Origin IGS: taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagagaaggggagagaaaggggctatatttagctatttttgcacagcacacacggcattataggttaaaaaagtgcggtcaaaatccaccgcactttattcacattgatatta Mask Tandem Repeat Region ================================================ taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta Find is-nt database================================================ Query_seq: AA00335:AA00337|AA00335:AA00337:PTS fructose-specific IIBC component:conserved hypothetical protein:->->:228291..228403 113 taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA00335:AA00337|AA00335:AA00337:PTS fructose-specific IIBC component:conserved hypothetical protein:->->:228291..228403 113 taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA00335:AA00337|AA00335:AA00337:PTS fructose-specific IIBC component:conserved hypothetical protein:->->:228291..228403 113 taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta Predict ORF larger than 30AA ================================================ taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta 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================================================ taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 75 HP_score: -7.3 Tail_Score: -4.21319 Start: 20 End: 41 Full_Region: ttataggttaaaaaa gtgcggt caaaatcc accgcac tttattcacattgat ...................gtgcggtcaaaatccaccgcac........................................................................ Find igs database================================================ Query_seq: AA00335:AA00337|AA00335:AA00337:PTS fructose-specific IIBC component:conserved hypothetical protein:->->:228291..228403 113 taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: aact_AA00335_AA00337|PTS fructose-specific IIBC component:conserved hypothetical protein|POSITIVE:POSITIVE|[228291,228403]|113 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta taatatcaatgtgaataaagtgcggtggattttgaccgcacttttttaacctataatgccgtgtgtgctgtgcaaaaatagctaaatatagcccctttctctccccttctcta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAUCAAUGUGAAUAAAGUGCGGUGGAUUUUGACCGCACUUUUUUAACCUAUAAUGCCGUGUGUGCUGUGCAAAAAUAGCUAAAUAUAGCCCCUUUCUCUCCCCUUCUCUA ..........((....((((((((((........))))))))))....)).......((..(((..(((((......)))))...)))..))..................... (-25.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGAGAAGGGGAGAGAAAGGGGCUAUAUUUAGCUAUUUUUGCACAGCACACACGGCAUUAUAGGUUAAAAAAGUGCGGUCAAAAUCCACCGCACUUUAUUCACAUUGAUAUUA ....(....(.(((((....(((((....))))).))))).)....).........((((...((.((.((((((((((........)))))))))).)).))..)))).... (-23.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 503 45 11 123 89 aact:AA01673|5end_riboflavin_synthase,_alpha_chain_1131477..1131707_POSITIVE 470 60 17 178 128 aact:AA01496|5end_glucose_inhibited_division_protein_A_1005125..1005355_POSITIVE 467 45 6 142 107 aact:AA01371|5end_rod_shape-determining_protein_926579..926809_POSITIVE 436 55 17 139 101 aact:AA02134|5end_aminopeptidase_N_1456181..1456411_POSITIVE 432 48 5 140 94 aact:AA02792|5end_GlpT/UhpT_family_transporter_(hexosphosphate_transport)_1959617..1959847_POSITIVE 399 47 17 142 112 aact:AA02614|5end_conserved_hypothetical_protein_1822320..1822550_POSITIVE 392 45 17 111 83 aact:AA02832|5end_outer_membrane_integrity_protein_1990044..1990274_POSITIVE 392 45 17 135 107 aact:AA01146|5end_conserved_hypothetical_protein_784433..784663_POSITIVE 391 45 10 169 134 aact:AA02706|5end_2-oxoglutarate_dehydrogenase_E1_component_(decarboxylase_component)_1886843..1887073_POSITIVE 391 45 10 43 8 aact:AA02705|5end_hypothetical_protein_1886717..1886947_POSITIVE 391 53 17 198 162 aact:AA01211|5end_ATP-dependent_Clp_protease,_ATPase_subunit_827035..827265_POSITIVE 391 53 17 66 30 aact:AA01210|5end_hypothetical_protein_826903..827133_POSITIVE 391 75 31 168 122 aact:AA00993|5end_possible_D-tyrosyl-tRNA(Tyr)_deacylase_694488..694718_POSITIVE 390 60 12 191 131 aact:AA01584|5end_host_factor-I_protein_1065589..1065819_POSITIVE 387 60 13 172 126 aact:AA01559|5end_RecA_regulatory_protein,_RecX_1045970..1046200_POSITIVE 386 48 5 144 106 aact:AA01480|5end_ATP_synthase_F1,_epsilon_995815..996045_POSITIVE 381 47 17 157 127 aact:AA02952|5end_lipoprotein_signal_peptidase_2065116..2065346_POSITIVE 380 60 16 168 100 aact:AA00266|5end_conserved_hypothetical_protein_(probable_metabolite_transport_protein)_186634..186864_POSITIVE 378 50 9 65 24 aact:AA01890|5end_cell-cycle_protein_1274544..1274774_POSITIVE 374 46 17 55 26 aact:AA01204|5end_hypothetical_protein_825015..825245_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 503 45 11 84 50 aact:AA01672|3end_conserved_hypothetical_protein_1131518..1131668_POSITIVE 467 45 6 69 34 aact:AA01370|3end_rod_shape-determining_protein_926586..926736_POSITIVE 436 55 17 63 25 aact:AA02132|3end_dihydroorotate_dehydrogenase_1456185..1456335_POSITIVE 399 47 17 73 43 aact:AA02613|3end_conserved_hypothetical_protein_1822331..1822481_POSITIVE 392 45 17 73 45 aact:AA02830|3end_colicin_tolerance_protein_1990086..1990236_POSITIVE 392 45 17 82 54 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 391 45 10 41 6 aact:AA02704|3end_dihydrolipoamide_succinyltransferase_1886795..1886945_POSITIVE 391 53 17 90 54 aact:AA01209|3end_conserved_hypothetical_protein_827007..827157_POSITIVE 387 60 13 87 41 aact:AA01557|3end_recombinase_A_1045965..1046115_POSITIVE 386 48 5 77 39 aact:AA01479|3end_spermidine/putrescine-binding_periplasmic_protein_995828..995978_POSITIVE 381 47 17 74 44 aact:AA02950|3end_isoleucyl-tRNA_synthetase_2065113..2065263_POSITIVE 372 59 11 87 43 aact:AA01187|3end_conserved_hypothetical_protein_813992..814142_POSITIVE 367 49 5 91 26 aact:AA01966|3end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1331514..1331664_POSITIVE 364 44 5 140 81 aact:AA01978|3end_hypothetical_protein_1337257..1337407_POSITIVE 363 48 17 74 43 aact:AA01337|3end_cell_division_protein_N_905031..905181_POSITIVE 360 46 8 84 49 aact:AA00689|3end_GTP-binding_protein_472042..472192_POSITIVE 358 63 24 98 66 aact:AA02280|3end_conserved_hypothetical_protein_1552767..1552917_POSITIVE 356 78 32 111 73 aact:AA01645|3end_ferric_transport_ABC-related_ATP-binding_protein_1115184..1115334_POSITIVE 353 70 23 111 55 aact:AA02154|3end_possible_ATP-binding_protein_of_ABC_transporter_1474621..1474771_POSITIVE 351 47 6 85 37 aact:AA01932|3end_tRNA_pseudouridine_synthase_B_1306092..1306242_POSITIVE