Origin IGS: aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttctaacatgatattataaaattttcaattcattatttattctaatacctaaaaaattgttaagcttaaaaaccccttacataaatattaaaaatcatgtataatgaagcatt Mask Tandem Repeat Region ================================================ aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa Find is-nt database================================================ Query_seq: TDE0607:TDE0608|TDE0607:TDE0608:ParA family ATPase:DNA-binding protein, putative:<-<-:644971..645083 113 aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0607:TDE0608|TDE0607:TDE0608:ParA family ATPase:DNA-binding protein, putative:<-<-:644971..645083 113 aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0607:TDE0608|TDE0607:TDE0608:ParA family ATPase:DNA-binding protein, putative:<-<-:644971..645083 113 aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa Predict ORF larger than 30AA ================================================ aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa 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================================================ aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0607:TDE0608|TDE0607:TDE0608:ParA family ATPase:DNA-binding protein, putative:<-<-:644971..645083 113 aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: NC_002967_TDE0607_TDE0608|ParA family ATPase:DNA-binding protein, putative|NEGATIVE:NEGATIVE|[644971,645083]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa aatgcttcattatacatgatttttaatatttatgtaaggggtttttaagcttaacaattttttaggtattagaataaataatgaattgaaaattttataatatcatgttagaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGCUUCAUUAUACAUGAUUUUUAAUAUUUAUGUAAGGGGUUUUUAAGCUUAACAAUUUUUUAGGUAUUAGAAUAAAUAAUGAAUUGAAAAUUUUAUAAUAUCAUGUUAGAA .............(((((((((((((((((((...(((..(((.........)))..)))..))))))))))))......(((((.(....).)))))...)))))))..... (-15.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUCUAACAUGAUAUUAUAAAAUUUUCAAUUCAUUAUUUAUUCUAAUACCUAAAAAAUUGUUAAGCUUAAAAACCCCUUACAUAAAUAUUAAAAAUCAUGUAUAAUGAAGCAUU .....(((((((.............(((((..(((..(((....)))..)))..))))).((((...........))))..............)))))))............. ( -6.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 692 50 1 141 92 NC_002967:TDE0607|5end_ParA_family_ATPase_644880..645110_NEGATIVE 207 41 11 180 150 NC_002967:TDE1629|5end_dihydrolipoamide_dehydrogenase_1678514..1678744_NEGATIVE 199 67 33 113 77 NC_002967:TDE0687|5end_phosphoribosylaminoimidazole_carboxylase,_PurE_protein_723674..723904_POSITIVE 199 47 1 72 24 NC_002967:TDE0532|5end_TPR_domain_protein_575570..575800_POSITIVE 196 74 38 98 58 NC_002967:TDE0050|5end_RNA_methyltransferase,_TrmH_family_60071..60301_NEGATIVE 195 47 13 132 96 NC_002967:TDE1143|5end_hypothetical_protein_1181834..1182064_NEGATIVE 190 72 31 175 133 NC_002967:TDE1364|5end_valyl-tRNA_synthetase_1404763..1404993_POSITIVE 189 50 8 171 129 NC_002967:TDE1114|5end_transcriptional_regulator,_TetR_family_1148905..1149135_NEGATIVE 188 48 3 225 170 NC_002967:TDE0670|5end_ATP-dependent_protease_La_707938..708168_POSITIVE 188 49 6 142 87 NC_002967:TDE0423|5end_hypothetical_protein_476601..476831_POSITIVE 188 49 6 142 87 NC_002967:TDE0419|5end_hypothetical_protein_470923..471153_POSITIVE 179 77 34 81 43 NC_002967:TDE1865|5end_peptidase,_M16_family_1892194..1892424_NEGATIVE 178 77 33 72 31 NC_002967:TDE2023|5end_TPR_domain_protein_2050614..2050844_NEGATIVE 178 69 36 82 51 NC_002967:TDE1631|5end_citrate_lyase,_alpha_subunit_1681556..1681786_NEGATIVE 176 52 17 110 67 NC_002967:TDE1262|5end_hypothetical_protein_1297332..1297562_NEGATIVE 175 66 26 220 183 NC_002967:TDE0678|5end_hypothetical_protein_716014..716244_POSITIVE 173 56 22 164 137 NC_002967:TDE2605|5end_phosphoglycerate_mutase_family_protein_2645818..2646048_POSITIVE 173 64 34 183 156 NC_002967:TDE1267|5end_phosphoribosylamine--glycine_ligase_1302940..1303170_NEGATIVE 171 70 29 48 8 NC_002967:TDE0478|5end_cyclic_nucleotide_binding_domain_protein_534283..534513_POSITIVE 169 43 4 132 85 NC_002967:TDE2552|5end_ABC_transporter,_ATP-binding/permease_protein_2578944..2579174_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 207 41 11 52 22 NC_002967:TDE1630|3end_hypothetical_protein_1678642..1678792_NEGATIVE 199 67 33 116 80 NC_002967:TDE0686|3end_phosphoribosylaminoimidazole-succinocarboxamide_synthase_723757..723907_POSITIVE 196 74 38 96 56 NC_002967:TDE0051|3end_alcohol_dehydrogenase,_iron-containing_60073..60223_NEGATIVE 195 47 13 118 82 NC_002967:TDE1144|3end_hypothetical_protein_1181848..1181998_NEGATIVE 188 49 6 71 16 NC_002967:TDE0422|3end_bacteriocin-type_signal_domain_protein_476610..476760_POSITIVE 183 70 27 139 92 NC_002967:TDE2659|3end_GAF_domain/HD_domain_protein_2697183..2697333_POSITIVE 183 69 38 98 62 NC_002967:TDE0238|3end_thioredoxin,_selenocysteine-containing_271783..271933_POSITIVE 182 52 32 40 20 NC_002967:TDE1115|3end_DNA-binding_protein,_putative_1149038..1149188_NEGATIVE 178 77 33 75 34 NC_002967:TDE2024|3end_hypothetical_protein_2050611..2050761_NEGATIVE 178 69 36 69 38 NC_002967:TDE1632|3end_citrate_lyase,_beta_subunit_1681569..1681719_NEGATIVE 174 79 36 72 39 NC_002967:TDE1928|3end_hypothetical_protein_1946583..1946733_POSITIVE 173 64 34 103 76 NC_002967:TDE1268|3end_type_II_restriction_endonuclease_TdeI_1303020..1303170_NEGATIVE 170 52 16 90 52 NC_002967:TDE0261|3end_flavodoxin_295180..295330_POSITIVE 168 50 3 122 81 NC_002967:TDE0784|3end_ribosomal_protein_S5_814492..814642_POSITIVE 166 67 26 112 57 NC_002967:TDE1960|3end_hypothetical_protein_1974569..1974719_POSITIVE 166 49 18 32 1 NC_002967:TDE0418|3end_lipoprotein,_putative_470893..471043_POSITIVE 165 53 24 113 85 NC_002967:TDE1231|3end_hypothetical_protein_1263479..1263629_NEGATIVE 164 50 1 118 69 NC_002967:TDE2378|3end_ABC_transporter,_ATP-binding_protein,_putative_2408737..2408887_POSITIVE 164 75 34 91 46 NC_002967:TDE0886|3end_hypothetical_protein_904374..904524_POSITIVE 161 106 61 88 40 NC_002967:TDE1722|3end_hypothetical_protein_1776518..1776668_POSITIVE