Origin IGS: actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatacttccttgtaaccatatagtataagtatatcactcttttttaaaaaagtcatatcaaatatacaataatcctgcaatattatcggtaaattttactaaaaagt Mask Tandem Repeat Region ================================================ actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta Find is-nt database================================================ Query_seq: TDE0187:TDE0188|TDE0187:TDE0188:carboxylesterase, putative:adenosine deaminase:->->:224753..224860 108 actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0187:TDE0188|TDE0187:TDE0188:carboxylesterase, putative:adenosine deaminase:->->:224753..224860 108 actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0187:TDE0188|TDE0187:TDE0188:carboxylesterase, putative:adenosine deaminase:->->:224753..224860 108 actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta Predict ORF larger than 30AA ================================================ actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta 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================================================ actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0187:TDE0188|TDE0187:TDE0188:carboxylesterase, putative:adenosine deaminase:->->:224753..224860 108 actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta Intra-Species Hit: Count: 1 Min: 1 Max: 108 Len: 108 Subject: NC_002967_TDE0187_TDE0188|carboxylesterase, putative:adenosine deaminase|POSITIVE:POSITIVE|[224753,224860]|108 HSP 1 e-value: 4.0E-55 bit: 214.0 Len: 108 Query Start:1 Query End:108 Subject Strand: POSITIVE Subject Start: 1 Subject End: 108 actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta actttttagtaaaatttaccgataatattgcaggattattgtatatttgatatgacttttttaaaaaagagtgatatacttatactatatggttacaaggaagtatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUUUUAGUAAAAUUUACCGAUAAUAUUGCAGGAUUAUUGUAUAUUUGAUAUGACUUUUUUAAAAAAGAGUGAUAUACUUAUACUAUAUGGUUACAAGGAAGUAUUA (((((((.((((......((............))..(((.(((((....((((.(((((((....))))))).))))...))))).)))...)))).))))))).... (-19.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUACUUCCUUGUAACCAUAUAGUAUAAGUAUAUCACUCUUUUUUAAAAAAGUCAUAUCAAAUAUACAAUAAUCCUGCAAUAUUAUCGGUAAAUUUUACUAAAAAGU ....((((..(((((....(((.(((((..(((((.(((.(((....))).))).)))).)..))))).)))....))))).......((((.....))))...)))) ( -8.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 212 69 28 152 105 NC_002967:TDE0065|5end_hypothetical_protein_73346..73576_NEGATIVE 195 78 33 123 71 NC_002967:TDE1716|5end_glyoxalase_family_protein_1771228..1771458_NEGATIVE 193 80 35 179 123 NC_002967:TDE1635|5end_hypothetical_protein_1683319..1683549_NEGATIVE 193 73 31 177 128 NC_002967:TDE0992|5end_5-formyltetrahydrofolate_cyclo-ligase_family_protein_1019010..1019240_NEGATIVE 189 60 15 62 20 NC_002967:TDE0051|5end_alcohol_dehydrogenase,_iron-containing_61224..61454_NEGATIVE 184 58 13 87 41 NC_002967:TDE0530|5end_hypothetical_protein_574363..574593_POSITIVE 181 59 19 61 19 NC_002967:TDE2269|5end_hypothetical_protein_2305920..2306150_NEGATIVE 174 64 26 210 162 NC_002967:TDE2099|5end_hypothetical_protein_2125027..2125257_POSITIVE 174 99 64 231 193 NC_002967:TDE0296|5end_formiminotransferase,_putative_327741..327971_NEGATIVE 173 59 12 174 130 NC_002967:TDE1403|5end_ABC_transporter,_ATP-binding_protein_1446503..1446733_NEGATIVE 171 55 16 198 158 NC_002967:TDE2353|5end_flagellar_hook-associated_protein_2389129..2389359_POSITIVE 171 69 26 50 5 NC_002967:TDE0469|5end_hypothetical_protein_523987..524217_NEGATIVE 170 69 21 86 26 NC_002967:TDE1349|5end_rod_shape-determining_protein_MreB_1389286..1389516_POSITIVE 169 58 30 88 64 NC_002967:TDE2585|5end_methyl-accepting_chemotaxis_domain/unknown_domain_protein_2620303..2620533_NEGATIVE 169 50 2 56 9 NC_002967:TDE0727|5end_iron-sulfur_cluster-binding_protein_766721..766951_POSITIVE 168 60 17 208 159 NC_002967:TDE2250|5end_hypothetical_protein_2288568..2288798_POSITIVE 168 60 14 207 158 NC_002967:TDE1647|5end_DNA-binding_protein_1696502..1696732_NEGATIVE 165 47 1 108 62 NC_002967:TDE1401|5end_DedA_family_protein_1442365..1442595_POSITIVE 162 45 3 226 189 NC_002967:TDE2639|5end_oligoendopeptidase_F_2678120..2678350_POSITIVE 162 78 31 200 158 NC_002967:TDE2230|5end_hypothetical_protein_2269011..2269241_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 188 46 5 75 29 NC_002967:TDE0010|3end_MutT/nudix_family_protein_15226..15376_POSITIVE 176 60 19 58 22 NC_002967:TDE1396|3end_hypothetical_protein_1436127..1436277_POSITIVE 170 69 21 68 8 NC_002967:TDE1348|3end_TPR_domain_protein_1389348..1389498_POSITIVE 169 58 30 140 116 NC_002967:TDE2586|3end_DNA_polymerase_III_subunits_gamma_and_tau_2620251..2620401_NEGATIVE 169 50 2 66 19 NC_002967:TDE0726|3end_aldehyde_oxidase_and_xanthine_dehydrogenase_family_protein_766811..766961_POSITIVE 165 47 1 97 51 NC_002967:TDE1400|3end_NAD(+)_synthetase_1442434..1442584_POSITIVE 162 43 1 120 79 NC_002967:TDE1507|3end_L-serine_dehydratase,_iron-sulfur-dependent,_beta_subunit_1555062..1555212_NEGATIVE 162 75 36 63 24 NC_002967:TDE0737|3end_hypothetical_protein_775408..775558_NEGATIVE 160 59 14 119 82 NC_002967:TDE1945|3end_hypothetical_protein_1961119..1961269_NEGATIVE 158 62 26 130 92 NC_002967:TDE2148|3end_OmpA_family_protein_2184597..2184747_NEGATIVE 158 49 20 134 106 NC_002967:TDE1012|3end_tex_protein,_putative_1043926..1044076_POSITIVE 155 33 4 38 3 NC_002967:TDE2616|3end_cyclic_nucleotide-binding_protein_2657680..2657830_NEGATIVE 155 79 38 107 70 NC_002967:TDE0902|3end_hypothetical_protein_919380..919530_NEGATIVE 154 58 28 151 115 NC_002967:TDE0066|3end_hypothetical_protein_73336..73486_NEGATIVE 152 99 56 57 12 NC_002967:TDE0630|3end_sigma_factor_regulatory_protein,_putative_665371..665521_POSITIVE 151 51 19 32 1 NC_002967:TDE2006|3end_hypothetical_protein_2026870..2027020_POSITIVE 151 37 2 80 42 NC_002967:TDE1345|3end_DNA_primase_1385306..1385456_POSITIVE 148 62 39 51 28 NC_002967:TDE1031|3end_hypothetical_protein_1060185..1060335_POSITIVE 148 70 21 60 7 NC_002967:TDE0117|3end_lipoprotein,_putative_136607..136757_POSITIVE 147 61 28 110 82 NC_002967:TDE0353|3end_lipase/acylhydrolase,_GDSL_family_396743..396893_NEGATIVE