Origin IGS: cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattgcggcctcggctggaaaccatgctcaggtcgtcgcgttatcggcgaagcaattgggcttactttaatcgtcatgctgcaaaatacaccgaccattaaagtggatgcg Mask Tandem Repeat Region ================================================ cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta Find is-nt database================================================ Query_seq: AA01426:AA01428|AA01426:AA01428:threonine deaminase (dehydratase):acetolactate synthase:->->:958716..958827 112 cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA01426:AA01428|AA01426:AA01428:threonine deaminase (dehydratase):acetolactate synthase:->->:958716..958827 112 cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA01426:AA01428|AA01426:AA01428:threonine deaminase (dehydratase):acetolactate synthase:->->:958716..958827 112 cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 14 End: 112 ............. M V G V F C S M T I K V S P I A S P I T R R P E H G F Q P R P Q L Protein_Len: 32 Strand: - Start: 14 End: 109 ............. H D T Y K A A H R N F Y A W N S R R Y R S S R L M T E L R P R M ... cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta 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================================================ cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA01426:AA01428|AA01426:AA01428:threonine deaminase (dehydratase):acetolactate synthase:->->:958716..958827 112 cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta Intra-Species Hit: Count: 1 Min: 1 Max: 112 Len: 112 Subject: aact_AA01426_AA01428|threonine deaminase (dehydratase):acetolactate synthase|POSITIVE:POSITIVE|[958716,958827]|112 HSP 1 e-value: 2.0E-57 bit: 222.0 Len: 112 Query Start:1 Query End:112 Subject Strand: POSITIVE Subject Start: 1 Subject End: 112 cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta cgcatccactttaatggtcggtgtattttgcagcatgacgattaaagtaagcccaattgcttcgccgataacgcgacgacctgagcatggtttccagccgaggccgcaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCAUCCACUUUAAUGGUCGGUGUAUUUUGCAGCAUGACGAUUAAAGUAAGCCCAAUUGCUUCGCCGAUAACGCGACGACCUGAGCAUGGUUUCCAGCCGAGGCCGCAAUUA .((....((((((((.((((.(((........))))))).))))))))..))..((((((.((((.......))))...(((..((.(((...)))))..)))..)))))). (-29.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUGCGGCCUCGGCUGGAAACCAUGCUCAGGUCGUCGCGUUAUCGGCGAAGCAAUUGGGCUUACUUUAAUCGUCAUGCUGCAAAAUACACCGACCAUUAAAGUGGAUGCG ((((((((((((.((((((...))).))).))))).((((.......)))).))))))).((.(((((((((.(((.................))).)))))))))...)). (-32.93) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 445 107 63 217 167 aact:AA02939|5end_phosphoserine_phosphatase_2056881..2057111_POSITIVE 439 107 63 69 28 aact:AA01772|5end_shikimate_5-dehydrogenase_protein_1194050..1194280_POSITIVE 434 107 62 132 91 aact:AA02371|5end_oxygen-independent_coproporphyrinogen_III_oxidase_1624580..1624810_POSITIVE 412 107 62 211 149 aact:AA02141|5end_ABC_transporter,_permease_protein_1464890..1465120_POSITIVE 409 100 51 195 137 aact:AA02375|5end_D-3-phosphoglycerate_dehydrogenase_1626514..1626744_POSITIVE 408 100 51 209 140 aact:AA00796|5end_iron(III)_dicitrate_transport_system_permease_protein_545686..545916_POSITIVE 400 109 61 58 9 aact:AA01421|5end_phosphoglycolate_phosphatase_955055..955285_POSITIVE 396 108 63 99 43 