Origin IGS: tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcatgacggacaaaaaagtgcggtagattttcaccgcacttttttatgggattgactaaaatcagacacagatcacaaaagtgaaataaaaaaattaatttaaaataaaatgatttgaaaattttattttattttcctactctatagctactttgggtgataagcgtcatcgttttatgtaaattaccattcgtttatcgcaatgttaatttcttaagctataagaaggagttcaaa Mask Tandem Repeat Region ================================================ tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta Find is-nt database================================================ Query_seq: AA02790:AA02792|AA02790:AA02792:NAD-dependent aldehyde dehydrogenase:GlpT/UhpT family transporter (hexosphosphate transport):->->:1959517..1959756 240 tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: AA02790:AA02792|AA02790:AA02792:NAD-dependent aldehyde dehydrogenase:GlpT/UhpT family transporter (hexosphosphate transport):->->:1959517..1959756 240 tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: AA02790:AA02792|AA02790:AA02792:NAD-dependent aldehyde dehydrogenase:GlpT/UhpT family transporter (hexosphosphate transport):->->:1959517..1959756 240 tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 116 End: 238 ................................................................................................................... M F K S F Y F K L I F L F H F C D L C L I L V N P I K K C G E N L P H F F V R H D .. tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta 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================================================ tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 54 HP_score: -2.9 Tail_Score: -4.34345 Start: 107 End: 137 Full_Region: ataaaaaaattaatt taaaataaaat gatttgaaa attttatttta ttttcctactctata ..........................................................................................................taaaataaaatgatttgaaaattttatttta....................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -9.5 Tail_Score: -5.28778 Start: 199 End: 220 Full_Region: CAATCCCATAAAAAA GTGCGGTGA AAA TCTACCGCAC TTTTTTGTCCGTCAT ......................................................................................................................................................................................................GTGCGGTGAAAATCTACCGCAC.................... Find igs database================================================ Query_seq: AA02790:AA02792|AA02790:AA02792:NAD-dependent aldehyde dehydrogenase:GlpT/UhpT family transporter (hexosphosphate transport):->->:1959517..1959756 240 tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtaggaaaataaaataaaattttcaaatcattttattttaaattaatttttttatttcacttttgtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta Intra-Species Hit: Count: 1 Min: 1 Max: 240 Len: 240 Subject: aact_AA02790_AA02792|NAD-dependent aldehyde dehydrogenase:GlpT/UhpT family transporter (hexosphosphate transport)|POSITIVE:POSITIVE|[1959517,1959756]|240 HSP 1 e-value: 4.0E-51 bit: 202.0 Len: 102 Query Start:1 Query End:102 Subject Strand: POSITIVE Subject Start: 1 Subject End: 102 tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtagg.......................................................................................................................................... tttgaactccttcttatagcttaagaaattaacattgcgataaacgaatggtaatttacataaaacgatgacgcttatcacccaaagtagctatagagtagg.......................................................................................................................................... HSP 2 e-value: 2.0E-37 bit: 157.0 Len: 79 Query Start:162 Query End:240 Subject Strand: POSITIVE Subject Start: 162 Subject End: 240 .................................................................................................................................................................gtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta .................................................................................................................................................................gtgatctgtgtctgattttagtcaatcccataaaaaagtgcggtgaaaatctaccgcacttttttgtccgtcatgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGAACUCCUUCUUAUAGCUUAAGAAAUUAACAUUGCGAUAAACGAAUGGUAAUUUACAUAAAACGAUGACGCUUAUCACCCAAAGUAGCUAUAGAGUAGGAAAAUAAAAUAAAAUUUUCAAAUCAUUUUAUUUUAAAUUAAUUUUUUUAUUUCACUUUUGUGAUCUGUGUCUGAUUUUAGUCAAUCCCAUAAAAAAGUGCGGUGAAAAUCUACCGCACUUUUUUGUCCGUCAUGAUUA ..........((((((.....)))))).....(((.(((........((((..(((.((.(((((....(((((..(((((..(((((.(.....((((((((((((((((((((((.........)))))))))))......))))))))))))))))).)))))..)))))