Origin IGS: acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat .........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 atttaagataccaagggcgtcaaaaacgactgaaaaataggagatttgctaaacattcgacgaatgatcgcaagtctatctttttttcgagtttttagcccgggttcaattcctttctctattctatcgctgaggaacttgaccgaccaaattttagggatttgtctgaaatcctgatttcagaaactaatcatctaaatttcgagcttttaggtcgtattcatttcctctctttaaattttcttgt Mask Tandem Repeat Region ================================================ acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat Find is-nt database================================================ Query_seq: SSA_0913:SSA_0914|SSA_0913:SSA_0914:Acetyltransferase, putative:Phenylalanyl-tRNA synthetase beta chain, putative:->->:924845..925091 247 acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0913:SSA_0914|SSA_0913:SSA_0914:Acetyltransferase, putative:Phenylalanyl-tRNA synthetase beta chain, putative:->->:924845..925091 247 acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0913:SSA_0914|SSA_0913:SSA_0914:Acetyltransferase, putative:Phenylalanyl-tRNA synthetase beta chain, putative:->->:924845..925091 247 acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat Predict ORF larger than 30AA ================================================ Protein_Len: 53 Strand: + Start: 87 End: 242 ...................................................................................... M P K I W S V K F L S D R I E K G I E P G L K T R K K D R L A I I R R M F S K S P I F Q S F L T P L V S * ..... Protein_Len: 46 Strand: - Start: 74 End: 211 ......................................................................... S K L C I G L I Q D T L N R L S L I S F P I S G P S F V R F F S L S A I M R R I N L L D G M .................................... Protein_Len: 40 Strand: - Start: 3 End: 122 .. L F N L S L F H I R G L L E F N L H N T E S I L I E S L D R F N P R D L E E A M ............................................................................................................................. acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat 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================================================ acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0913:SSA_0914|SSA_0913:SSA_0914:Acetyltransferase, putative:Phenylalanyl-tRNA synthetase beta chain, putative:->->:924845..925091 247 acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat Intra-Species Hit: Count: 1 Min: 1 Max: 247 Len: 247 Subject: NC_009009_SSA_0913_SSA_0914|Acetyltransferase, putative:Phenylalanyl-tRNA synthetase beta chain, putative|POSITIVE:POSITIVE|[924845,925091]|247 HSP 1 e-value: 1.0E-125 bit: 448.0 Len: 247 Query Start:1 Query End:247 Subject Strand: POSITIVE Subject Start: 1 Subject End: 247 acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgnnnnnnngatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat acaagaaaatttaaagagaggaaatgaatacgacctaaaagctcgaaatttagatgattagtttctgaaatcaggatttcagacaaatccctaaaatttggtcggtcaagttcctcagcgatagaatagagaaaggaattgaacccgggctaaaaactcgaaaaaaagatagacttgcgatcattcgtcgaatgtttagcaaatctcctatttttcagtcgtttttgacgcccttggtatcttaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACAAGAAAAUUUAAAGAGAGGAAAUGAAUACGACCUAAAAGCUCGAAAUUUAGAUGAUUAGUUUCUGAAAUCAGGAUUUCAGACAAAUCCCUAAAAUUUGGUCGGUCAAGUUCCUCAGCGAUAGAAUAGAGAAAGGAAUUGAACCCGGGCUAAAAACUCGAAAAAAAGAUAGACUUGCGAUCAUUCGUCGAAUGUUUAGCAAAUCUCCUAUUUUUCAGUCGUUUUUGACGCCCUUGGUAUCUUAAAU ..((((...........((((((.(((...(((((.........(((.(((((..((((.(..((((((((....))))))))).)))).))))).)))))))).)))..))))))..........................(((.(((((((((((..((((((.((..(((.((((...(((((...)))))....)))).))).)).))))))....)))))))..))))..))).)))).... (-57.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUAAGAUACCAAGGGCGUCAAAAACGACUGAAAAAUAGGAGAUUUGCUAAACAUUCGACGAAUGAUCGCAAGUCUAUCUUUUUUUCGAGUUUUUAGCCCGGGUUCAAUUCCUUUCUCUAUUCUAUCGCUGAGGAACUUGACCGACCAAAUUUUAGGGAUUUGUCUGAAAUCCUGAUUUCAGAAACUAAUCAUCUAAAUUUCGAGCUUUUAGGUCGUAUUCAUUUCCUCUCUUUAAAUUUUCUUGU ...(((((.(((..((((...((((((...(((((((.(((((((((((....(((((...)))))...)))))))).))).))))))).)))))).)))).)))..........................((((((..(((.((((((((.((((((((((..((((((((....))))))))....)))).)))))).........))).)))))...))).))))))...........))))). (-64.