Origin IGS: aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gcaagtaactgagagtatcgaaagatattctctcttgtttaggtaatagtttgactgtcaaagtaaagaaaatacatctagcgtgtggtagtttgaaatcaagctattacttaagcaatgataaaaggaaggtatt Mask Tandem Repeat Region ================================================ aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc Find is-nt database================================================ Query_seq: SSA_1938:SSA_1939|SSA_1938:SSA_1939:Enoyl-acyl carrier protein(ACP) reductase, putative:Acyl carrier protein, putative:<-<-:1925829..1925964 136 aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_1938:SSA_1939|SSA_1938:SSA_1939:Enoyl-acyl carrier protein(ACP) reductase, putative:Acyl carrier protein, putative:<-<-:1925829..1925964 136 aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_1938:SSA_1939|SSA_1938:SSA_1939:Enoyl-acyl carrier protein(ACP) reductase, putative:Acyl carrier protein, putative:<-<-:1925829..1925964 136 aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: - Start: 3 End: 128 .. V K R K D N S L Y Y S S K L S G C A L H I K K V K V T L S N G L C S L I D K S V R M ........ aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc 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================================================ aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: SSA_1938:SSA_1939|SSA_1938:SSA_1939:Enoyl-acyl carrier protein(ACP) reductase, putative:Acyl carrier protein, putative:<-<-:1925829..1925964 136 aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc Intra-Species Hit: Count: 1 Min: 1 Max: 136 Len: 136 Subject: NC_009009_SSA_1938_SSA_1939|Enoyl-acyl carrier protein(ACP) reductase, putative:Acyl carrier protein, putative|NEGATIVE:NEGATIVE|[1925829,1925964]|136 HSP 1 e-value: 1.0E-71 bit: 270.0 Len: 136 Query Start:1 Query End:136 Subject Strand: POSITIVE Subject Start: 1 Subject End: 136 aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc aataccttccttttatcattgcttaagtaatagcttgatttcaaactaccacacgctagatgtattttctttactttgacagtcaaactattacctaaacaagagagaatatctttcgatactctcagttacttgc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUACCUUCCUUUUAUCAUUGCUUAAGUAAUAGCUUGAUUUCAAACUACCACACGCUAGAUGUAUUUUCUUUACUUUGACAGUCAAACUAUUACCUAAACAAGAGAGAAUAUCUUUCGAUACUCUCAGUUACUUGC ..................(((.(((.(((((((.((((((((((.(((.(....).)))..(((.......))).)))).)))))).))))))).))).)))..((((.((((....)))).)))).......... (-23.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCAAGUAACUGAGAGUAUCGAAAGAUAUUCUCUCUUGUUUAGGUAAUAGUUUGACUGUCAAAGUAAAGAAAAUACAUCUAGCGUGUGGUAGUUUGAAAUCAAGCUAUUACUUAAGCAAUGAUAAAAGGAAGGUAUU ..........(((((((((....)))))))))..((((((((((((((((((((...(((((.((......((((.......))))..)).)))))..)))))))))))))))))))).................. (-45.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 811 70 21 161 112 NC_009009:SSA_1938|5end_Enoyl-acyl_carrier_protein(ACP)_reductase,_putative_1925738..1925968_NEGATIVE 274 57 16 185 132 NC_009009:SSA_1978|5end_Dihydroxyacetone_kinase_family_protein_(Dak2_domain),_putative_1973933..1974163_NEGATIVE 268 69 21 179 125 NC_009009:SSA_0204|5end_Nisin_biosynthesis_two-component_response_transcriptional_regulator_nisR,_putative_202057..202287_POSITIVE 257 48 5 226 180 NC_009009:SSA_1119|5end_Two-component_response_transcriptional_regulator_(CheY-like_receiver_and_AraC-type_DNA-binding_domains),_putative_1144491..1144721_POSITIVE 252 118 73 106 62 NC_009009:SSA_0511|5end_Propanediol_utilization_kinase,_putative_509610..509840_POSITIVE 251 79 34 161 119 NC_009009:SSA_0190|5end_hypothetical_protein_191481..191711_POSITIVE 247 130 82 215 151 NC_009009:SSA_2243|5end_Conserved_uncharacterized_protein_2239341..2239571_NEGATIVE 237 37 5 143 