...))))))).))).))))((((((((((((((......))))))))))))))...))).))).... (-52.40) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCAUGACGGACAAAAAAGUGCGGUAGAUUUUCACCGCACUUUUUUAUGGGAUUGACUAAAAUCAGACACAGAUCACAAAAGUGAAAUAAAAAAAUUAAUUUAAAAUAAAAUGAUUUGAAAAUUUUAUUUUAUUUUCCUACUCUAUAGCUACUUUGGGUGAUAAGCGUCAUCGUUUUAUGUAAAUUACCAUUCGUUUAUCGCAAUGUUAAUUUCUUAAGCUAUAAGAAGGAGUUCAAA ..........((((.((((((((((((.(.....)))))))))))))..((.((((......))))...))....((((....))))..................(((((((((((..(....)..)))))))))))((((.((.(((((((......((((((....)))))).........((((((.((((((.....)).)))).))))))....))))))))).))))))))... (-53.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 524 234 194 138 101 aact:AA01933|5end_hypothetical_protein_1306060..1306290_POSITIVE 500 230 196 196 162 aact:AA01211|5end_ATP-dependent_Clp_protease,_ATPase_subunit_827035..827265_POSITIVE 500 230 196 64 30 aact:AA01210|5end_hypothetical_protein_826903..827133_POSITIVE 480 240 195 157 112 aact:AA01480|5end_ATP_synthase_F1,_epsilon_995815..996045_POSITIVE 472 240 191 95 49 aact:AA01941|5end_hypothetical_protein_1312480..1312710_POSITIVE 469 240 193 106 56 aact:AA01338|5end_hypothetical_protein_904967..905197_POSITIVE 460 228 187 209 167 aact:AA00296|5end_conserved_hypothetical_protein_(possible_hemolysin_/_transport_protein)_202384..202614_POSITIVE 460 228 187 92 50 aact:AA00295|5end_hypothetical_protein_202267..202497_POSITIVE 439 234 193 174 138 aact:AA02706|5end_2-oxoglutarate_dehydrogenase_E1_component_(decarboxylase_component)_1886843..1887073_POSITIVE 439 234 193 48 12 aact:AA02705|5end_hypothetical_protein_1886717..1886947_POSITIVE 432 238 192 200 157 aact:AA00337|5end_conserved_hypothetical_protein_228264..228494_POSITIVE 426 236 195 150 111 aact:AA00409|5end_methionyl-tRNA_formyltransferase_273611..273841_POSITIVE 425 240 195 157 113 aact:AA01371|5end_rod_shape-determining_protein_926579..926809_POSITIVE 424 232 193 100 64 aact:AA00587|5end_hypothetical_protein_399975..400205_POSITIVE 415 231 195 174 130 aact:AA00691|5end_conserved_hypothetical_protein_(possible_multidrug/sugar_efflux_transporter)_472038..472268_POSITIVE 408 225 183 81 28 aact:AA02213|5end_hypothetical_protein_1506996..1507226_POSITIVE 401 240 192 93 37 aact:AA02378|5end_hypothetical_protein_1627753..1627983_POSITIVE 396 237 197 94 46 aact:AA01188|5end_conserved_hypothetical_protein_813912..814142_POSITIVE 393 235 197 165 128 aact:AA02864|5end_glycerol-3-phosphate_transport_protein_2008784..2009014_POSITIVE 393 235 197 48 11 aact:AA02862|5end_hypothetical_protein_2008667..2008897_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 524 234 194 90 53 aact:AA01932|3end_tRNA_pseudouridine_synthase_B_1306092..1306242_POSITIVE 500 230 196 88 54 aact:AA01209|3end_conserved_hypothetical_protein_827007..827157_POSITIVE 480 240 195 90 45 aact:AA01479|3end_spermidine/putrescine-binding_periplasmic_protein_995828..995978_POSITIVE 472 240 191 75 29 aact:AA01939|3end_NAD(P)_transhydrogenase_subunit_beta_1312540..1312690_POSITIVE 469 240 193 90 40 aact:AA01337|3end_cell_division_protein_N_905031..905181_POSITIVE 460 228 187 83 41 aact:AA00292|3end_dihydrofolate_reductase_202338..202488_POSITIVE 439 234 193 46 10 aact:AA02704|3end_dihydrolipoamide_succinyltransferase_1886795..1886945_POSITIVE 432 238 192 86 43 aact:AA00335|3end_PTS_fructose-specific_IIBC_component_228230..228380_POSITIVE 426 236 195 147 108 aact:AA00408|3end_SUN_protein_(FMU_protein)_273688..273838_POSITIVE 425 240 195 84 40 aact:AA01370|3end_rod_shape-determining_protein_926586..926736_POSITIVE 424 232 193 71 35 aact:AA00586|3end_glycerol-3-phosphate_regulon_repressor_400026..400176_POSITIVE 415 231 195 98 54 aact:AA00689|3end_GTP-binding_protein_472042..472192_POSITIVE 408 225 183 83 30 aact:AA02212|3end_ribonucleoside-diphosphate_reductase_beta_chain_1507078..1507228_POSITIVE 396 237 197 94 46 aact:AA01187|3end_conserved_hypothetical_protein_813992..814142_POSITIVE 393 235 197 149 112 aact:AA02862|3end_hypothetical_protein_2008848..2008998_POSITIVE 384 238 194 92 38 aact:AA00409|3end_methionyl-tRNA_formyltransferase_274644..274794_POSITIVE 378 239 194 87 41 aact:AA01120|3end_conserved_hypothetical_protein_770320..770470_POSITIVE 377 230 184 126 67 aact:AA01185|3end_conserved_hypothetical_protein_(possible_membrane_protein)_813401..813551_POSITIVE 373 229 189 85 47 aact:AA01145|3end_glycyl-tRNA_synthetase_alpha_subunit_784460..784610_POSITIVE 364 224 190 82 50 aact:AA02865|3end_iron-regulated_outer_membrane_protein_(omp64)_2012542..2012692_POSITIVE