Origin IGS: caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 aaaaacagtatttatgtgtgataaggtatggattttgcagaattattagacgggctgaacgataaacaacgggaggcggtgagtgcgcccttggggaattatttg Mask Tandem Repeat Region ================================================ caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt Find is-nt database================================================ Query_seq: AA02666:AA02667|AA02666:AA02667:DNA helicase II:hypothetical protein:->->:1856644..1856748 105 caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02666:AA02667|AA02666:AA02667:DNA helicase II:hypothetical protein:->->:1856644..1856748 105 caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02666:AA02667|AA02666:AA02667:DNA helicase II:hypothetical protein:->->:1856644..1856748 105 caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt Predict ORF larger than 30AA ================================================ caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt 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================================================ caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA02666:AA02667|AA02666:AA02667:DNA helicase II:hypothetical protein:->->:1856644..1856748 105 caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: aact_AA02666_AA02667|DNA helicase II:hypothetical protein|POSITIVE:POSITIVE|[1856644,1856748]|105 HSP 1 e-value: 3.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt caaataattccccaagggcgcactcaccgcctcccgttgtttatcgttcagcccgtctaataattctgcaaaatccataccttatcacacataaatactgttttt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAAAUAAUUCCCCAAGGGCGCACUCACCGCCUCCCGUUGUUUAUCGUUCAGCCCGUCUAAUAAUUCUGCAAAAUCCAUACCUUAUCACACAUAAAUACUGUUUUU ...............(((((.......)))))...((((((...((.......))...))))))......................................... ( -7.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAACAGUAUUUAUGUGUGAUAAGGUAUGGAUUUUGCAGAAUUAUUAGACGGGCUGAACGAUAAACAACGGGAGGCGGUGAGUGCGCCCUUGGGGAAUUAUUUG .....((((.....(((.((((((.(((.......)))....)))))).))).)))).........(..((((.((((.......))))))))..)......... (-22.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 420 57 11 188 140 aact:AA01335|5end_primosomal_protein_N'_901993..902223_POSITIVE 413 55 11 119 58 aact:AA01260|5end_hypothetical_protein_855550..855780_POSITIVE 373 69 25 138 94 aact:AA00735|5end_citrate_lyase,_beta_chain_502674..502904_POSITIVE 371 70 22 68 25 aact:AA00309|5end_3-hydroxyisobutyrate_dehydrogenase;_2-hydroxy-3-oxopropionate_reductase_209285..209515_POSITIVE 366 55 18 80 31 aact:AA00603|5end_undecaprenyl_pyrophosphate_synthetase_(UPPS)_410283..410513_POSITIVE 359 58 11 180 100 aact:AA02196|5end_oxaloacetate_decarboxylase_beta_chain_1496308..1496538_POSITIVE 356 53 11 89 50 aact:AA00636|5end_MrsA_protein_(phosphoglucomutase/phosphomannomutase)_436780..437010_POSITIVE 350 50 11 45 5 aact:AA02084|5end_conserved_hypothetical_protein_1417843..1418073_POSITIVE 348 57 12 70 3 aact:AA00990|5end_conserved_hypothetical_protein_692559..692789_POSITIVE 343 69 25 124 82 aact:AA00329|5end_molybdopterin-guanine_dinucleotide_biosynthesis_protein_222737..222967_POSITIVE 341 57 11 221 160 aact:AA01635|5end_ribonucleoside_diphosphate_reductase,_beta_chain_1104615..1104845_POSITIVE 340 59 15 53 3 aact:AA01743|5end_lysyl-tRNA_synthetase_1177808..1178038_POSITIVE 334 60 12 106 45 aact:AA02609|5end_ABC_transporter,_ATP-binding_protein/permease_1818446..1818676_POSITIVE 332 59 12 123 63 aact:AA00287|5end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200158..200388_POSITIVE 329 55 12 231 183 aact:AA02242|5end_molybdenum_cofactor_biosynthesis_protein_A_1523998..1524228_POSITIVE 327 58 16 79 35 aact:AA02544|5end_ATP-dependent_RNA_helicase_1773317..1773547_POSITIVE 327 57 17 76 14 aact:AA01936|5end_tyrosyl-tRNA_synthetase_1307043..1307273_POSITIVE 326 56 11 128 54 aact:AA01995|5end_conserved_hypothetical_protein_(possible_chorismate_mutase)_1355120..1355350_POSITIVE 325 55 17 159 115 aact:AA01152|5end_sec-independent_protein_translocase_protein_789364..789594_POSITIVE 324 51 16 227 189 aact:AA02575|5end_transmembrane_protein_1793749..1793979_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 413 55 11 90 29 aact:AA01565|3end_conserved_hypothetical_protein_1050967..1051117_POSITIVE 373 69 25 138 94 aact:AA00734|3end_citrate_lyase,_gamma_chain_(acyl_carrier_protein)_502754..502904_POSITIVE 357 53 12 146 100 aact:AA01603|3end_oligopeptidase_A_1085014..1085164_POSITIVE 356 53 11 57 18 aact:AA00635|3end_dihydropteroate_synthase_436828..436978_POSITIVE 355 57 11 140 77 aact:AA00977|3end_transcriptional_regulator_(LysR_family)_683334..683484_POSITIVE 348 57 12 75 8 aact:AA00989|3end_hypothetical_protein_692644..692794_POSITIVE 335 45 6 142 82 aact:AA02195|3end_oxaloacetate_decarboxylase_alpha_chain_1496374..1496524_POSITIVE 334 58 14 124 73 aact:AA02254|3end_2-oxoglutarate/malate_translocator_1536380..1536530_POSITIVE 332 59 12 145 85 aact:AA00286|3end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200260..200410_POSITIVE 327 58 16 116 72 aact:AA02543|3end_conserved_hypothetical_protein_1773434..1773584_POSITIVE 327 59 15 124 54 aact:AA00475|3end_conserved_hypothetical_protein_(possible_N6-adenine-specific_methylase)_332282..332432_POSITIVE 325 55 17 137 93 aact:AA01151|3end_porphobilinogen_synthase_(delta-aminolevulinic_acid_dehydratase)_789422..789572_POSITIVE 318 60 11 76 26 aact:AA02022|3end_hypothetical_protein_1376754..1376904_POSITIVE 317 38 7 118 90 aact:AA02602|3end_conserved_hypothetical_protein_1814302..1814452_POSITIVE 315 90 41 101 58 aact:AA01690|3end_penicillin-binding_protein_1C_1149142..1149292_POSITIVE 313 55 15 136 79 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE 312 60 11 57 3 aact:AA01976|3end_colicin_V_production_protein_1337132..1337282_POSITIVE 305 53 11 77 24 aact:AA00505|3end_hypothetical_protein_351733..351883_POSITIVE 301 58 12 80 21 aact:AA02205|3end_short_chain_dehydrogenase/reductase_1501984..1502134_POSITIVE 301 52 18 151 119 aact:AA00602|3end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_410251..410401_POSITIVE