103 NC_009009:SSA_0929|5end_ABC-type_multidrug_transporter,_ATPase_and_permease_components,_putative_938438..938668_POSITIVE 229 96 53 101 64 NC_009009:SSA_2142|5end_Argininosuccinate_synthase,_putative_2143415..2143645_NEGATIVE 219 60 16 171 125 NC_009009:SSA_2277|5end_DNA_segregation_ATPase_FtsK/SpoIIIE_family_protein,_putative_2280407..2280637_NEGATIVE 217 70 21 77 31 NC_009009:SSA_1240|5end_Orotate_phosphoribosyltransferase,_putative_1265430..1265660_NEGATIVE 215 73 33 105 59 NC_009009:SSA_1498|5end_50S_ribosomal_protein_L20,_putative_1504112..1504342_NEGATIVE 215 58 17 186 145 NC_009009:SSA_0299|5end_hypothetical_protein_292759..292989_POSITIVE 211 60 16 185 135 NC_009009:SSA_2194|5end_Nicotinamide_mononucleotide_transporter,_putative_2195663..2195893_NEGATIVE 210 50 4 189 143 NC_009009:SSA_1409|5end_DTDP-glucose-4,6-dehydratase,_putative_1422255..1422485_NEGATIVE 208 117 79 52 17 NC_009009:SSA_0983|5end_Conserved_uncharacterized_protein_986086..986316_POSITIVE 207 57 19 59 13 NC_009009:SSA_2049|5end_Polyribonucleotide_nucleotidyltransferase,_putative_2052894..2053124_NEGATIVE 205 80 46 100 56 NC_009009:SSA_2271|5end_hypothetical_protein_2272450..2272680_NEGATIVE 204 72 36 154 109 NC_009009:SSA_0977|5end_3-isopropylmalate_dehydrogenase,_putative_982771..983001_POSITIVE 202 59 11 151 106 NC_009009:SSA_2368|5end_CDP-diacylglycerol--glycerol-3-phosphate_3-phosphatidyltransferase,_putative_2370222..2370452_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 252 118 73 113 69 NC_009009:SSA_0510|3end_L-threonine-O-3-phosphate_decarboxylase,_putative_509697..509847_POSITIVE 251 79 34 123 81 NC_009009:SSA_0189|3end_Competence_protein_ComGF,_putative_191523..191673_POSITIVE 247 130 82 79 15 NC_009009:SSA_2244|3end_Arsenate_reductase,_putative_2239477..2239627_NEGATIVE 237 37 5 150 110 NC_009009:SSA_0928|3end_ABC-type_multidrug_transporter,_ATPase_and_permease_components,_putative_938525..938675_POSITIVE 229 98 53 150 99 NC_009009:SSA_2360|3end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase,_putative_2362658..2362808_NEGATIVE 225 60 15 121 75 NC_009009:SSA_2023|3end_Fructan_beta-fructosidase_precursor,_putative_2024609..2024759_NEGATIVE 223 50 7 78 36 NC_009009:SSA_0963|3end_Peptidoglycan_N-acetylglucosamine_deacetylase_A,_putative_972890..973040_POSITIVE 215 73 33 60 14 NC_009009:SSA_1499|3end_50S_ribosomal_protein_L35,_putative_1504157..1504307_NEGATIVE 213 61 28 111 73 NC_009009:SSA_0149|3end_hypothetical_protein_143833..143983_POSITIVE 204 94 54 70 21 NC_009009:SSA_1111|3end_Branched-chain_amino_acid_transport_system_II_carrier_protein,_putative_1137940..1138090_POSITIVE 204 72 36 72 27 NC_009009:SSA_0975|3end_2-isopropylmalate_synthase,_putative_982769..982919_POSITIVE 203 59 20 135 102 NC_009009:SSA_0429|3end_Histidine_ammonia-lyase,_putative_429701..429851_NEGATIVE 202 59 11 134 89 NC_009009:SSA_2369|3end_hypothetical_protein_2370239..2370389_NEGATIVE 199 59 16 151 108 NC_009009:SSA_0203|3end_hypothetical_protein_202124..202274_POSITIVE 198 50 2 124 80 NC_009009:SSA_0028|3end_Phosphoribosylaminoimidazole-succinocarboxamide_synthase,_putative_32670..32820_POSITIVE 197 60 20 144 101 NC_009009:SSA_2125|3end_Small_primase-like_protein_(Toprim_domain),_putative_2129423..2129573_NEGATIVE 196 59 16 69 24 NC_009009:SSA_1430|3end_Ribonuclease_Z,_putative_1437107..1437257_NEGATIVE 196 58 11 88 35 NC_009009:SSA_0947|3end_hypothetical_protein_954876..955026_POSITIVE 195 130 85 85 36 NC_009009:SSA_0748|3end_Sugar:H+_symporter,_permease_of_the_major_facilitator_superfamily,_putative_730635..730785_POSITIVE 193 75 34 144 99 NC_009009:SSA_2123|3end_Dimethyladenosine_transferase,_putative_2127664..2127814_NEGATIVE