Origin IGS: cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 agcccatctcatcttacaaaagtgtaagattgcactttaaaatgtaagcttaggttatggcagggtggttggtattgagataaaatagacttatcaattaggaggcagttcataaatactgctaaaagcagggctttgataggtgcctgctagacagaaaggaagcaag Mask Tandem Repeat Region ================================================ cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct Find is-nt database================================================ Query_seq: SSA_1681:SSA_1682|SSA_1681:SSA_1682:ABC-type bacitracin resistance protein A, ATPase component, putative:hypothetical protein:<-<-:1676051..1676219 169 cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1681:SSA_1682|SSA_1681:SSA_1682:ABC-type bacitracin resistance protein A, ATPase component, putative:hypothetical protein:<-<-:1676051..1676219 169 cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1681:SSA_1682|SSA_1681:SSA_1682:ABC-type bacitracin resistance protein A, ATPase component, putative:hypothetical protein:<-<-:1676051..1676219 169 cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 30 End: 158 ............................. M K A L L L A V F M N C L L I D K S I L S Q Y Q P P C H N L S L H F K V Q S Y T F V R ........... cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct 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================================================ PromScan Matrix: RpoN Strand: - Score: 81 Start: 97 End: 113 ................................................................................................ATGGCAGGGTGGTTGGT........................................................ cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1681:SSA_1682|SSA_1681:SSA_1682:ABC-type bacitracin resistance protein A, ATPase component, putative:hypothetical protein:<-<-:1676051..1676219 169 cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct Intra-Species Hit: Count: 1 Min: 1 Max: 169 Len: 169 Subject: NC_009009_SSA_1681_SSA_1682|ABC-type bacitracin resistance protein A, ATPase component, putative:hypothetical protein|NEGATIVE:NEGATIVE|[1676051,1676219]|169 HSP 1 e-value: 3.0E-91 bit: 335.0 Len: 169 Query Start:1 Query End:169 Subject Strand: POSITIVE Subject Start: 1 Subject End: 169 cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct cttgcttcctttctgtctagcaggcacctatcaaagccctgcttttagcagtatttatgaactgcctcctaattgataagtctattttatctcaataccaaccaccctgccataacctaagcttacattttaaagtgcaatcttacacttttgtaagatgagatgggct Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUGCUUCCUUUCUGUCUAGCAGGCACCUAUCAAAGCCCUGCUUUUAGCAGUAUUUAUGAACUGCCUCCUAAUUGAUAAGUCUAUUUUAUCUCAAUACCAACCACCCUGCCAUAACCUAAGCUUACAUUUUAAAGUGCAAUCUUACACUUUUGUAAGAUGAGAUGGGCU .............(((((((.(((((....((((((..((((.....))))..))).)))..))))).)))...)))).((((((((((((.................((..........)).((((....((((((........)))))))))).)))))))))))). (-34.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCCCAUCUCAUCUUACAAAAGUGUAAGAUUGCACUUUAAAAUGUAAGCUUAGGUUAUGGCAGGGUGGUUGGUAUUGAGAUAAAAUAGACUUAUCAAUUAGGAGGCAGUUCAUAAAUACUGCUAAAAGCAGGGCUUUGAUAGGUGCCUGCUAGACAGAAAGGAAGCAAG .((((.......((((((((((((((....))))))))....)))))).....(((.(((((((........((((.......)))).((((((((.......((((((........))))))..((((...)))))))))))).)))))))))).....))..))... (-41.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 977 50 1 141 92 NC_009009:SSA_1681|5end_ABC-type_bacitracin_resistance_protein_A,_ATPase_component,_putative_1675960..1676190_NEGATIVE 399 47 1 39 3 NC_009009:SSA_0882|5end_Phosphoserine_phosphatase,_putative_876903..877133_POSITIVE 364 43 4 56 13 NC_009009:SSA_1122|5end_Thioredoxin_family_protein,_putative_1147871..1148101_POSITIVE 346 70 22 210 139 NC_009009:SSA_0197|5end_Dihydropteroate_synthase,_putative_195946..196176_POSITIVE 345 46 4 146 95 NC_009009:SSA_0570|5end_Glutamyl-tRNA(Gln)_amidotransferase_subunit_A,_putative_563915..564145_POSITIVE 