Origin IGS: taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagaattaaaaggtaattgggtagccgcgtattgttacacacttttcccatttataaaaaacctttttagctataatgctttatttttccgacaagacgaaaaaaccgcactcacattcagaaatcataaaagtgcggttagtttttggacaacttatttactacttgcttta Mask Tandem Repeat Region ================================================ taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta Find is-nt database================================================ Query_seq: AA01009:AA01010|AA01009:AA01010:universal stress protein A:hypothetical protein:->->:705006..705178 173 taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01009:AA01010|AA01009:AA01010:universal stress protein A:hypothetical protein:->->:705006..705178 173 taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01009:AA01010|AA01009:AA01010:universal stress protein A:hypothetical protein:->->:705006..705178 173 taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: - Start: 3 End: 101 .. L L Y Y I L Q G F V L R V K I I E S H S H P K K T K D S F Y L M M ........................................................................ Protein_Len: 40 Strand: - Start: 1 End: 120 L A L L L Y T T W F S V A S K H N R F T L A T K E D Q R F F L A N Y S F L N K M ..................................................... taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta 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================================================ taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01009:AA01010|AA01009:AA01010:universal stress protein A:hypothetical protein:->->:705006..705178 173 taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta Intra-Species Hit: Count: 1 Min: 1 Max: 173 Len: 173 Subject: aact_AA01009_AA01010|universal stress protein A:hypothetical protein|POSITIVE:POSITIVE|[705006,705178]|173 HSP 1 e-value: 1.0E-93 bit: 343.0 Len: 173 Query Start:1 Query End:173 Subject Strand: POSITIVE Subject Start: 1 Subject End: 173 taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta taaagcaagtagtaaataagttgtccaaaaactaaccgcacttttatgatttctgaatgtgagtgcggttttttcgtcttgtcggaaaaataaagcattatagctaaaaaggttttttataaatgggaaaagtgtgtaacaatacgcggctacccaattaccttttaattcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGCAAGUAGUAAAUAAGUUGUCCAAAAACUAACCGCACUUUUAUGAUUUCUGAAUGUGAGUGCGGUUUUUUCGUCUUGUCGGAAAAAUAAAGCAUUAUAGCUAAAAAGGUUUUUUAUAAAUGGGAAAAGUGUGUAACAAUACGCGGCUACCCAAUUACCUUUUAAUUCUA ....(((((.........((((.......))))((((((((((.(((.........))).)))))))))).......))))).((((......(((......))).(((((((..(.......((((....((((((....)))))).....)))))..)))))))..)))). (-37.31) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAAUUAAAAGGUAAUUGGGUAGCCGCGUAUUGUUACACACUUUUCCCAUUUAUAAAAAACCUUUUUAGCUAUAAUGCUUUAUUUUUCCGACAAGACGAAAAAACCGCACUCACAUUCAGAAAUCAUAAAAGUGCGGUUAGUUUUUGGACAACUUAUUUACUACUUGCUUUA (((....(((((((((.((((.((..(.(((....))).).))...)))).)).......)))))))...)))..............(((((..((((.....(((((((((...................))))))))).)))))))))....................... (-29.