Origin IGS: gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaggttacttccttcttttagatgatcatctttacagtaactagtataaactctagtattggataagtaatgagtaaatcgtgcaaatttcttattttcgagtaaaatttttaatcttatttactaaatggtttaaaaatttcttcttaactactttacagagactcacacactccccctgattttcctatcttctttggcgattctgacgcaagtgtggtacaataaaaac Mask Tandem Repeat Region ================================================ gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt Find is-nt database================================================ Query_seq: SMT_418:SMT_419|SMT_418:SMT_419:putative transcriptional regulator:hypothetical protein predicted by Glimmer/Critica:<-->:362231..362462 232 gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SMT_418:SMT_419|SMT_418:SMT_419:putative transcriptional regulator:hypothetical protein predicted by Glimmer/Critica:<-->:362231..362462 232 gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SMT_418:SMT_419|SMT_418:SMT_419:putative transcriptional regulator:hypothetical protein predicted by Glimmer/Critica:<-->:362231..362462 232 gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: + Start: 113 End: 232 ................................................................................................................ M R L K I L L E N K K F A R F T H Y L S N T R V Y T S Y C K D D H L K E G S N L Protein_Len: 34 Strand: - Start: 54 End: 155 ..................................................... P S H T L R Q L T T L F F N K F W K T F L I L F K V R F Y S I Q V M ............................................................................. gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt 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: 174 End: 203 .............................................................................................................................................................................CTTTACAGTAACTAGTATAAACTCTAGTAT............................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SMT_418:SMT_419|SMT_418:SMT_419:putative transcriptional regulator:hypothetical protein predicted by Glimmer/Critica:<-->:362231..362462 232 gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt Intra-Species Hit: Count: 1 Min: 1 Max: 232 Len: 232 Subject: smit_SMT_418_SMT_419|putative transcriptional regulator:hypothetical protein predicted by Glimmer/Critica|NEGATIVE:POSITIVE|[362231,362462]|232 HSP 1 e-value: 1.0E-128 bit: 460.0 Len: 232 Query Start:1 Query End:232 Subject Strand: POSITIVE Subject Start: 1 Subject End: 232 gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt gtttttattgtaccacacttgcgtcagaatcgccaaagaagataggaaaatcagggggagtgtgtgagtctctgtaaagtagttaagaagaaatttttaaaccatttagtaaataagattaaaaattttactcgaaaataagaaatttgcacgatttactcattacttatccaatactagagtttatactagttactgtaaagatgatcatctaaaagaaggaagtaacctt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUUUUAUUGUACCACACUUGCGUCAGAAUCGCCAAAGAAGAUAGGAAAAUCAGGGGGAGUGUGUGAGUCUCUGUAAAGUAGUUAAGAAGAAAUUUUUAAACCAUUUAGUAAAUAAGAUUAAAAAUUUUACUCGAAAAUAAGAAAUUUGCACGAUUUACUCAUUACUUAUCCAAUACUAGAGUUUAUACUAGUUACUGUAAAGAUGAUCAUCUAAAAGAAGGAAGUAACCUU ((((((((.(((.....((((((.......)))..)))...............((..(((((.(((((((..((((((....(((((((....)))))))....((.((((((.............)))))).))..........)))))).)))))))....)))))..))...(((((........)))))))).)))))))).............((((......)))) (-37.42) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGGUUACUUCCUUCUUUUAGAUGAUCAUCUUUACAGUAACUAGUAUAAACUCUAGUAUUGGAUAAGUAAUGAGUAAAUCGUGCAAAUUUCUUAUUUUCGAGUAAAAUUUUUAAUCUUAUUUACUAAAUGGUUUAAAAAUUUCUUCUUAACUACUUUACAGAGACUCACACACUCCCCCUGAUUUUCCUAUCUUCUUUGGCGAUUCUGACGCAAGUGUGGUACAAUAAAAAC ..(((((((..........((((....))))....))))))).((((...((((.(((..(((((((.(((..(((.....)))..))).)))))))..(((..((((((((((.((............)).))))))))))...)))........))))))).....((((((......(((......))).......