Origin IGS: ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcgatctccnnnnnttaattaattaannnnnttggccgattcattaatgcagagcttgcatgcttgcaggtcgactctagaggatccccctgtgctaggatggtcacttagatcaggaaacag Mask Tandem Repeat Region ================================================ ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc Find is-nt database================================================ Query_seq: SMT_958:SMT_959|SMT_958:SMT_959:hypothetical protein predicted by Glimmer/Critica:1-acyl-sn-glycerol-3-phosphate acyltransferase:->->:905300..905422 123 ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_958:SMT_959|SMT_958:SMT_959:hypothetical protein predicted by Glimmer/Critica:1-acyl-sn-glycerol-3-phosphate acyltransferase:->->:905300..905422 123 ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_958:SMT_959|SMT_958:SMT_959:hypothetical protein predicted by Glimmer/Critica:1-acyl-sn-glycerol-3-phosphate acyltransferase:->->:905300..905422 123 ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 1 End: 102 M F P D L S D H P S T G G S S R V D L Q A C K L C I N E S A X X X N ..................... Protein_Len: 30 Strand: + Start: 17 End: 106 ................ M T I L A Q G D P L E S T C K H A S S A L M N R P X X L I N ................. Protein_Len: 30 Strand: - Start: 3 End: 92 .. N G S R L S W G L V P P D E L T S R C A H L S Q M L S D A M ............................... ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc 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================================================ ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_958:SMT_959|SMT_958:SMT_959:hypothetical protein predicted by Glimmer/Critica:1-acyl-sn-glycerol-3-phosphate acyltransferase:->->:905300..905422 123 ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaannnnnggagatcgc Intra-Species Hit: Count: 1 Min: 1 Max: 109 Len: 109 Subject: smit_SMT_958_SMT_959|hypothetical protein predicted by Glimmer/Critica:1-acyl-sn-glycerol-3-phosphate acyltransferase|POSITIVE:POSITIVE|[905300,905422]|123 HSP 1 e-value: 1.0E-46 bit: 186.0 Len: 109 Query Start:1 Query End:109 Subject Strand: POSITIVE Subject Start: 1 Subject End: 109 ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaa.............. ctgtttcctgatctaagtgaccatcctagcacagggggatcctctagagtcgacctgcaagcatgcaagctctgcattaatgaatcggccaannnnnttaattaattaa.............. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGUUUCCUGAUCUAAGUGACCAUCCUAGCACAGGGGGAUCCUCUAGAGUCGACCUGCAAGCAUGCAAGCUCUGCAUUAAUGAAUCGGCCAANNNNNUUAAUUAAUUAA (((.(((..((((((((.((((.((((.....)))))).)))).)))).))....(((((((......))).)))).....))).)))..................... (-18.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAAUUAAUUAANNNNNUUGGCCGAUUCAUUAAUGCAGAGCUUGCAUGCUUGCAGGUCGACUCUAGAGGAUCCCCCUGUGCUAGGAUGGUCACUUAGAUCAGGAAACAG ..................(((((.((((....((((((...))))))((..(((((..((..(....)..))..)))))))..))))))))).........(....).. (-24.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1037 70 21 227 178 smit:SMT_2016|5end_tyrosine_recombinase_1933425..1933655_NEGATIVE 1037 70 21 200 151 smit:SMT_2008|5end_K07485_transposase_1928662..1928892_NEGATIVE 1037 70 21 69 20 smit:SMT_2005|5end_pullulanase,_type_I_1926289..1926519_NEGATIVE 1037 70 21 218 169 smit:SMT_2001|5end_membrane_protease_protein_family_1923387..1923617_POSITIVE 1037 70 21 163 114 smit:SMT_1967|5end_dicarboxylate/amino_acid:cation_(Na+_or_H+)_symporter_(DAACS)_family_protein_1899683..1899913_NEGATIVE 