Origin IGS: aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgagttatttataaatactattaataaaatgaagaagtttttcagaaaaagaagtaaaaggctgtactatctcattaatttttgatagaatagccgtatcttatgattagtcggagtgaggattgatt Mask Tandem Repeat Region ================================================ aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca Find is-nt database================================================ Query_seq: TDE2016:TDE2017|TDE2016:TDE2017:hypothetical protein:hypothetical protein:<-<-:2038985..2039112 128 aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE2016:TDE2017|TDE2016:TDE2017:hypothetical protein:hypothetical protein:<-<-:2038985..2039112 128 aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE2016:TDE2017|TDE2016:TDE2017:hypothetical protein:hypothetical protein:<-<-:2038985..2039112 128 aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca Predict ORF larger than 30AA ================================================ aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca 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================================================ aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE2016:TDE2017|TDE2016:TDE2017:hypothetical protein:hypothetical protein:<-<-:2038985..2039112 128 aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca Intra-Species Hit: Count: 1 Min: 1 Max: 128 Len: 128 Subject: NC_002967_TDE2016_TDE2017|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[2038985,2039112]|128 HSP 1 e-value: 6.0E-67 bit: 254.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca aatcaatcctcactccgactaatcataagatacggctattctatcaaaaattaatgagatagtacagccttttacttctttttctgaaaaacttcttcattttattaatagtatttataaataactca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUCAAUCCUCACUCCGACUAAUCAUAAGAUACGGCUAUUCUAUCAAAAAUUAAUGAGAUAGUACAGCCUUUUACUUCUUUUUCUGAAAAACUUCUUCAUUUUAUUAAUAGUAUUUAUAAAUAACUCA .................((((.(.(((((((..((((...(((((............)))))...))))......(((.......)))..........))))))).).))))................ (-14.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGUUAUUUAUAAAUACUAUUAAUAAAAUGAAGAAGUUUUUCAGAAAAAGAAGUAAAAGGCUGUACUAUCUCAUUAAUUUUUGAUAGAAUAGCCGUAUCUUAUGAUUAGUCGGAGUGAGGAUUGAUU ((((...........((((..........((((((...))))))........))))...((((((.(((((............))))).))))))....)))).((((((((........)))))))) (-22.27) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 820 50 1 141 92 NC_002967:TDE2016|5end_hypothetical_protein_2038894..2039124_NEGATIVE 253 78 33 162 117 NC_002967:TDE0868|5end_oxidoreductase,_FAD/FMN-binding_890385..890615_POSITIVE 244 36 2 185 155 NC_002967:TDE2622|5end_ABC_transporter,_ATP-binding_protein_2663590..2663820_NEGATIVE 233 38 2 45 5 NC_002967:TDE0410|5end_peptidase,_M48_family_462053..462283_POSITIVE 222 98 58 162 127 NC_002967:TDE0741|5end_hypothetical_protein_778158..778388_NEGATIVE 221 42 6 137 97 NC_002967:TDE2363|5end_high-affinity_branched_chain_amino_acid_ABC_transporter,_ATP-binding_protein_2398179..2398409_NEGATIVE 221 45 5 128 97 NC_002967:TDE2206|5end_hypothetical_protein_2245364..2245594_NEGATIVE 218 99 63 47 14 