(((.......))).))))))))))......... (-33.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 980 70 21 161 112 smit:SMT_418|5end_putative_transcriptional_regulator_362140..362370_NEGATIVE 332 70 21 61 13 smit:SMT_1395|5end_K07025_putative_hydrolase_of_the_HAD_superfamily_1371310..1371540_POSITIVE 282 77 57 56 34 smit:SMT_887|5end_ABC-type_polar_amino_acid_transport_system,_ATPase_component_834690..834920_POSITIVE 269 80 33 88 40 smit:SMT_1832|5end_tagatose-6-phosphate_kinase_1800438..1800668_POSITIVE 265 87 51 40 1 smit:SMT_2031|5end_hypothetical_protein_predicted_by_Glimmer/Critica_1945761..1945991_NEGATIVE 263 57 17 207 161 smit:SMT_1558|5end_hypothetical_protein_1544058..1544288_NEGATIVE 262 67 22 153 110 smit:SMT_1505|5end_purine-nucleoside_phosphorylase_1488515..1488745_NEGATIVE 258 70 22 58 2 smit:SMT_2082|5end_ATP-dependent_nuclease_subunit_B_1982286..1982516_NEGATIVE 251 168 126 106 55 smit:SMT_1073|5end_L-asparaginase_1011209..1011439_POSITIVE 246 60 16 74 28 smit:SMT_127|5end_transcriptional_regulator,_PadR_family_78563..78793_NEGATIVE 244 86 41 82 41 smit:SMT_753|5end_chorismate_synthase_657967..658197_NEGATIVE 244 57 29 66 39 smit:SMT_434|5end_orotidine_5'-phosphate_decarboxylase_376107..376337_POSITIVE 242 111 71 216 181 smit:SMT_1455|5end_deoxyribose-phosphate_aldolase_1438535..1438765_NEGATIVE 241 59 21 183 140 smit:SMT_947|5end_ferredoxin_896405..896635_POSITIVE 241 80 32 86 34 smit:SMT_903|5end_hypothetical_protein_852310..852540_NEGATIVE 241 77 32 60 9 smit:SMT_507|5end_hypothetical_protein_438216..438446_NEGATIVE 241 77 32 60 9 smit:SMT_504|5end_hypothetical_protein_436785..437015_NEGATIVE 240 49 7 62 15 smit:SMT_879|5end_hypothetical_protein_826989..827219_NEGATIVE 240 57 19 94 46 smit:SMT_712|5end_alcohol_dehydrogenase,_zinc-containing_620381..620611_NEGATIVE 237 66 21 85 33 smit:SMT_1423|5end_hypothetical_protein_1407737..1407967_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 269 80 33 77 29 smit:SMT_1831|3end_galactose-6-phosphate_isomerase_1800507..1800657_POSITIVE 249 59 13 46 5 smit:SMT_2034|3end_hydrolase,_haloacid_dehalogenase-like_family_1947257..1947407_POSITIVE 246 64 25 56 6 smit:SMT_1073|3end_L-asparaginase_1012251..1012401_POSITIVE 244 62 21 77 26 smit:SMT_2116|3end_extramembranal_protein_2003774..2003924_POSITIVE 244 86 41 72 31 smit:SMT_754|3end_3-dehydroquinate_synthase_657977..658127_NEGATIVE 241 80 32 102 50 smit:SMT_904|3end_hypothetical_protein_852294..852444_NEGATIVE 240 58 22 47 6 smit:SMT_1973|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1904878..1905028_NEGATIVE 240 230 190 70 27 smit:SMT_1170|3end_acetyltransferase,_CysE/LacA/LpxA/NodL_family_1117569..1117719_NEGATIVE 238 70 29 54 16 smit:SMT_1083|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1021001..1021151_POSITIVE 236 75 32 53 10 smit:SMT_1613|3end_ribosomal_large_subunit_pseudouridine_synthase_B_1601410..1601560_POSITIVE 234 79 31 133 83 smit:SMT_242|3end_PTS_system,_mannose-specific_IID_component_179163..179313_NEGATIVE 232 60 13 81 38 smit:SMT_2067|3end_hypothetical_protein_predicted_by_Glimmer/Critica_1974216..1974366_POSITIVE 230 227 194 142 107 smit:SMT_314|3end_biotin_carboxylase_255724..255874_POSITIVE 229 52 18 90 53 smit:SMT_363|3end_K02519_translation_initiation_factor_IF-2_300751..300901_POSITIVE 226 89 41 57 2 smit:SMT_1011|3end_xanthine_phosphoribosyltransferase_949234..949384_POSITIVE 225 59 21 79 34 smit:SMT_1367|3end_K02237_competence_protein_ComEA_1346872..1347022_NEGATIVE 221 60 15 54 9 smit:SMT_456|3end_pyruvate_oxidase_396091..396241_POSITIVE 220 33 8 44 11 smit:SMT_173|3end_50S_ribosomal_protein_L2_117407..117557_POSITIVE 219 74 33 67 31 smit:SMT_1306|3end_alpha-glycerophosphate_oxidase_1271673..1271823_POSITIVE 218 74 33 70 31 smit:SMT_484|3end_hypothetical_protein_419659..419809_NEGATIVE