Origin IGS: agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaatagagtaactaataaaccatcaataacaaggagctggacaaatgaactatcaataaaattataattactagaaaagttcccaaaaatatcaannnnnttaattaattaannnnncttcgaaaacgccgttaaaaggaagaact Mask Tandem Repeat Region ================================================ agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt Find is-nt database================================================ Query_seq: SMT_1581:SMT_1582|SMT_1581:SMT_1582:transcriptional regulator, biotin repressor family:hypothetical protein predicted by Glimmer/Critica:<-->:1573726..1573871 146 agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_1581:SMT_1582|SMT_1581:SMT_1582:transcriptional regulator, biotin repressor family:hypothetical protein predicted by Glimmer/Critica:<-->:1573726..1573871 146 agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_1581:SMT_1582|SMT_1581:SMT_1582:transcriptional regulator, biotin repressor family:hypothetical protein predicted by Glimmer/Critica:<-->:1573726..1573871 146 agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 42 End: 146 ......................................... M X X X D I F G N F S S N Y N F I D S S F V Q L L V I D G L L V T L F agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt 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================================================ agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_1581:SMT_1582|SMT_1581:SMT_1582:transcriptional regulator, biotin repressor family:hypothetical protein predicted by Glimmer/Critica:<-->:1573726..1573871 146 agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt Intra-Species Hit: Count: 1 Min: 1 Max: 146 Len: 146 Subject: smit_SMT_1581_SMT_1582|transcriptional regulator, biotin repressor family:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:POSITIVE|[1573726,1573871]|146 HSP 1 e-value: 1.0E-59 bit: 230.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt agttcttccttttaacggcgttttcgaagnnnnnttaattaattaannnnnttgatatttttgggaacttttctagtaattataattttattgatagttcatttgtccagctccttgttattgatggtttattagttactctattt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUCUUCCUUUUAACGGCGUUUUCGAAGNNNNNUUAAUUAAUUAANNNNNUUGAUAUUUUUGGGAACUUUUCUAGUAAUUAUAAUUUUAUUGAUAGUUCAUUUGUCCAGCUCCUUGUUAUUGAUGGUUUAUUAGUUACUCUAUUU ...................(((..(((((.....((((.............))))...)))))..)))......((((((((.....((((..((((..((...(.....)....))))))..)))).....))))))))...... (-14.42) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAUAGAGUAACUAAUAAACCAUCAAUAACAAGGAGCUGGACAAAUGAACUAUCAAUAAAAUUAUAAUUACUAGAAAAGUUCCCAAAAAUAUCAANNNNNUUAAUUAAUUAANNNNNCUUCGAAAACGCCGUUAAAAGGAAGAACU ......................((........((((((.......................................)))))).............................................((.......))..))... ( -6.53) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 789 140 91 231 182 smit:SMT_1581|5end_transcriptional_regulator,_biotin_repressor_family_1573635..1573865_NEGATIVE 286 129 93 68 29 smit:SMT_1189|5end_phosphoribosylaminoimidazole_carboxylase_ATPase_subunit_1147754..1147984_NEGATIVE 281 133 92 103 65 smit:SMT_213|5end_leucyl-tRNA_synthetase_145392..145622_POSITIVE 266 131 91 122 80 smit:SMT_993|5end_hypothetical_protein_935476..935706_NEGATIVE 258 139 91 166 120 smit:SMT_1654|5end_K03110_signal_recognition_particle_receptor_1642150..1642380_POSITIVE 