Origin IGS: aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gatttgatctccttattttatttttaaatagaagcaaaaagttttttcacccctatttaaaaacaaaatagaagaggggagaccaaactctcactaatgttagagttaaacctccactccctcagtaattactgattcagtaattactt Mask Tandem Repeat Region ================================================ aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc Find is-nt database================================================ Query_seq: SMT_190:SMT_191|SMT_190:SMT_191:preprotein translocase, SecY subunit:adenylate kinase:->->:125736..125884 149 aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_190:SMT_191|SMT_190:SMT_191:preprotein translocase, SecY subunit:adenylate kinase:->->:125736..125884 149 aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_190:SMT_191|SMT_190:SMT_191:preprotein translocase, SecY subunit:adenylate kinase:->->:125736..125884 149 aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc Predict ORF larger than 30AA ================================================ aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc 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================================================ aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 81 HP_score: -8.3 Tail_Score: -4.1922 Start: 31 End: 76 Full_Region: CAGTAATTACTGAGG GAGTGGAGGTTTAACTCTAAC ATTA GTGAGAGTTTGGTCTCCCCTC TTCTATTTTGTTTTT ..............................GAGTGGAGGTTTAACTCTAACATTAGTGAGAGTTTGGTCTCCCCTC......................................................................... Find igs database================================================ Query_seq: SMT_190:SMT_191|SMT_190:SMT_191:preprotein translocase, SecY subunit:adenylate kinase:->->:125736..125884 149 aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc Intra-Species Hit: Count: 1 Min: 1 Max: 149 Len: 149 Subject: smit_SMT_190_SMT_191|preprotein translocase, SecY subunit:adenylate kinase|POSITIVE:POSITIVE|[125736,125884]|149 HSP 1 e-value: 2.0E-79 bit: 295.0 Len: 149 Query Start:1 Query End:149 Subject Strand: POSITIVE Subject Start: 1 Subject End: 149 aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc aagtaattactgaatcagtaattactgagggagtggaggtttaactctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc Inter-species Hit: Count: 3 Min: 1 Max: 149 Len: 149 Subject: NC_008533_SPD_0213_SPD_0214|preprotein translocase, SecY subunit:adenylate kinase|POSITIVE:POSITIVE|[206920,207069]|150 HSP 1 e-value: 9.0E-54 bit: 210.0 Len: 149 Query Start:1 Query End:149 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 aagtaattactgaatcagtaattactgagggagtggaggtttaa-ctctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc aagtatttactgaatcagtaaatactgagggagtggaggtttaaactctgacatttgtaagagttggatctcccctcttctattttgtttttaaatcggggtgaaaaaactttttgcttctatttaaaaacaaaataaggagatcaaatc Subject: NC_003098_spr0209_spr0210|preprotein translocase SecY:adenylate kinase|POSITIVE:POSITIVE|[206920,207069]|150 HSP 1 e-value: 9.0E-54 bit: 210.0 Len: 149 Query Start:1 Query End:149 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 aagtaattactgaatcagtaattactgagggagtggaggtttaa-ctctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc aagtatttactgaatcagtaaatactgagggagtggaggtttaaactctgacatttgtaagagttggatctcccctcttctattttgtttttaaatcggggtgaaaaaactttttgcttctatttaaaaacaaaataaggagatcaaatc Subject: NC_003028_SP_0230_SP_0231|preprotein translocase SecY:adenylate kinase|POSITIVE:POSITIVE|[204411,204560]|150 HSP 1 e-value: 9.0E-54 bit: 210.0 Len: 149 Query Start:1 Query End:149 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 aagtaattactgaatcagtaattactgagggagtggaggtttaa-ctctaacattagtgagagtttggtctcccctcttctattttgtttttaaataggggtgaaaaaactttttgcttctatttaaaaataaaataaggagatcaaatc aagtatttactgaatcagtaaatactgagggagtggaggtttaaactctgacatttgtaagagttggatctcccctcttctattttgtttttaaatcggggtgaaaagactttttgcttctatttaaaaataaaataaggagatcaaatc Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGUAAUUACUGAAUCAGUAAUUACUGAGGGAGUGGAGGUUUAACUCUAACAUUAGUGAGAGUUUGGUCUCCCCUCUUCUAUUUUGUUUUUAAAUAGGGGUGAAAAAACUUUUUGCUUCUAUUUAAAAAUAAAAUAAGGAGAUCAAAUC .(((((((((((...)))))))))))..(((((.((((..(.((((((.((....)).)))))).)..)))).))))).(((((((((((((((((((((..(((.....)))..)))))))))))))))))))))............. (-55.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUUUGAUCUCCUUAUUUUAUUUUUAAAUAGAAGCAAAAAGUUUUUUCACCCCUAUUUAAAAACAAAAUAGAAGAGGGGAGACCAAACUCUCACUAAUGUUAGAGUUAAACCUCCACUCCCUCAGUAAUUACUGAUUCAGUAAUUACUU ............