Origin IGS: gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt .........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 actcttcctttaacaatcttggatagtttatctacaacaccttattttatcataaatcagccagtatttcgcggacttttcatcaaaaatacctttctgaaaaaagtcagacgatttaaagtagaaaaggccagctgattttgtctgtctcacaagaaaaatcttagcaaaagctaagatc Mask Tandem Repeat Region ================================================ gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt Find is-nt database================================================ Query_seq: SSA_0626:SSA_0627|SSA_0626:SSA_0627:hypothetical protein:hypothetical protein:->->:617273..617453 181 gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0626:SSA_0627|SSA_0626:SSA_0627:hypothetical protein:hypothetical protein:->->:617273..617453 181 gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0626:SSA_0627|SSA_0626:SSA_0627:hypothetical protein:hypothetical protein:->->:617273..617453 181 gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt Predict ORF larger than 30AA ================================================ Protein_Len: 50 Strand: + Start: 2 End: 151 . M L A F A K I F L V R Q T K S A G L F Y F K S S D F F Q K G I F D E K S A K Y W L I Y D K I R C C R .............................. Protein_Len: 40 Strand: - Start: 47 End: 166 .............................................. S A K E V K F R R V K K L F T N K I F L G R F V P Q N I I F Y P T T S L S D L M ............... gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt 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================================================ gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_0626:SSA_0627|SSA_0626:SSA_0627:hypothetical protein:hypothetical protein:->->:617273..617453 181 gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt Intra-Species Hit: Count: 1 Min: 1 Max: 181 Len: 181 Subject: NC_009009_SSA_0626_SSA_0627|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[617273,617453]|181 HSP 1 e-value: 2.0E-98 bit: 359.0 Len: 181 Query Start:1 Query End:181 Subject Strand: POSITIVE Subject Start: 1 Subject End: 181 gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt gatcttagcttttgctaagatttttcttgtgagacagacaaaatcagctggccttttctactttaaatcgtctgacttttttcagaaaggtatttttgatgaaaagtccgcgaaatactggctgatttatgataaaataaggtgttgtagataaactatccaagattgttaaaggaagagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUCUUAGCUUUUGCUAAGAUUUUUCUUGUGAGACAGACAAAAUCAGCUGGCCUUUUCUACUUUAAAUCGUCUGACUUUUUUCAGAAAGGUAUUUUUGAUGAAAAGUCCGCGAAAUACUGGCUGAUUUAUGAUAAAAUAAGGUGUUGUAGAUAAACUAUCCAAGAUUGUUAAAGGAAGAGU (((((((((....))))))))).(((((.(..(((((...((((((((..(..((............((((..(((((((((((((((....))))))).)))))))).))))))..)..))))))))............((.(((.......)))...))....)))))...).))))). (-45.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUCUUCCUUUAACAAUCUUGGAUAGUUUAUCUACAACACCUUAUUUUAUCAUAAAUCAGCCAGUAUUUCGCGGACUUUUCAUCAAAAAUACCUUUCUGAAAAAAGUCAGACGAUUUAAAGUAGAAAAGGCCAGCUGAUUUUGUCUGUCUCACAAGAAAAAUCUUAGCAAAAGCUAAGAUC ................((((((((((...(((.......((((.((((((..((((((.((.........)).(((((((..(((.(((....))).))).)))))))....))))))..))))))))))......))).....)))))...)))))...((((((((....)))))))). (-36.22) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 285 77 35 77 33 NC_009009:SSA_0272|5end_Oxidoreductase,_aldo/keto_reductase_family,_putative_266023..266253_POSITIVE 281 89 46 208 166 NC_009009:SSA_0688|5end_2,3-bisphosphoglycerate-dependent_phosphoglycerate_mutase,_putative_671360..671590_POSITIVE 280 50 4 137 98 NC_009009:SSA_0511|5end_Propanediol_utilization_kinase,_putative_509610..509840_POSITIVE 275 87 43 77 32 NC_009009:SSA_0558|5end_Conserved_hypothetical_cytosolic_protein,_putative_552335..552565_POSITIVE 273 78 35 45 12 NC_009009:SSA_0749|5end_Competence_protein,_putative_730668..730898_POSITIVE 270 58 14 179 135 NC_009009:SSA_0187|5end_Competence_protein_ComYD,_putative_190350..190580_POSITIVE 267 114 71 