Origin IGS: ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaacctgattttataccgaatcaaaggcgggtttttatccgcctctttcgcgggcgaaagaaagtcaaaaacacttgaaaaaacgaccgcacttaagttaattcagacagagagttgaaacttat Mask Tandem Repeat Region ================================================ ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta Find is-nt database================================================ Query_seq: AA00112:AA00113|AA00112:AA00113:uracil permease:uracil phosphoribosyltransferase:->->:81300..81425 126 ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00112:AA00113|AA00112:AA00113:uracil permease:uracil phosphoribosyltransferase:->->:81300..81425 126 ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00112:AA00113|AA00112:AA00113:uracil permease:uracil phosphoribosyltransferase:->->:81300..81425 126 ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 24 End: 125 ....................... M N L S A V V F S S V F D F L S P A K E A D K N P P L I R Y K I R F . Protein_Len: 37 Strand: - Start: 11 End: 121 .......... S E T Q I L K L A T T K E L T K S K R E G A F S A S L F G G K I R Y L I M ..... ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta 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================================================ ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00112:AA00113|AA00112:AA00113:uracil permease:uracil phosphoribosyltransferase:->->:81300..81425 126 ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta Intra-Species Hit: Count: 1 Min: 1 Max: 126 Len: 126 Subject: aact_AA00112_AA00113|uracil permease:uracil phosphoribosyltransferase|POSITIVE:POSITIVE|[81300, 81425]|126 HSP 1 e-value: 9.0E-66 bit: 250.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta ataagtttcaactctctgtctgaattaacttaagtgcggtcgttttttcaagtgtttttgactttctttcgcccgcgaaagaggcggataaaaacccgcctttgattcggtataaaatcaggttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAAGUUUCAACUCUCUGUCUGAAUUAACUUAAGUGCGGUCGUUUUUUCAAGUGUUUUUGACUUUCUUUCGCCCGCGAAAGAGGCGGAUAAAAACCCGCCUUUGAUUCGGUAUAAAAUCAGGUUUA ..............((((.((((((((.......(((((.((.....(((((....)))))........)).)))))...(((((((........)))))))))))))))........)))).... (-29.52) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACCUGAUUUUAUACCGAAUCAAAGGCGGGUUUUUAUCCGCCUCUUUCGCGGGCGAAAGAAAGUCAAAAACACUUGAAAAAACGACCGCACUUAAGUUAAUUCAGACAGAGAGUUGAAACUUAU ......((((((......)))))).((((((((....)))))))).....((((.(....)....((((......))))........))))...(((((((((((.......))))))..))))). (-30.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 447 76 32 189 149 aact:AA01686|5end_hypothetical_protein_1137913..1138143_POSITIVE 435 78 32 71 17 aact:AA01174|5end_hypothetical_protein_804700..804930_POSITIVE 434 76 32 172 128 aact:AA01721|5end_hypothetical_protein_1163312..1163542_POSITIVE 434 76 32 138 94 aact:AA01720|5end_conserved_hypothetical_protein_1163278..1163508_POSITIVE 430 76 32 212 159 aact:AA02261|5end_30S_ribosomal_protein_S9_1538013..1538243_POSITIVE 416 73 32 227 183 aact:AA01284|5end_heat_shock_protein_(hsp60)_868574..868804_POSITIVE 406 77 32 196 145 aact:AA02509|5end_chorismate_synthase_1740952..1741182_POSITIVE 403 59 12 150 99 aact:AA00356|5end_DNA-directed_RNA_polymerase,_beta'_chain_238937..239167_POSITIVE 400 78 32 149 100 aact:AA00835|5end_UDP-N-acetylglucosamine-N-acetylmuramyl-(pentapep_tide)_575212..575442_POSITIVE 395 80 32 141 101 aact:AA01845|5end_gamma-glutamyltranspeptidase_precursor_1239841..1240071_POSITIVE 394 77 32 194 143 aact:AA00511|5end_nicotinamide_mononucleotide_transporter_353884..354114_POSITIVE 392 80 32 144 95 aact:AA01463|5end_probable_transport_protein_982732..982962_POSITIVE 390 74 32 140 94 aact:AA01286|5end_5,10-methylenetetrahydrofolate_dehydrogenase_(bifunctional_protein)_870309..870539_POSITIVE 383 76 32 229 185 aact:AA02774|5end_collagenase_prtC_homolog,_possible_protease_1936870..1937100_POSITIVE 383 76 32 58 14 aact:AA02773|5end_hypothetical_protein_1936699..1936929_POSITIVE 380 78 32 197 150 aact:AA01385|5end_50S_ribosomal_protein_L9_935509..935739_POSITIVE 378 77 31 200 151 aact:AA00311|5end_L-fuculose-phosphate_aldolase_211434..211664_POSITIVE 377 110 64 87 34 aact:AA00618|5end_molybdopterin_biosynthesis_protein_422984..423214_POSITIVE 374 59 11 206 158 aact:AA01883|5end_recycling_protein;_permease_1269821..1270051_POSITIVE 372 80 32 190 134 aact:AA01220|5end_competence_protein_F;_amidophosphoribosyltransferase_832775..833005_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 447 76 32 112 72 aact:AA01685|3end_molybdenum_ABC_transporter,_ATP-binding_protein_1137916..1138066_POSITIVE 434 76 32 96 52 aact:AA01718|3end_DNA_polymerase_III,_chi_subunit_1163316..1163466_POSITIVE 430 76 32 81 28 aact:AA02260|3end_pseudouridylate_synthase_I_1537962..1538112_POSITIVE 427 77 32 113 62 aact:AA00523|3end_conserved_hypothetical_protein_358929..359079_POSITIVE 416 73 32 103 59 aact:AA01280|3end_groES_chaperonin_868530..868680_POSITIVE 400 78 32 75 26 aact:AA00833|3end_UDP-N-acetylmuramate-alanine_ligase_575218..575368_POSITIVE 395 80 32 50 10 aact:AA01843|3end_sensor_protein;_probable_two-component_system_sensor_histidine_kinase_1239830..1239980_POSITIVE 394 77 32 113 62 aact:AA00508|3end_SAM-dependent_methyltransferase_353883..354033_POSITIVE 392 80 32 111 62 aact:AA01462|3end_xylose_operon_regulatory_protein_982779..982929_POSITIVE 383 76 32 55 11 aact:AA02772|3end_hypothetical_protein_1936776..1936926_POSITIVE 380 78 32 148 101 aact:AA01384|3end_hypothetical_protein_935540..935690_POSITIVE 375 76 31 56 15 aact:AA00355|3end_DNA-directed_RNA_polymerase_beta_chain_(transcriptase_beta_chain)_238911..239061_POSITIVE 374 59 11 70 22 aact:AA01881|3end_adenylate_kinase_1269765..1269915_POSITIVE 365 109 67 86 41 aact:AA00474|3end_cell_division_protein_Y_(GTP-binding_signal_recognition_particle)_331724..331874_POSITIVE 364 77 32 122 54 aact:AA00974|3end_glucosamine-fructose-6-phosphate_681127..681277_POSITIVE 363 59 16 99 58 aact:AA01172|3end_conserved_hypothetical_protein_803847..803997_POSITIVE 362 74 34 45 1 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 353 78 32 110 60 aact:AA02160|3end_conserved_hypothetical_protein_1478929..1479079_POSITIVE 353 73 32 43 1 aact:AA00450|3end_outer_membrane_antigenic_lipoprotein_b_precursor_315156..315306_POSITIVE 346 72 32 108 62 aact:AA02172|3end_conserved_hypothetical_protein_1486650..1486800_POSITIVE