(((((((.(((((((((((((((.....))))........))))))))))).)))))))..((((((((....((((((.((....)).))))))....)))....))))).((((((((((...)))))))))).. (-37.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 60 11 74 16 smit:SMT_327|5end_hypothetical_protein_263953..264183_POSITIVE 273 80 31 107 50 smit:SMT_403|5end_two-component_sensor_kinase_YesM_331580..331810_POSITIVE 268 65 24 178 146 smit:SMT_1615|5end_K02016_iron_complex_transport_system_substrate-binding_protein_1602699..1602929_NEGATIVE 267 120 74 165 113 smit:SMT_1379|5end_thymidylate_kinase_1357438..1357668_NEGATIVE 265 91 55 208 163 smit:SMT_1784|5end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1760755..1760985_POSITIVE 264 87 43 178 124 smit:SMT_1705|5end_UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-_diaminopimelate--D-alanyl-D-alanine_ligase_1688558..1688788_POSITIVE 256 48 2 65 13 smit:SMT_2071|5end_phosphoenolpyruvate_carboxylase_1975887..1976117_NEGATIVE 255 100 51 198 143 smit:SMT_1076|5end_2-amino-4-hydroxy-6-_hydroxymethyldihydropteridine_pyrophosphokinase_/_dihydroneopterin_aldolase_1014813..1015043_NEGATIVE 245 109 63 183 135 smit:SMT_108|5end_hypothetical_protein_53488..53718_POSITIVE 244 97 51 126 89 smit:SMT_909|5end_type_I_restriction_enzyme_M_protein_858827..859057_NEGATIVE 241 41 2 82 41 smit:SMT_225|5end_pullulanase_163529..163759_NEGATIVE 240 87 46 43 6 smit:SMT_1646|5end_3-isopropylmalate_dehydratase_large_subunit_1632011..1632241_POSITIVE 235 70 25 68 13 smit:SMT_206|5end_K07720_two-component_system,_response_regulator_YesN_138237..138467_NEGATIVE 234 100 53 72 19 smit:SMT_1818|5end_tryptophan_synthase,_alpha_subunit_1792190..1792420_POSITIVE 234 80 39 123 73 smit:SMT_1066|5end_holo-(acyl_carrier_protein)_synthase_1005411..1005641_POSITIVE 234 54 28 201 164 smit:SMT_490|5end_branched-chain_amino_acid_ABC_transporter,_permease_protein_424544..424774_POSITIVE 234 95 55 165 124 smit:SMT_252|5end_K07720_two-component_system,_response_regulator_YesN_188992..189222_NEGATIVE 233 110 70 229 189 smit:SMT_1681|5end_D-alanine-activating_enzyme_1664184..1664414_POSITIVE 231 85 45 211 167 smit:SMT_534|5end_hypothetical_protein_predicted_by_Glimmer/Critica_453571..453801_POSITIVE 231 85 45 211 167 smit:SMT_531|5end_hypothetical_protein_predicted_by_Glimmer/Critica_452672..452902_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 331 76 31 64 15 smit:SMT_190|3end_preprotein_translocase,_SecY_subunit_125675..125825_POSITIVE 282 90 47 97 44 smit:SMT_1605|3end_hypothetical_protein_1595737..1595887_POSITIVE 273 80 31 110 53 smit:SMT_402|3end_two-component_response_regulator_YesN_331663..331813_POSITIVE 268 65 24 82 50 smit:SMT_1616|3end_putative_ABC-type_cobalamin_Fe3+-siderophores_transport_system_ATPase_component_1602795..1602945_NEGATIVE 265 91 55 147 102 smit:SMT_1783|3end_peptide_methionine_sulfoxide_reductase_1760774..1760924_POSITIVE 264 87 43 94 40 smit:SMT_1704|3end_D-alanine-D-alanine_ligase_1688554..1688704_POSITIVE 252 97 51 147 100 smit:SMT_1077|3end_GTP_cyclohydrolase_I_1014856..1015006_NEGATIVE 245 109 63 65 17 smit:SMT_107|3end_ribose-phosphate_pyrophosphokinase_53450..53600_POSITIVE 244 97 51 126 89 smit:SMT_910|3end_type_I_restriction_enzyme_R_protein_858827..858977_NEGATIVE 240 87 46 39 2 smit:SMT_1645|3end_hypothetical_protein_1632087..1632237_POSITIVE 239 73 31 130 88 smit:SMT_1015|3end_galactose_operon_repressor_953019..953169_POSITIVE 236 68 24 89 52 smit:SMT_1326|3end_X-prolyl_dipeptidyl_peptidase_1303359..1303509_POSITIVE 235 70 25 75 20 smit:SMT_207|3end_putative_two-component_sensor_histidine_kinase_138230..138380_NEGATIVE 234 100 53 136 83 smit:SMT_1753|3end_tryptophan_synthase_beta_chain_1731652..1731802_POSITIVE 234 80 39 84 34 smit:SMT_1065|3end_phospho-2-dehydro-3-deoxyheptonate_aldolase_1005452..1005602_POSITIVE 234 54 28 84 47 smit:SMT_489|3end_K01999_branched-chain_amino_acid_transport_system_substrate-binding_protein_424507..424657_POSITIVE 233 110 70 138 98 smit:SMT_1680|3end_hypothetical_protein_1664173..1664323_POSITIVE 231 85 45 97 53 smit:SMT_533|3end_RNA_binding_protein_453537..453687_POSITIVE 231 85 45 97 53 smit:SMT_530|3end_RNA_binding_protein_452638..452788_POSITIVE 231 85 45 97 53 smit:SMT_526|3end_RNA_binding_protein_451468..451618_POSITIVE