..840635_POSITIVE 182 61 32 37 6 aact:AA02874|3end_hypothetical_protein_2017899..2018049_POSITIVE 180 63 30 86 49 aact:AA02873|3end_conserved_hypothetical_protein_2017627..2017777_POSITIVE 176 110 69 72 29 aact:AA00231|3end_long-chain-fatty-acid--CoA_ligase_162399..162549_POSITIVE 174 80 51 56 27 aact:AA02712|3end_tail_specific_protease_precursor_1894987..1895137_POSITIVE 174 80 39 100 52 aact:AA00935|3end_ribose_ABC_transporter,_permease_protein,_N-terminal_646328..646478_POSITIVE 172 105 71 116 88 aact:AA01262|3end_hydrolase_860087..860237_POSITIVE