Origin IGS: ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt .........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 aatttccgattcactccttgatttgtccaatatgtgatgtatcctctgtagccttttagtttgatttccgtctgtcgctcgactagggaaatgtaaaatcataagttgcaatctgtaccaacctagctcaaagctagatactgttcaaactaaatgaccctaatagcagacaaagggctggagaagctaatctccgcccttcttaatcatttcatttattcaatacaatgaccttctgccggtaaaaaa Mask Tandem Repeat Region ================================================ ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt Find is-nt database================================================ Query_seq: SSA_0375:SSA_0376|SSA_0375:SSA_0376:D-methionine-binding lipoprotein (ABC-type transporter), putative:ABC-type methionine transporter, ATPase component, putative:->->:365270..365518 249 ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: SSA_0375:SSA_0376|SSA_0375:SSA_0376:D-methionine-binding lipoprotein (ABC-type transporter), putative:ABC-type methionine transporter, ATPase component, putative:->->:365270..365518 249 ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: SSA_0375:SSA_0376|SSA_0375:SSA_0376:D-methionine-binding lipoprotein (ABC-type transporter), putative:ABC-type methionine transporter, ATPase component, putative:->->:365270..365518 249 ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 158 End: 247 ............................................................................................................................................................. M S L V E R Q T E I K L K G Y R G Y I T Y W T N Q G V N R K .. Protein_Len: 37 Strand: + Start: 139 End: 249 .......................................................................................................................................... M Q L M I L H F P S R A T D G N Q T K R L Q R I H H I L D K S R S E S E I ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt 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================================================ ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 75 HP_score: -7.9 Tail_Score: -4.13591 Start: 51 End: 75 Full_Region: TGAAATGATTAAGAA GGGCGGAGA TTAGCT TCTCCAGCCC TTTGTCTGCTATTAG ..................................................GGGCGGAGATTAGCTTCTCCAGCCC.............................................................................................................................................................................. TransTerm Strand: - Conf: 72 HP_score: -7.9 Tail_Score: -3.79909 Start: 51 End: 75 Full_Region: ctaatagcagacaaa gggctggaga agctaa tctccgccc ttcttaatcatttca ..................................................gggctggagaagctaatctccgccc.............................................................................................................................................................................. Find igs database================================================ Query_seq: SSA_0375:SSA_0376|SSA_0375:SSA_0376:D-methionine-binding lipoprotein (ABC-type transporter), putative:ABC-type methionine transporter, ATPase component, putative:->->:365270..365518 249 ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt Intra-Species Hit: Count: 1 Min: 1 Max: 249 Len: 249 Subject: NC_009009_SSA_0375_SSA_0376|D-methionine-binding lipoprotein (ABC-type transporter), putative:ABC-type methionine transporter, ATPase component, putative|POSITIVE:POSITIVE|[365270,365518]|249 HSP 1 e-value: 1.0E-139 bit: 494.0 Len: 249 Query Start:1 Query End:249 Subject Strand: POSITIVE Subject Start: 1 Subject End: 249 ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt ttttttaccggcagaaggtcattgtattgaataaatgaaatgattaagaagggcggagattagcttctccagccctttgtctgctattagggtcatttagtttgaacagtatctagctttgagctaggttggtacagattgcaacttatgattttacatttccctagtcgagcgacagacggaaatcaaactaaaaggctacagaggatacatcacatattggacaaatcaaggagtgaatcggaaatt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUUUACCGGCAGAAGGUCAUUGUAUUGAAUAAAUGAAAUGAUUAAGAAGGGCGGAGAUUAGCUUCUCCAGCCCUUUGUCUGCUAUUAGGGUCAUUUAGUUUGAACAGUAUCUAGCUUUGAGCUAGGUUGGUACAGAUUGCAACUUAUGAUUUUACAUUUCCCUAGUCGAGCGACAGACGGAAAUCAAACUAAAAGGCUACAGAGGAUACAUCACAUAUUGGACAAAUCAAGGAGUGAAUCGGAAAUU .......((((((((.(((((((.((((.....)))).)))))))..((((((((((((......))))).))))))).)))))......((((.(((((((((.((...(((((((.....)))))))..))........................((((((((.(((....)))))..))))))))))))))).))))............((((...((((.....))))...))))..)))..... (-68.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUUUCCGAUUCACUCCUUGAUUUGUCCAAUAUGUGAUGUAUCCUCUGUAGCCUUUUAGUUUGAUUUCCGUCUGUCGCUCGACUAGGGAAAUGUAAAAUCAUAAGUUGCAAUCUGUACCAACCUAGCUCAAAGCUAGAUACUGUUCAAACUAAAUGACCCUAAUAGCAGACAAAGGGCUGGAGAAGCUAAUCUCCGCCCUUCUUAAUCAUUUCAUUUAUUCAAUACAAUGACCUUCUGCCGGUAAAAAA .......(((((((...(((.......)))