Origin IGS: aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aattttttctccttaatcttttccgtatgtttaaattggactaacaattttatttacattgtattttatcatttttcaatatttatgtctagcaaagcaactgttcaaagatgagctttt Mask Tandem Repeat Region ================================================ aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt Find is-nt database================================================ Query_seq: TDE0041:TDE0042|TDE0041:TDE0042:birA bifunctional protein:phosphate acetyltransferase:->->:48696..48815 120 aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0041:TDE0042|TDE0041:TDE0042:birA bifunctional protein:phosphate acetyltransferase:->->:48696..48815 120 aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0041:TDE0042|TDE0041:TDE0042:birA bifunctional protein:phosphate acetyltransferase:->->:48696..48815 120 aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: - Start: 10 End: 105 ......... R Q V T A K S S M F I S F H Y F V I Y I F N N T W N L C V S F M ............... aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt 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: 82 Start: 29 End: 58 ............................CTAGACATAAATATTGAAAAATGATAAAAT.............................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0041:TDE0042|TDE0041:TDE0042:birA bifunctional protein:phosphate acetyltransferase:->->:48696..48815 120 aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 120 Len: 120 Subject: NC_002967_TDE0041_TDE0042|birA bifunctional protein:phosphate acetyltransferase|POSITIVE:POSITIVE|[48696,48815]|120 HSP 1 e-value: 3.0E-62 bit: 238.0 Len: 120 Query Start:1 Query End:120 Subject Strand: POSITIVE Subject Start: 1 Subject End: 120 aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt aaaagctcatctttgaacagttgctttgctagacataaatattgaaaaatgataaaatacaatgtaaataaaattgttagtccaatttaaacatacggaaaagattaaggagaaaaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAGCUCAUCUUUGAACAGUUGCUUUGCUAGACAUAAAUAUUGAAAAAUGAUAAAAUACAAUGUAAAUAAAAUUGUUAGUCCAAUUUAAACAUACGGAAAAGAUUAAGGAGAAAAAAUU .....(((((((((.(((((((..(((((..........((((....))))............)))))...)))))))..(((.............)))))))))....)))........ (-11.77) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUUUUCUCCUUAAUCUUUUCCGUAUGUUUAAAUUGGACUAACAAUUUUAUUUACAUUGUAUUUUAUCAUUUUUCAAUAUUUAUGUCUAGCAAAGCAACUGUUCAAAGAUGAGCUUUU ........................(((.....((((((......))))))....)))...........((((((((.((((....(((........)))..)))).))))))))...... (-11.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 224 34 3 43 5 NC_002967:TDE2243|5end_CutC_family_protein_2282954..2283184_NEGATIVE 222 115 76 122 80 NC_002967:TDE0970|5end_hypothetical_protein_994769..994999_POSITIVE 204 35 3 71 39 NC_002967:TDE0010|5end_MutT/nudix_family_protein_14580..14810_POSITIVE 203 33 1 192 148 NC_002967:TDE0065|5end_hypothetical_protein_73346..73576_NEGATIVE 196 60 11 62 18 NC_002967:TDE1552|5end_hypothetical_protein_1595759..1595989_POSITIVE 194 31 5 135 98 NC_002967:TDE0518|5end_hypothetical_protein_565263..565493_NEGATIVE 186 33 9 34 9 NC_002967:TDE1668|5end_amino_acid_permease_family_protein_1721218..1721448_POSITIVE 183 45 6 147 