121 76 NC_009009:SSA_1267|5end_crcB-like_protein_2,_putative_1291347..1291577_NEGATIVE 262 50 8 175 131 NC_009009:SSA_0334|5end_Diphosphomevalonate_decarboxylase,_putative_327855..328085_POSITIVE 260 116 72 127 79 NC_009009:SSA_0876|5end_4-methyl-5(B-hydroxyethyl)-thiazole_monophosphate_biosynthesis_protein,_putative_870233..870463_POSITIVE 260 52 11 202 156 NC_009009:SSA_0305|5end_hypothetical_protein_301985..302215_POSITIVE 257 50 3 185 135 NC_009009:SSA_1808|5end_hypothetical_protein_1792209..1792439_NEGATIVE 257 60 11 68 22 NC_009009:SSA_0102|5end_Kinase,_putative_104035..104265_POSITIVE 254 55 14 65 9 NC_009009:SSA_1546|5end_Prolipoprotein_diacylglyceryl_transferase,_putative_1550052..1550282_NEGATIVE 253 48 4 172 122 NC_009009:SSA_1003|5end_ABC_transporter_substrate-binding_protein-multiple_sugars,_putative_1003875..1004105_POSITIVE 250 110 73 212 167 NC_009009:SSA_1566|5end_Polar_amino_acid_ABC_transporter,_ATP-binding_protein,_putative_1569599..1569829_POSITIVE 250 125 87 140 106 NC_009009:SSA_0512|5end_Nicotinate-nucleotide--dimethylbenzimidazole_phosphoribosyltransferase,_putative_510439..510669_POSITIVE 248 50 4 169 95 NC_009009:SSA_2152|5end_ABC-type_transporter_(uncharacterized),_ATPase_component,_putative_2153801..2154031_NEGATIVE 248 49 1 185 135 NC_009009:SSA_1972|5end_Two-component_system_transcriptional_regulator_(CheY_domain_and_HTH-like_DNA-binding_domain),_putative_1968410..1968640_NEGATIVE 248 75 36 41 4 NC_009009:SSA_0785|5end_Proton-translocating_ATPase,_F1_sector,_delta_subunit,_putative_768044..768274_POSITIVE 247 135 100 220 189 NC_009009:SSA_0475|5end_CbiK_protein,_putative_477723..477953_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 293 151 112 52 16 NC_009009:SSA_0336|3end_Isopentenyl-diphosphate_delta-isomerase,_putative_330879..331029_POSITIVE 285 77 35 67 23 NC_009009:SSA_0271|3end_Glycosylhydrolase,_family_35,_putative_266093..266243_POSITIVE 281 89 46 58 16 NC_009009:SSA_0687|3end_hypothetical_protein_671290..671440_POSITIVE 280 50 4 144 105 NC_009009:SSA_0510|3end_L-threonine-O-3-phosphate_decarboxylase,_putative_509697..509847_POSITIVE 275 87 43 55 10 NC_009009:SSA_0557|3end_hypothetical_protein_552393..552543_POSITIVE 267 114 71 121 76 NC_009009:SSA_1268|3end_Chorismate_mutase/prephenate_dehydratase,_putative_1291347..1291497_NEGATIVE 266 60 11 124 69 NC_009009:SSA_0781|3end_Mannose-6-phosphate_isomerase,_putative_766394..766544_POSITIVE 260 116 72 54 6 NC_009009:SSA_0875|3end_Rod_shape_determining_protein_(cell-cycle_protein),_putative_870240..870390_POSITIVE 257 60 11 66 20 NC_009009:SSA_0101|3end_Conserved_uncharacterized_protein_104113..104263_POSITIVE 254 147 105 136 100 NC_009009:SSA_1909|3end_Transcriptional_attenuator_LytR,_putative_1900904..1901054_NEGATIVE 254 55 14 72 16 NC_009009:SSA_1547|3end_HPr_kinase/phosphorylase,_putative_1550045..1550195_NEGATIVE 254 86 41 130 79 NC_009009:SSA_0808|3end_hypothetical_protein_791012..791162_POSITIVE 248 75 36 41 4 NC_009009:SSA_0784|3end_Proton-translocating_ATPase,_F0_sector,_subunit_b,_putative_768124..768274_POSITIVE 243 87 48 39 2 NC_009009:SSA_2352|3end_ABC-type_nitrate/sulfonate/bicarbonate_transporter,_periplasmic_component,_putative_2353507..2353657_NEGATIVE 243 33 9 125 102 NC_009009:SSA_1880|3end_Glycyl-tRNA_synthetase_alpha_chain,_putative_1874265..1874415_NEGATIVE 243 76 46 132 103 NC_009009:SSA_1316|3end_Nicotinamide_mononucleotide_transporter,_putative_1332157..1332307_NEGATIVE 240 79 41 63 18 NC_009009:SSA_2160|3end_Deoxyuridinetriphosphatase,_putative_2159623..2159773_NEGATIVE 240 49 1 92 36 NC_009009:SSA_0306|3end_Transcription_regulator_(glutamine_synthetase_repressor),_putative_303035..303185_POSITIVE 239 83 42 106 62 NC_009009:SSA_0992|3end_hypothetical_protein_994147..994297_POSITIVE 238 70 26 51 9 NC_009009:SSA_2098|3end_ABC-type_arginine/histidine_transporter,_permease_protein,_putative_2102931..2103081_NEGATIVE