...))))...))).......(((.((((((((((.....(((((..(((.(((((((...(((......)))..(.(((.....))).)..))))).))..)))))))).....))))))))))...........(((((..((((((.(((((......))))))))))).....(((((..(((.....)))..)))))...))))).)))...... (-54.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 419 100 51 173 119 NC_009009:SSA_0589|5end_Acetylornithine_deacetylase/succinyl-diaminopimelate_desuccinylase_(M20/M25/M40_family_peptidase),_putative_580745..580975_POSITIVE 399 210 161 201 140 NC_009009:SSA_1726|5end_ABC_transporter_ATP-binding_protein-branched_chain_amino_acid_transport,_putative_1712467..1712697_NEGATIVE 398 142 102 229 188 NC_009009:SSA_1875|5end_hypothetical_protein_1870558..1870788_POSITIVE 381 100 53 95 44 NC_009009:SSA_0466|5end_Precorrin-8X_methylmutase_/_precorrin_isomerase,_putative_469884..470114_POSITIVE 359 94 53 83 40 NC_009009:SSA_0217|5end_Two-component_system_transcriptional_regulator_(CheY_domain_and_HTH-like_DNA-binding_domain),_putative_213183..213413_POSITIVE 344 98 51 127 78 NC_009009:SSA_0620|5end_hypothetical_protein_612325..612555_NEGATIVE 339 95 51 153 112 NC_009009:SSA_2097|5end_Amino_acid_ABC_transporter,_ATP-binding_protein,_putative_2102918..2103148_NEGATIVE 332 79 32 76 31 NC_009009:SSA_1412|5end_hypothetical_protein_1424095..1424325_NEGATIVE 332 79 32 211 166 NC_009009:SSA_1411|5end_Glucose-1-phosphate_thymidylytransferase,_putative_1423960..1424190_NEGATIVE 330 94 52 206 156 NC_009009:SSA_0694|5end_Mutator_protein,_putative_677730..677960_POSITIVE 327 94 51 74 13 NC_009009:SSA_1154|5end_hypothetical_protein_1182661..1182891_POSITIVE 323 92 54 229 184 NC_009009:SSA_1847|5end_RRNA_methyltransferase_RsmB,_putative_1842004..1842234_NEGATIVE 321 84 48 207 166 NC_009009:SSA_1713|5end_D-3-phosphoglycerate_dehydrogenase,_putative_1701384..1701614_NEGATIVE 319 103 61 51 9 NC_009009:SSA_0509|5end_Propanediol_utilization_protein,_putative_508024..508254_POSITIVE 317 95 54 221 182 NC_009009:SSA_2324|5end_hypothetical_protein_2330109..2330339_NEGATIVE 312 80 47 151 114 NC_009009:SSA_1420|5end_Homoserine_O-succinyltransferase,_putative_1430625..1430855_NEGATIVE 305 95 52 202 148 NC_009009:SSA_0884|5end_hypothetical_protein_879063..879293_NEGATIVE 302 84 51 180 143 NC_009009:SSA_0496|5end_Succinylglutamate_desuccinylase_/_Aspartoacylase_family,_putative_495946..496176_POSITIVE 301 85 47 217 180 NC_009009:SSA_0350|5end_Helicase,_putative_344218..344448_NEGATIVE 300 93 54 63 26 NC_009009:SSA_0793|5end_DNA-entry_nuclease,_putative_774859..775089_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 419 100 51 55 1 NC_009009:SSA_0588|3end_L-cystine_ABC_transporter,_substrate-binding_component,_putative_580707..580857_POSITIVE 381 100 53 94 43 NC_009009:SSA_0465|3end_Precorrin-8X_methylmutase_/_precorrin_isomerase,_putative_469963..470113_POSITIVE 359 99 51 59 16 NC_009009:SSA_0375|3end_D-methionine-binding_lipoprotein_(ABC-type_transporter),_putative_365209..365359_POSITIVE 359 94 53 90 47 NC_009009:SSA_0216|3end_Histidine_kinase,_putative_213270..213420_POSITIVE 344 98 51 130 81 NC_009009:SSA_0621|3end_SOS_responce_UmuC_protein,_putative_612322..612472_NEGATIVE 339 95 51 140 99 NC_009009:SSA_2098|3end_ABC-type_arginine/histidine_transporter,_permease_protein,_putative_2102931..2103081_NEGATIVE 336 95 52 149 112 NC_009009:SSA_0436|3end_Imidazolonepropionase,_putative_440214..440364_POSITIVE 332 79 32 76 31 NC_009009:SSA_1413|3end_GufA-like_protein,_putative_1424095..1424245_NEGATIVE 327 94 51 81 20 NC_009009:SSA_1153|3end_HemK_protein,_putative_1182748..1182898_POSITIVE 300 85 41 130 92 NC_009009:SSA_1372|3end_hypothetical_protein_1388946..1389096_NEGATIVE 298 104 63 65 18 NC_009009:SSA_0388|3end_Mismatch_repair_ATPase_(MutS_family),_putative_384248..384398_POSITIVE 294 89 46 93 47 NC_009009:SSA_0564|3end_Potential_aminotransferase,_putative_556988..557138_POSITIVE 293 100 52 71 18 NC_009009:SSA_1899|3end_hypothetical_protein_1894443..1894593_NEGATIVE 293 120 74 123 82 NC_009009:SSA_0278|3end_Transcriptional_repressor_of_sugar_metabolism,_GlpR/DeoR_family,_putative_272382..272532_POSITIVE 291 85 43 83 27 NC_009009:SSA_1968|3end_Ketol-acid_reductoisomerase,_putative_1963659..1963809_NEGATIVE 291 104 62 56 3 NC_009009:SSA_0451|3end_Conserved_uncharacterized_protein_451636..451786_POSITIVE 290 89 50 88 33 NC_009009:SSA_1867|3end_ABC-type_polar_amino_acid_transport_system,_ATPase_component,_putative_1862353..1862503_NEGATIVE 290 169 121 115 55 NC_009009:SSA_1267|3end_crcB-like_protein_2,_putative_1290973..1291123_NEGATIVE 289 94 52 39 5 NC_009009:SSA_1856|3end_hypothetical_protein_1852077..1852227_NEGATIVE 284 99 53 143 80 NC_009009:SSA_0962|3end_Lactoylglutathione_lyase,_putative_971431..971581_POSITIVE