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 149 108 151 114 NC_009009:SSA_2002|5end_tRNA_pseudouridine_synthase_A,_putative_1998959..1999189_NEGATIVE 303 131 91 183 147 NC_009009:SSA_2012|5end_hypothetical_protein_2013470..2013700_NEGATIVE 293 239 193 133 81 NC_009009:SSA_0964|5end_DEAD_RNA_helicase,_putative_974114..974344_NEGATIVE 287 228 183 68 30 NC_009009:SSA_2226|5end_Organic_radical_activating_chaperone,_putative_2227756..2227986_NEGATIVE 287 129 81 78 32 NC_009009:SSA_0502|5end_Peptide_ABC_transporter,_permease_protein,_putative_501554..501784_POSITIVE 287 239 193 106 54 NC_009009:SSA_0239|5end_7,8-dihydro-8-oxoguanine-triphosphatase,_putative_232961..233191_POSITIVE 280 150 103 139 97 NC_009009:SSA_1397|5end_hypothetical_protein_1410589..1410819_POSITIVE 278 119 75 47 9 NC_009009:SSA_2199|5end_ATP-dependent_Clp_protease,_ATP-binding_subunit,_putative_2201108..2201338_NEGATIVE 277 122 101 25 2 NC_009009:SSA_2378|5end_Two-component_system_transcriptional_regulator,_LytR/AlgR_family,_putative_2383893..2384123_NEGATIVE 277 180 131 85 33 NC_009009:SSA_1121|5end_Cytochrome_C-type_biogenesis_protein,_putative_1147149..1147379_POSITIVE 277 137 98 219 178 NC_009009:SSA_0079|5end_ROK_family_protein,_putative_82855..83085_POSITIVE 274 119 80 44 7 NC_009009:SSA_2099|5end_ABC-type_arginine/histidine_transporter,_permease_protein,_putative_2104313..2104543_NEGATIVE 271 121 81 43 8 NC_009009:SSA_0405|5end_Transcriptional_regulator,_XRE_family,_putative_401418..401648_POSITIVE 270 237 191 160 110 NC_009009:SSA_1560|5end_Structural_maintenance_of_chromosome_protein_(chromosome_segregation_ATPase),_putative_1565194..1565424_NEGATIVE 269 136 95 81 32 NC_009009:SSA_1509|5end_Polysaccharide_biosynthesis_protein/_rhamnosyltransferase,_putative_1514191..1514421_NEGATIVE 269 219 172 223 180 NC_009009:SSA_0191|5end_Adenine-specific_DNA_methylase,_putative_191907..192137_POSITIVE 268 124 87 127 100 NC_009009:SSA_1014|5end_Phosphatidylserine_decarboxylase_proenzyme_2,_putative_1017846..1018076_POSITIVE 267 240 193 229 185 NC_009009:SSA_0845|5end_ABC-type_multidrug_transport_system,_ATPase_component,_putative_830046..830276_NEGATIVE 267 240 191 73 29 NC_009009:SSA_0834|5end_Accessory_secretory_protein_Asp2,_putative_819510..819740_POSITIVE 267 121 81 39 1 NC_009009:SSA_0489|5end_Adenosylcobinamide_kinase_/_adenosylcobinamide_phosphate_guanyltransferase,_putative_489655..489885_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 431 240 206 83 47 NC_009009:SSA_2110|3end_30S_ribosomal_protein_S7,_putative_2115109..2115259_NEGATIVE 353 240 206 89 54 NC_009009:SSA_0093|3end_V-type_sodium_ATPase,_subunit_D,_putative_94989..95139_POSITIVE 348 240 204 85 49 NC_009009:SSA_2058|3end_30S_ribosomal_protein_S15,_putative_2060058..2060208_NEGATIVE 287 228 183 108 70 NC_009009:SSA_2227|3end_Acetyl_transferase,_putative_2227716..2227866_NEGATIVE 287 239 193 96 44 NC_009009:SSA_0238|3end_hypothetical_protein_233031..233181_POSITIVE 278 119 75 46 8 NC_009009:SSA_2200|3end_Firmicutes_transcriptional_repressor_of_class_III_stress_genes_(CtsR),_putative_2201109..2201259_NEGATIVE 269 136 95 84 35 NC_009009:SSA_1510|3end_Rhamnosyltransferase,_putative_1514188..1514338_NEGATIVE 269 219 172 141 98 NC_009009:SSA_0190|3end_hypothetical_protein_191905..192055_POSITIVE 268 124 87 134 107 NC_009009:SSA_1013|3end_Phosphatidylserine_synthase,_putative_1017933..1018083_POSITIVE 267 240 191 83 39 NC_009009:SSA_0833|3end_Accessory_secretory_protein_Asp1,_putative_819600..819750_POSITIVE 267 121 81 46 8 NC_009009:SSA_0488|3end_Glutamate-1-semialdehyde_2,1-aminotransferase,_putative_489742..489892_POSITIVE 265 119 71 138 91 NC_009009:SSA_1722|3end_Thymidylate_kinase,_putative_1708025..1708175_NEGATIVE 263 136 94 45 2 NC_009009:SSA_1568|3end_ABC_transporter_membrane-spanning_permease,_arginine/histidine_transport,_putative_1571960..1572110_POSITIVE 259 119 79 141 91 NC_009009:SSA_0784|3end_Proton-translocating_ATPase,_F0_sector,_subunit_b,_putative_768124..768274_POSITIVE 258 120 74 66 5 NC_009009:SSA_0635|3end_Indole-3-glycerol_phosphate_synthase,_putative_625235..625385_POSITIVE 254 119 71 139 91 NC_009009:SSA_0671|3end_Methylenetetrahydrofolate_dehydrogenase/methenyltetrahydrofolate_cyclohydrolase,_putative_655274..655424_POSITIVE 253 220 172 64 19 NC_009009:SSA_1459|3end_RNA_methyltransferase,_putative_1466111..1466261_NEGATIVE 253 108 61 89 49 NC_009009:SSA_1433|3end_tRNA_delta(2)-isopentenylpyrophosphate_transferase,_putative_1439933..1440083_NEGATIVE 250 235 206 110 76 NC_009009:SSA_1631|3end_Sortase-like_protein,_putative_1631651..1631801_NEGATIVE 249 147 105 143 101 NC_009009:SSA_2237|3end_Dihydrofolate:folylpolyglutamate_synthetase,_putative_2235508..2235658_NEGATIVE