1037 70 21 163 114 smit:SMT_1961|5end_K07485_transposase_1894206..1894436_POSITIVE 1037 70 21 163 114 smit:SMT_1955|5end_carbamoyl-phosphate_synthase_small_chain_1889408..1889638_NEGATIVE 1037 70 21 207 158 smit:SMT_1954|5end_6-phospho-beta-glucosidase_1888548..1888778_POSITIVE 1037 70 21 198 149 smit:SMT_1944|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1879494..1879724_NEGATIVE 1037 70 21 163 114 smit:SMT_1690|5end_K06148_ATP-binding_cassette,_subfamily_C,_bacterial_1674779..1675009_NEGATIVE 1037 70 21 212 163 smit:SMT_1155|5end_ABC-type_oligopeptide_transport_system,_periplasmic_component_1099665..1099895_NEGATIVE 1037 70 21 163 114 smit:SMT_779|5end_ribonuclease_BN,_putative_688530..688760_NEGATIVE 1037 70 21 84 35 smit:SMT_464|5end_ribonuclease_Z_402867..403097_POSITIVE 1037 70 21 163 114 smit:SMT_388|5end_branched-chain_amino_acid_transport_system_II_carrier_protein_321172..321402_POSITIVE 1004 70 22 137 89 smit:SMT_304|5end_hypothetical_protein_246580..246810_POSITIVE 967 59 11 231 183 smit:SMT_2044|5end_transcriptional_activator_TipA,_putative_1955885..1956115_NEGATIVE 967 59 11 228 180 smit:SMT_1686|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1670175..1670405_POSITIVE 800 43 1 215 173 smit:SMT_2006|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1926472..1926702_POSITIVE 411 80 39 69 14 smit:SMT_1785|5end_phenylalanyl-tRNA_synthetase_beta_chain_1763277..1763507_NEGATIVE 387 70 21 214 137 smit:SMT_945|5end_cytidylate_kinase_895908..896138_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 968 90 41 54 5 smit:SMT_1956|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1889537..1889687_NEGATIVE 935 90 42 49 1 smit:SMT_387|3end_hypothetical_protein_predicted_by_Glimmer/Critica_321118..321268_POSITIVE 411 80 39 111 56 smit:SMT_1786|3end_phenylalanyl-tRNA_synthetase_beta_chain_1763235..1763385_NEGATIVE 360 75 32 62 5 smit:SMT_1750|3end_anthranilate_phosphoribosyltransferase_1729095..1729245_POSITIVE 315 90 41 61 13 smit:SMT_1580|3end_MutT/NUDIX_family_protein_1573153..1573303_POSITIVE 303 57 15 66 23 smit:SMT_980|3end_hypothetical_protein_928227..928377_POSITIVE 299 75 32 61 9 smit:SMT_1484|3end_exonuclease_RexA_1464256..1464406_NEGATIVE 292 68 21 67 11 smit:SMT_140|3end_NUDIX_family_hydrolase_91498..91648_POSITIVE 284 75 33 138 93 smit:SMT_1693|3end_dimethyladenosine_transferase_1676752..1676902_POSITIVE 282 90 41 129 78 smit:SMT_310|3end_3-oxoacyl-_252181..252331_POSITIVE 275 62 23 53 11 smit:SMT_1523|3end_ferrochelatase_1503390..1503540_NEGATIVE 275 66 21 41 9 smit:SMT_98|3end_hypothetical_protein_30272..30422_POSITIVE 273 57 19 149 109 smit:SMT_2052|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1960662..1960812_NEGATIVE 272 90 43 141 90 smit:SMT_463|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_402839..402989_POSITIVE 272 90 43 141 90 smit:SMT_407|3end_para-aminobenzoate_synthetase_component_I_/_4-amino-4-deoxychorismate_lyase_353166..353316_POSITIVE 272 90 45 151 112 smit:SMT_313|3end_3R-hydroxymyristoyl_ACP_dehydrase_254345..254495_POSITIVE 271 57 11 49 5 smit:SMT_1293|3end_K02051_sulfonate/nitrate/taurine_transport_system_substrate-binding_protein_1256063..1256213_POSITIVE 267 49 1 63 14 smit:SMT_1798|3end_exonuclease_RexA_1772818..1772968_NEGATIVE 266 80 32 73 9 smit:SMT_2057|3end_cell_division_protein_FtsH_1966897..1967047_NEGATIVE 266 52 15 67 31 smit:SMT_932|3end_tellurite_resistance_protein_885402..885552_POSITIVE