Origin IGS: ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taggtcgccctagggcgaaatccctagctgcacagataattgcaacacataatccaagtaatatcactttacgcaataacaaaacaccttataatcaccccaatctaaaa Mask Tandem Repeat Region ================================================ ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta Find is-nt database================================================ Query_seq: AA00569:AA00570|AA00569:AA00570:ketol-acid reductoisomerase:hypothetical protein:->->:391643..391752 110 ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00569:AA00570|AA00569:AA00570:ketol-acid reductoisomerase:hypothetical protein:->->:391643..391752 110 ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00569:AA00570|AA00569:AA00570:ketol-acid reductoisomerase:hypothetical protein:->->:391643..391752 110 ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta Predict ORF larger than 30AA ================================================ ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta 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================================================ ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: AA00569:AA00570|AA00569:AA00570:ketol-acid reductoisomerase:hypothetical protein:->->:391643..391752 110 ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta Intra-Species Hit: Count: 1 Min: 1 Max: 110 Len: 110 Subject: aact_AA00569_AA00570|ketol-acid reductoisomerase:hypothetical protein|POSITIVE:POSITIVE|[391643,391752]|110 HSP 1 e-value: 3.0E-56 bit: 218.0 Len: 110 Query Start:1 Query End:110 Subject Strand: POSITIVE Subject Start: 1 Subject End: 110 ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta ttttagattggggtgattataaggtgttttgttattgcgtaaagtgatattacttggattatgtgttgcaattatctgtgcagctagggatttcgccctagggcgaccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUUAGAUUGGGGUGAUUAUAAGGUGUUUUGUUAUUGCGUAAAGUGAUAUUACUUGGAUUAUGUGUUGCAAUUAUCUGUGCAGCUAGGGAUUUCGCCCUAGGGCGACCUA ............((((((...(((((...(((((((......))))))).))))).))))))..((((((........))))))..(((...(((((....)))))))). (-28.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUCGCCCUAGGGCGAAAUCCCUAGCUGCACAGAUAAUUGCAACACAUAAUCCAAGUAAUAUCACUUUACGCAAUAACAAAACACCUUAUAAUCACCCCAAUCUAAAA .((((.((.((((((......))))))..))...((((.((((..............))))))))....................))))..................... (-16.04) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 96 53 136 96 aact:AA02478|5end_PTS_system,_N-acetylglucosamine-specific_enzyme_IIABC_1713319..1713549_POSITIVE 348 108 62 175 120 aact:AA03009|5end_hypothetical_protein_2101001..2101231_POSITIVE 327 107 70 231 199 aact:AA00326|5end_periplasmic_oxidoreductase_(por)_(Thiol:disulfide_interchange_protein_dsbA_precursor.)_221703..221933_POSITIVE 322 106 61 51 1 aact:AA01145|5end_glycyl-tRNA_synthetase_alpha_subunit_783478..783708_POSITIVE 318 110 65 59 11 aact:AA01834|5end_hypothetical_protein_1234640..1234870_POSITIVE 309 106 63 164 118 aact:AA01792|5end_conserved_hypothetical_protein_1208058..1208288_POSITIVE 308 105 68 221 174 aact:AA01203|5end_diaminopimelate_epimerase_824140..824370_POSITIVE 304 99 56 166 125 aact:AA02976|5end_UDP-2,3-diacylglucosamine_hydrolase_2080229..2080459_POSITIVE 303 105 61 73 36 aact:AA02470|5end_glucose_kinase_1706730..1706960_POSITIVE 303 65 23 67 26 aact:AA01211|5end_ATP-dependent_Clp_protease,_ATPase_subunit_827035..827265_POSITIVE 293 96 57 165 115 aact:AA02172|5end_conserved_hypothetical_protein_1486019..1486249_POSITIVE 293 108 61 215 165 aact:AA01539|5end_UDP-N-acetylglucosamine_pyrophosphorylase_(bifunctional_enzyme)_1032740..1032970_POSITIVE 292 107 61 180 135 aact:AA02524|5end_orotidine_5'-phosphate_decarboxylase_1753313..1753543_POSITIVE 287 108 67 55 10 aact:AA00448|5end_C-terminal_region_of_competence_protein_M_312268..312498_POSITIVE 284 106 65 69 23 aact:AA02904|5end_50S_ribosomal_protein_L31_2032290..2032520_POSITIVE 280 107 64 216 168 aact:AA01028|5end_Na(+)-translocating_NADH-quinone_reductase_subunit_E_718923..719153_POSITIVE 278 103 65 60 26 aact:AA02437|5end_integral_membrane_protein_1681157..1681387_POSITIVE 277 107 64 214 170 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 273 108 63 213 167 aact:AA02715|5end_paraquat-inducible_protein_pqiB_homolog_1897053..1897283_POSITIVE 272 109 63 80 21 aact:AA02710|5end_conserved_hypothetical_protein_1890642..1890872_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 96 53 108 68 aact:AA02477|3end_PTS_system,_N-acetylglucosamine-permease_IIABC_component_1713371..1713521_POSITIVE 313 98 54 146 101 aact:AA02682|3end_hydrogenase_maturation_protein_1868666..1868816_POSITIVE 303 105 61 60 23 aact:AA02468|3end_conserved_hypothetical_protein_1706797..1706947_POSITIVE 303 65 23 51 10 aact:AA01210|3end_hypothetical_protein_827099..827249_POSITIVE 296 108 83 39 3 aact:AA01965|3end_poly(A)_polymerase_1331021..1331171_POSITIVE 293 108 61 129 79 aact:AA01538|3end_conserved_hypothetical_protein_1032734..1032884_POSITIVE 287 90 57 147 112 aact:AA02171|3end_polysialic_acid_capsule_expression_protein_1486096..1486246_POSITIVE 284 106 65 56 10 aact:AA02903|3end_conserved_hypothetical_protein_(ribosomal_protein_L36)_2032357..2032507_POSITIVE 284 106 61 91 52 aact:AA02421|3end_conserved_hypothetical_protein_1667300..1667450_POSITIVE 277 106 76 67 29 aact:AA01432|3end_lysophospholipase_L2_961766..961916_POSITIVE 270 108 65 147 99 aact:AA01495|3end_probable_oxidoreductase_1004927..1005077_POSITIVE 267 105 63 48 11 aact:AA00954|3end_uroporphyrinogen_III_synthase_661070..661220_POSITIVE 263 109 61 48 10 aact:AA01314|3end_hypothetical_protein_890196..890346_POSITIVE 257 106 61 121 81 aact:AA02297|3end_conserved_hypothetical_protein_1569900..1570050_POSITIVE 257 106 61 121 81 aact:AA00621|3end_conserved_hypothetical_protein_429007..429157_POSITIVE 257 106 61 121 81 aact:AA00412|3end_conserved_hypothetical_protein_279454..279604_POSITIVE 256 108 63 78 28 aact:AA02697|3end_hydrogenase_3_maturation_protease_1880408..1880558_POSITIVE 256 105 66 64 23 aact:AA00239|3end_hypothetical_protein_171418..171568_POSITIVE 255 106 64 139 108 aact:AA00244|3end_conserved_hypothetical_protein_(possible_deoxyribonuclease,_possible_hydrolase)_172812..172962_POSITIVE 254 110 66 113 65 aact:AA01284|3end_heat_shock_protein_(hsp60)_870294..870444_POSITIVE