aact:AA00286|5end_glutamate_5-kinase_(gamma-glutamyl_kinase)_199965..200195_POSITIVE 387 98 53 193 138 aact:AA00324|5end_tRNA_(Uracil-5-)-methyltransferase_(tRNA(M-5-U54)-methyltransferase)_220147..220377_POSITIVE 383 107 61 179 119 aact:AA00449|5end_conserved_hypothetical_protein_312996..313226_POSITIVE 382 107 63 66 1 aact:AA02954|5end_penicillin_tolerance_protein;_hydroxymethylbutenyl_pyrophosphate_reductase_2065610..2065840_POSITIVE 381 100 51 175 110 aact:AA01996|5end_prephenate_dehydrogenase_1355314..1355544_POSITIVE 377 103 63 212 153 aact:AA02686|5end_hydrogenase_4_component_C_1871546..1871776_POSITIVE 375 108 62 225 178 aact:AA01054|5end_conserved_hypothetical_protein_733678..733908_POSITIVE 372 100 53 229 170 aact:AA01634|5end_hypothetical_protein_1104324..1104554_POSITIVE 369 105 64 110 61 aact:AA00682|5end_S-adenosylmethionine-dependent_methyltransferase_466322..466552_POSITIVE 367 107 61 227 178 aact:AA00211|5end_hypothetical_protein_145955..146185_POSITIVE 364 107 61 54 5 aact:AA01106|5end_conserved_hypothetical_protein_761675..761905_POSITIVE 363 107 61 107 64 aact:AA00989|5end_hypothetical_protein_692319..692549_POSITIVE 359 106 61 70 14 aact:AA00675|5end_glutaredoxin_2_462524..462754_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 434 107 62 120 79 aact:AA02369|3end_conserved_hypothetical_protein_1624648..1624798_POSITIVE 400 109 61 52 3 aact:AA01419|3end_D-ribulose-phosphate-3_epimerase_955129..955279_POSITIVE 396 108 63 69 13 aact:AA00283|3end_glutamate_5-kinase_(gamma-glutamyl_kinase)_200015..200165_POSITIVE 373 106 61 146 98 aact:AA01750|3end_MTA/SAH_nucleosidase_[Includes:_5'-methylthioadenosine_nucleosidase;_S-adenosylhomocysteine_nucleosidase]_1184519..1184669_POSITIVE 354 99 54 107 52 aact:AA02990|3end_beta_hexosaminadase_2090596..2090746_POSITIVE 347 87 41 58 7 aact:AA01476|3end_hypothetical_protein_992261..992411_POSITIVE 344 107 63 140 82 aact:AA00581|3end_thiosulfate_sulfurtransferase_(rhodanese)_397966..398116_POSITIVE 342 100 51 143 95 aact:AA01889|3end_conserved_hypothetical_protein_(possible_permease)_1274590..1274740_POSITIVE 341 107 65 63 10 aact:AA02952|3end_lipoprotein_signal_peptidase_2065687..2065837_POSITIVE 338 106 63 140 106 aact:AA00007|3end_superoxide_dismutase_[Cu-Zn]_precursor_5055..5205_POSITIVE 335 107 62 101 46 aact:AA00603|3end_undecaprenyl_pyrophosphate_synthetase_(UPPS)_410992..411142_POSITIVE 334 106 61 151 101 aact:AA00448|3end_C-terminal_region_of_competence_protein_M_313058..313208_POSITIVE 333 108 63 85 22 aact:AA00505|3end_hypothetical_protein_351733..351883_POSITIVE 333 107 63 57 6 aact:AA00383|3end_chloride_channel_protein_260182..260332_POSITIVE 332 109 64 76 24 aact:AA01747|3end_single-stranded-DNA-specific_exonuclease_1183130..1183280_POSITIVE 330 100 53 140 99 aact:AA01633|3end_probable_ferredoxin-like_protein_1104333..1104483_POSITIVE 330 106 71 45 16 aact:AA00551|3end_hypothetical_protein_377403..377553_POSITIVE 322 107 63 57 6 aact:AA00241|3end_formate_acetyltransferase_activating_enzyme_(anaerobic_ribonucleoside-triphosphate_reductase_activating_protein)_172090..172240_POSITIVE 322 98 57 148 112 aact:AA00106|3end_1-hydroxy-2-methyl-2-(E)-butenyl_4-diphosphate_synthase_76724..76874_POSITIVE 321 100 53 140 92 aact:AA00950|3end_conserved_hypothetical_protein_657574..657724_POSITIVE