NC_002967:TDE1132|5end_chorismate_synthase_1163415..1163645_POSITIVE 217 69 30 71 29 NC_002967:TDE2396|5end_putative_inner_membrane_protein_translocase_component_YidC_2425398..2425628_NEGATIVE 215 37 1 159 111 NC_002967:TDE2423|5end_ribosomal_protein_L10_2454034..2454264_NEGATIVE 215 39 1 186 142 NC_002967:TDE2038|5end_UVR_domain_protein_2068201..2068431_NEGATIVE 215 86 58 26 2 NC_002967:TDE0134|5end_oxidoreductase,_FAD-dependent_153404..153634_POSITIVE 213 93 60 50 17 NC_002967:TDE1728|5end_hypothetical_protein_1783234..1783464_NEGATIVE 211 41 11 205 173 NC_002967:TDE2748|5end_acetyltransferase,_GNAT_family_2805108..2805338_POSITIVE 210 47 9 231 186 NC_002967:TDE2193|5end_deoxycytidylate_deaminase,_putative_2229760..2229990_NEGATIVE 209 47 12 75 43 NC_002967:TDE1605|5end_hypothetical_protein_1656111..1656341_NEGATIVE 206 41 1 45 4 NC_002967:TDE0264|5end_ribbon-helix-helix_protein,_CopG_family_297287..297517_NEGATIVE 205 89 67 51 27 NC_002967:TDE0880|5end_nicotinate-nucleotide-dimethylbenzimidazole_phosphoribosyltransferase_899974..900204_POSITIVE 203 106 66 97 51 NC_002967:TDE1860|5end_hypothetical_protein_1886152..1886382_POSITIVE 203 50 2 193 144 NC_002967:TDE0447|5end_TPR_domain_protein_502758..502988_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 253 78 33 97 52 NC_002967:TDE0867|3end_hypothetical_protein_890400..890550_POSITIVE 233 38 2 45 5 NC_002967:TDE0409|3end_hypothetical_protein_462133..462283_POSITIVE 221 42 6 137 97 NC_002967:TDE2364|3end_high-affinity_branched-chain_amino_acid_ABC_transporter,_ATP-binding_protein_2398179..2398329_NEGATIVE 221 45 5 126 95 NC_002967:TDE2207|3end_hypothetical_protein_2245366..2245516_NEGATIVE 219 80 34 125 85 NC_002967:TDE0972|3end_comF-related_protein_997961..998111_POSITIVE 218 99 63 83 50 NC_002967:TDE1131|3end_hypothetical_protein_1163531..1163681_POSITIVE 210 47 9 146 101 NC_002967:TDE2194|3end_8-amino-7-oxononanoate_synthase,_putative_2229845..2229995_NEGATIVE 205 89 67 54 30 NC_002967:TDE0879|3end_hypothetical_protein_900057..900207_POSITIVE 203 106 66 95 49 NC_002967:TDE1859|3end_hypothetical_protein_1886230..1886380_POSITIVE 201 87 56 31 3 NC_002967:TDE2196|3end_hypothetical_protein_2231883..2232033_NEGATIVE 201 99 53 130 84 NC_002967:TDE0177|3end_hypothetical_protein_209791..209941_NEGATIVE 198 85 55 104 67 NC_002967:TDE0770|3end_50S_ribosomal_protein_L2_808862..809012_POSITIVE 197 49 3 71 26 NC_002967:TDE2406|3end_TldD/PmbA_family_protein_2432047..2432197_NEGATIVE 197 46 5 79 40 NC_002967:TDE0693|3end_phosphomethylpyrimidine_kinase_730831..730981_POSITIVE 197 45 8 43 3 NC_002967:TDE0295|3end_DNA_gyrase,_A_subunit_324220..324370_NEGATIVE 193 75 31 135 97 NC_002967:TDE1457|3end_hypothetical_protein_1504739..1504889_NEGATIVE 191 43 2 93 39 NC_002967:TDE1062|3end_ABC_transporter,_ATP-binding_protein,_HlyB_family_1090387..1090537_POSITIVE 188 36 1 144 107 NC_002967:TDE2131|3end_cobalamin_biosynthesis_protein_CbiM,_putative_2162090..2162240_NEGATIVE 184 45 8 115 84 NC_002967:TDE1170|3end_DNA-binding_protein_1200242..1200392_POSITIVE 183 47 3 143 104 NC_002967:TDE2663|3end_isoleucyl-tRNA_synthetase_2698616..2698766_NEGATIVE