254 131 92 65 30 smit:SMT_208|5end_leucyl-tRNA_synthetase_139977..140207_POSITIVE 240 127 85 189 143 smit:SMT_1930|5end_peptide_chain_release_factor_1_1870765..1870995_NEGATIVE 239 138 99 134 88 smit:SMT_1107|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1048081..1048311_NEGATIVE 238 140 93 128 81 smit:SMT_343|5end_hypothetical_protein_283554..283784_NEGATIVE 237 133 99 226 197 smit:SMT_1106|5end_ribonuclease_P_protein_component_1047972..1048202_NEGATIVE 237 130 91 139 80 smit:SMT_1010|5end_hypothetical_protein_948292..948522_POSITIVE 224 128 90 69 33 smit:SMT_382|5end_valyl-tRNA_synthetase_317706..317936_POSITIVE 224 140 92 77 22 smit:SMT_200|5end_hypothetical_protein_129747..129977_POSITIVE 218 129 97 231 202 smit:SMT_824|5end_asparaginyl-tRNA_synthetase_748393..748623_NEGATIVE 216 118 73 115 72 smit:SMT_705|5end_hypothetical_protein_615336..615566_NEGATIVE 214 130 88 179 141 smit:SMT_2060|5end_hypothetical_protein_1968627..1968857_POSITIVE 214 127 96 229 200 smit:SMT_219|5end_phosphatidate_cytidylyltransferase_150922..151152_POSITIVE 212 127 90 59 23 smit:SMT_2066|5end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1973105..1973335_POSITIVE 212 127 90 59 23 smit:SMT_1321|5end_K02074_zinc/manganese_transport_system_ATP-binding_protein_1290674..1290904_POSITIVE 211 138 104 220 186 smit:SMT_1510|5end_ribose_5-phosphate_isomerase_1493488..1493718_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 286 129 93 81 42 smit:SMT_1190|3end_phosphoribosylaminoimidazole_carboxylase,_catalytic_subunit_1147741..1147891_NEGATIVE 266 131 91 122 80 smit:SMT_994|3end_nicotinate-nucleotide_adenylyltransferase_935476..935626_NEGATIVE 244 128 85 150 111 smit:SMT_1653|3end_hydrolase_1642226..1642376_POSITIVE 239 138 99 93 47 smit:SMT_1108|3end_acetate_kinase_1048122..1048272_NEGATIVE 238 140 93 118 71 smit:SMT_344|3end_K02503_Hit-like_protein_involved_in_cell-cycle_regulation_283564..283714_NEGATIVE 237 130 91 127 68 smit:SMT_1009|3end_hypothetical_protein_predicted_by_Glimmer/Critica_948360..948510_POSITIVE 228 139 92 94 56 smit:SMT_2111|3end_hypothetical_protein_predicted_by_Glimmer/Critica_2000036..2000186_POSITIVE 224 140 92 67 12 smit:SMT_199|3end_K07166_ACT_domain-containing_protein_129817..129967_POSITIVE 219 119 72 118 63 smit:SMT_984|3end_transcriptional_regulator_Spx_930497..930647_NEGATIVE 216 118 73 134 91 smit:SMT_706|3end_hypothetical_protein_615317..615467_NEGATIVE 212 127 90 59 23 smit:SMT_2065|3end_transcriptional_regulator,_MarR_family_1973185..1973335_POSITIVE 212 127 90 59 23 smit:SMT_1320|3end_transcriptional_regulator,_MarR_family_1290754..1290904_POSITIVE 210 140 98 148 100 smit:SMT_2007|3end_hypothetical_protein_1928147..1928297_POSITIVE 206 128 83 147 83 smit:SMT_1663|3end_DNA-binding_response_regulator_1652357..1652507_NEGATIVE 206 140 93 103 65 smit:SMT_1339|3end_hypothetical_protein_1313751..1313901_NEGATIVE 203 24 1 128 107 smit:SMT_1650|3end_ribonuclease_III_1637087..1637237_POSITIVE 201 133 94 95 65 smit:SMT_777|3end_hypothetical_protein_686618..686768_NEGATIVE 200 131 93 75 43 smit:SMT_748|3end_prephenate_dehydratase_652650..652800_NEGATIVE 198 126 90 41 3 smit:SMT_556|3end_putative_aminotransferase_474850..475000_POSITIVE 197 130 100 38 4 smit:SMT_512|3end_hypothetical_protein_440918..441068_POSITIVE