338 69 21 189 133 NC_009009:SSA_0758|5end_Ornithine_acetyltransferase_/_amino-acid_acetyltransferase,_putative_740636..740866_POSITIVE 337 49 10 200 165 NC_009009:SSA_1076|5end_hypothetical_protein_1094227..1094457_POSITIVE 335 50 1 138 93 NC_009009:SSA_1140|5end_Dihydrolipoamide_acetyl_transferase,_E2_component,_putative_1167868..1168098_POSITIVE 327 50 2 185 124 NC_009009:SSA_2217|5end_Cps9H,_putative_2219045..2219275_NEGATIVE 326 49 4 149 94 NC_009009:SSA_1450|5end_hypothetical_protein_1452710..1452940_NEGATIVE 322 42 1 125 82 NC_009009:SSA_1821|5end_Acetyltransferase_(N-acetylase_of_ribosomal_proteins),_putative_1810610..1810840_NEGATIVE 319 69 21 55 1 NC_009009:SSA_1016|5end_Phosphoenolpyruvate_synthase,_putative_1019602..1019832_POSITIVE 312 42 5 200 164 NC_009009:SSA_0335|5end_Phosphomevalonate_kinase,_putative_328792..329022_POSITIVE 310 50 1 172 119 NC_009009:SSA_0165|5end_hypothetical_protein_163938..164168_POSITIVE 306 49 3 187 135 NC_009009:SSA_2188|5end_Conserved_uncharacterized_protein_2188896..2189126_POSITIVE 306 44 1 69 26 NC_009009:SSA_1366|5end_Alkaline_D-stereospecific_endopeptidase_precursor,_putative_1383663..1383893_NEGATIVE 305 46 6 148 97 NC_009009:SSA_1307|5end_Trk_transporter_membrane-spanning_protein-K+_transport,_putative_1326270..1326500_NEGATIVE 300 42 9 139 100 NC_009009:SSA_2090|5end_Hexulose-6-phosphate_synthase,_putative_2095038..2095268_NEGATIVE 299 67 27 231 190 NC_009009:SSA_2209|5end_Penicillin-binding_protein_2A,_putative_2210372..2210602_NEGATIVE 298 69 23 105 59 NC_009009:SSA_1463|5end_Shikimate_kinase,_putative_1470240..1470470_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 345 46 4 146 95 NC_009009:SSA_0569|3end_Aspartyl/glutamyl-tRNA(Asn/Gln)_amidotransferase_subunit_C,_putative_563995..564145_POSITIVE 335 50 1 124 79 NC_009009:SSA_1139|3end_Pyruvate_dehydrogenase_E1_component_beta_subunit,_putative_1167934..1168084_POSITIVE 330 43 5 41 4 NC_009009:SSA_1121|3end_Cytochrome_C-type_biogenesis_protein,_putative_1147936..1148086_POSITIVE 327 50 2 107 46 NC_009009:SSA_2218|3end_Glycosyltransferase_(cell_wall_biogenesis)_Cps9G,_putative_2219123..2219273_NEGATIVE 326 49 4 115 60 NC_009009:SSA_1451|3end_Exonuclease_RexA,_putative_1452744..1452894_NEGATIVE 319 69 21 55 1 NC_009009:SSA_1015|3end_4-hydroxybenzoate_octaprenyltransferase,_putative_1019682..1019832_POSITIVE 310 50 1 151 98 NC_009009:SSA_0164|3end_hypothetical_protein_163997..164147_POSITIVE 305 46 6 151 100 NC_009009:SSA_1308|3end_hypothetical_protein_1326267..1326417_NEGATIVE 300 42 9 115 76 NC_009009:SSA_2091|3end_Phosphotransferase_system_sugar-specific_EII_component,_putative_2095062..2095212_NEGATIVE 299 42 1 150 99 NC_009009:SSA_2023|3end_Fructan_beta-fructosidase_precursor,_putative_2024609..2024759_NEGATIVE 298 69 23 112 66 NC_009009:SSA_1464|3end_3-phosphoshikimate_1-carboxyvinyltransferase,_putative_1470233..1470383_NEGATIVE 296 48 1 71 9 NC_009009:SSA_2239|3end_Conserved_uncharacterized_cytosolic_protein_2236922..2237072_NEGATIVE 293 50 6 64 16 NC_009009:SSA_0451|3end_Conserved_uncharacterized_protein_451636..451786_POSITIVE 292 50 1 82 37 NC_009009:SSA_0030|3end_Phosphoribosylformylglycinamidine_synthase,_putative_36424..36574_POSITIVE 289 50 8 45 4 NC_009009:SSA_1924|3end_Transcriptional_regulator,_TetR/AcrR_family,_putative_1912691..1912841_NEGATIVE 289 45 8 80 37 NC_009009:SSA_0485|3end_Porphobilinogen_deaminase,_putative_486732..486882_POSITIVE 284 70 22 104 59 NC_009009:SSA_0686|3end_Fe2+/Zn2+_uptake_regulation_protein,_putative_670079..670229_POSITIVE 283 41 4 65 27 NC_009009:SSA_0388|3end_Mismatch_repair_ATPase_(MutS_family),_putative_384248..384398_POSITIVE 282 70 22 144 97 NC_009009:SSA_1332|3end_hypothetical_protein_1347217..1347367_NEGATIVE 282 50 6 127 76 NC_009009:SSA_1008|3end_Galactokinase,_putative_1011114..1011264_POSITIVE