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 399 70 21 146 98 aact:AA00987|5end_tetracenomycin_polyketide_synthesis_O-methyltransferase_689745..689975_POSITIVE 395 69 24 221 176 aact:AA00976|5end_conserved_hypothetical_protein_681206..681436_POSITIVE 381 70 33 143 110 aact:AA02536|5end_conserved_hypothetical_protein_1764854..1765084_POSITIVE 371 70 24 184 130 aact:AA01111|5end_conserved_hypothetical_protein_764765..764995_POSITIVE 365 70 25 147 102 aact:AA02252|5end_conserved_hypothetical_protein_1533840..1534070_POSITIVE 350 77 35 113 69 aact:AA01986|5end_pyruvate_dehydrogenase_complex_E2_1348753..1348983_POSITIVE 342 80 35 157 120 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 340 77 35 156 112 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 340 77 33 91 52 aact:AA00349|5end_hypothetical_protein_233274..233504_POSITIVE 339 69 27 141 105 aact:AA00686|5end_hypothetical_protein_468852..469082_POSITIVE 338 85 57 183 147 aact:AA01577|5end_conserved_hypothetical_transmembrane_protein_1063084..1063314_POSITIVE 337 75 35 157 124 aact:AA02963|5end_opacity_associated_protein_B_2072302..2072532_POSITIVE 332 77 31 159 113 aact:AA02381|5end_4-hydroxy-2-oxoglutarate_aldolase_1629192..1629422_POSITIVE 320 69 27 151 109 aact:AA01436|5end_fructose-bisphosphate_aldolase_class_II_962981..963211_POSITIVE 316 76 31 206 165 aact:AA02144|5end_iron_(III)_ABC_transporter,_permease_protein_1467583..1467813_POSITIVE 316 76 31 56 15 aact:AA02143|5end_hypothetical_protein_1467433..1467663_POSITIVE 316 78 36 77 28 aact:AA01565|5end_conserved_hypothetical_protein_1050711..1050941_POSITIVE 314 78 32 207 159 aact:AA01524|5end_amino_acid_ABC_transporter,_ATP-binding_protein_1023500..1023730_POSITIVE 313 80 35 204 162 aact:AA00185|5end_3-dehydroquinate_dehydratase_II_130792..131022_POSITIVE 313 80 35 94 52 aact:AA00184|5end_hypothetical_protein_130682..130912_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 399 70 21 62 14 aact:AA00985|3end_transcriptional_regulator_(LysR_family)_689741..689891_POSITIVE 395 69 24 62 17 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 381 70 33 70 37 aact:AA02534|3end_zinc_protease_1764861..1765011_POSITIVE 371 70 24 64 10 aact:AA01109|3end_oxidoreductase_(possible_short-chain_alcohol_dehydrogenase)_764725..764875_POSITIVE 365 70 25 70 25 aact:AA02251|3end_biotin_sulfoxide_reductase;_Trimethylamine-N-oxide_reductase_precursor_1533843..1533993_POSITIVE 350 77 35 81 37 aact:AA01985|3end_pyruvate_dehydrogenase,_E1_component_1348801..1348951_POSITIVE 342 80 35 76 39 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 340 77 33 73 34 aact:AA00348|3end_50S_ribosomal_protein_L1_233336..233486_POSITIVE 339 69 27 70 34 aact:AA00684|3end_adenylosuccinate_synthase_468861..469011_POSITIVE 337 75 35 60 27 aact:AA02962|3end_recombination_associated_protein_2072285..2072435_POSITIVE 334 69 22 66 9 aact:AA00592|3end_conserved_hypothetical_protein_(membrane/transport_protein)_407286..407436_POSITIVE 332 77 31 67 21 aact:AA02380|3end_iron_chelatin_ABC_transporter,periplasmic-binding_protein_1629180..1629330_POSITIVE 320 69 27 111 69 aact:AA01434|3end_conserved_hypothetical_protein_(possible_o-antigen_ligase)_963021..963171_POSITIVE 316 76 31 75 34 aact:AA02142|3end_outer_membrane_protein_OprM_precursor_1467532..1467682_POSITIVE 313 80 35 77 35 aact:AA00183|3end_acetyl-CoA_carboxylase,_biotin_carboxyl_carrier_protein_130745..130895_POSITIVE 306 69 25 47 10 aact:AA02834|3end_colicin_transport_protein_1991768..1991918_POSITIVE 303 70 27 105 52 aact:AA01179|3end_beta-ketoacyl-ACP_reductase;_short-chain_alcohol_dehydrogenase_808801..808951_POSITIVE 302 70 27 61 18 aact:AA01436|3end_fructose-bisphosphate_aldolase_class_II_964137..964287_POSITIVE 302 68 26 53 8 aact:AA00417|3end_outer_membrane_lipoprotein_precursor_(probable_D-methionine-binding_lipoprotein)_284308..284458_POSITIVE 299 78 35 145 97 aact:AA00732|3end_citrate_lyase_ligase_502427..502577_POSITIVE