98 NC_002967:TDE2416|5end_hypothetical_protein_2442799..2443029_NEGATIVE 183 30 1 225 196 NC_002967:TDE1709|5end_DNA-binding_protein,_HU_family_1765139..1765369_NEGATIVE 182 36 3 63 27 NC_002967:TDE0797|5end_acylphosphatase_820859..821089_POSITIVE 180 78 31 80 42 NC_002967:TDE1556|5end_hypothetical_protein_1598787..1599017_POSITIVE 176 29 4 149 122 NC_002967:TDE2063|5end_ferrous_iron_transport_protein_B_2091264..2091494_NEGATIVE 174 35 1 81 47 NC_002967:TDE1976|5end_hypothetical_protein_1989115..1989345_POSITIVE 174 110 63 193 132 NC_002967:TDE1395|5end_glycosyl_hydrolase,_family_57_1433715..1433945_POSITIVE 173 38 1 132 93 NC_002967:TDE1531|5end_hypothetical_protein_1575951..1576181_POSITIVE 172 37 14 92 72 NC_002967:TDE2119|5end_glycine_reductase_complex_selenoprotein_GrdB2_2152693..2152923_NEGATIVE 172 120 82 72 31 NC_002967:TDE0324|5end_hypothetical_protein_357444..357674_POSITIVE 170 32 9 156 134 NC_002967:TDE2660|5end_hypothetical_protein_2697517..2697747_NEGATIVE 170 112 75 78 43 NC_002967:TDE1182|5end_hypothetical_protein_1210458..1210688_POSITIVE 170 46 1 145 95 NC_002967:TDE0161|5end_hypothetical_protein_187829..188059_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 224 34 5 103 67 NC_002967:TDE2488|3end_modification_methylase,_HemK_family_2510395..2510545_NEGATIVE 200 34 4 149 124 NC_002967:TDE0448|3end_deoxyribose-phosphate_aldolase_506526..506676_POSITIVE 198 34 2 65 24 NC_002967:TDE2485|3end_hypothetical_protein_2507903..2508053_NEGATIVE 187 43 4 62 1 NC_002967:TDE2559|3end_ABC_transporter,_ATP-binding/permease_protein_2585384..2585534_NEGATIVE 183 45 6 134 85 NC_002967:TDE2417|3end_nitroimidazole_resistance_protein,_putative_2442812..2442962_NEGATIVE 183 110 61 60 9 NC_002967:TDE2292|3end_2C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase_2329383..2329533_POSITIVE 183 30 1 148 119 NC_002967:TDE1710|3end_ribosomal_protein_S20_1765216..1765366_NEGATIVE 183 33 3 133 102 NC_002967:TDE1442|3end_histidyl-tRNA_synthetase_1488842..1488992_POSITIVE 182 36 3 70 34 NC_002967:TDE0796|3end_histidinol_phosphate_phosphatase_HisJ_family_protein_820946..821096_POSITIVE 180 78 31 69 31 NC_002967:TDE1555|3end_hypothetical_protein_1598856..1599006_POSITIVE 178 32 4 35 2 NC_002967:TDE0617|3end_hypothetical_protein_650093..650243_NEGATIVE 176 29 4 145 118 NC_002967:TDE2064|3end_ferrous_iron_transport_protein_A_2091268..2091418_NEGATIVE 176 116 90 36 2 NC_002967:TDE1609|3end_hypothetical_protein_1659227..1659377_POSITIVE 174 110 63 101 40 NC_002967:TDE1394|3end_hypothetical_protein_1433703..1433853_POSITIVE 174 40 2 103 50 NC_002967:TDE0850|3end_methyl-accepting_chemotaxis_protein_872380..872530_NEGATIVE 172 37 14 80 60 NC_002967:TDE2120|3end_glycine_reductase_complex_proprotein_GrdE2_2152705..2152855_NEGATIVE 172 49 1 62 8 NC_002967:TDE2111|3end_hypothetical_protein_2136271..2136421_NEGATIVE 170 32 9 149 127 NC_002967:TDE2661|3end_hypothetical_protein_2697524..2697674_NEGATIVE 170 33 4 127 103 NC_002967:TDE2179|3end_voltage-gated_chloride_channel_2210614..2210764_POSITIVE 170 112 75 78 43 NC_002967:TDE1181|3end_methyltransferase_domain_protein_1210538..1210688_POSITIVE